Citrus Sinensis ID: 016857

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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-
Protein Sequence
MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKKAVDAEIRRELERRRQEGEERERREREERENASASRLNMSGEEAWKRRAAMSSGGVPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccHHccccccccccccccccHHHHHHccccccccccEEEEEEccccccccHHHHHHHHHHHHHHcccEEEEEEEEcccccccccccEEEEEEcccHHHHHHHHHHHccccccccEEEEEEccHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccHHccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccEEEEEEEEcccccEEEEccccccHcccccccccccccEEEEEEcccccccccHHHHHHHHHHHHcccEEEEEEEEEEccccccccccEEEEEEEccHHHHHHHHHHHccccccccEEEEEEEcHHHHHccccccccccccccc
Coil and Loop (DISEMBL)
mlgglygdlpppsdedkptnttttvwsssakmapptlrkpssifappqtilkpqskpkttqnslptrphsspaiapspddaaalpqpalvgVTSTvieeydparpndyeDYRREKKKKAVDAEIRRELERRRQEGEERERREREERENASASRLNMSGEEAWKRRAAmssggvpprspspppvnvesggggggftigksetsglglgaggQMTAAQRMMAKMGwkegqglgrqeqgittplmarktdrragvivnasenksekkvksvnfngpptRVLLLRNmvgpgevddeledEVGSECAKYGTVTRVLIFEitepnfpvdEAVRIFVQFERSEQTTKALIDLdgrffggrvvratfydeerfsknelaplpgeipgft
Flexible Loop (DISEMBL)
mlgglygdlpppsdedkptNTTTtvwsssakmapptlrkpssifappqtilkpqskpKTTQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTstvieeydparpndyedyrrekkkkavdaeirrelerrrqegeererrereerenasasrlnmsgeeAWKRRAAMSsggvpprspspPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEgqglgrqeqgittplmarktdrragvivnasenksekkvksvnfngpptrVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEitepnfpvDEAVRIFVQFErseqttkalidldgrffgGRVVRAtfydeerfsknelaplpgeipgft
Low Complexity Region (SEG)
MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSLPTRphsspaiapspddaaalpqpaLVGVTSTVIEEYDPARPNDYEDYRREKKKKAVDAEIrrelerrrqegeererrereereNASASRLNMSGEEAWKRRAAMssggvpprspspppvnvesggggggFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAsenksekkvksvnFNGPPTRVLLLRNMvgpgevddeledevgseCAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT
Disordered region (IsUnstruct)
**********************************************************************************************************************************************************************************************************************************************************************************TRVLLLRNMVGPGEV***LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE*******************
Disordered Region (DISOPRED)
*LGGLYGDL********************************************************************************VGVTSTVIEEYDPARPNDYED*******************************************************************************************************AAQRMM****************************************************GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGE*****
Disordered Region (DISEMBL)
MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKP*********************APSPDDAAALPQPALVGVTSTVIEEYDPARPNDYED**********DAEIRRELER**************************SGEEAWK*********************VESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT
Disordered Region (DISPRO)
**********PPS************************RKPSSI*************************************AAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKKAVDA***************************************************************************************GQMTAAQRM*AKMG*KEGQGLGRQEQGITTPLMARKTDRRAGVIVNASE************NGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNEL***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKKAVDAEIxxxxxxxxxxxxxxxxxxxxxRENASASRLNMSGEEAWKRRAAMSSGGVPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT
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	381	2.2.26 [Sep-21-2011]
P42698	387	DNA-damage-repair/tolerat	yes	no	0.976	0.961	0.718	1e-140
Q96I25	401	Splicing factor 45 OS=Hom	yes	no	0.858	0.815	0.321	2e-41
Q8JZX4	405	Splicing factor 45 OS=Mus	yes	no	0.858	0.807	0.315	2e-40
Q2HJG2	530	Poly(U)-binding-splicing	no	no	0.249	0.179	0.46	2e-18
Q9WV25	564	Poly(U)-binding-splicing	no	no	0.249	0.168	0.46	2e-18
Q3UEB3	564	Poly(U)-binding-splicing	no	no	0.249	0.168	0.46	2e-18
Q8T6B9	637	Poly(U)-binding-splicing	no	no	0.254	0.152	0.475	3e-18
Q9UHX1	559	Poly(U)-binding-splicing	no	no	0.249	0.169	0.45	1e-17
Q5R469	558	Poly(U)-binding-splicing	no	no	0.249	0.170	0.45	1e-17
Q6IQE0	516	Poly(U)-binding-splicing	no	no	0.246	0.182	0.454	2e-17

>sp|P42698|DR111_ARATH DNA-damage-repair/toleration protein DRT111, chloroplastic OS=Arabidopsis thaliana GN=DRT111 PE=2 SV=2

 Score =  497 bits (1279), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 284/395 (71%), Positives = 330/395 (83%), Gaps = 23/395 (5%)

Query: 1   MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
           MLGGLYGDLPPP+D++KP+  +++VWSSS KMAPPTLRKP + FAPPQTIL+P +KPK  
Sbjct: 1   MLGGLYGDLPPPTDDEKPSGNSSSVWSSSTKMAPPTLRKPPA-FAPPQTILRPLNKPKPI 59

Query: 61  QNS----LPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKK 116
            ++     P    S   + P+ +++A   QPALVGVTS+VIEEYDPARPNDYE+Y+REKK
Sbjct: 60  VSAPYKPPPPSNSSQSVLIPA-NESAPSHQPALVGVTSSVIEEYDPARPNDYEEYKREKK 118

Query: 117 KKAVDAEIRRELERRRQEGEERERREREERE------NASASRLNMSGEEAWKRRAAMSS 170
           +KA +AE++RE+++RRQE EER++REREERE      N+  SRLN+SGEEAWKRRAAMS 
Sbjct: 119 RKATEAEMKREMDKRRQEDEERDKREREEREKERERDNSDPSRLNISGEEAWKRRAAMSG 178

Query: 171 GGVPPRSPSP-PPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQG 229
           GG   +  S  PP NV+      GF+IGKSETSGLG+GAGGQMTAAQRMMAKMGWK+GQG
Sbjct: 179 GGSGGKGRSSSPPGNVD------GFSIGKSETSGLGVGAGGQMTAAQRMMAKMGWKQGQG 232

Query: 230 LGRQEQGITTPLMARKTDRRAGVIVNASENKS----EKKVKSVNFNGPPTRVLLLRNMVG 285
           LG+ EQGITTPLMA+KTDRRAGVIVNASENKS    +K VKSVN NG PTRVLLLRNMVG
Sbjct: 233 LGKSEQGITTPLMAKKTDRRAGVIVNASENKSSSAEKKVVKSVNINGEPTRVLLLRNMVG 292

Query: 286 PGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL 345
           PG+VDDELEDEVG EC KYGTVTRVLIFEITEPNFPV EAVRIFVQF R E+TTKAL+DL
Sbjct: 293 PGQVDDELEDEVGGECGKYGTVTRVLIFEITEPNFPVHEAVRIFVQFSRPEETTKALVDL 352

Query: 346 DGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
           DGR+FGGR VRATFYDEE+FSKNELAP+PGEIPG+
Sbjct: 353 DGRYFGGRTVRATFYDEEKFSKNELAPVPGEIPGY 387

Seems to be involved in the resistance to UV light and chemical DNA-damaging agents.
Arabidopsis thaliana (taxid: 3702)

>sp|Q96I25|SPF45_HUMAN Splicing factor 45 OS=Homo sapiens GN=RBM17 PE=1 SV=1

 Score =  169 bits (429), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 140/436 (32%), Positives = 201/436 (46%), Gaps = 109/436 (25%)

Query: 5   LYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSL 64
           LY DL   +     +++ T  WS + K+    L+   +           Q+K + T+ S 
Sbjct: 3   LYDDLGVET-----SDSKTEGWSKNFKLLQSQLQVKKAALT--------QAKSQRTKQST 49

Query: 65  PTRPHSSPAIAPSPDD----------AAALPQPALVGVTSTVI-----EEYDPARPNDYE 109
              P        S DD          AA L  P   G ++  +     +EYDP  PNDYE
Sbjct: 50  VLAPVIDLKRGGSSDDRQIVDTPPHVAAGLKDPVPSGFSAGEVLIPLADEYDPMFPNDYE 109

Query: 110 DYRREKKKKAVDAEIRRELERRRQEGEERERREREERENASASRL--------------- 154
                  K+  +   R+    R++E EERE+R ++  E +  +R                
Sbjct: 110 KVV----KRQREERQRQRELERQKEIEEREKRRKDRHEASGFARRPDPDSDEDEDYERER 165

Query: 155 ---NMSG----------------------EEAWKRRAAMSSGGVPP---------RSPSP 180
              +M G                      EE  + R+  S   +PP         RSP+ 
Sbjct: 166 RKRSMGGAAIAPPTSLVEKDKELPRDFPYEEDSRPRSQSSKAAIPPPVYEEQDRPRSPTG 225

Query: 181 PPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTP 240
           P  +  +  GG                     T A ++M K G++EGQGLG+ EQG++T 
Sbjct: 226 PSNSFLANMGG---------------------TVAHKIMQKYGFREGQGLGKHEQGLSTA 264

Query: 241 LMARKTDRRAGVIV--NASENKSEKKVKS---VNFNGPPTRVLLLRNMVGPGEVDDELED 295
           L   KT +R G I+  +A+E  + KK  S         PT+V+LLRNMVG GEVD++LE 
Sbjct: 265 LSVEKTSKRGGKIIVGDATEKDASKKSDSNPLTEILKCPTKVVLLRNMVGAGEVDEDLEV 324

Query: 296 EVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV 355
           E   EC KYG V + +IFEI  P  P DEAVRIF++FER E   KA++DL+GR+FGGRVV
Sbjct: 325 ETKEECEKYGKVGKCVIFEI--PGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVV 382

Query: 356 RATFYDEERFSKNELA 371
           +A FY+ ++F   +LA
Sbjct: 383 KACFYNLDKFRVLDLA 398

Splice factor that binds to the single stranded 3'AG at the exon/intron border and promotes its utilization in the second catalytic step. Involved in the regulation of alternative splicing and the utilization of cryptic splice sites. Promotes the utilization of a cryptic splice site created by the beta-110 mutation in the HBB gene. The resulting frameshift leads to sickle cell anemia.

Homo sapiens (taxid: 9606)

>sp|Q8JZX4|SPF45_MOUSE Splicing factor 45 OS=Mus musculus GN=Rbm17 PE=1 SV=1

 Score =  166 bits (421), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 139/440 (31%), Positives = 201/440 (45%), Gaps = 113/440 (25%)

Query: 5   LYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSL 64
           LY DL   +     +++ T  WS + K+    L+   +           Q+K + T+ S 
Sbjct: 3   LYDDLGVET-----SDSKTEGWSKNFKLLQSQLQVKKAALT--------QAKSQRTKQST 49

Query: 65  PTRPHSSPAIAPSPDD----------AAALPQPALVGVTSTVI-----EEYDPARPNDYE 109
              P        S DD          AA L  P   G ++  +     +EYDP  PNDYE
Sbjct: 50  VLAPVIDLKRGGSSDDRQIADTPPHVAAGLKDPVPSGFSAGEVLIPLADEYDPMFPNDYE 109

Query: 110 DYRREKKKKAVDAEIRRELERRRQEGEERERREREERENASASRL--------------- 154
                  K+  +   R+    R++E EERE+R ++  E +  SR                
Sbjct: 110 KVV----KRQREERQRQRELERQKEIEEREKRRKDRHEASGFSRRPDPDSDEDEDYERER 165

Query: 155 ---NMSG----------------------EEAWKRRAAMSSGGVPP---------RSPSP 180
              +M G                      EE  + R+  S   +PP         RSP+ 
Sbjct: 166 RKRSMGGAAIAPPTSLVEKDKELPRDFPYEEDSRPRSQSSKAAIPPPVYEEPDRPRSPTG 225

Query: 181 PPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTP 240
           P  +  +  GG                     T A ++M K G++EGQGLG+ EQG++T 
Sbjct: 226 PSNSFLANMGG---------------------TVAHKIMQKYGFREGQGLGKHEQGLSTA 264

Query: 241 LMARKTDRRAGVIV--NASENKSEKKVKSVNFNGP-------PTRVLLLRNMVGPGEVDD 291
           L   KT +R G I+  +A+E    +     + + P       PT+V+LLRNMVG GEVD+
Sbjct: 265 LSVEKTSKRGGKIIVGDATEKGEAQDASKKSDSNPLTEILKCPTKVVLLRNMVGAGEVDE 324

Query: 292 ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG 351
           +LE E   EC KYG V + +IFEI  P  P DEAVRIF++FER E   KA++DL+GR+FG
Sbjct: 325 DLEVETKEECEKYGKVGKCVIFEI--PGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFG 382

Query: 352 GRVVRATFYDEERFSKNELA 371
           GRVV+A FY+ ++F   +LA
Sbjct: 383 GRVVKACFYNLDKFRVLDLA 402

Splice factor that binds to the single stranded 3'AG at the exon/intron border and promotes its utilization in the second catalytic step. Involved in the regulation of alternative splicing and the utilization of cryptic splice sites.

Mus musculus (taxid: 10090)

>sp|Q2HJG2|PUF60_BOVIN Poly(U)-binding-splicing factor PUF60 OS=Bos taurus GN=PUF60 PE=2 SV=1

 Score = 94.0 bits (232), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/100 (46%), Positives = 69/100 (69%), Gaps = 5/100 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 432 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 489

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+ DL+GR+F GR V A  YD+ERF  ++L+
Sbjct: 490 FSVASETHKAIQDLNGRWFAGRKVVAEVYDQERFDNSDLS 529

DNA- and RNA-binding protein, involved in several nuclear processes such as pre-mRNA splicing, apoptosis and transcription regulation. In association with FUBP1 regulates MYC transcription at the P2 promoter through the core-TFIIH basal transcription factor. Acts as a transcriptional repressor through the core-TFIIH basal transcription factor. Represses FUBP1-induced transcriptional activation but not basal transcription. Decreases ERCC3 helicase activity. Is also involved in pre-mRNA splicing. Promotes splicing of an intron with weak 3'-splice site and pyrimidine tract in a cooperative manner with U2AF2. Involved in apoptosis induction when overexpressed in HeLa cells. Modulates alternative splicing of several mRNAs. Binds to relaxed DNA of active promoter regions. Binds to the pyrimidine tract and 3'-splice site regions of pre-mRNA; binding is enhanced in presence of U2AF2. Binds to Y5 RNA in association with TROVE2. Binds to poly(U) RNA.

Bos taurus (taxid: 9913)

>sp|Q9WV25|PUF60_RAT Poly(U)-binding-splicing factor PUF60 OS=Rattus norvegicus GN=Puf60 PE=2 SV=2

 Score = 94.0 bits (232), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/100 (46%), Positives = 69/100 (69%), Gaps = 5/100 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 466 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 523

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+FGGR V A  YD+ERF  ++L+
Sbjct: 524 FSMASETHKAIQALNGRWFGGRKVVAEVYDQERFDNSDLS 563

DNA- and RNA-binding protein, involved in several nuclear processes such as pre-mRNA splicing, apoptosis and transcription regulation. In association with FUBP1 regulates MYC transcription at the P2 promoter through the core-TFIIH basal transcription factor. Acts as a transcriptional repressor through the core-TFIIH basal transcription factor. Represses FUBP1-induced transcriptional activation but not basal transcription. Decreases ERCC3 helicase activity. Is also involved in pre-mRNA splicing. Promotes splicing of an intron with weak 3'-splice site and pyrimidine tract in a cooperative manner with U2AF2. Involved in apoptosis induction when overexpressed in HeLa cells. Modulates alternative splicing of several mRNAs. Binds to relaxed DNA of active promoter regions. Binds to the pyrimidine tract and 3'-splice site regions of pre-mRNA; binding is enhanced in presence of U2AF2. Binds to Y5 RNA in association with TROVE2. Binds to poly(U) RNA.

Rattus norvegicus (taxid: 10116)

>sp|Q3UEB3|PUF60_MOUSE Poly(U)-binding-splicing factor PUF60 OS=Mus musculus GN=Puf60 PE=2 SV=2

 Score = 94.0 bits (232), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/100 (46%), Positives = 69/100 (69%), Gaps = 5/100 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 466 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 523

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+FGGR V A  YD+ERF  ++L+
Sbjct: 524 FSMASETHKAIQALNGRWFGGRKVVAEVYDQERFDNSDLS 563

DNA- and RNA-binding protein, involved in several nuclear processes such as pre-mRNA splicing, apoptosis and transcription regulation. In association with FUBP1 regulates MYC transcription at the P2 promoter through the core-TFIIH basal transcription factor. Acts as a transcriptional repressor through the core-TFIIH basal transcription factor. Represses FUBP1-induced transcriptional activation but not basal transcription. Decreases ERCC3 helicase activity. Is also involved in pre-mRNA splicing. Promotes splicing of an intron with weak 3'-splice site and pyrimidine tract in a cooperative manner with U2AF2. Involved in apoptosis induction when overexpressed in HeLa cells. Modulates alternative splicing of several mRNAs. Binds to relaxed DNA of active promoter regions. Binds to the pyrimidine tract and 3'-splice site regions of pre-mRNA; binding is enhanced in presence of U2AF2. Binds to Y5 RNA in association with TROVE2. Binds to poly(U) RNA.

Mus musculus (taxid: 10090)

>sp|Q8T6B9|PUF68_DROME Poly(U)-binding-splicing factor half pint OS=Drosophila melanogaster GN=pUf68 PE=1 SV=2

 Score = 92.8 bits (229), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 48/101 (47%), Positives = 68/101 (67%), Gaps = 4/101 (3%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIF-EITEPNFPVDEA---VRIFV 330
           +RV++LRNMVGP +VD+ L++E+  EC+K+GTV+RV+IF E    N   DEA   V+IFV
Sbjct: 536 SRVIILRNMVGPEDVDETLQEEIQEECSKFGTVSRVIIFNEKQTENEDDDEAEIIVKIFV 595

Query: 331 QFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           +F    +  +    LDGRFFGGR V A  YD+  F + +L+
Sbjct: 596 EFSAGAEAMRGKEALDGRFFGGRRVVAELYDQGIFDQGDLS 636

Splicing factor that regulates oogenesis and controls both mitosis and mRNA localization in the germline by regulating mRNA splicing of a subset of genes within the ovary. Probably acts by regulating the alternative splice site selection of the otu transcript. Also regulates the alternative splicing of eIF-4E and grk, while it is not involved in the splicing of par-1, sqd and psq.

Drosophila melanogaster (taxid: 7227)

>sp|Q9UHX1|PUF60_HUMAN Poly(U)-binding-splicing factor PUF60 OS=Homo sapiens GN=PUF60 PE=1 SV=1

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/100 (45%), Positives = 68/100 (68%), Gaps = 5/100 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 461 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 518

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 519 FSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 558

DNA- and RNA-binding protein, involved in several nuclear processes such as pre-mRNA splicing, apoptosis and transcription regulation. In association with FUBP1 regulates MYC transcription at the P2 promoter through the core-TFIIH basal transcription factor. Acts as a transcriptional repressor through the core-TFIIH basal transcription factor. Represses FUBP1-induced transcriptional activation but not basal transcription. Decreases ERCC3 helicase activity. Does not repress TFIIH-mediated transcription in xeroderma pigmentosum complementation group B (XPB) cells. Is also involved in pre-mRNA splicing. Promotes splicing of an intron with weak 3'-splice site and pyrimidine tract in a cooperative manner with U2AF2. Involved in apoptosis induction when overexpressed in HeLa cells. Isoform 6 failed to repress MYC transcription and inhibited FIR-induced apoptosis in colorectal cancer. Isoform 6 may contribute to tumor progression by enabling increased MYC expression and greater resistance to apoptosis in tumors than in normal cells. Modulates alternative splicing of several mRNAs. Binds to relaxed DNA of active promoter regions. Binds to the pyrimidine tract and 3'-splice site regions of pre-mRNA; binding is enhanced in presence of U2AF2. Binds to Y5 RNA in association with TROVE2. Binds to poly(U) RNA.

Homo sapiens (taxid: 9606)

>sp|Q5R469|PUF60_PONAB Poly(U)-binding-splicing factor PUF60 OS=Pongo abelii GN=PUF60 PE=2 SV=1

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/100 (45%), Positives = 68/100 (68%), Gaps = 5/100 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 460 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 517

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 518 FSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 557

DNA- and RNA-binding protein, involved in several nuclear processes such as pre-mRNA splicing, apoptosis and transcription regulation. In association with FUBP1 regulates MYC transcription at the P2 promoter through the core-TFIIH basal transcription factor. Acts as a transcriptional repressor through the core-TFIIH basal transcription factor. Represses FUBP1-induced transcriptional activation but not basal transcription. Decreases ERCC3 helicase activity. Is also involved in pre-mRNA splicing. Promotes splicing of an intron with weak 3'-splice site and pyrimidine tract in a cooperative manner with U2AF2. Involved in apoptosis induction when overexpressed in HeLa cells. Modulates alternative splicing of several mRNAs. Binds to relaxed DNA of active promoter regions. Binds to the pyrimidine tract and 3'-splice site regions of pre-mRNA; binding is enhanced in presence of U2AF2. Binds to Y5 RNA in association with TROVE2. Binds to poly(U) RNA.

Pongo abelii (taxid: 9601)

>sp|Q6IQE0|PU60B_DANRE Poly(U)-binding-splicing factor PUF60-B OS=Danio rerio GN=puf60b PE=2 SV=2

 Score = 90.9 bits (224), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/99 (45%), Positives = 67/99 (67%), Gaps = 5/99 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNMVGP ++DD+LE EV  EC KYG V RV+I++  E     D+A   V+IFV+
Sbjct: 418 STVMVLRNMVGPEDIDDDLEGEVMEECGKYGAVNRVIIYQ--ERQGEEDDAEIIVKIFVE 475

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNEL 370
           F  + +  KA+  L+ R+F GR V A  YD++RF+ ++L
Sbjct: 476 FSDAGEMNKAIQALNNRWFAGRKVVAELYDQDRFNSSDL 514

DNA- and RNA-binding protein, involved in transcription repression and pre-mRNA splicing.

Danio rerio (taxid: 7955)

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	381
225444029	383	PREDICTED: DNA-damage-repair/toleration	0.963	0.958	0.773	1e-153
147807935	366	hypothetical protein VITISV_023439 [Viti	0.934	0.972	0.751	1e-145
357475093	390	DNA-damage-repair/toleration protein DRT	0.965	0.943	0.724	1e-139
15220757	387	DNA-damage-repair/toleration protein DRT	0.976	0.961	0.718	1e-138
449433648	372	PREDICTED: DNA-damage-repair/toleration	0.968	0.991	0.768	1e-135
297845986	385	hypothetical protein ARALYDRAFT_473276 [	0.968	0.958	0.719	1e-135
356576849	392	PREDICTED: DNA-damage-repair/toleration	0.976	0.948	0.715	1e-134
224114585	362	predicted protein [Populus trichocarpa]	0.942	0.991	0.727	1e-134
166694	383	unnamed protein product [Arabidopsis tha	0.976	0.971	0.672	1e-132
255564401	387	DNA-damage repair protein drt111, putati	0.984	0.968	0.747	1e-132

>gi|225444029|ref|XP_002281743.1| PREDICTED: DNA-damage-repair/toleration protein DRT111, chloroplastic [Vitis vinifera]

 Score =  548 bits (1413), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 307/397 (77%), Positives = 336/397 (84%), Gaps = 30/397 (7%)

Query: 1   MLGGLYGDLPPPS--DEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILK---PQS 55
           MLGGLYGDLPPPS  DEDKPTN++  VWSSSAKMAP  LRKPSS+FAPPQ++LK    Q+
Sbjct: 1   MLGGLYGDLPPPSSADEDKPTNSS--VWSSSAKMAPAALRKPSSVFAPPQSVLKTQHAQA 58

Query: 56  KPKTTQNSLPTRPHSSPAIAPSP----DDAAALP--QPALVGVTSTVIEEYDPARPNDYE 109
           KPKT  +S   +   SP +APSP    ++ A  P  QPALVGVTS+V+EEYDPARPNDYE
Sbjct: 59  KPKTLNSS---KILISPGLAPSPSVLPNEGARSPSFQPALVGVTSSVVEEYDPARPNDYE 115

Query: 110 DYRREKKKKAVDAEIRRELERRRQEGEERERREREERENASA-----SRLNMSGEEAWKR 164
           DYRRE+K+KA++AE++RELERRRQE EERER  RE            SRLN+SGEEAW+R
Sbjct: 116 DYRRERKRKAMEAEMKRELERRRQEEEERERERREREAAEREREYGDSRLNISGEEAWRR 175

Query: 165 RAAMSSGGVPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGW 224
           RAAMS  G  PRSPSPP         G GFTIGKSET GLG+GAGGQMTAAQRMMAKMGW
Sbjct: 176 RAAMS--GAVPRSPSPP-------TSGDGFTIGKSETVGLGVGAGGQMTAAQRMMAKMGW 226

Query: 225 KEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMV 284
           KEGQGLG+QEQGITTPLMA+KTDRRAGVIVNASE+K EKKVKSVNFN PPTRVLLLRNMV
Sbjct: 227 KEGQGLGKQEQGITTPLMAKKTDRRAGVIVNASESKPEKKVKSVNFNSPPTRVLLLRNMV 286

Query: 285 GPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALID 344
           GPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSE+TTKAL+D
Sbjct: 287 GPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEETTKALVD 346

Query: 345 LDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT 381
           LDGRFFGGRVV ATFYDE+RFSKNELAP+PGEIPGFT
Sbjct: 347 LDGRFFGGRVVHATFYDEDRFSKNELAPMPGEIPGFT 383

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147807935|emb|CAN77677.1| hypothetical protein VITISV_023439 [Vitis vinifera]

 Score =  520 bits (1338), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 294/391 (75%), Positives = 321/391 (82%), Gaps = 35/391 (8%)

Query: 1   MLGGLYGDLPPPS--DEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILK---PQS 55
           MLGGLYGDLPPPS  DEDKPTN++  VWSSSAKMAP  LRKPSS+FAPPQ++LK    Q+
Sbjct: 1   MLGGLYGDLPPPSSADEDKPTNSS--VWSSSAKMAPAALRKPSSVFAPPQSVLKTQHAQA 58

Query: 56  KPKTTQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREK 115
           KPKT  +S   +   SP +APSP   + LP             +YDPARPNDYEDYRRE+
Sbjct: 59  KPKTLNSS---KILISPGLAPSP---SVLPNEG--------ARKYDPARPNDYEDYRRER 104

Query: 116 KKKAVDAEIRRELERRRQEGEERERREREERENASA-----SRLNMSGEEAWKRRAAMSS 170
           K+KA++AE++RELERRRQE EERER  RE            SRLN+SGEEAW+RRAAMS 
Sbjct: 105 KRKAMEAEMKRELERRRQEEEERERERREREAAEREREYGDSRLNISGEEAWRRRAAMS- 163

Query: 171 GGVPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGL 230
            G  PRSPSPP         G GFTIGKSET GLG+GAGGQMTAAQRMMAKMGWKEGQGL
Sbjct: 164 -GAVPRSPSPPT-------SGDGFTIGKSETVGLGVGAGGQMTAAQRMMAKMGWKEGQGL 215

Query: 231 GRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVD 290
           G+QEQGITTPLMA+KTDRRAGVIVNASE+K EKKVKSVNFN PPTRVLLLRNMVGPGEVD
Sbjct: 216 GKQEQGITTPLMAKKTDRRAGVIVNASESKPEKKVKSVNFNSPPTRVLLLRNMVGPGEVD 275

Query: 291 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF 350
           DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSE+TTKAL+DLDGRFF
Sbjct: 276 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEETTKALVDLDGRFF 335

Query: 351 GGRVVRATFYDEERFSKNELAPLPGEIPGFT 381
           GGRVV ATFYDE+RFSKNELAP+PGEI GFT
Sbjct: 336 GGRVVHATFYDEDRFSKNELAPMPGEILGFT 366

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357475093|ref|XP_003607832.1| DNA-damage-repair/toleration protein DRT111 [Medicago truncatula] gi|355508887|gb|AES90029.1| DNA-damage-repair/toleration protein DRT111 [Medicago truncatula]

 Score =  501 bits (1290), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 292/403 (72%), Positives = 322/403 (79%), Gaps = 35/403 (8%)

Query: 1   MLGGLYGDLPPPS--DEDKPTNTTTTVWSSSAKMAPPTLRKPSS-IFAPPQTILKPQSKP 57
           MLGGLYGDLPPPS  +EDKPT   T VWSSS KMAP TLRKPSS ++ PP T+L+ Q+KP
Sbjct: 1   MLGGLYGDLPPPSSAEEDKPT---TNVWSSSTKMAPATLRKPSSSLYTPPHTLLRSQNKP 57

Query: 58  KTTQNSLPT--RPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREK 115
           K   NS  T   P   P +A   DD     QPALVGV STV+EEYDPARPNDYE+YRREK
Sbjct: 58  KIV-NSTKTILSPAPQPILASPLDDVVV--QPALVGVQSTVMEEYDPARPNDYEEYRREK 114

Query: 116 KKKAVDAEIRRELERRRQEGEERERREREERENASA-----------SRLNMSGEEAWKR 164
           K+KA +AE+ RELERRR+E EERE+    ERE               SRLN+SGEEAW+R
Sbjct: 115 KRKAREAEMMRELERRREEEEEREKERERERERERERDRDRERDQGDSRLNISGEEAWRR 174

Query: 165 RAAMSSGGVP------PRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRM 218
           R  MS GG        PRSPSPP       G   GF+IGKSET GLG+GAGGQMTAAQRM
Sbjct: 175 RVGMSGGGGGSGGRGVPRSPSPP-------GSVDGFSIGKSETVGLGVGAGGQMTAAQRM 227

Query: 219 MAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVL 278
           MAKMGWK+GQGLG+QEQGITTPLMA+KTDRRAGVIVNAS++KS+KKVKSVN NG PTRVL
Sbjct: 228 MAKMGWKQGQGLGKQEQGITTPLMAKKTDRRAGVIVNASDSKSDKKVKSVNINGVPTRVL 287

Query: 279 LLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQT 338
           LLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFP DEAVRIFVQFERSE+T
Sbjct: 288 LLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPTDEAVRIFVQFERSEET 347

Query: 339 TKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT 381
           TKAL+DLDGR+FGGR VRATFYDE++FSKNELAP+PGEIPGFT
Sbjct: 348 TKALVDLDGRYFGGRTVRATFYDEDKFSKNELAPMPGEIPGFT 390

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15220757|ref|NP_174336.1| DNA-damage-repair/toleration protein DRT111 [Arabidopsis thaliana] gi|20141383|sp|P42698.2|DR111_ARATH RecName: Full=DNA-damage-repair/toleration protein DRT111, chloroplastic; Flags: Precursor gi|6634771|gb|AAF19751.1|AC009917_10 Strong similarity to gi|1169200 DNA-Damage-Repair/Toleration protein (DRT111) precurser, and contains a G-patch PF|01585 domain and RNA recognition PF|00076 motif. EST gb|AA395591 comes from this gene [Arabidopsis thaliana] gi|15028005|gb|AAK76533.1| putative DNA damage repair protein [Arabidopsis thaliana] gi|20259641|gb|AAM14338.1| putative DNA damage repair protein [Arabidopsis thaliana] gi|332193110|gb|AEE31231.1| DNA-damage-repair/toleration protein DRT111 [Arabidopsis thaliana]

 Score =  497 bits (1279), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 284/395 (71%), Positives = 330/395 (83%), Gaps = 23/395 (5%)

Query: 1   MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
           MLGGLYGDLPPP+D++KP+  +++VWSSS KMAPPTLRKP + FAPPQTIL+P +KPK  
Sbjct: 1   MLGGLYGDLPPPTDDEKPSGNSSSVWSSSTKMAPPTLRKPPA-FAPPQTILRPLNKPKPI 59

Query: 61  QNS----LPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKK 116
            ++     P    S   + P+ +++A   QPALVGVTS+VIEEYDPARPNDYE+Y+REKK
Sbjct: 60  VSAPYKPPPPSNSSQSVLIPA-NESAPSHQPALVGVTSSVIEEYDPARPNDYEEYKREKK 118

Query: 117 KKAVDAEIRRELERRRQEGEERERREREERE------NASASRLNMSGEEAWKRRAAMSS 170
           +KA +AE++RE+++RRQE EER++REREERE      N+  SRLN+SGEEAWKRRAAMS 
Sbjct: 119 RKATEAEMKREMDKRRQEDEERDKREREEREKERERDNSDPSRLNISGEEAWKRRAAMSG 178

Query: 171 GGVPPRSPSP-PPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQG 229
           GG   +  S  PP NV+      GF+IGKSETSGLG+GAGGQMTAAQRMMAKMGWK+GQG
Sbjct: 179 GGSGGKGRSSSPPGNVD------GFSIGKSETSGLGVGAGGQMTAAQRMMAKMGWKQGQG 232

Query: 230 LGRQEQGITTPLMARKTDRRAGVIVNASENKS----EKKVKSVNFNGPPTRVLLLRNMVG 285
           LG+ EQGITTPLMA+KTDRRAGVIVNASENKS    +K VKSVN NG PTRVLLLRNMVG
Sbjct: 233 LGKSEQGITTPLMAKKTDRRAGVIVNASENKSSSAEKKVVKSVNINGEPTRVLLLRNMVG 292

Query: 286 PGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL 345
           PG+VDDELEDEVG EC KYGTVTRVLIFEITEPNFPV EAVRIFVQF R E+TTKAL+DL
Sbjct: 293 PGQVDDELEDEVGGECGKYGTVTRVLIFEITEPNFPVHEAVRIFVQFSRPEETTKALVDL 352

Query: 346 DGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
           DGR+FGGR VRATFYDEE+FSKNELAP+PGEIPG+
Sbjct: 353 DGRYFGGRTVRATFYDEEKFSKNELAPVPGEIPGY 387

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433648|ref|XP_004134609.1| PREDICTED: DNA-damage-repair/toleration protein DRT111, chloroplastic-like [Cucumis sativus]

 Score =  488 bits (1256), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 295/384 (76%), Positives = 330/384 (85%), Gaps = 15/384 (3%)

Query: 1   MLGGLYGDLPPPS--DEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPK 58
           MLGGLYGDLPPPS  +EDKPTN+T  VWSSS KMAPPTLRKPSS+FAP QT+L+ QSK K
Sbjct: 1   MLGGLYGDLPPPSSAEEDKPTNST--VWSSSTKMAPPTLRKPSSVFAP-QTVLRSQSKIK 57

Query: 59  TTQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKK 118
              ++ P    S+   A  P  A A+ QPALV VTSTV+EEYDPARPNDYE+YR EKK+K
Sbjct: 58  AATSTHPKVSVSTQVEASQPILAEAITQPALVAVTSTVVEEYDPARPNDYEEYRVEKKRK 117

Query: 119 AVDAEIRRELERRRQEGEERERREREERENA-SASRLNMSGEEAWKRRAAMSSGGVPPRS 177
           A++AE+R+ELERRRQE EERE++EREERE   S SR+N+SGEEAW+RRAA  SG +P   
Sbjct: 118 AMEAEMRKELERRRQEEEEREKKEREEREREHSDSRINISGEEAWRRRAA-KSGAIPRSP 176

Query: 178 PSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGI 237
             P  V+        GF+IGKSET GLG+GAGGQMTAAQRMMAKMGWKEGQGLG+QEQGI
Sbjct: 177 SPPSSVD--------GFSIGKSETGGLGVGAGGQMTAAQRMMAKMGWKEGQGLGKQEQGI 228

Query: 238 TTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEV 297
           TTPLMA+KTD RAGVIVNA++ KSEKKVKSVNFNG PTRVLLLRNMVGPGEVDDELE+EV
Sbjct: 229 TTPLMAKKTDLRAGVIVNANDTKSEKKVKSVNFNGLPTRVLLLRNMVGPGEVDDELEEEV 288

Query: 298 GSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA 357
           GSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSE+TTKAL+DLDGR+FGGRVVRA
Sbjct: 289 GSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEETTKALVDLDGRYFGGRVVRA 348

Query: 358 TFYDEERFSKNELAPLPGEIPGFT 381
           TFYDEERFSKNELAP+PGE+PGFT
Sbjct: 349 TFYDEERFSKNELAPMPGEVPGFT 372

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297845986|ref|XP_002890874.1| hypothetical protein ARALYDRAFT_473276 [Arabidopsis lyrata subsp. lyrata] gi|297336716|gb|EFH67133.1| hypothetical protein ARALYDRAFT_473276 [Arabidopsis lyrata subsp. lyrata]

 Score =  486 bits (1252), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 285/396 (71%), Positives = 330/396 (83%), Gaps = 27/396 (6%)

Query: 1   MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
           MLGGLYGDLPPPSD++KP+  +++VWSSS KMAPPTLRKP + FAPPQTIL+PQ+KPK  
Sbjct: 1   MLGGLYGDLPPPSDDEKPSGNSSSVWSSSTKMAPPTLRKPPA-FAPPQTILRPQNKPKPI 59

Query: 61  QNS------LPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRRE 114
            +S        +   S   + P+ +++A   QPALV   ++VIEEYDPARPNDYE+Y+RE
Sbjct: 60  VSSQYKPPPPSSTNSSQSVLTPA-NESAPSHQPALV---ASVIEEYDPARPNDYEEYKRE 115

Query: 115 KKKKAVDAEIRRELERRRQEGEERERREREERE------NASASRLNMSGEEAWKRRAAM 168
           +K+KA++AE++REL++RRQE EERE+REREER+      N+  SRLN+SGEEAWKRRAAM
Sbjct: 116 QKRKAMEAEMKRELDKRRQEEEEREKREREERDKERERDNSDPSRLNISGEEAWKRRAAM 175

Query: 169 SSGGVPPRSPSP-PPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEG 227
           S GG   +  S  PP NV+      GF+IGKSETSGLG+GAGGQMTAAQRMMAKMGWK+G
Sbjct: 176 SGGGSGGKRRSSSPPGNVD------GFSIGKSETSGLGVGAGGQMTAAQRMMAKMGWKQG 229

Query: 228 QGLGRQEQGITTPLMARKTDRRAGVIVNASENKS---EKKVKSVNFNGPPTRVLLLRNMV 284
           QGLG+ EQGITTPLMA+KTDRRAGVIVNASENKS   EKKVKSVN NG PTRVLLLRNMV
Sbjct: 230 QGLGKSEQGITTPLMAKKTDRRAGVIVNASENKSSSAEKKVKSVNINGEPTRVLLLRNMV 289

Query: 285 GPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALID 344
           GPGEVDDELEDEVG EC KYGTVTRVLIFEITEPNFPV EAVRIFVQF R E+TTKAL+D
Sbjct: 290 GPGEVDDELEDEVGGECGKYGTVTRVLIFEITEPNFPVHEAVRIFVQFSRPEETTKALVD 349

Query: 345 LDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
           LDGR+FGGR VRATFYDEE+FSKNELAP+PGEIPG+
Sbjct: 350 LDGRYFGGRTVRATFYDEEKFSKNELAPVPGEIPGY 385

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576849|ref|XP_003556542.1| PREDICTED: DNA-damage-repair/toleration protein DRT111, chloroplastic-like [Glycine max]

 Score =  485 bits (1249), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 287/401 (71%), Positives = 324/401 (80%), Gaps = 29/401 (7%)

Query: 1   MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
           MLGGLYGDLPPPS  ++    T  VWSSS KMAP TLRKP+S+FAPPQT+L+ Q KP+ T
Sbjct: 1   MLGGLYGDLPPPSSAEEDNKPTPNVWSSSTKMAPATLRKPASLFAPPQTLLRAQPKPRPT 60

Query: 61  QNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKKAV 120
             ++P +P  S + AP PDDA  L QPALVGV STV+EEYDP RPNDYEDYRR++K+KA 
Sbjct: 61  TTTIP-KPILSSSPAPPPDDA--LLQPALVGVQSTVLEEYDPTRPNDYEDYRRDRKRKAR 117

Query: 121 DAEIRRELERRRQEGEERERR-----------EREERENASASRLNMSGEEAWKRRAAMS 169
           +AE+ RELERRR E EE E+            +     ++S+SRLN+SGEEAW+RRAAMS
Sbjct: 118 EAEMLRELERRRHEEEEEEKEREKERERERERDHSNNNDSSSSRLNVSGEEAWRRRAAMS 177

Query: 170 SGG------VPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMG 223
             G      + PRSPSPPP NV+      GFTIGKSET GLG+GAGGQMTAAQRMMAKMG
Sbjct: 178 GAGSGSGAVLVPRSPSPPPGNVD------GFTIGKSETGGLGVGAGGQMTAAQRMMAKMG 231

Query: 224 WKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVN---FNGPPTRVLLL 280
           WKEGQGLG+QEQGITTPLMA+KTDRRAGVIVNAS+N +    K V    FNG PTRVLLL
Sbjct: 232 WKEGQGLGKQEQGITTPLMAKKTDRRAGVIVNASDNNNSSSSKKVKSVNFNGVPTRVLLL 291

Query: 281 RNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTK 340
           RNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPV EAVRIFVQFERSE+TTK
Sbjct: 292 RNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVHEAVRIFVQFERSEETTK 351

Query: 341 ALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGFT 381
           AL+DLDGR+FGGRVVRA+FYDEE+FSKNELAP+PGEIPGFT
Sbjct: 352 ALVDLDGRYFGGRVVRASFYDEEKFSKNELAPMPGEIPGFT 392

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114585|ref|XP_002316803.1| predicted protein [Populus trichocarpa] gi|222859868|gb|EEE97415.1| predicted protein [Populus trichocarpa]

 Score =  484 bits (1247), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 277/381 (72%), Positives = 300/381 (78%), Gaps = 22/381 (5%)

Query: 3   GGLYGDLPPPS---DEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKT 59
           GGLYGDLPPPS   +EDKPT TT+TVWS+S  MAPPTLRKP     P QTILK Q+KPK 
Sbjct: 1   GGLYGDLPPPSAAAEEDKPTTTTSTVWSTSTLMAPPTLRKPMPPPPP-QTILKSQNKPKP 59

Query: 60  TQNSLPTRPHSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKKA 119
           ++  L      +P +   PD+ AA  QPALVGV S VIEEYDPARPNDY+DYRREKK+KA
Sbjct: 60  SKTLL----SPAPPVTVLPDEVAA--QPALVGVNSVVIEEYDPARPNDYDDYRREKKRKA 113

Query: 120 VDAEIRRELERRRQEGEERERREREERENASASRLNMSGEEAWKRRAAMSSGGVPPRSPS 179
               +  E  R  +   + E               N+SGEEAWKRRAAMS GGVP RSPS
Sbjct: 114 ----MEAERLREIERRRQEEEERESREREDRERDTNISGEEAWKRRAAMSGGGVP-RSPS 168

Query: 180 PPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITT 239
           PP         G GF IGKSET GLG+GAGGQMTAAQRMMAKMGWKEGQGLG+QEQGITT
Sbjct: 169 PP-------SNGDGFRIGKSETVGLGVGAGGQMTAAQRMMAKMGWKEGQGLGKQEQGITT 221

Query: 240 PLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGS 299
           PLMA+KTDRRAGVIVNASE+K EKKVKSVN NG PTRVLLLRNMVGPGEVDDELEDEV S
Sbjct: 222 PLMAKKTDRRAGVIVNASESKPEKKVKSVNLNGTPTRVLLLRNMVGPGEVDDELEDEVAS 281

Query: 300 ECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
           ECAKYGTVTRVLIFEITE NFP +EAVRIF+QFERSE+TTKALIDLDGRFFGG VVRATF
Sbjct: 282 ECAKYGTVTRVLIFEITELNFPREEAVRIFIQFERSEETTKALIDLDGRFFGGNVVRATF 341

Query: 360 YDEERFSKNELAPLPGEIPGF 380
           YDEERFSKNELAP+PGEIPGF
Sbjct: 342 YDEERFSKNELAPIPGEIPGF 362

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|166694|gb|AAA73382.1| unnamed protein product [Arabidopsis thaliana]

 Score =  479 bits (1233), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 263/391 (67%), Positives = 312/391 (79%), Gaps = 19/391 (4%)

Query: 1   MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
           MLGGLYGDLPPP+D++KP+  +++VWS S KMAPPTLRKP + FAPPQTIL+P +KPK  
Sbjct: 1   MLGGLYGDLPPPTDDEKPSGNSSSVWSRSTKMAPPTLRKPPA-FAPPQTILRPLNKPKPI 59

Query: 61  QNSLPTRP--HSSPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYRREKKKK 118
             S P +P  +SS ++    +++A   QPALVGVTS+VIEEYDPARPNDYE+Y+REKK+K
Sbjct: 60  V-SAPYKPPPNSSQSVLIPANESAPSHQPALVGVTSSVIEEYDPARPNDYEEYKREKKRK 118

Query: 119 AVDAEIRRELERRRQEGEERERREREERENASAS-----RLNMSGEEAWKRRAAMSSGGV 173
           A +AE++RE+++RRQ   ER+ REREERE           +++SGEE  +  A +    +
Sbjct: 119 ATEAEMKREMDKRRQVYPERDMREREERERREREITVILSVDISGEERGRDPARVVVEVL 178

Query: 174 PPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQ 233
               P   P NV+      GF+IGKS+ SGLG+GAGGQMT AQRMM KMGWK+GQGLG+ 
Sbjct: 179 GREDPRLLPGNVD------GFSIGKSKPSGLGVGAGGQMTPAQRMMPKMGWKQGQGLGKS 232

Query: 234 EQGITTPLMARKTDRRAGVIVNASENKS----EKKVKSVNFNGPPTRVLLLRNMVGPGEV 289
           EQGI TPLMA+KTDRRAGVIVNASENKS    +K VKSVN NG PTRVLLLRNMVGPG+V
Sbjct: 233 EQGIPTPLMAKKTDRRAGVIVNASENKSSSAEKKVVKSVNINGEPTRVLLLRNMVGPGQV 292

Query: 290 DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF 349
           DDELEDEVG ECAKYGTVTRVLIFEITEPNFPV EAVRIFVQF R E+TTKAL+DLDGR+
Sbjct: 293 DDELEDEVGGECAKYGTVTRVLIFEITEPNFPVHEAVRIFVQFSRPEETTKALVDLDGRY 352

Query: 350 FGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
           FGGR VRATFYDEE+FSKNELAP+PGEIPG+
Sbjct: 353 FGGRTVRATFYDEEKFSKNELAPVPGEIPGY 383

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564401|ref|XP_002523197.1| DNA-damage repair protein drt111, putative [Ricinus communis] gi|223537604|gb|EEF39228.1| DNA-damage repair protein drt111, putative [Ricinus communis]

 Score =  478 bits (1230), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 293/392 (74%), Positives = 321/392 (81%), Gaps = 17/392 (4%)

Query: 1   MLGGLYGDLPPPS--DEDKPT-NTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKP 57
           MLGGLYGDLPPPS  +EDK T NT+ TVWS+S  MAPPTLRKP+++   PQTILK QSK 
Sbjct: 1   MLGGLYGDLPPPSSAEEDKSTTNTSATVWSTSTLMAPPTLRKPATL-TTPQTILKSQSKT 59

Query: 58  KTTQNSLPTRPHS-----SPAIAPSPDDAAALPQPALVGVTSTVIEEYDPARPNDYEDYR 112
           K  Q+ + T   +     SP + P P++A+   QPALVGV S VIEEYDP+RPNDYEDY+
Sbjct: 60  KPQQSLMTTSSKTLVTSHSPTVLP-PEEAS---QPALVGVNSVVIEEYDPSRPNDYEDYK 115

Query: 113 REKKKKAVDAEIRRELERRRQEGEERERREREERENASASRLNMSGEEAWKRRAAMSSGG 172
           REKK+KA++AE  RELERRR E EERE REREERE       N+SGEEAW+RRAAMSS  
Sbjct: 116 REKKRKALEAERMRELERRRLEEEERELREREERERDRERDRNISGEEAWRRRAAMSSSS 175

Query: 173 VP----PRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQ 228
                 P S          GGGG GF+IGKSE+ GLG+GAGGQMTAAQRMMAKMGWKEGQ
Sbjct: 176 GGGARSPESGGGGGGGGGGGGGGDGFSIGKSESGGLGVGAGGQMTAAQRMMAKMGWKEGQ 235

Query: 229 GLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGE 288
           GLGRQEQGITTPLMA+KTDRRAGVIVNASE K EKKVKSVNFNG PTRVLLLRNMVGPGE
Sbjct: 236 GLGRQEQGITTPLMAKKTDRRAGVIVNASETKVEKKVKSVNFNGTPTRVLLLRNMVGPGE 295

Query: 289 VDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR 348
           VDDELEDEVGSECAKYGTVTRVLIFEITEPNFP DEAVRIFVQFERSE+TTKAL+DLDGR
Sbjct: 296 VDDELEDEVGSECAKYGTVTRVLIFEITEPNFPRDEAVRIFVQFERSEETTKALVDLDGR 355

Query: 349 FFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
           FFGG VV ATFYDEE+FSKNELAP+PGEIPGF
Sbjct: 356 FFGGNVVHATFYDEEKFSKNELAPMPGEIPGF 387

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	381
TAIR|locus:2028130	387	DRT111 "DNA-DAMAGE-REPAIR/TOLE	0.981	0.966	0.577	1.9e-108
MGI|MGI:1924188	405	Rbm17 "RNA binding motif prote	0.417	0.392	0.424	4.9e-33
RGD|1311208	405	Rbm17 "RNA binding motif prote	0.417	0.392	0.424	4.9e-33
UNIPROTKB|E2RMQ0	401	RBM17 "Uncharacterized protein	0.417	0.396	0.428	7.9e-33
UNIPROTKB|F1RUL1	406	RBM17 "Uncharacterized protein	0.417	0.391	0.424	7.9e-33
UNIPROTKB|A7MB77	401	RBM17 "RBM17 protein" [Bos tau	0.417	0.396	0.428	1e-32
UNIPROTKB|Q96I25	401	RBM17 "Splicing factor 45" [Ho	0.417	0.396	0.428	1e-32
ZFIN|ZDB-GENE-040426-817	418	rbm17 "RNA binding motif prote	0.236	0.215	0.5	1.5e-32
UNIPROTKB|E1BUJ1	405	RBM17 "Uncharacterized protein	0.414	0.390	0.427	5.5e-32
GENEDB_PFALCIPARUM|PF14_0513	511	PF14_0513 "RNA binding protein	0.401	0.299	0.339	1.2e-24

TAIR|locus:2028130 DRT111 "DNA-DAMAGE-REPAIR/TOLERATION PROTEIN 111" [Arabidopsis thaliana (taxid:3702)]

 Score = 1072 (382.4 bits), Expect = 1.9e-108, P = 1.9e-108
 Identities = 227/393 (57%), Positives = 258/393 (65%)

Query:     1 MLGGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTT 60
             MLGGLYGDLPPP+D++KP+  +++VWSSS KMAPPTLRKP + FAPPQTIL+P +KPK  
Sbjct:     1 MLGGLYGDLPPPTDDEKPSGNSSSVWSSSTKMAPPTLRKPPA-FAPPQTILRPLNKPKPI 59

Query:    61 QNSL---PTRXXXXXXXXXXXXXXXXXXXXXLVGVTSTVIEEYDPARPNDYEDYRREKKK 117
              ++    P                       LVGVTS+VIEEYDPARPNDYE+Y+REKK+
Sbjct:    60 VSAPYKPPPPSNSSQSVLIPANESAPSHQPALVGVTSSVIEEYDPARPNDYEEYKREKKR 119

Query:   118 KAVDAEIXXXXXXXXXXXXXXXXXXXXXXX------NASASRLNMSGEEAWKRRAAMXXX 171
             KA +AE+                             N+  SRLN+SGEEAWKRRAAM   
Sbjct:   120 KATEAEMKREMDKRRQEDEERDKREREEREKERERDNSDPSRLNISGEEAWKRRAAMSGG 179

Query:   172 XXXXXXXXXXXXXXXXXXXXXXFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLG 231
                                   F+IGKSETSGLG+GAGGQMTAAQRMMAKMGWK+GQGLG
Sbjct:   180 GSGGKGRSSSPPGNVDG-----FSIGKSETSGLGVGAGGQMTAAQRMMAKMGWKQGQGLG 234

Query:   232 RQEQGITTPLMARKTDRRAGVIVNAXXXXXXXXXX----XXXFNGPPTRVLLLRNMXXXX 287
             + EQGITTPLMA+KTDRRAGVIVNA                  NG PTRVLLLRNM    
Sbjct:   235 KSEQGITTPLMAKKTDRRAGVIVNASENKSSSAEKKVVKSVNINGEPTRVLLLRNMVGPG 294

Query:   288 XXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG 347
                          C KYGTVTRVLIFEITEPNFPV EAVRIFVQF R E+TTKAL+DLDG
Sbjct:   295 QVDDELEDEVGGECGKYGTVTRVLIFEITEPNFPVHEAVRIFVQFSRPEETTKALVDLDG 354

Query:   348 RFFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
             R+FGGR VRATFYDEE+FSKNELAP+PGEIPG+
Sbjct:   355 RYFGGRTVRATFYDEEKFSKNELAPVPGEIPGY 387

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

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

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0010212 "response to ionizing radiation" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0006281 "DNA repair" evidence=IGI

GO:0009507 "chloroplast" evidence=ISS

MGI|MGI:1924188 Rbm17 "RNA binding motif protein 17" [Mus musculus (taxid:10090)]

 Score = 316 (116.3 bits), Expect = 4.9e-33, Sum P(2) = 4.9e-33
 Identities = 73/172 (42%), Positives = 99/172 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKGEAQDAS 292

Query:   267 XXXFNGP-------PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPN 319
                 + P       PT+V+LLRNM                 C KYG V + +IFEI  P 
Sbjct:   293 KKSDSNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PG 350

Query:   320 FPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
              P DEAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   351 APDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 402

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000375 "RNA splicing, via transesterification reactions" evidence=TAS

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=TAS

RGD|1311208 Rbm17 "RNA binding motif protein 17" [Rattus norvegicus (taxid:10116)]

 Score = 316 (116.3 bits), Expect = 4.9e-33, Sum P(2) = 4.9e-33
 Identities = 73/172 (42%), Positives = 99/172 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKGESQDAS 292

Query:   267 XXXFNGP-------PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPN 319
                 + P       PT+V+LLRNM                 C KYG V + +IFEI  P 
Sbjct:   293 KKSDSNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PG 350

Query:   320 FPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
              P DEAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   351 APDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 402

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|E2RMQ0 RBM17 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 314 (115.6 bits), Expect = 7.9e-33, Sum P(2) = 7.9e-33
 Identities = 72/168 (42%), Positives = 97/168 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKDASKKSD 292

Query:   267 XXXFNGP---PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVD 323
                       PT+V+LLRNM                 C KYG V + +IFEI  P  P D
Sbjct:   293 SNPLTEILKCPTKVVLLRNMVGAGEVDEDLEAETKEECEKYGKVGKCVIFEI--PGAPDD 350

Query:   324 EAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
             EAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   351 EAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 398

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RUL1 RBM17 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 314 (115.6 bits), Expect = 7.9e-33, Sum P(2) = 7.9e-33
 Identities = 73/172 (42%), Positives = 99/172 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   236 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKGAPPDAA 293

Query:   267 XXXFNGP-------PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPN 319
                 + P       PT+V+LLRNM                 C KYG V + +IFEI  P 
Sbjct:   294 KKSDSNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PG 351

Query:   320 FPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
              P DEAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   352 APDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 403

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|A7MB77 RBM17 "RBM17 protein" [Bos taurus (taxid:9913)]

 Score = 313 (115.2 bits), Expect = 1.0e-32, Sum P(2) = 1.0e-32
 Identities = 72/168 (42%), Positives = 97/168 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKDAAKKSD 292

Query:   267 XXXFNGP---PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVD 323
                       PT+V+LLRNM                 C KYG V + +IFEI  P  P D
Sbjct:   293 SNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PGAPDD 350

Query:   324 EAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
             EAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   351 EAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 398

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q96I25 RBM17 "Splicing factor 45" [Homo sapiens (taxid:9606)]

 Score = 313 (115.2 bits), Expect = 1.0e-32, Sum P(2) = 1.0e-32
 Identities = 72/168 (42%), Positives = 97/168 (57%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV--NAXXXXXXXXXX 266
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+  +A          
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKDASKKSD 292

Query:   267 XXXFNGP---PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVD 323
                       PT+V+LLRNM                 C KYG V + +IFEI  P  P D
Sbjct:   293 SNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PGAPDD 350

Query:   324 EAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
             EAVRIF++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   351 EAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 398

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

ZFIN|ZDB-GENE-040426-817 rbm17 "RNA binding motif protein 17" [Danio rerio (taxid:7955)]

 Score = 219 (82.2 bits), Expect = 1.5e-32, Sum P(3) = 1.5e-32
 Identities = 46/92 (50%), Positives = 59/92 (64%)

Query:   274 PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFE 333
             PT+V+LLRNM                 C KYG V R +IFEI+      DEAVRIF++FE
Sbjct:   320 PTKVVLLRNMVGRGEVDEDLEAETKEECEKYGKVVRCVIFEIS--GVTDDEAVRIFLEFE 377

Query:   334 RSEQTTKALIDLDGRFFGGRVVRATFYDEERF 365
             R E   KA++DL+GR+FGGRVV+A FY+ +RF
Sbjct:   378 RVESAIKAVVDLNGRYFGGRVVKACFYNLDRF 409

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E1BUJ1 RBM17 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 306 (112.8 bits), Expect = 5.5e-32, Sum P(2) = 5.5e-32
 Identities = 74/173 (42%), Positives = 97/173 (56%)

Query:   209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAXXXXXXXXXXXX 268
             GG  T A ++M K G++EGQGLG+ EQG++T L   KT +R G I+              
Sbjct:   235 GG--TVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKADATKKA 292

Query:   269 XFNGP-------PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFP 321
               N P       PT+V+LLRNM                 C KYG V + +IFEI  P  P
Sbjct:   293 DSN-PLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PGAP 349

Query:   322 VDEAVRIFVQFERSEQTTKALI---DLDGRFFGGRVVRATFYDEERFSKNELA 371
              DEAVRIF++FER E   KA+I   DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct:   350 DDEAVRIFLEFERVESAIKAIIAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 402

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GENEDB_PFALCIPARUM|PF14_0513 PF14_0513 "RNA binding protein, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 215 (80.7 bits), Expect = 1.2e-24, Sum P(3) = 1.2e-24
 Identities = 54/159 (33%), Positives = 79/159 (49%)

Query:   215 AQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAXXXXXXXXXXXXXFN-GP 273
             A RMM KMGWK+G+GLG+ +QGI  PL+ +K D+R+GVIV A              N   
Sbjct:   352 ATRMMEKMGWKKGEGLGKDKQGIKAPLILKKVDKRSGVIVQAPVILKNNDLNNKGENLSV 411

Query:   274 P---TRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEAVRIFV 330
             P   TR++ L N+                  +K+G +  + I  + + N     AV+I+ 
Sbjct:   412 PNDCTRIVHLTNLVTPEEVDETLKEEIEEEASKFGNLLNINI--VVDKNLLDALAVKIYC 469

Query:   331 QFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNE 369
             ++E  +Q   AL    GR F GR V+A+F  EE +   E
Sbjct:   470 EYESKDQAQNALNTFKGRTFAGRKVQASFATEEEYETLE 508

GO:0003723 "RNA binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8JZX4	SPF45_MOUSE	No assigned EC number	0.3159	0.8582	0.8074	yes	no
Q96I25	SPF45_HUMAN	No assigned EC number	0.3211	0.8582	0.8154	yes	no
P42698	DR111_ARATH	No assigned EC number	0.7189	0.9763	0.9612	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	381
cd12647	96	cd12647, RRM_UHM_SPF45, RNA recognition motif in U	1e-58
cd12374	85	cd12374, RRM_UHM_SPF45_PUF60, RNA recognition moti	6e-39
cd12648	98	cd12648, RRM3_UHM_PUF60, RNA recognition motif 3 i	7e-31
TIGR01645	612	TIGR01645, half-pint, poly-U binding splicing fact	2e-20
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	3e-18
smart00361	70	smart00361, RRM_1, RNA recognition motif	5e-18
cd12285	85	cd12285, RRM3_RBM39_like, RNA recognition motif 3	2e-16
smart00443	47	smart00443, G_patch, glycine rich nucleic binding	2e-14
pfam01585	45	pfam01585, G-patch, G-patch domain	6e-14
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	5e-10
cd12282	91	cd12282, RRM2_TatSF1_like, RNA recognition motif 2	4e-09
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	4e-07
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	2e-06
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	3e-05
cd12465	88	cd12465, RRM_UHMK1, RNA recognition motif found in	4e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	4e-05
smart00360	73	smart00360, RRM, RNA recognition motif	8e-05
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	9e-05
cd12438	98	cd12438, RRM_CNOT4, RNA recognition motif in Eukar	5e-04
cd12287	102	cd12287, RRM_U2AF35_like, RNA recognition motif in	7e-04
cd12233	70	cd12233, RRM_Srp1p_AtRSp31_like, RNA recognition m	8e-04
cd12422	85	cd12422, RRM2_PTBP1_hnRNPL_like, RNA recognition m	0.002
PRK05035	695	PRK05035, PRK05035, electron transport complex pro	0.004

>gnl|CDD|241091 cd12647, RRM_UHM_SPF45, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score =  185 bits (471), Expect = 1e-58
 Identities = 66/97 (68%), Positives = 82/97 (84%), Gaps = 1/97 (1%)

Query: 274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFE 333
           P++V+LLRNMVGPGEVD++LE EV  EC+KYG VT+VLIFEI   + P DEAVRIFV+FE
Sbjct: 1   PSKVVLLRNMVGPGEVDEDLEPEVKEECSKYGKVTKVLIFEIPGAS-PDDEAVRIFVEFE 59

Query: 334 RSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNEL 370
           R E   KA++DL+GRFFGGR V+A+FYDEERF +N+L
Sbjct: 60  RVESAIKAVVDLNGRFFGGRTVKASFYDEERFRRNDL 96

This subgroup corresponds to the RRM of SPF45, also termed RNA-binding motif protein 17 (RBM17), an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. . Length = 96

>gnl|CDD|240820 cd12374, RRM_UHM_SPF45_PUF60, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score =  133 bits (338), Expect = 6e-39
 Identities = 44/87 (50%), Positives = 63/87 (72%), Gaps = 2/87 (2%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFER 334
           +++L+LRNMV PGE+D++L+DE+  EC KYG V  V++ E    +   D+AVRIFV+F  
Sbjct: 1   SKILVLRNMVTPGEIDEDLKDEIEEECEKYGKVLNVIVHE--VASSEADDAVRIFVEFSD 58

Query: 335 SEQTTKALIDLDGRFFGGRVVRATFYD 361
           +++  KA+  L+GRFFGGR V A FYD
Sbjct: 59  ADEAIKAVRALNGRFFGGRKVTARFYD 85

This subfamily corresponds to the RRM found in UHM domain of 45 kDa-splicing factor (SPF45 or RBM17), poly(U)-binding-splicing factor PUF60 (FIR or Hfp or RoBP1 or Siah-BP1), and similar proteins. SPF45 is an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RRMs and a C-terminal UHM domain. . Length = 85

>gnl|CDD|241092 cd12648, RRM3_UHM_PUF60, RNA recognition motif 3 in UHM domain of poly(U)-binding-splicing factor PUF60 and similar proteins

 Score =  112 bits (283), Expect = 7e-31
 Identities = 45/99 (45%), Positives = 67/99 (67%), Gaps = 5/99 (5%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           +RV++LRNMVGP ++DD+LE EV  EC K+G V RV+I+   E     ++A   V+IFV+
Sbjct: 1   SRVMVLRNMVGPEDLDDDLEGEVTEECGKFGAVNRVIIY--QEKQGEEEDAEIIVKIFVE 58

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNEL 370
           F    +  KA+  L+GR+FGGR V+A  YD+ +F  ++L
Sbjct: 59  FSLPSEAEKAIQALNGRWFGGRKVKAELYDQTKFDASDL 97

This subgroup corresponds to the RRM3 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1), an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. The research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 98

>gnl|CDD|130706 TIGR01645, half-pint, poly-U binding splicing factor, half-pint family

 Score = 92.8 bits (230), Expect = 2e-20
 Identities = 42/98 (42%), Positives = 59/98 (60%), Gaps = 1/98 (1%)

Query: 275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIF-EITEPNFPVDEAVRIFVQFE 333
           + V++LRNMV P ++D+ LE E+  EC K+G V RV+I  E        +  V+IFV+F 
Sbjct: 514 SNVIVLRNMVTPQDIDEFLEGEIREECGKFGVVDRVIINFEKQGEEEDAEIIVKIFVEFS 573

Query: 334 RSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
            S +  +A   LDGRFFGGR V A  YD+  F   +L+
Sbjct: 574 DSMEVDRAKAALDGRFFGGRTVVAEAYDQILFDHADLS 611

The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. 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. Length = 612

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

 Score = 78.4 bits (194), Expect = 3e-18
 Identities = 36/89 (40%), Positives = 46/89 (51%), Gaps = 5/89 (5%)

Query: 275 TRVLLLRNMVGPGE-VDDE----LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIF 329
           +RVL L NMV P E  DDE    + ++V  EC KYG V  V+I         V    ++F
Sbjct: 1   SRVLCLLNMVTPEELEDDEEYEEILEDVKEECGKYGKVLSVVIPRPEAEGVDVPGVGKVF 60

Query: 330 VQFERSEQTTKALIDLDGRFFGGRVVRAT 358
           V+F   E   KA + L GR F GR V A+
Sbjct: 61  VEFADVEDAQKAQLALAGRKFDGRTVVAS 89

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

>gnl|CDD|214637 smart00361, RRM_1, RNA recognition motif

 Score = 77.4 bits (191), Expect = 5e-18
 Identities = 22/70 (31%), Positives = 41/70 (58%)

Query: 289 VDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR 348
            D++ E E+  E   +G V ++    I +  +   +   +++ FERSE   +A++DL+GR
Sbjct: 1   KDEDFERELKEEEEYFGEVGKINKIYIDDVGYENHKRGNVYITFERSEDAARAIVDLNGR 60

Query: 349 FFGGRVVRAT 358
           +F GR+V+A 
Sbjct: 61  YFDGRLVKAE 70

Length = 70

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

 Score = 73.7 bits (182), Expect = 2e-16
 Identities = 29/92 (31%), Positives = 51/92 (55%), Gaps = 12/92 (13%)

Query: 275 TRVLLLRNMVGPGEV-----DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIF 329
           +R ++L+NM  P E      DDE++++V  EC+K+G V  + + +    N P      ++
Sbjct: 1   SRCVILKNMFDPAEETEDEWDDEIKEDVLEECSKFGPVEHIKVDK----NSPEGV---VY 53

Query: 330 VQFERSEQTTKALIDLDGRFFGGRVVRATFYD 361
           V+F+  E   K +  L+GR+F GR + A + D
Sbjct: 54  VKFKTVEAAQKCIQALNGRWFDGRQITAEYVD 85

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

>gnl|CDD|197727 smart00443, G_patch, glycine rich nucleic binding domain

 Score = 66.8 bits (164), Expect = 2e-14
 Identities = 19/41 (46%), Positives = 25/41 (60%)

Query: 215 AQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVN 255
             +++ KMGWKEGQGLG+ EQGI  P+ A     R G+   
Sbjct: 7   GAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47

A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins. Length = 47

>gnl|CDD|144978 pfam01585, G-patch, G-patch domain

 Score = 65.2 bits (160), Expect = 6e-14
 Identities = 19/38 (50%), Positives = 26/38 (68%)

Query: 215 AQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGV 252
             +++ KMGWK GQGLG+ EQGIT P+ A+    R G+
Sbjct: 5   GFKLLQKMGWKPGQGLGKNEQGITEPIEAKIRPDRKGL 42

This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines. Length = 45

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

 Score = 60.7 bits (147), Expect = 5e-10
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 5/109 (4%)

Query: 266 KSVNFNGPPTRVLLLRNMVGPGE--VDDELED---EVGSECAKYGTVTRVLIFEITEPNF 320
             +   G PT+V+ L N+V   +   D+E E+   +V +E +KYG +  ++I        
Sbjct: 400 SILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRN 459

Query: 321 PVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNE 369
                 ++F+++       KA+  ++GR F  RVV A FY E+ +   +
Sbjct: 460 STPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGEDCYKAGD 508

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

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

 Score = 53.0 bits (128), Expect = 4e-09
 Identities = 28/92 (30%), Positives = 51/92 (55%), Gaps = 13/92 (14%)

Query: 276 RVLLLRNMVGPGEVDD------ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIF 329
           +V++L+N+  P E ++      EL D++  EC K+G V +V++F       P  + V   
Sbjct: 2   KVVILKNLFSPEEFEEDPTLINELRDDLREECEKFGQVKKVVVF----DRHP--DGV-AS 54

Query: 330 VQFERSEQTTKALIDLDGRFFGGRVVRATFYD 361
           V+F+  E+  + +  L+GR+F GR + A  +D
Sbjct: 55  VKFKEPEEADRCIEALNGRWFAGRQLEAERWD 86

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

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

 Score = 51.4 bits (123), Expect = 4e-07
 Identities = 37/187 (19%), Positives = 67/187 (35%), Gaps = 24/187 (12%)

Query: 198 KSETSGLGLGAGGQMTAAQRMMAKMGWKEGQGL------GRQEQGITTPLMARKTDRRAG 251
           K +  G  L    +    +++  +     G  +          Q +    +         
Sbjct: 281 KQQQMGKNLNTEEREQLMEKL-DRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIP--- 336

Query: 252 VIVNASENKSEKKVKSV--NFNGPPTRVLLLRNMVGPGE-----VDDELEDEVGSECAKY 304
                       +   V    N   T  L+L NM  P        D+E+ D+V  EC+KY
Sbjct: 337 SRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKY 396

Query: 305 GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEER 364
           G V  + +      N     A +I+++F   +    A   L+GR+FGG+++ A F   + 
Sbjct: 397 GGVVHIYV---DTKN----SAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVVNDV 449

Query: 365 FSKNELA 371
           +  + L 
Sbjct: 450 YDMSCLP 456

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

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

 Score = 44.0 bits (105), Expect = 2e-06
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 8/61 (13%)

Query: 300 ECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
             + +G V ++ + +  +P F        FV+F   E   KA+  L+G  FGGR +R  +
Sbjct: 4   LFSPFGNVEKIKLLK-KKPGF-------AFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDY 55

Query: 360 Y 360
            
Sbjct: 56  S 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|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 = 41.5 bits (98), Expect = 3e-05
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 13/70 (18%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI-----FVQFERSEQTTKALIDLDGR 348
           E+E+      +G        EI+E + P+D+  +      FV F   E   KA  +LDG 
Sbjct: 13  EEELRELFEAFG--------EISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSELDGS 64

Query: 349 FFGGRVVRAT 358
            F GR++   
Sbjct: 65  IFQGRLLHVL 74

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

 Score = 41.5 bits (97), Expect = 4e-05
 Identities = 31/94 (32%), Positives = 47/94 (50%), Gaps = 15/94 (15%)

Query: 274 PTRVLLLRNMVGPG--EVDDELED---EVGSECAKYGTVTRVLIFEITEPNFPVDEAVR- 327
           PT VL L N++     + ++E ED   ++  EC KYG V  +LI        P +   + 
Sbjct: 2   PTPVLRLLNVLDDAHLQNEEEYEDIIEDIKEECQKYGPVVSLLI--------PKENPGKG 53

Query: 328 -IFVQFERSEQTTKALIDLDGRFFGGRVVRATFY 360
            +FV++  +  +  A   L GR F G+ V ATFY
Sbjct: 54  QVFVEYANAGDSKAAQKLLTGRIFDGKFVVATFY 87

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

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

 Score = 41.1 bits (97), Expect = 4e-05
 Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 4/64 (6%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E+++    +K+G +  V I    +           FV+FE  E   KAL  L+G+   GR
Sbjct: 12  EEDLRELFSKFGEIESVRIVRDKDGKSKG----FAFVEFESPEDAEKALEALNGKELDGR 67

Query: 354 VVRA 357
            ++ 
Sbjct: 68  KLKV 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 = 40.3 bits (95), Expect = 8e-05
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E+E+    +K+G V  V +    E       A   FV+FE  E   KAL  L+G+   GR
Sbjct: 13  EEELRELFSKFGKVESVRLVRDKETGKSKGFA---FVEFESEEDAEKALEALNGKELDGR 69

Query: 354 VVR 356
            ++
Sbjct: 70  PLK 72

Length = 73

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

 Score = 39.9 bits (94), Expect = 9e-05
 Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 10/68 (14%)

Query: 290 DDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR 348
           +++L+D      +K+G +  + ++ + T  +         FV+FE  E   KAL  L+G+
Sbjct: 12  EEDLKDL----FSKFGPIESIRIVRDETGRSKGF-----AFVEFEDEEDAEKALEALNGK 62

Query: 349 FFGGRVVR 356
             GGR +R
Sbjct: 63  ELGGRELR 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|240884 cd12438, RRM_CNOT4, RNA recognition motif in Eukaryotic CCR4-NOT transcription complex subunit 4 (NOT4) and similar proteins

 Score = 38.7 bits (91), Expect = 5e-04
 Identities = 14/57 (24%), Positives = 30/57 (52%)

Query: 303 KYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
           +YG + +++I   T  N     +   +V + R E   + +  +DG +  GR+++A+F
Sbjct: 31  QYGKIKKIVINRNTSYNGSQGPSASAYVTYSRKEDALRCIQAVDGFYLDGRLLKASF 87

This subfamily corresponds to the RRM of NOT4, also termed CCR4-associated factor 4, or E3 ubiquitin-protein ligase CNOT4, or potential transcriptional repressor NOT4Hp, a component of the CCR4-NOT complex, a global negative regulator of RNA polymerase II transcription. NOT4 functions as an ubiquitin-protein ligase (E3). It contains an N-terminal C4C4 type RING finger motif, followed by a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The RING fingers may interact with a subset of ubiquitin-conjugating enzymes (E2s), including UbcH5B, and mediate protein-protein interactions. T. Length = 98

>gnl|CDD|240733 cd12287, RRM_U2AF35_like, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35) and similar proteins

 Score = 38.4 bits (90), Expect = 7e-04
 Identities = 16/79 (20%), Positives = 36/79 (45%), Gaps = 15/79 (18%)

Query: 288 EVDDELED---EVGSECAKYGTVTRVLIFEITEP----NFPVDEAVRIFVQFERSEQTTK 340
           E+ +  ++   +V  E +++G +  +++ +        N        ++V+FE  E    
Sbjct: 30  EIQEHFDEFYEDVFLELSRFGEIEDLVVCDNLGDHLLGN--------VYVKFETEEDAEA 81

Query: 341 ALIDLDGRFFGGRVVRATF 359
           AL  L+GR++ GR +    
Sbjct: 82  ALQALNGRYYAGRPLYPEL 100

This subfamily corresponds to the RRM in U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF) which has been implicated in the recruitment of U2 snRNP to pre-mRNAs. It is a highly conserved heterodimer composed of large and small subunits; this family includes the small subunit of U2AF (U2AF35 or U2AF1) and U2AF 35 kDa subunit B (U2AF35B or C3H60). U2AF35 directly binds to the 3' splice site of the conserved AG dinucleotide and performs multiple functions in the splicing process in a substrate-specific manner. It promotes U2 snRNP binding to the branch-point sequences of introns through association with the large subunit of U2AF (U2AF65 or U2AF2). Although the biological role of U2AF35B remains unclear, it shows high sequence homolgy to U2AF35, which contains two N-terminal zinc fingers, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal arginine/serine (SR) -rich segment interrupted by glycines. In contrast to U2AF35, U2AF35B has a plant-specific conserved C-terminal region containing SERE motif(s), which may have an important function specific to higher plants. . Length = 102

>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 = 37.4 bits (87), Expect = 8e-04
 Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 11/66 (16%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E+++      +G + R  I       F        FV+FE SE  TKAL  L G    G 
Sbjct: 14  EEDIEKLFEPFGPLVRCDI----RKTFA-------FVEFEDSEDATKALEALHGSRIDGS 62

Query: 354 VVRATF 359
           V+   F
Sbjct: 63  VLTVEF 68

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|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 = 0.002
 Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 7/47 (14%)

Query: 303 KYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF 349
            YG V ++LIFE           V+  VQF+  E    A   L+GR 
Sbjct: 24  PYGAVEKILIFEKNTG-------VQALVQFDSVESAENAKKALNGRN 63

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|235334 PRK05035, PRK05035, electron transport complex protein RnfC; Provisional

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 112 RREKKKKAVDAEIRRELERRRQEGEERERREREERENASASRLNMSGEEAWKRRAAMS 169
             ++KKKA +A+ R E    RQ   ERE+  RE R   +A       ++A    AA++
Sbjct: 441 IEQEKKKAEEAKARFEA---RQARLEREKAAREARHKKAAEARAAKDKDAVA--AALA 493

Length = 695

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	381
KOG1996	378	consensus mRNA splicing factor [RNA processing and	100.0
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.88
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.79
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.78
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.73
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.68
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.66
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.55
smart00361	70	RRM_1 RNA recognition motif.	99.41
PF01585	45	G-patch: G-patch domain; InterPro: IPR000467 The D	99.3
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	99.2
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.15
smart00443	47	G_patch glycine rich nucleic binding domain. A pre	99.1
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.03
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	98.93
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.81
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.77
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	98.71
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.67
KOG2809	326	consensus Telomerase elongation inhibitor/RNA matu	98.65
smart00360	71	RRM RNA recognition motif.	98.64
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.61
KOG2184	767	consensus Tuftelin-interacting protein TIP39, cont	98.59
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.55
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.52
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.52
KOG2185	486	consensus Predicted RNA-processing protein, contai	98.49
smart00362	72	RRM_2 RNA recognition motif.	98.48
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.45
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.44
PLN03120	260	nucleic acid binding protein; Provisional	98.44
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.43
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.42
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.4
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.39
KOG0122	270	consensus Translation initiation factor 3, subunit	98.34
KOG3673	845	consensus FtsJ-like RNA methyltransferase [RNA pro	98.31
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.3
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.26
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.23
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.23
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.2
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.19
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.17
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.15
PLN03121	243	nucleic acid binding protein; Provisional	98.1
KOG4368	757	consensus Predicted RNA binding protein, contains	98.09
KOG0965	988	consensus Predicted RNA-binding protein, contains	98.08
PF12656	77	G-patch_2: DExH-box splicing factor binding site	98.0
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	97.99
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	97.92
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	97.92
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	97.91
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	97.91
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	97.82
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	97.81
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	97.79
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	97.76
PLN03213	759	repressor of silencing 3; Provisional	97.75
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	97.69
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	97.63
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	97.61
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	97.6
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	97.58
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	97.55
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	97.51
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.48
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	97.38
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	97.38
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	97.37
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	97.35
KOG2384	223	consensus Major histocompatibility complex protein	97.29
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.29
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	97.15
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	97.13
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	97.11
KOG2314	698	consensus Translation initiation factor 3, subunit	97.01
KOG4660	549	consensus Protein Mei2, essential for commitment t	96.88
KOG0154	573	consensus RNA-binding protein RBM5 and related pro	96.85
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	96.62
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	96.6
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	96.56
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	96.46
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	96.44
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	96.3
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.29
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	96.17
KOG1994	268	consensus Predicted RNA binding protein, contains	96.12
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	96.06
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	95.96
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	95.85
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	95.79
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.78
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	95.78
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	95.77
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	95.76
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	95.56
KOG4315	455	consensus G-patch nucleic acid binding protein [Ge	95.45
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	95.41
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	95.28
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	95.02
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	94.86
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	94.75
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	94.74
KOG0533	243	consensus RRM motif-containing protein [RNA proces	94.09
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	94.01
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	93.8
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	93.72
KOG1855	484	consensus Predicted RNA-binding protein [General f	93.44
KOG2068	327	consensus MOT2 transcription factor [Transcription	93.21
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	92.93
KOG0226	290	consensus RNA-binding proteins [General function p	92.85
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	92.52
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	91.54
KOG2138	883	consensus Predicted RNA binding protein, contains	91.41
PF15519	73	RBM39linker: linker between RRM2 and RRM3 domains	90.68
KOG0151	877	consensus Predicted splicing regulator, contains R	90.62
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	89.2
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	88.87
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	87.92
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	87.41
KOG1548	382	consensus Transcription elongation factor TAT-SF1	86.64
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	86.55
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	86.36
KOG1995	351	consensus Conserved Zn-finger protein [General fun	85.32
KOG3152	278	consensus TBP-binding protein, activator of basal	84.89
KOG1457	284	consensus RNA binding protein (contains RRM repeat	82.01
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	82.0
KOG4210	285	consensus Nuclear localization sequence binding pr	81.38
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	81.22

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

Probab=100.00  E-value=3.9e-72  Score=537.20  Aligned_cols=354  Identities=42%  Similarity=0.640  Sum_probs=296.8

Q ss_pred             CCCCCCCCCCCCCCCCCCcccccccCccccCCCccCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCCC---CCCCCC
Q 016857            3 GGLYGDLPPPSDEDKPTNTTTTVWSSSAKMAPPTLRKPSSIFAPPQTILKPQSKPKTTQNSLPTRPHSSPA---IAPSPD   79 (381)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~   79 (381)
                      ++||+|||+++++.|+..  + +||+.+||+|+||+++-+ |++++.++|...+|.|....+.....++.+   +...+-
T Consensus         1 ~~lydDlp~~t~d~K~~g--~-~ws~~~k~~qsqL~~~kA-al~qq~~~r~l~kp~pvi~~~~k~~~~s~~~qs~~~pp~   76 (378)
T KOG1996|consen    1 NDLYDDLPQGTPDAKQAG--P-MWSIQMKFMQSQLAQRKA-ALQQQAARRKLVKPPPVIDLSTKNRTISTAVQSVSFPPI   76 (378)
T ss_pred             CCccccCCCCCccccccC--c-cchhhhhhcchhhccCcc-ccChHHHhccccCCCCceecccCCCCCCccccccccCcc
Confidence            689999999999988777  4 899999999999999999 999999999999998877666666665533   333344


Q ss_pred             CCcCCCCCceecccc-----ccccccCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHh------h
Q 016857           80 DAAALPQPALVGVTS-----TVIEEYDPARPNDYEDYRREKKKKAVDAEIRRELERRRQEGEERERREREERE------N  148 (381)
Q Consensus        80 ~~~~~~~p~~~~~~~-----~~~deYDP~rPn~ye~y~~~~~~~~~~~e~~~~l~r~r~~~~e~er~r~~~~~------r  148 (381)
                      .+.+.++|+++++..     +|.||||||+|||||++.+.   ++.+++.++++.|++++.+|||.++....+      .
T Consensus        77 ~aap~~dpi~~g~~a~~~~~~v~~EYdPm~PNdye~v~Kr---~~~er~~~re~~r~~~e~eeRekreke~~e~s~~~~~  153 (378)
T KOG1996|consen   77 RAAPVSDPISFGPKAATDEEHVKCEYDPMFPNDYEKVVKR---QRDERKQRRETAREVAEIEEREKREKERHEASKGAAI  153 (378)
T ss_pred             cccCccCcccccccccccccchhhhcCCCCcchHHHHHHH---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC
Confidence            555557999999999     99999999999999988764   456677888888888777666644321111      2


Q ss_pred             hccCCCCCChHHHHHHHHhhcCCCCCCCC-CCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCChhhHHHHHHHHcCCCCC
Q 016857          149 ASASRLNMSGEEAWKRRAAMSSGGVPPRS-PSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMAKMGWKEG  227 (381)
Q Consensus       149 ~~~~~~~~sgd~a~~RR~a~s~~~~~~~s-psppp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kmm~KmGwk~G  227 (381)
                      .+|..+.+++.|+|+|+.+|++.+...++ .++||.      ..++.+|+.|++.++|.+..++.+++++||+||||++|
T Consensus       154 sdP~~l~~~~~E~~kr~~~m~g~~~g~~~~~~spP~------~~~~~ai~rs~tn~fg~~~gg~ltvA~~im~k~G~keG  227 (378)
T KOG1996|consen  154 SDPTMLMEPEPEVIKRTNEMQGEKSGFHSSEMSPPS------FLPSAAIPRSPTNSFGANTGGGLTVAHKIMQKYGFKEG  227 (378)
T ss_pred             CCchhccccchHHHhhhhhccCCCCCCCcccCCCcc------cCcccccccCccchhhhhcccchhHHHHHHHHhCcccc
Confidence            23777899999999999999887653322 233332      22346899999999999999999999999999999999


Q ss_pred             CCCCCCCCCcccccccccccCcce-eeecCCccc---chh-cccc-ccCCCCCceEEEEecccCCCCChhhHHHHHHHHH
Q 016857          228 QGLGRQEQGITTPLMARKTDRRAG-VIVNASENK---SEK-KVKS-VNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSEC  301 (381)
Q Consensus       228 ~GLG~~~qGI~~Pi~~~~~~~~~G-lg~~~~~~~---~~~-~~~~-~~~~g~pSrVVvL~NMv~~~El~dELeeDI~EEC  301 (381)
                      +||||++|||..+|.++++..++| +++.+++.+   ..+ .+++ +.+.+.+++||+|+|||+++++++||++|+++||
T Consensus       228 qGLGKsEQGlsTalsveKT~~rgG~IIv~a~~~k~~~askk~v~n~t~Il~~ptkvlllrnmVg~gevd~elede~keEc  307 (378)
T KOG1996|consen  228 QGLGKSEQGLSTALSVEKTSKRGGKIIVGAATEKFADASKKSVSNLTEILKCPTKVLLLRNMVGAGEVDEELEDETKEEC  307 (378)
T ss_pred             cCcCccccccccceeeeeccccCceeEecCcccccchhhhHhhhhHHHHHhcchHHHHhhhhcCcccccHHHHHHHHHHH
Confidence            999999999999999999999999 666665544   112 2333 6788999999999999999999999999999999


Q ss_pred             hccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecccccccccccC
Q 016857          302 AKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA  371 (381)
Q Consensus       302 sKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~F~~~~l~  371 (381)
                      +|||+|.+|.|+.+  .+++.+..++|||+|+++++|.+|+..||||+|+||.|.|+||+.++|...+|+
T Consensus       308 eKyg~V~~viifei--p~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs~~ela  375 (378)
T KOG1996|consen  308 EKYGKVGNVIIFEI--PSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFSNLELA  375 (378)
T ss_pred             HhhcceeeEEEEec--CCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhhhhhhh
Confidence            99999999999987  457788999999999999999999999999999999999999999999999987

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

Probab=99.88  E-value=9.6e-23  Score=215.69  Aligned_cols=99  Identities=41%  Similarity=0.682  Sum_probs=91.2

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCC-CCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEP-NFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~-~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .+|+||||+|||+++|+++||++||++||+|||.|++|.|+..... +..++..|+|||+|.+.++|.+|++.||||||+
T Consensus       512 ~~S~vVvL~NMv~~~eldedl~eDV~eEC~K~G~V~~v~I~~~~~~~~~~~~~~g~VfV~F~~~~~A~~A~~~LnGR~F~  591 (612)
T TIGR01645       512 NRSNVIVLRNMVTPQDIDEFLEGEIREECGKFGVVDRVIINFEKQGEEEDAEIIVKIFVEFSDSMEVDRAKAALDGRFFG  591 (612)
T ss_pred             CCCCEEEEeCCCChHHhHHHHHHHHHHHhhcCceeEEEEEecCCCCccccccceEEEEEEECCHHHHHHHHHHhcCCeEC
Confidence            4799999999999999999999999999999999999999985442 333456899999999999999999999999999


Q ss_pred             CeEEEEEecccccccccccC
Q 016857          352 GRVVRATFYDEERFSKNELA  371 (381)
Q Consensus       352 GR~V~a~fy~ee~F~~~~l~  371 (381)
                      ||.|.|+||++++|++++|.
T Consensus       592 GR~V~a~~yd~~~f~~~~l~  611 (612)
T TIGR01645       592 GRTVVAEAYDQILFDHADLS  611 (612)
T ss_pred             CeEEEEEEcCHHHhhccccC
Confidence            99999999999999999985

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.

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

Probab=99.79  E-value=2.2e-19  Score=177.98  Aligned_cols=100  Identities=43%  Similarity=0.797  Sum_probs=89.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCC-CCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPN-FPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~-~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      ...|+||+|+|||++.|+|++|+.||+|||+|||.|.+|.|+...... ...+-.++|||+|....++.+|...||||||
T Consensus       443 ~~~S~VivLRNMV~P~DiDe~LegEi~EECgKfG~V~rViI~nekq~e~edaeiiVKIFVefS~~~e~~rak~ALdGRfF  522 (544)
T KOG0124|consen  443 KQESTVIVLRNMVDPKDIDEDLEGEITEECGKFGAVNRVIIYNEKQGEEEDAEIIVKIFVEFSIASETHRAKQALDGRFF  522 (544)
T ss_pred             cccCcEEEEeccCChhhhhhHHHHHHHHHHhcccceeEEEEEecccccccchhhhheeeeeechhhHHHHHHHhhcccee
Confidence            357999999999999999999999999999999999999999753322 1234578999999999999999999999999


Q ss_pred             CCeEEEEEecccccccccccC
Q 016857          351 GGRVVRATFYDEERFSKNELA  371 (381)
Q Consensus       351 ~GR~V~a~fy~ee~F~~~~l~  371 (381)
                      +||.|.|+.||.+.|+.++|.
T Consensus       523 gGr~VvAE~YDQ~~FD~~Dls  543 (544)
T KOG0124|consen  523 GGRKVVAEVYDQERFDNSDLS  543 (544)
T ss_pred             cCceeehhhhhhhcccccccC
Confidence            999999999999999999874

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

Probab=99.78  E-value=1.7e-19  Score=186.40  Aligned_cols=102  Identities=37%  Similarity=0.674  Sum_probs=93.8

Q ss_pred             cCCCCCceEEEEecccCCCCCh-----hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH
Q 016857          269 NFNGPPTRVLLLRNMVGPGEVD-----DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       269 ~~~g~pSrVVvL~NMv~~~El~-----dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      +..|.+++||||.|||+++||.     .||.|||+.||+|||.|.+|.|+++.....+..+.|+|||+|.+.+++++|..
T Consensus       393 q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~  472 (500)
T KOG0120|consen  393 QMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAME  472 (500)
T ss_pred             ccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHH
Confidence            4568899999999999999885     36889999999999999999999985455667899999999999999999999


Q ss_pred             hhCCCeeCCeEEEEEeccccccccccc
Q 016857          344 DLDGRFFGGRVVRATFYDEERFSKNEL  370 (381)
Q Consensus       344 ~LnGR~F~GR~V~a~fy~ee~F~~~~l  370 (381)
                      .|+||.|+||+|.+.||++++|+.++|
T Consensus       473 ~L~GrKF~nRtVvtsYydeDkY~~r~~  499 (500)
T KOG0120|consen  473 ELTGRKFANRTVVASYYDEDKYHAREF  499 (500)
T ss_pred             HccCceeCCcEEEEEecCHHHhhcccc
Confidence            999999999999999999999999886

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

Probab=99.73  E-value=1.3e-17  Score=171.17  Aligned_cols=101  Identities=27%  Similarity=0.519  Sum_probs=88.4

Q ss_pred             CCCCCceEEEEecccCCCCCh-----hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHh
Q 016857          270 FNGPPTRVLLLRNMVGPGEVD-----DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALID  344 (381)
Q Consensus       270 ~~g~pSrVVvL~NMv~~~El~-----dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~  344 (381)
                      +.+.+++||+|.||+..++|.     +++.+||+++|++||.|++|.|+++.....+..+.|+|||+|.+.++|.+|+..
T Consensus       404 ~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~  483 (509)
T TIGR01642       404 IGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEG  483 (509)
T ss_pred             ccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHH
Confidence            446799999999999987763     468899999999999999999997533322335679999999999999999999


Q ss_pred             hCCCeeCCeEEEEEeccccccccccc
Q 016857          345 LDGRFFGGRVVRATFYDEERFSKNEL  370 (381)
Q Consensus       345 LnGR~F~GR~V~a~fy~ee~F~~~~l  370 (381)
                      ||||+|+||.|.+.||+++.|.+++|
T Consensus       484 lnGr~~~gr~v~~~~~~~~~~~~~~~  509 (509)
T TIGR01642       484 MNGRKFNDRVVVAAFYGEDCYKAGDY  509 (509)
T ss_pred             cCCCEECCeEEEEEEeCHHHhhccCC
Confidence            99999999999999999999998875

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

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

Probab=99.68  E-value=3.2e-17  Score=168.94  Aligned_cols=88  Identities=33%  Similarity=0.590  Sum_probs=80.9

Q ss_pred             CCceEEEEecccCCCC-----ChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCC
Q 016857          273 PPTRVLLLRNMVGPGE-----VDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG  347 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~E-----l~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnG  347 (381)
                      .+|.|++|.|||++.+     ++.||+|||.|||+|||.|..|+|..+        +.|+|||+|.+.+.|..|+++|||
T Consensus       441 i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~n--------s~g~VYvrc~s~~~A~~a~~alhg  512 (549)
T KOG0147|consen  441 IPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKN--------SAGCVYVRCPSAEAAGTAVKALHG  512 (549)
T ss_pred             CccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccC--------CCceEEEecCcHHHHHHHHHHHhh
Confidence            6899999999999965     457999999999999999999999764        349999999999999999999999


Q ss_pred             CeeCCeEEEEEeccccccccc
Q 016857          348 RFFGGRVVRATFYDEERFSKN  368 (381)
Q Consensus       348 R~F~GR~V~a~fy~ee~F~~~  368 (381)
                      |||+||.|+|.|++.+.|...
T Consensus       513 rWF~gr~Ita~~~~~~~Y~~~  533 (549)
T KOG0147|consen  513 RWFAGRMITAKYLPLERYHSK  533 (549)
T ss_pred             hhhccceeEEEEeehhhhhhh
Confidence            999999999999999998754

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

Probab=99.66  E-value=3e-16  Score=159.32  Aligned_cols=90  Identities=31%  Similarity=0.631  Sum_probs=80.8

Q ss_pred             CCCceEEEEecccCCCCC-----hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          272 GPPTRVLLLRNMVGPGEV-----DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El-----~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      ..+++||+|.||+++.+.     +.||.+||++||+|||.|+.|.|+..       ...|+|||+|.+.++|.+|++.||
T Consensus       359 ~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~-------~~~G~~fV~F~~~e~A~~A~~~ln  431 (457)
T TIGR01622       359 NLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTK-------NSAGKIYLKFSSVDAALAAFQALN  431 (457)
T ss_pred             CCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCC-------CCceeEEEEECCHHHHHHHHHHhc
Confidence            468999999999998654     35789999999999999999999753       245999999999999999999999


Q ss_pred             CCeeCCeEEEEEeccccccccc
Q 016857          347 GRFFGGRVVRATFYDEERFSKN  368 (381)
Q Consensus       347 GR~F~GR~V~a~fy~ee~F~~~  368 (381)
                      ||+|+||.|.|.|++++.|...
T Consensus       432 Gr~f~gr~i~~~~~~~~~~~~~  453 (457)
T TIGR01622       432 GRYFGGKMITAAFVVNDVYDMS  453 (457)
T ss_pred             CcccCCeEEEEEEEcHHHHHhh
Confidence            9999999999999999999754

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.

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

Probab=99.55  E-value=7.7e-15  Score=144.92  Aligned_cols=89  Identities=27%  Similarity=0.678  Sum_probs=78.3

Q ss_pred             CCceEEEEecccCCCCCh------hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          273 PPTRVLLLRNMVGPGEVD------DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~------dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      ...++|+|+|||++.+++      .||++||++||.|||.|.+|.|+..++       .|.|-|.|.+.++|..||+.|+
T Consensus       263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hP-------dGvvtV~f~n~eeA~~ciq~m~  335 (382)
T KOG1548|consen  263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHP-------DGVVTVSFRNNEEADQCIQTMD  335 (382)
T ss_pred             cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCC-------CceeEEEeCChHHHHHHHHHhc
Confidence            457899999999998765      478999999999999999999996543       4889999999999999999999


Q ss_pred             CCeeCCeEEEEEeccc-cccccc
Q 016857          347 GRFFGGRVVRATFYDE-ERFSKN  368 (381)
Q Consensus       347 GR~F~GR~V~a~fy~e-e~F~~~  368 (381)
                      ||||+||+|.|+.|+. .+|...
T Consensus       336 GR~fdgRql~A~i~DG~t~~~~e  358 (382)
T KOG1548|consen  336 GRWFDGRQLTASIWDGKTKFQTE  358 (382)
T ss_pred             CeeecceEEEEEEeCCcceeeee
Confidence            9999999999999986 455543

>smart00361 RRM_1 RNA recognition motif

Probab=99.41  E-value=1.1e-12  Score=102.04  Aligned_cols=67  Identities=31%  Similarity=0.646  Sum_probs=56.6

Q ss_pred             hhHHHHHHHHHhccCCeeEEE-EeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEE
Q 016857          291 DELEDEVGSECAKYGTVTRVL-IFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       291 dELeeDI~EECsKYG~V~~V~-I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~  358 (381)
                      ++|.+.+.+||++||.|.+|. |..+... ......|++||+|.+.++|.+|++.|||++|+||.|.|+
T Consensus         3 ~~l~~~~~~~~~~fG~v~~v~~v~~~~~~-~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        3 EDFEREFSEEEEYFGEVGKINKIYIDNVG-YENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             hhHHHHHHHHHHhcCCeeEEEEEEeCCCC-CCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            678999999999999999996 5443322 113568999999999999999999999999999999873

>PF01585 G-patch: G-patch domain; InterPro: IPR000467 The D111/G-patch domain [] is a short conserved region of about 40 amino acids which occurs in a number of putative RNA-binding proteins, including tumor suppressor and DNA-damage-repair proteins, suggesting that this domain may have an RNA binding function

Probab=99.30  E-value=1.3e-12  Score=94.83  Aligned_cols=43  Identities=42%  Similarity=0.802  Sum_probs=41.2

Q ss_pred             hhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeee
Q 016857          212 MTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV  254 (381)
Q Consensus       212 ~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~  254 (381)
                      ++||.+||+||||++|+|||++++||++||.++.+.++.|||+
T Consensus         2 ~~~g~~lm~kmGw~~G~GLGk~~~G~~~pi~~~~~~~~~GlG~   44 (45)
T PF01585_consen    2 SSIGFKLMKKMGWKPGQGLGKNGQGIAEPIEVKKKKDRKGLGA   44 (45)
T ss_pred             CcHHHHHHHHCCCCCCcCCCcCCccCCcceEEeeEcCCccccC
Confidence            5899999999999999999999999999999999999999886

This domain has seven highly conserved glycines. A multiple alignment of a small subset of D111/G-patch domains is shown in Fig. 2b of [].; GO: 0003676 nucleic acid binding, 0005622 intracellular

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=99.20  E-value=2.7e-12  Score=122.86  Aligned_cols=93  Identities=26%  Similarity=0.425  Sum_probs=80.1

Q ss_pred             CCCceEEEEecccCCCCC--------------------hhhHHHHHHHHHh-ccCCeeEEEEeeeCCCCCCCCCceEEEE
Q 016857          272 GPPTRVLLLRNMVGPGEV--------------------DDELEDEVGSECA-KYGTVTRVLIFEITEPNFPVDEAVRIFV  330 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El--------------------~dELeeDI~EECs-KYG~V~~V~I~~~~~~~~~~~~~GrVFV  330 (381)
                      ...|.+|+|.||....+.                    .||+.|||..|++ |||.|+++.|..+..    ++..|.|||
T Consensus        40 pt~s~t~ll~nmyq~P~~~~~~~d~~~~~~~de~~q~~~defyEd~f~E~~~kygEiee~~Vc~Nl~----~hl~GNVYV  115 (260)
T KOG2202|consen   40 PTFSQTVLLKNMYQNPENSWERRDAQGQFLTDEELQRHEDEFYEDVFTELEDKYGEIEELNVCDNLG----DHLVGNVYV  115 (260)
T ss_pred             cccchHHHHHHHHhCCCCCchhhhhccccccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccc----hhhhhhhhh
Confidence            457899999999753211                    1467899999999 999999999886543    467899999


Q ss_pred             EeCCHHHHHHHHHhhCCCeeCCeEEEEEeccccccccc
Q 016857          331 QFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKN  368 (381)
Q Consensus       331 eF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~F~~~  368 (381)
                      +|...++|++|+..||||||+|+.|+|.|.++..|...
T Consensus       116 ~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea  153 (260)
T KOG2202|consen  116 KFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREA  153 (260)
T ss_pred             hcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhh
Confidence            99999999999999999999999999999999998765

>PF13893 RRM_5: RNA recognition motif

Probab=99.15  E-value=1.7e-10  Score=85.26  Aligned_cols=56  Identities=30%  Similarity=0.537  Sum_probs=49.8

Q ss_pred             HHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          297 VGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       297 I~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      |.+.|++||.|++|.+....        .+.+||+|.+.++|.+|+..|||+.|+|+.|++.|.
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            56889999999999997532        488999999999999999999999999999999873

(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 ....

>smart00443 G_patch glycine rich nucleic binding domain

Probab=99.10  E-value=5.8e-11  Score=86.41  Aligned_cols=44  Identities=43%  Similarity=0.795  Sum_probs=41.2

Q ss_pred             hhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeee
Q 016857          211 QMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIV  254 (381)
Q Consensus       211 ~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~  254 (381)
                      ..+||++||.+|||++|+|||+++|||++||++..+.++.|||.
T Consensus         3 ~~~~g~~~l~~mGw~~G~GLG~~~~g~~~pi~~~~~~~~~GlG~   46 (47)
T smart00443        3 TSNIGYKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGA   46 (47)
T ss_pred             cccHHHHHHHHcCCCCCCcCCCCCCcCccceeEeeccCCcCcCC
Confidence            35899999999999999999999999999999999999999875

A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.03  E-value=1.8e-09  Score=105.91  Aligned_cols=82  Identities=20%  Similarity=0.266  Sum_probs=69.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|++.||-..  +   -+++|++.|++||.|++|.|+.+...+   ..+|++||+|.+.++|.+|+..|||..|+|
T Consensus       267 ~~~~~lfV~NL~~~--~---~e~~L~~~F~~fG~v~~v~i~~d~~t~---~skG~aFV~F~~~~~A~~Ai~~lnG~~~~g  338 (352)
T TIGR01661       267 GAGYCIFVYNLSPD--T---DETVLWQLFGPFGAVQNVKIIRDLTTN---QCKGYGFVSMTNYDEAAMAILSLNGYTLGN  338 (352)
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHhCCCeEEEEEeEcCCCC---CccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35668999998532  2   256788999999999999999865433   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|++.|...
T Consensus       339 r~i~V~~~~~  348 (352)
T TIGR01661       339 RVLQVSFKTN  348 (352)
T ss_pred             eEEEEEEccC
Confidence            9999999864

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

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

Probab=98.93  E-value=1.1e-08  Score=90.81  Aligned_cols=82  Identities=18%  Similarity=0.255  Sum_probs=69.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|++.|+-..-     -++||++.|++||.|.+|.|+.+...+   ...|++||+|++.++|.+|++.|||..++|
T Consensus        32 ~~~~~lfVgnL~~~~-----te~~L~~~F~~~G~I~~v~i~~d~~tg---~~kGfaFV~F~~~e~A~~Al~~lng~~i~G  103 (144)
T PLN03134         32 LMSTKLFIGGLSWGT-----DDASLRDAFAHFGDVVDAKVIVDRETG---RSRGFGFVNFNDEGAATAAISEMDGKELNG  103 (144)
T ss_pred             CCCCEEEEeCCCCCC-----CHHHHHHHHhcCCCeEEEEEEecCCCC---CcceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            457789999976332     267889999999999999998765432   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.+...
T Consensus       104 r~l~V~~a~~  113 (144)
T PLN03134        104 RHIRVNPAND  113 (144)
T ss_pred             EEEEEEeCCc
Confidence            9999998754

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

Probab=98.81  E-value=1.1e-08  Score=93.95  Aligned_cols=73  Identities=22%  Similarity=0.317  Sum_probs=61.6

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      -|++-||-+..     -+.||..+|.+||.|.+|||..+..        |++||+|++..+|.+|+..|||+.|+|..|.
T Consensus        12 kVYVGnL~~~a-----~k~eLE~~F~~yG~lrsvWvArnPP--------GfAFVEFed~RDA~DAvr~LDG~~~cG~r~r   78 (195)
T KOG0107|consen   12 KVYVGNLGSRA-----TKRELERAFSKYGPLRSVWVARNPP--------GFAFVEFEDPRDAEDAVRYLDGKDICGSRIR   78 (195)
T ss_pred             eEEeccCCCCc-----chHHHHHHHHhcCcceeEEEeecCC--------CceEEeccCcccHHHHHhhcCCccccCceEE
Confidence            45666764332     2457778999999999999998543        8999999999999999999999999999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      |++...
T Consensus        79 VE~S~G   84 (195)
T KOG0107|consen   79 VELSTG   84 (195)
T ss_pred             EEeecC
Confidence            999865

>PF00076 RRM_1: RNA recognition motif

Probab=98.77  E-value=9.1e-08  Score=71.62  Aligned_cols=59  Identities=27%  Similarity=0.499  Sum_probs=52.6

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      ++||++.+++||.|..+.|..+..    ....+.+||+|.+.++|.+|+..|||..|+|+.|+
T Consensus        12 ~~~l~~~f~~~g~i~~~~~~~~~~----~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen   12 EEELRDFFSQFGKIESIKVMRNSS----GKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             HHHHHHHHHTTSTEEEEEEEEETT----SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             HHHHHHHHHHhhhccccccccccc----ccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            578889999999999999998621    25689999999999999999999999999999985

(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 ....

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=98.71  E-value=8.3e-08  Score=94.14  Aligned_cols=79  Identities=16%  Similarity=0.303  Sum_probs=66.6

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +..|++.||  +.++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..+.|+.
T Consensus         3 ~~~l~V~nL--p~~~~---e~~l~~~F~~~G~i~~v~i~~d~~~g---~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~   74 (352)
T TIGR01661         3 KTNLIVNYL--PQTMT---QEEIRSLFTSIGEIESCKLVRDKVTG---QSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKT   74 (352)
T ss_pred             CcEEEEeCC--CCCCC---HHHHHHHHHccCCEEEEEEEEcCCCC---ccceEEEEEECcHHHHHHHHhhcccEEECCee
Confidence            457888887  33333   46888999999999999999865432   46799999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |.+.|..
T Consensus        75 i~v~~a~   81 (352)
T TIGR01661        75 IKVSYAR   81 (352)
T ss_pred             EEEEeec
Confidence            9998874

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.67  E-value=1.7e-07  Score=71.29  Aligned_cols=70  Identities=23%  Similarity=0.429  Sum_probs=57.2

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      |+|.|+-..  +   -.+||++.|+.||.|.+|.+..... +   ...+.+||+|.+.++|.+|+..++|.+|+||.|.
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--T---TEEDLRNFFSRFGPVEKVRLIKNKD-G---QSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT-------HHHHHHHCTTSSBEEEEEEEESTT-S---SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCC--C---CHHHHHHHHHhcCCcceEEEEeeec-c---ccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            456665432  1   1368999999999999999998643 2   5689999999999999999999999999999984

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 ....

>KOG2809 consensus Telomerase elongation inhibitor/RNA maturation protein PINX1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]

Probab=98.65  E-value=1.4e-08  Score=100.88  Aligned_cols=51  Identities=31%  Similarity=0.644  Sum_probs=46.2

Q ss_pred             CCCChhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecCC
Q 016857          207 GAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAS  257 (381)
Q Consensus       207 ~~~~~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~~  257 (381)
                      |....+.||++||.||||++|.|||++.|||+.||.|....+..|||++..
T Consensus        21 w~nd~~~fg~KlLekmGW~eG~GLG~~~qG~~~~IKvs~K~d~~GLGa~~~   71 (326)
T KOG2809|consen   21 WSNDDSRFGKKLLEKMGWSEGDGLGKNEQGITDPIKVSLKNDTLGLGADKN   71 (326)
T ss_pred             hcccchHHHHHHHHHcCCccCCcccccccCCccceEEEeccCCcccCcccc
Confidence            334556999999999999999999999999999999999999999999654

>smart00360 RRM RNA recognition motif

Probab=98.64  E-value=1.8e-07  Score=68.07  Aligned_cols=61  Identities=28%  Similarity=0.447  Sum_probs=53.1

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      .+||++.|++||.|..|.|......   ....|.+||+|.+.++|.+|+..|+|..|+|+.|.+
T Consensus        10 ~~~l~~~f~~~g~v~~~~i~~~~~~---~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360       10 EEELRELFSKFGKIESVRLVRDKDT---GKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             HHHHHHHHHhhCCEeEEEEEeCCCC---CCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            4688899999999999999875431   245789999999999999999999999999999876

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

Probab=98.61  E-value=1.9e-07  Score=79.67  Aligned_cols=89  Identities=22%  Similarity=0.315  Sum_probs=72.1

Q ss_pred             CCCCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          270 FNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       270 ~~g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      +...-+++|.++|+--.  +   -.||+-+.|+|||.|.+|.|-..      ..-+|.+||.|++..+|.+|+..|+|-.
T Consensus        13 lppevnriLyirNLp~~--I---TseemydlFGkyg~IrQIRiG~~------k~TrGTAFVVYedi~dAk~A~dhlsg~n   81 (124)
T KOG0114|consen   13 LPPEVNRILYIRNLPFK--I---TSEEMYDLFGKYGTIRQIRIGNT------KETRGTAFVVYEDIFDAKKACDHLSGYN   81 (124)
T ss_pred             CChhhheeEEEecCCcc--c---cHHHHHHHhhcccceEEEEecCc------cCcCceEEEEehHhhhHHHHHHHhcccc
Confidence            33456899999997421  1   24678889999999999999643      2457999999999999999999999999


Q ss_pred             eCCeEEEEEeccc-ccccccc
Q 016857          350 FGGRVVRATFYDE-ERFSKNE  369 (381)
Q Consensus       350 F~GR~V~a~fy~e-e~F~~~~  369 (381)
                      +++|-+.+.||.. +.|...+
T Consensus        82 ~~~ryl~vlyyq~~~~~~~~~  102 (124)
T KOG0114|consen   82 VDNRYLVVLYYQPEDAFKLMD  102 (124)
T ss_pred             cCCceEEEEecCHHHHHHHHH
Confidence            9999999999986 4555443

>KOG2184 consensus Tuftelin-interacting protein TIP39, contains G-patch domain [RNA processing and modification]

Probab=98.59  E-value=2.2e-08  Score=108.31  Aligned_cols=53  Identities=32%  Similarity=0.548  Sum_probs=48.5

Q ss_pred             CCCChhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecCCcc
Q 016857          207 GAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNASEN  259 (381)
Q Consensus       207 ~~~~~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~~~~  259 (381)
                      +..++.++|++||.||||++|+||||+.|||++||+++.+..++|+|+.+.+.
T Consensus       111 ~e~~t~gig~Kll~kMGYkpG~GLGkn~qGIv~Pieaq~Rp~rgg~Gay~~e~  163 (767)
T KOG2184|consen  111 FEKGTKGIGAKLLEKMGYKPGKGLGKNAQGIVAPIEAQLRPGRGGLGAYGFET  163 (767)
T ss_pred             hhhcccchhHHHHHHcCCccccccCccccccccHHhcccCccCcccccccccc
Confidence            34677899999999999999999999999999999999999999999987653

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

Probab=98.55  E-value=7.2e-08  Score=90.72  Aligned_cols=63  Identities=27%  Similarity=0.362  Sum_probs=57.3

Q ss_pred             HHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          295 DEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       295 eDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      +|++..|+|||.|..|+|+.+...   .+..||+||.|.+..+|++|+..|+|++.+||.|.|.++
T Consensus        28 d~LrrvFekYG~vgDVyIPrdr~T---r~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a   90 (256)
T KOG4207|consen   28 DDLRRVFEKYGRVGDVYIPRDRYT---RQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA   90 (256)
T ss_pred             HHHHHHHHHhCcccceeccccccc---ccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence            577899999999999999987644   467999999999999999999999999999999988877

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.52  E-value=4.9e-07  Score=91.05  Aligned_cols=82  Identities=12%  Similarity=0.192  Sum_probs=67.4

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...+.|++.|+-..  +   -++||++.|++||.|++|.|+.+...+   ..+|++||+|.+.++|.+|+..|||..+.+
T Consensus       105 ~~~~~LfVgnLp~~--~---te~~L~~lF~~~G~V~~v~i~~d~~tg---~srGyaFVeF~~~e~A~~Ai~~LnG~~l~g  176 (346)
T TIGR01659       105 NSGTNLIVNYLPQD--M---TDRELYALFRTIGPINTCRIMRDYKTG---YSFGYAFVDFGSEADSQRAIKNLNGITVRN  176 (346)
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEecCCCC---ccCcEEEEEEccHHHHHHHHHHcCCCccCC
Confidence            35678888886422  2   256788999999999999998765432   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.|...
T Consensus       177 r~i~V~~a~p  186 (346)
T TIGR01659       177 KRLKVSYARP  186 (346)
T ss_pred             ceeeeecccc
Confidence            9999988643

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).

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

Probab=98.52  E-value=4.6e-07  Score=95.30  Aligned_cols=80  Identities=18%  Similarity=0.305  Sum_probs=67.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+..|++.|+-..  +.   +++|++.|++||.|.+|.|+.+..    ....|++||+|.+.++|.+|+..|||++|+|+
T Consensus       284 ~~~~l~V~nl~~~--~~---~~~L~~~F~~~G~i~~~~i~~d~~----g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk  354 (562)
T TIGR01628       284 QGVNLYVKNLDDT--VT---DEKLRELFSECGEITSAKVMLDEK----GVSRGFGFVCFSNPEEANRAVTEMHGRMLGGK  354 (562)
T ss_pred             CCCEEEEeCCCCc--cC---HHHHHHHHHhcCCeEEEEEEECCC----CCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCc
Confidence            4556888886432  22   468899999999999999998632    24679999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus       355 ~l~V~~a~~  363 (562)
T TIGR01628       355 PLYVALAQR  363 (562)
T ss_pred             eeEEEeccC
Confidence            999999875

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

>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]

Probab=98.49  E-value=3.9e-08  Score=99.61  Aligned_cols=51  Identities=31%  Similarity=0.521  Sum_probs=45.3

Q ss_pred             CCCCCCCCCCCChhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCc
Q 016857          199 SETSGLGLGAGGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRR  249 (381)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~  249 (381)
                      .....++.|..++.++|.|||+||||+.|+|||++++||++||.+++-..+
T Consensus       284 t~t~~fakWe~hTRGIgsKLM~kMGY~~G~GLG~~g~GiV~pI~a~vlp~g  334 (486)
T KOG2185|consen  284 TDTALFAKWENHTRGIGSKLMAKMGYREGMGLGVSGQGIVNPILAKVLPAG  334 (486)
T ss_pred             ccHHHHhhhccccchHHHHHHHHhchhhccccCcCCCccccchhhhhccCC
Confidence            345677889999999999999999999999999999999999999876544

>smart00362 RRM_2 RNA recognition motif

Probab=98.48  E-value=9.1e-07  Score=64.65  Aligned_cols=70  Identities=31%  Similarity=0.469  Sum_probs=56.7

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |+|.|+-  ..+   -.+||++.+.+||.|..+.+....     ....+.+||+|.+.++|.+|+..|+|..|+|+.|.+
T Consensus         2 v~i~~l~--~~~---~~~~l~~~~~~~g~v~~~~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        2 LFVGNLP--PDV---TEEDLKELFSKFGPIESVKIPKDT-----GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             EEEcCCC--CcC---CHHHHHHHHHhcCCEEEEEEecCC-----CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            5666762  222   246788889999999999988653     235689999999999999999999999999999876

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

Probab=98.45  E-value=1.6e-06  Score=90.21  Aligned_cols=79  Identities=23%  Similarity=0.312  Sum_probs=66.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++.+|++.|+-. ..+.   +++|++.|++||.|.+|.|+...        .|++||+|.+.++|.+|+..|||..|.
T Consensus       272 ~~~~~~l~v~nL~~-~~vt---~~~L~~lF~~yG~V~~vki~~~~--------~g~afV~f~~~~~A~~Ai~~lng~~l~  339 (481)
T TIGR01649       272 GGPGSVLMVSGLHQ-EKVN---CDRLFNLFCVYGNVERVKFMKNK--------KETALIEMADPYQAQLALTHLNGVKLF  339 (481)
T ss_pred             CCCCCEEEEeCCCC-CCCC---HHHHHHHHHhcCCeEEEEEEeCC--------CCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            45789999999742 1222   46888999999999999998642        489999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus       340 g~~l~v~~s~~  350 (481)
T TIGR01649       340 GKPLRVCPSKQ  350 (481)
T ss_pred             CceEEEEEccc
Confidence            99999998744

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).

>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=98.44  E-value=1.7e-06  Score=63.53  Aligned_cols=62  Identities=34%  Similarity=0.543  Sum_probs=54.0

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      .+||++.|+.||.|.++.+......    ...+.+||+|.+.++|..|++.++|..|+|+.|.+.+
T Consensus        13 ~~~i~~~~~~~g~i~~~~~~~~~~~----~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590          13 EEDLRELFSKFGKVESVRIVRDKDT----KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             HHHHHHHHHhcCCEEEEEEeeCCCC----CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            4688899999999999999864332    3468999999999999999999999999999998864

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).

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.44  E-value=1.3e-06  Score=84.87  Aligned_cols=76  Identities=18%  Similarity=0.216  Sum_probs=64.1

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+.|++.|+=..-     -++||++.|+.||.|++|.|..+..      ..|++||+|.+.++|..|+. |||..|+||.
T Consensus         4 ~rtVfVgNLs~~t-----TE~dLrefFS~~G~I~~V~I~~d~~------~~GfAFVtF~d~eaAe~All-LnG~~l~gr~   71 (260)
T PLN03120          4 VRTVKVSNVSLKA-----TERDIKEFFSFSGDIEYVEMQSENE------RSQIAYVTFKDPQGAETALL-LSGATIVDQS   71 (260)
T ss_pred             CCEEEEeCCCCCC-----CHHHHHHHHHhcCCeEEEEEeecCC------CCCEEEEEeCcHHHHHHHHH-hcCCeeCCce
Confidence            5788898965322     2578899999999999999987542      35899999999999999995 9999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.....
T Consensus        72 V~Vt~a~~   79 (260)
T PLN03120         72 VTITPAED   79 (260)
T ss_pred             EEEEeccC
Confidence            99999764

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

Probab=98.43  E-value=1.4e-06  Score=88.86  Aligned_cols=80  Identities=20%  Similarity=0.279  Sum_probs=67.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|+|.|+-..  +.   ++||++.|++||.|..|.|..+...+   ...|++||+|.+.++|.+|+..|||..++|+
T Consensus       185 ~~~~l~v~nl~~~--~t---e~~l~~~f~~~G~i~~v~~~~d~~~g---~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~  256 (457)
T TIGR01622       185 NFLKLYVGNLHFN--IT---EQELRQIFEPFGDIEDVQLHRDPETG---RSKGFGFIQFHDAEEAKEALEVMNGFELAGR  256 (457)
T ss_pred             CCCEEEEcCCCCC--CC---HHHHHHHHHhcCCeEEEEEEEcCCCC---ccceEEEEEECCHHHHHHHHHhcCCcEECCE
Confidence            4788999997532  22   46788999999999999998765432   4679999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.|..
T Consensus       257 ~i~v~~a~  264 (457)
T TIGR01622       257 PIKVGYAQ  264 (457)
T ss_pred             EEEEEEcc
Confidence            99999965

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=98.42  E-value=1.2e-06  Score=91.33  Aligned_cols=75  Identities=17%  Similarity=0.279  Sum_probs=64.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh--CCCeeC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL--DGRFFG  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L--nGR~F~  351 (381)
                      ||+||.|.|+-..-     -++||++.|++||.|.+|.|..         .++.+||+|.+.++|.+|++.|  |+..++
T Consensus         1 ps~vv~V~nLp~~~-----te~~L~~~f~~fG~V~~v~i~~---------~k~~afVef~~~e~A~~Ai~~~~~~~~~l~   66 (481)
T TIGR01649         1 PSPVVHVRNLPQDV-----VEADLVEALIPFGPVSYVMMLP---------GKRQALVEFEDEESAKACVNFATSVPIYIR   66 (481)
T ss_pred             CccEEEEcCCCCCC-----CHHHHHHHHHhcCCeeEEEEEC---------CCCEEEEEeCchHHHHHHHHHhhcCCceEc
Confidence            69999999975322     2567889999999999999974         2478999999999999999974  789999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        67 g~~l~v~~s~~   77 (481)
T TIGR01649        67 GQPAFFNYSTS   77 (481)
T ss_pred             CeEEEEEecCC
Confidence            99999999854

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).

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.40  E-value=1.7e-06  Score=87.10  Aligned_cols=81  Identities=19%  Similarity=0.322  Sum_probs=64.8

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC--
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG--  352 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G--  352 (381)
                      +..|+|.|+-  .++.   ++||++.|++||.|++|.|+.+...+   ..+|++||+|.+.++|.+|+..|||..|.|  
T Consensus       193 ~~~lfV~nLp--~~vt---ee~L~~~F~~fG~V~~v~i~~d~~tg---~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~  264 (346)
T TIGR01659       193 DTNLYVTNLP--RTIT---DDQLDTIFGKYGQIVQKNILRDKLTG---TPRGVAFVRFNKREEAQEAISALNNVIPEGGS  264 (346)
T ss_pred             cceeEEeCCC--Cccc---HHHHHHHHHhcCCEEEEEEeecCCCC---ccceEEEEEECCHHHHHHHHHHhCCCccCCCc
Confidence            3457777763  2222   46888999999999999998765433   457999999999999999999999999977  


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|++.+..+.
T Consensus       265 ~~l~V~~a~~~  275 (346)
T TIGR01659       265 QPLTVRLAEEH  275 (346)
T ss_pred             eeEEEEECCcc
Confidence            68999988763

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

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

Probab=98.39  E-value=1.3e-06  Score=93.28  Aligned_cols=73  Identities=26%  Similarity=0.469  Sum_probs=62.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhcc--CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKY--GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKY--G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .+++|+|.|+-.  ++.   +++|+++|++|  |.|++|.+.+           +++||+|++.++|.+|+..|||..|+
T Consensus       232 ~~k~LfVgNL~~--~~t---ee~L~~~F~~f~~G~I~rV~~~r-----------gfAFVeF~s~e~A~kAi~~lnG~~i~  295 (578)
T TIGR01648       232 KVKILYVRNLMT--TTT---EEIIEKSFSEFKPGKVERVKKIR-----------DYAFVHFEDREDAVKAMDELNGKELE  295 (578)
T ss_pred             cccEEEEeCCCC--CCC---HHHHHHHHHhcCCCceEEEEeec-----------CeEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            467899999743  222   56788999999  9999998763           58999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus       296 Gr~I~V~~Akp  306 (578)
T TIGR01648       296 GSEIEVTLAKP  306 (578)
T ss_pred             CEEEEEEEccC
Confidence            99999999854

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.

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

Probab=98.34  E-value=2e-06  Score=82.69  Aligned_cols=79  Identities=22%  Similarity=0.338  Sum_probs=66.4

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +..|.|.|+-...     -++|++|.+.+||.|.+|+|.++...+   ..+|++||.|.+.++|.+|+..|||.-|+.-+
T Consensus       189 ~~tvRvtNLsed~-----~E~dL~eLf~~fg~i~rvylardK~TG---~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LI  260 (270)
T KOG0122|consen  189 EATVRVTNLSEDM-----REDDLEELFRPFGPITRVYLARDKETG---LSKGFAFVTFESRDDAARAIADLNGYGYDNLI  260 (270)
T ss_pred             cceeEEecCcccc-----ChhHHHHHhhccCccceeEEEEccccC---cccceEEEEEecHHHHHHHHHHccCcccceEE
Confidence            4568888864221     245667888999999999999987665   57899999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      +.|++..
T Consensus       261 LrvEwsk  267 (270)
T KOG0122|consen  261 LRVEWSK  267 (270)
T ss_pred             EEEEecC
Confidence            9999864

>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]

Probab=98.31  E-value=6.3e-07  Score=94.00  Aligned_cols=47  Identities=43%  Similarity=0.700  Sum_probs=44.0

Q ss_pred             hhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecCC
Q 016857          211 QMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAS  257 (381)
Q Consensus       211 ~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~~  257 (381)
                      ..+++++||+||||+.|+||||++||+.+||.+..+.++.|+|.+..
T Consensus        82 y~~va~~lMakMG~~~geGLGK~~QGr~epi~as~Q~GRrGlGl~l~  128 (845)
T KOG3673|consen   82 YLTVAERLMAKMGHKAGEGLGKHGQGRSEPIAASTQRGRRGLGLNLK  128 (845)
T ss_pred             cchHHHHHHHHhCccccccccccCCCccchhhhhhhccccccCccch
Confidence            56899999999999999999999999999999999999999999763

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

Probab=98.30  E-value=4.8e-06  Score=86.00  Aligned_cols=80  Identities=13%  Similarity=0.161  Sum_probs=66.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..+.|+|.|+-.  .+.   +++|++.|++||.|..|.|......+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus       294 ~~~~l~v~nlp~--~~~---~~~l~~~f~~~G~i~~~~~~~~~~~g---~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~  365 (509)
T TIGR01642       294 SKDRIYIGNLPL--YLG---EDQIKELLESFGDLKAFNLIKDIATG---LSKGYAFCEYKDPSVTDVAIAALNGKDTGDN  365 (509)
T ss_pred             CCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeeEEEEEecCCCC---CcCeEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            356788888742  232   46788999999999999998754332   4679999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.+..
T Consensus       366 ~l~v~~a~  373 (509)
T TIGR01642       366 KLHVQRAC  373 (509)
T ss_pred             EEEEEECc
Confidence            99999874

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

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

Probab=98.26  E-value=1.3e-06  Score=84.94  Aligned_cols=74  Identities=19%  Similarity=0.441  Sum_probs=64.2

Q ss_pred             CCCChhhHH-HHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc
Q 016857          286 PGEVDDELE-DEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       286 ~~El~dELe-eDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e  362 (381)
                      .+||.-||. |+|++.|.+||.|-...|.++...+   .++|..||-|-+.++|++||..|||.|+++|.|+..+...
T Consensus        67 vgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~---KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR  141 (321)
T KOG0148|consen   67 VGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTG---KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR  141 (321)
T ss_pred             ehhcchhcchHHHHHHhccccccccceEeecccCC---cccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence            355555554 7899999999999999999876543   6899999999999999999999999999999999888754

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

Probab=98.23  E-value=6.7e-06  Score=88.42  Aligned_cols=80  Identities=10%  Similarity=0.205  Sum_probs=65.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..+.|++.|+-  .++.   ++||++.|++||.|++|.|.++...+   ..+|+.||+|.+.++|.+|+..|||..++|+
T Consensus       203 ~~~rLfVgnLp--~~vt---eedLk~lFs~FG~I~svrl~~D~~tg---ksKGfGFVeFe~~e~A~kAI~amNg~elgGr  274 (612)
T TIGR01645       203 KFNRIYVASVH--PDLS---ETDIKSVFEAFGEIVKCQLARAPTGR---GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQ  274 (612)
T ss_pred             ccceEEeecCC--CCCC---HHHHHHHHhhcCCeeEEEEEecCCCC---CcCCeEEEEECCHHHHHHHHHHhCCCeeCCe
Confidence            34578888863  2222   35788999999999999999764432   4689999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|++.+.-
T Consensus       275 ~LrV~kAi  282 (612)
T TIGR01645       275 YLRVGKCV  282 (612)
T ss_pred             EEEEEecC
Confidence            99998764

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=98.23  E-value=7e-06  Score=86.44  Aligned_cols=78  Identities=17%  Similarity=0.240  Sum_probs=63.7

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+=..  +   -+++|++.|++||.|.+|.|+++...   ....|++||+|.+.++|.+|+..||+..|+|+.|+
T Consensus         2 sl~VgnLp~~--v---te~~L~~~F~~~G~v~~v~v~~d~~t---~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~   73 (562)
T TIGR01628         2 SLYVGDLDPD--V---TEAKLYDLFKPFGPVLSVRVCRDSVT---RRSLGYGYVNFQNPADAERALETMNFKRLGGKPIR   73 (562)
T ss_pred             eEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEE
Confidence            3566664322  1   26788899999999999999986543   25679999999999999999999999999999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      +.|...
T Consensus        74 i~~s~~   79 (562)
T TIGR01628        74 IMWSQR   79 (562)
T ss_pred             eecccc
Confidence            988753

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

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

Probab=98.20  E-value=6.9e-06  Score=80.90  Aligned_cols=82  Identities=22%  Similarity=0.355  Sum_probs=67.6

Q ss_pred             CCCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          271 NGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       271 ~g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      .+-|=++|+|.-+-     ++--+.+|++||++||.|++|.|..+...+   ...|.+||+|++..+...|.+..+|..+
T Consensus        97 ~gDPy~TLFv~RLn-----ydT~EskLrreF~~YG~IkrirlV~d~vTg---kskGYAFIeye~erdm~~AYK~adG~~I  168 (335)
T KOG0113|consen   97 IGDPYKTLFVARLN-----YDTSESKLRREFEKYGPIKRIRLVRDKVTG---KSKGYAFIEYEHERDMKAAYKDADGIKI  168 (335)
T ss_pred             cCCccceeeeeecc-----ccccHHHHHHHHHhcCcceeEEEeeecccC---CccceEEEEeccHHHHHHHHHhccCcee
Confidence            35577777775532     233466899999999999999999875544   5789999999999999999999999999


Q ss_pred             CCeEEEEEec
Q 016857          351 GGRVVRATFY  360 (381)
Q Consensus       351 ~GR~V~a~fy  360 (381)
                      +||.|.|.+=
T Consensus       169 dgrri~VDvE  178 (335)
T KOG0113|consen  169 DGRRILVDVE  178 (335)
T ss_pred             cCcEEEEEec
Confidence            9999988764

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

Probab=98.19  E-value=3.1e-06  Score=84.23  Aligned_cols=78  Identities=19%  Similarity=0.204  Sum_probs=64.9

Q ss_pred             eEEEEecccC-CCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          276 RVLLLRNMVG-PGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       276 rVVvL~NMv~-~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +=|.+.|+-- --      +.|++..|+|||+|.+|.|+-+..     -++|+.||.|++.++|.+|...|||....||+
T Consensus        97 kRLhVSNIPFrFR------dpDL~aMF~kfG~VldVEIIfNER-----GSKGFGFVTmen~~dadRARa~LHgt~VEGRk  165 (376)
T KOG0125|consen   97 KRLHVSNIPFRFR------DPDLRAMFEKFGKVLDVEIIFNER-----GSKGFGFVTMENPADADRARAELHGTVVEGRK  165 (376)
T ss_pred             ceeEeecCCcccc------CccHHHHHHhhCceeeEEEEeccC-----CCCccceEEecChhhHHHHHHHhhcceeeceE
Confidence            4567778631 11      247789999999999999998754     36899999999999999999999999999999


Q ss_pred             EEEEeccccc
Q 016857          355 VRATFYDEER  364 (381)
Q Consensus       355 V~a~fy~ee~  364 (381)
                      |.|.......
T Consensus       166 IEVn~ATarV  175 (376)
T KOG0125|consen  166 IEVNNATARV  175 (376)
T ss_pred             EEEeccchhh
Confidence            9999887643

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

Probab=98.17  E-value=9.4e-06  Score=72.76  Aligned_cols=79  Identities=28%  Similarity=0.392  Sum_probs=67.0

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ..+|++.|+=  .   +--++||.+.|.+||.|.+|.|..+...   ....|++||+|.+.++|..|+..|+|..|.|+.
T Consensus       115 ~~~l~v~nL~--~---~~~~~~l~~~F~~~g~~~~~~~~~d~~~---~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~  186 (306)
T COG0724         115 NNTLFVGNLP--Y---DVTEEDLRELFKKFGPVKRVRLVRDRET---GKSRGFAFVEFESEESAEKAIEELNGKELEGRP  186 (306)
T ss_pred             CceEEEeCCC--C---CCCHHHHHHHHHhcCceeEEEeeecccc---CccCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence            5788888975  1   2236788899999999999999876522   357899999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |.+.+..
T Consensus       187 ~~v~~~~  193 (306)
T COG0724         187 LRVQKAQ  193 (306)
T ss_pred             eEeeccc
Confidence            9999964

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

Probab=98.15  E-value=6.1e-06  Score=86.59  Aligned_cols=84  Identities=20%  Similarity=0.317  Sum_probs=68.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ---|+|+||--.-  .   ..||+-.|++||.|..|+|++..+.    ..+|++||+|....+|.+|++.|||..|+||.
T Consensus       117 k~rLIIRNLPf~~--k---~~dLk~vFs~~G~V~Ei~IP~k~dg----klcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~  187 (678)
T KOG0127|consen  117 KWRLIIRNLPFKC--K---KPDLKNVFSNFGKVVEIVIPRKKDG----KLCGFAFVQFKEKKDAEKALEFFNGNKIDGRP  187 (678)
T ss_pred             cceEEeecCCccc--C---cHHHHHHHhhcceEEEEEcccCCCC----CccceEEEEEeeHHHHHHHHHhccCceecCce
Confidence            3458899985221  1   1378899999999999999976554    35799999999999999999999999999999


Q ss_pred             EEEEecc-cccccc
Q 016857          355 VRATFYD-EERFSK  367 (381)
Q Consensus       355 V~a~fy~-ee~F~~  367 (381)
                      |-|.|.= -+.|+.
T Consensus       188 VAVDWAV~Kd~ye~  201 (678)
T KOG0127|consen  188 VAVDWAVDKDTYED  201 (678)
T ss_pred             eEEeeecccccccc
Confidence            9999973 466765

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.10  E-value=2.2e-05  Score=75.61  Aligned_cols=76  Identities=20%  Similarity=0.184  Sum_probs=63.3

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ..+|.+.|+-..-     -++||++.|+.||.|.+|.|.++.+      ..+++||+|.+.++|..|+ .|||..+.++.
T Consensus         5 g~TV~V~NLS~~t-----TE~dLrefFS~~G~I~~V~I~~D~e------t~gfAfVtF~d~~aaetAl-lLnGa~l~d~~   72 (243)
T PLN03121          5 GYTAEVTNLSPKA-----TEKDVYDFFSHCGAIEHVEIIRSGE------YACTAYVTFKDAYALETAV-LLSGATIVDQR   72 (243)
T ss_pred             ceEEEEecCCCCC-----CHHHHHHHHHhcCCeEEEEEecCCC------cceEEEEEECCHHHHHHHH-hcCCCeeCCce
Confidence            3578888865322     3578999999999999999997632      3489999999999998888 79999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.-+..
T Consensus        73 I~It~~~~   80 (243)
T PLN03121         73 VCITRWGQ   80 (243)
T ss_pred             EEEEeCcc
Confidence            99998763

>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]

Probab=98.09  E-value=2.2e-06  Score=90.25  Aligned_cols=34  Identities=44%  Similarity=0.903  Sum_probs=30.8

Q ss_pred             CChhhHHHHHHHHcCCCCCCCCCCCCCCccccccc
Q 016857          209 GGQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMA  243 (381)
Q Consensus       209 ~~~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~  243 (381)
                      ....++|++||.||||. |.|||..+|||.+||..
T Consensus       684 lse~NKGhQml~KMGWs-G~GLGak~qGI~DPiSG  717 (757)
T KOG4368|consen  684 LGEENKGHQMLVKMGWS-GSGLGAKEQGIQDPISG  717 (757)
T ss_pred             cccccchhhhHhhcCcc-cCCcccccccccCcccC
Confidence            44679999999999998 88999999999999984

>KOG0965 consensus Predicted RNA-binding protein, contains SWAP and G-patch domains [General function prediction only]

Probab=98.08  E-value=1.9e-06  Score=92.80  Aligned_cols=44  Identities=34%  Similarity=0.526  Sum_probs=36.4

Q ss_pred             hhHHHHHHHHcCCCCCCCCCCCCCCccccccccccc-Ccceeeec
Q 016857          212 MTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTD-RRAGVIVN  255 (381)
Q Consensus       212 ~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~-~~~Glg~~  255 (381)
                      .++|++||.|||||+|+|||..++||.+||.+-... .+.|+|..
T Consensus       906 dNiGfQMLqKMGWKEGeGLGS~gkGI~dPVnkg~~~~~g~G~G~s  950 (988)
T KOG0965|consen  906 DNIGFQMLQKMGWKEGEGLGSLGKGIRDPVNKGAAGSLGWGWGGS  950 (988)
T ss_pred             cchHHHHHHHhCccccccccccCcccccchhhcccccCCcccccC
Confidence            589999999999999999999999999999874433 34455553

>PF12656 G-patch_2: DExH-box splicing factor binding site

Probab=98.00  E-value=5.7e-06  Score=66.79  Aligned_cols=45  Identities=20%  Similarity=0.537  Sum_probs=42.0

Q ss_pred             hhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecC
Q 016857          212 MTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNA  256 (381)
Q Consensus       212 ~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~  256 (381)
                      ..||+.||.-|||++|+|+|++.++.+.|+..+.+..+.|||+..
T Consensus        30 e~FG~AlLRGMGW~~~~~~g~~~~~~~~~~~~~~Rp~~lGLGA~~   74 (77)
T PF12656_consen   30 EEFGAALLRGMGWKPGEGIGKNKKKSVKPVEPKRRPKGLGLGAKP   74 (77)
T ss_pred             HHHHHHHHHHcCCCCCCCCCCCcccccCcccccccccCcCCCcCC
Confidence            389999999999999999999999999999999999999998854

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

Probab=97.99  E-value=1.5e-05  Score=77.89  Aligned_cols=74  Identities=23%  Similarity=0.464  Sum_probs=61.8

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+.|..-|+-.  -|.   +++|+..|+.||.|..|.|+.+         +|+.||+|++-|+|.+||..+||...+|..
T Consensus       164 NtsVY~G~I~~--~lt---e~~mr~~Fs~fG~I~EVRvFk~---------qGYaFVrF~tkEaAahAIv~mNntei~G~~  229 (321)
T KOG0148|consen  164 NTSVYVGNIAS--GLT---EDLMRQTFSPFGPIQEVRVFKD---------QGYAFVRFETKEAAAHAIVQMNNTEIGGQL  229 (321)
T ss_pred             CceEEeCCcCc--ccc---HHHHHHhcccCCcceEEEEecc---------cceEEEEecchhhHHHHHHHhcCceeCceE
Confidence            34566667654  222   4568899999999999999963         599999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |+|.+=-+
T Consensus       230 VkCsWGKe  237 (321)
T KOG0148|consen  230 VRCSWGKE  237 (321)
T ss_pred             EEEecccc
Confidence            99987654

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

Probab=97.92  E-value=3.2e-05  Score=68.39  Aligned_cols=87  Identities=14%  Similarity=0.212  Sum_probs=68.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .|++|.+-|+-.-     --+|.|.|.|+|+|.|.+|.+-.+.-   ....+|++||+|...++|..|++.+||...+.|
T Consensus        35 ~S~tvyVgNlSfy-----ttEEqiyELFs~cG~irriiMGLdr~---kktpCGFCFVeyy~~~dA~~AlryisgtrLddr  106 (153)
T KOG0121|consen   35 KSCTVYVGNLSFY-----TTEEQIYELFSKCGDIRRIIMGLDRF---KKTPCGFCFVEYYSRDDAEDALRYISGTRLDDR  106 (153)
T ss_pred             hcceEEEeeeeee-----ecHHHHHHHHHhccchheeEeccccC---CcCccceEEEEEecchhHHHHHHHhccCccccc
Confidence            5889999996421     23567889999999999998765432   235689999999999999999999999999999


Q ss_pred             EEEEEe----ccccccccc
Q 016857          354 VVRATF----YDEERFSKN  368 (381)
Q Consensus       354 ~V~a~f----y~ee~F~~~  368 (381)
                      .|.+.+    .+...|-+|
T Consensus       107 ~ir~D~D~GF~eGRQyGRG  125 (153)
T KOG0121|consen  107 PIRIDWDAGFVEGRQYGRG  125 (153)
T ss_pred             ceeeeccccchhhhhhcCC
Confidence            998864    333445444

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

Probab=97.92  E-value=2e-05  Score=81.83  Aligned_cols=81  Identities=20%  Similarity=0.291  Sum_probs=69.4

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      ++|++.|+-     .+--+++|.+.|++.|.|.++.+..+.+.+   ..+|+.||+|.+.++|.+|+..|||+.|+||.+
T Consensus        19 ~~v~vgnip-----~~~se~~l~~~~~~~g~v~s~~~v~D~~tG---~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l   90 (435)
T KOG0108|consen   19 SSVFVGNIP-----YEGSEEQLLSIFSGVGPVLSFRLVYDRETG---KPKGFGFCEFTDEETAERAIRNLNGAEFNGRKL   90 (435)
T ss_pred             cceEecCCC-----CcccHHHHHHHHhccCccceeeecccccCC---CcCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence            788888853     123467889999999999999998876654   578999999999999999999999999999999


Q ss_pred             EEEeccccc
Q 016857          356 RATFYDEER  364 (381)
Q Consensus       356 ~a~fy~ee~  364 (381)
                      ++.|-..++
T Consensus        91 ~v~~~~~~~   99 (435)
T KOG0108|consen   91 RVNYASNRK   99 (435)
T ss_pred             Eeecccccc
Confidence            999987643

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

Probab=97.91  E-value=3.4e-05  Score=79.48  Aligned_cols=71  Identities=25%  Similarity=0.420  Sum_probs=60.0

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      +||.++|+..     +--+|-|+++|++||.|++|+.++           -++||.|.+.++|.+|++.|||.-++|..|
T Consensus       260 KvLYVRNL~~-----~tTeE~lk~~F~~~G~veRVkk~r-----------DYaFVHf~eR~davkAm~~~ngkeldG~~i  323 (506)
T KOG0117|consen  260 KVLYVRNLME-----STTEETLKKLFNEFGKVERVKKPR-----------DYAFVHFAEREDAVKAMKETNGKELDGSPI  323 (506)
T ss_pred             eeeeeeccch-----hhhHHHHHHHHHhccceEEeeccc-----------ceeEEeecchHHHHHHHHHhcCceecCceE
Confidence            5678888651     223566788999999999999985           269999999999999999999999999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      .|.+.-.
T Consensus       324 EvtLAKP  330 (506)
T KOG0117|consen  324 EVTLAKP  330 (506)
T ss_pred             EEEecCC
Confidence            9999854

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

Probab=97.91  E-value=1.6e-05  Score=81.63  Aligned_cols=69  Identities=20%  Similarity=0.279  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee-C--CeEEEEEecccccc
Q 016857          293 LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF-G--GRVVRATFYDEERF  365 (381)
Q Consensus       293 LeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F-~--GR~V~a~fy~ee~F  365 (381)
                      -+.||++.|++||.|++|.|.++..    ..++|++||+|++.+.|..|++.|||.+= .  ...+.|.|.|..+=
T Consensus       137 te~evr~iFs~fG~Ied~~ilrd~~----~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkd  208 (510)
T KOG0144|consen  137 TENEVREIFSRFGHIEDCYILRDPD----GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKD  208 (510)
T ss_pred             cHHHHHHHHHhhCccchhhheeccc----ccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCC
Confidence            3679999999999999999998654    35789999999999999999999999843 3  36899999997543

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

Probab=97.82  E-value=4.4e-05  Score=71.26  Aligned_cols=80  Identities=24%  Similarity=0.404  Sum_probs=64.2

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +..++.|.+-|+-  .|+.   +.||.+.|.|||.|..|.+-...      -...++||+|++..+|..||..-||--|+
T Consensus         3 gr~~~~iyvGNLP--~diR---ekeieDlFyKyg~i~~ieLK~r~------g~ppfafVeFEd~RDAeDAiygRdGYdyd   71 (241)
T KOG0105|consen    3 GRNSRRIYVGNLP--GDIR---EKEIEDLFYKYGRIREIELKNRP------GPPPFAFVEFEDPRDAEDAIYGRDGYDYD   71 (241)
T ss_pred             CcccceEEecCCC--cchh---hccHHHHHhhhcceEEEEeccCC------CCCCeeEEEecCccchhhhhhcccccccC
Confidence            4457788888864  2332   34677888999999999875432      23579999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |..+.++|-..
T Consensus        72 g~rLRVEfprg   82 (241)
T KOG0105|consen   72 GCRLRVEFPRG   82 (241)
T ss_pred             cceEEEEeccC
Confidence            99999999754

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

Probab=97.81  E-value=6.5e-05  Score=71.43  Aligned_cols=83  Identities=23%  Similarity=0.355  Sum_probs=70.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+..+|+|+|+-+.-. .+||..-+...++.||+|..|.....      ....|-+||.|.+.+.|-.|+..|+|..|-|
T Consensus         7 ~pn~TlYInnLnekI~-~~elkrsL~~LFsqfG~ildI~a~kt------~KmRGQA~VvFk~~~~As~A~r~l~gfpFyg   79 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIK-KDELKRSLYLLFSQFGKILDISAFKT------PKMRGQAFVVFKETEAASAALRALQGFPFYG   79 (221)
T ss_pred             CCCceEeehhcccccc-HHHHHHHHHHHHHhhCCeEEEEecCC------CCccCceEEEecChhHHHHHHHHhcCCcccC
Confidence            3556999999875533 36777788889999999999999853      2467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      ..+++.|...
T Consensus        80 K~mriqyA~s   89 (221)
T KOG4206|consen   80 KPMRIQYAKS   89 (221)
T ss_pred             chhheecccC
Confidence            9999999865

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

Probab=97.79  E-value=7.8e-05  Score=79.97  Aligned_cols=75  Identities=17%  Similarity=0.178  Sum_probs=59.7

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC-CeE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG-GRV  354 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~-GR~  354 (381)
                      +.|.|.|+-..  +   -++||++.|++||.|.+|.|+++ ..   ....|++||+|.+.++|.+|+..|||..+. |+.
T Consensus        59 ~~lFVgnLp~~--~---tEd~L~~~F~~~G~I~~vrl~~D-~s---G~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~  129 (578)
T TIGR01648        59 CEVFVGKIPRD--L---YEDELVPLFEKAGPIYELRLMMD-FS---GQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRL  129 (578)
T ss_pred             CEEEeCCCCCC--C---CHHHHHHHHHhhCCEEEEEEEEC-CC---CCccceEEEEeCCHHHHHHHHHHcCCCeecCCcc
Confidence            46777776422  2   35688899999999999999886 32   257899999999999999999999999884 777


Q ss_pred             EEEEe
Q 016857          355 VRATF  359 (381)
Q Consensus       355 V~a~f  359 (381)
                      |.+..
T Consensus       130 l~V~~  134 (578)
T TIGR01648       130 LGVCI  134 (578)
T ss_pred             ccccc
Confidence            65543

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.

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

Probab=97.76  E-value=6e-05  Score=67.32  Aligned_cols=78  Identities=14%  Similarity=0.290  Sum_probs=65.8

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      --||++.++-.     +--++||.+.|.-||.|.+|.+--+...++   .+|.+.|+|++.++|+.|+..|||--+-|..
T Consensus        72 GwIi~VtgvHe-----EatEedi~d~F~dyGeiKNihLNLDRRtGy---~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~  143 (170)
T KOG0130|consen   72 GWIIFVTGVHE-----EATEEDIHDKFADYGEIKNIHLNLDRRTGY---VKGYALVEYETLKEAQAAIDALNGAELLGQN  143 (170)
T ss_pred             eEEEEEeccCc-----chhHHHHHHHHhhcccccceeecccccccc---ccceeeeehHhHHHHHHHHHhccchhhhCCc
Confidence            44777777542     234689999999999999999987766653   5799999999999999999999999999999


Q ss_pred             EEEEec
Q 016857          355 VRATFY  360 (381)
Q Consensus       355 V~a~fy  360 (381)
                      |.+.|+
T Consensus       144 v~VDw~  149 (170)
T KOG0130|consen  144 VSVDWC  149 (170)
T ss_pred             eeEEEE
Confidence            999886

>PLN03213 repressor of silencing 3; Provisional

Probab=97.75  E-value=7.4e-05  Score=77.99  Aligned_cols=76  Identities=18%  Similarity=0.170  Sum_probs=61.2

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCH--HHHHHHHHhhCCCeeCC
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERS--EQTTKALIDLDGRFFGG  352 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~--esA~kAv~~LnGR~F~G  352 (381)
                      +--|++-||--     +--++||+.-|+.||.|.+|.|++.  .     ++||+||+|...  .++.+|+..|||..+.|
T Consensus        10 gMRIYVGNLSy-----dVTEDDLravFSeFGsVkdVEIpRE--T-----GRGFAFVEMssdddaEeeKAISaLNGAEWKG   77 (759)
T PLN03213         10 GVRLHVGGLGE-----SVGRDDLLKIFSPMGTVDAVEFVRT--K-----GRSFAYIDFSPSSTNSLTKLFSTYNGCVWKG   77 (759)
T ss_pred             ceEEEEeCCCC-----CCCHHHHHHHHHhcCCeeEEEEecc--c-----CCceEEEEecCCcHHHHHHHHHHhcCCeecC
Confidence            34566767531     1125688899999999999999842  2     379999999987  78999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|++.-.-+
T Consensus        78 R~LKVNKAKP   87 (759)
T PLN03213         78 GRLRLEKAKE   87 (759)
T ss_pred             ceeEEeeccH
Confidence            9999987754

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

Probab=97.69  E-value=7.7e-05  Score=76.68  Aligned_cols=70  Identities=20%  Similarity=0.321  Sum_probs=59.7

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC-eeCC--eEEEEEeccccccc
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR-FFGG--RVVRATFYDEERFS  366 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR-~F~G--R~V~a~fy~ee~F~  366 (381)
                      |.||++.|+|||.|..|.|.++...+   ..+|++||+|.+.++|.+|+++||.. .|-|  ..|++.|.|.|+-+
T Consensus        48 E~dlr~lFe~yg~V~einl~kDk~t~---~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er  120 (510)
T KOG0144|consen   48 EKDLRELFEKYGNVYEINLIKDKSTG---QSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER  120 (510)
T ss_pred             HHHHHHHHHHhCceeEEEeecccccC---cccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc
Confidence            67999999999999999999876554   68999999999999999999999765 4544  68999999876543

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

Probab=97.63  E-value=0.00013  Score=71.25  Aligned_cols=81  Identities=16%  Similarity=0.247  Sum_probs=66.4

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      |++=++-|-+....    -+||++..|+..|.|++|++.++.-.+   .+.|..||-|.+.++|++|++.|||-....++
T Consensus        40 skTNLIvNYLPQ~M----TqdE~rSLF~SiGeiEScKLvRDKitG---qSLGYGFVNYv~p~DAe~AintlNGLrLQ~KT  112 (360)
T KOG0145|consen   40 SKTNLIVNYLPQNM----TQDELRSLFGSIGEIESCKLVRDKITG---QSLGYGFVNYVRPKDAEKAINTLNGLRLQNKT  112 (360)
T ss_pred             ccceeeeeeccccc----CHHHHHHHhhcccceeeeeeeeccccc---cccccceeeecChHHHHHHHhhhcceeeccce
Confidence            44444555443322    367889999999999999999875443   67899999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |+++|.-.
T Consensus       113 IKVSyARP  120 (360)
T KOG0145|consen  113 IKVSYARP  120 (360)
T ss_pred             EEEEeccC
Confidence            99999854

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

Probab=97.61  E-value=0.0002  Score=75.59  Aligned_cols=79  Identities=22%  Similarity=0.388  Sum_probs=65.6

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh-----CC-C
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL-----DG-R  348 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-----nG-R  348 (381)
                      -++|+|+|+.     .|--+++|.++|++||.|.-+.|......   ..+.|.+||.|.+...|.+|+.+-     .| -
T Consensus       292 ~~tVFvRNL~-----fD~tEEel~~~fskFG~v~ya~iV~~k~T---~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~  363 (678)
T KOG0127|consen  292 GKTVFVRNLP-----FDTTEEELKEHFSKFGEVKYAIIVKDKDT---GHSKGTAFVKFKTQIAAQNCIEAASPASEDGSV  363 (678)
T ss_pred             cceEEEecCC-----ccccHHHHHHHHHhhccceeEEEEeccCC---CCcccceEEEeccHHHHHHHHHhcCccCCCceE
Confidence            4799999975     34457899999999999999888875443   367899999999999999999987     44 6


Q ss_pred             eeCCeEEEEEecc
Q 016857          349 FFGGRVVRATFYD  361 (381)
Q Consensus       349 ~F~GR~V~a~fy~  361 (381)
                      .++||.+.+...=
T Consensus       364 ll~GR~Lkv~~Av  376 (678)
T KOG0127|consen  364 LLDGRLLKVTLAV  376 (678)
T ss_pred             EEeccEEeeeecc
Confidence            7899999988753

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

Probab=97.60  E-value=0.00016  Score=77.94  Aligned_cols=79  Identities=23%  Similarity=0.295  Sum_probs=63.3

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |++.|+--     ++-.+++...+.++|.|.+|.|.......-...+.|++||+|.+.++|.+|++.|+|...+|+.|.+
T Consensus       518 lfvkNlnf-----~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~l  592 (725)
T KOG0110|consen  518 LFVKNLNF-----DTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLEL  592 (725)
T ss_pred             hhhhcCCc-----ccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEE
Confidence            55555431     3345788899999999999999875432112246699999999999999999999999999999999


Q ss_pred             Eecc
Q 016857          358 TFYD  361 (381)
Q Consensus       358 ~fy~  361 (381)
                      .|..
T Consensus       593 k~S~  596 (725)
T KOG0110|consen  593 KISE  596 (725)
T ss_pred             Eecc
Confidence            9987

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

Probab=97.58  E-value=0.00017  Score=67.97  Aligned_cols=67  Identities=21%  Similarity=0.270  Sum_probs=58.4

Q ss_pred             HHHHHHHHhcc-CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecccc
Q 016857          294 EDEVGSECAKY-GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEE  363 (381)
Q Consensus       294 eeDI~EECsKY-G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee  363 (381)
                      +.++..-+..| |.|.++.+.++...+   .+.|++||+|++.+-|.-|...||+-.|.|+.+.|.|.+.+
T Consensus        63 e~~~~~~~~q~~g~v~r~rlsRnkrTG---NSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen   63 ETEILNYFRQFGGTVTRFRLSRNKRTG---NSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE  130 (214)
T ss_pred             HHHHhhhhhhcCCeeEEEEeecccccC---CcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence            45566666766 888888888887655   68999999999999999999999999999999999999987

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

Probab=97.55  E-value=1.3e-05  Score=74.51  Aligned_cols=79  Identities=16%  Similarity=0.270  Sum_probs=63.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      |--|+|-|+--  +|   -+.||..-|+.||.|++|.+.++...+   .+.|++|+.|+|+.+..-||.+|||-.+.||+
T Consensus        35 sA~Iyiggl~~--~L---tEgDil~VFSqyGe~vdinLiRDk~TG---KSKGFaFLcYEDQRSTILAVDN~NGiki~gRt  106 (219)
T KOG0126|consen   35 SAYIYIGGLPY--EL---TEGDILCVFSQYGEIVDINLIRDKKTG---KSKGFAFLCYEDQRSTILAVDNLNGIKILGRT  106 (219)
T ss_pred             ceEEEECCCcc--cc---cCCcEEEEeeccCceEEEEEEecCCCC---cccceEEEEecCccceEEEEeccCCceeccee
Confidence            55677777521  11   134566778999999999999976654   68999999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |++.-+.
T Consensus       107 irVDHv~  113 (219)
T KOG0126|consen  107 IRVDHVS  113 (219)
T ss_pred             EEeeecc
Confidence            9987653

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

Probab=97.51  E-value=0.00029  Score=71.83  Aligned_cols=77  Identities=18%  Similarity=0.391  Sum_probs=60.9

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |.|.|+= + +++   -.+|.+-|+.||.|.+|.|..+...     ..|. ||+|++.++|.+|+..|||..++|+.|.+
T Consensus        79 ~~i~nl~-~-~~~---~~~~~d~f~~~g~ilS~kv~~~~~g-----~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~v  147 (369)
T KOG0123|consen   79 VFIKNLD-E-SID---NKSLYDTFSEFGNILSCKVATDENG-----SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYV  147 (369)
T ss_pred             eeecCCC-c-ccC---cHHHHHHHHhhcCeeEEEEEEcCCC-----ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEE
Confidence            7777732 1 122   1356678899999999999986542     6788 99999999999999999999999999988


Q ss_pred             Eecccccc
Q 016857          358 TFYDEERF  365 (381)
Q Consensus       358 ~fy~ee~F  365 (381)
                      .-+.....
T Consensus       148 g~~~~~~e  155 (369)
T KOG0123|consen  148 GLFERKEE  155 (369)
T ss_pred             eeccchhh
Confidence            77765443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.48  E-value=0.00032  Score=70.52  Aligned_cols=74  Identities=19%  Similarity=0.491  Sum_probs=57.6

Q ss_pred             HHHhccCCeeEEEEeeeCCCC-CCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc---ccccccccCCC
Q 016857          299 SECAKYGTVTRVLIFEITEPN-FPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE---ERFSKNELAPL  373 (381)
Q Consensus       299 EECsKYG~V~~V~I~~~~~~~-~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e---e~F~~~~l~p~  373 (381)
                      +.|++||.|.+|.|-+..... ......| |||.|.+.++|.+|+...+|.+.+||.|+|.|-..   .-|.++..-|.
T Consensus       139 eyFGQyGkI~KIvvNkkt~s~nst~~h~g-vYITy~~kedAarcIa~vDgs~~DGr~lkatYGTTKYCtsYLRn~~CpN  216 (480)
T COG5175         139 EYFGQYGKIKKIVVNKKTSSLNSTASHAG-VYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTTKYCTSYLRNAVCPN  216 (480)
T ss_pred             hhhhhccceeEEEecccccccccccccce-EEEEecchHHHHHHHHHhccccccCceEeeecCchHHHHHHHcCCCCCC
Confidence            678999999999998765322 1112244 89999999999999999999999999999998765   34555544444

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

Probab=97.38  E-value=0.00099  Score=65.17  Aligned_cols=79  Identities=19%  Similarity=0.278  Sum_probs=63.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      --||++-|+-...|  +   .-+-+.|+.||.|.+|+|.++-..+   .-+|+.||...+-++|..|+..|||-..++|.
T Consensus       278 g~ciFvYNLspd~d--e---~~LWQlFgpFGAv~nVKvirD~ttn---kCKGfgFVtMtNYdEAamAi~sLNGy~lg~rv  349 (360)
T KOG0145|consen  278 GWCIFVYNLSPDAD--E---SILWQLFGPFGAVTNVKVIRDFTTN---KCKGFGFVTMTNYDEAAMAIASLNGYRLGDRV  349 (360)
T ss_pred             eeEEEEEecCCCch--H---hHHHHHhCcccceeeEEEEecCCcc---cccceeEEEecchHHHHHHHHHhcCccccceE
Confidence            45788888653322  1   2245778999999999999865433   56899999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      +++.|-.
T Consensus       350 LQVsFKt  356 (360)
T KOG0145|consen  350 LQVSFKT  356 (360)
T ss_pred             EEEEEec
Confidence            9999854

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

Probab=97.38  E-value=0.0002  Score=70.77  Aligned_cols=73  Identities=25%  Similarity=0.391  Sum_probs=60.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ++|.-|.+-|+-..-.     -+|+++-|+|||.|+.+.|.+           +.+||.|...++|..|++.|||+.|+|
T Consensus        76 k~stkl~vgNis~tct-----n~ElRa~fe~ygpviecdivk-----------dy~fvh~d~~eda~~air~l~~~~~~g  139 (346)
T KOG0109|consen   76 KASTKLHVGNISPTCT-----NQELRAKFEKYGPVIECDIVK-----------DYAFVHFDRAEDAVEAIRGLDNTEFQG  139 (346)
T ss_pred             CCccccccCCCCcccc-----CHHHhhhhcccCCceeeeeec-----------ceeEEEEeeccchHHHHhccccccccc
Confidence            4666677777654322     247889999999999999975           579999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      +.+++....
T Consensus       140 k~m~vq~st  148 (346)
T KOG0109|consen  140 KRMHVQLST  148 (346)
T ss_pred             ceeeeeeec
Confidence            999998764

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

Probab=97.37  E-value=0.00032  Score=67.38  Aligned_cols=67  Identities=15%  Similarity=0.232  Sum_probs=56.1

Q ss_pred             hHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc
Q 016857          292 ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e  362 (381)
                      .-.|++++-|++||.|+..+|..+...   ..++|..||.|.|.++|.+|+++-| -.++||+..|.+...
T Consensus        24 T~~~~l~~yFeqfGeI~eavvitd~~t---~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   24 THKETLRRYFEQFGEIVEAVVITDKNT---GRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL   90 (247)
T ss_pred             cchHHHHHHHHHhCceEEEEEEeccCC---ccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence            345788999999999999888875543   4789999999999999999999987 467999888877654

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

Probab=97.35  E-value=0.0004  Score=66.44  Aligned_cols=92  Identities=21%  Similarity=0.338  Sum_probs=71.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHH-HHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEV-GSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI-~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      .+--|+|++-.+      .||+-|-| ...|--||.|..|.|+.+.+.+   ..+|+.||+|.-.|+|..|+.+||+.-.
T Consensus         7 a~~KrtlYVGGl------adeVtekvLhaAFIPFGDI~dIqiPlDyesq---kHRgFgFVefe~aEDAaaAiDNMnesEL   77 (298)
T KOG0111|consen    7 ANQKRTLYVGGL------ADEVTEKVLHAAFIPFGDIKDIQIPLDYESQ---KHRGFGFVEFEEAEDAAAAIDNMNESEL   77 (298)
T ss_pred             cccceeEEeccc------hHHHHHHHHHhccccccchhhcccccchhcc---cccceeEEEeeccchhHHHhhcCchhhh
Confidence            334567776553      34444433 4556699999999999876543   5789999999999999999999999999


Q ss_pred             CCeEEEEEecccccccccccCC
Q 016857          351 GGRVVRATFYDEERFSKNELAP  372 (381)
Q Consensus       351 ~GR~V~a~fy~ee~F~~~~l~p  372 (381)
                      .||+|++.|.-..+-..+...|
T Consensus        78 ~GrtirVN~AkP~kikegsqkP   99 (298)
T KOG0111|consen   78 FGRTIRVNLAKPEKIKEGSQKP   99 (298)
T ss_pred             cceeEEEeecCCccccCCCCCC
Confidence            9999999999877665554444

>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]

Probab=97.29  E-value=0.00011  Score=68.94  Aligned_cols=45  Identities=24%  Similarity=0.508  Sum_probs=42.3

Q ss_pred             hhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecC
Q 016857          212 MTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNA  256 (381)
Q Consensus       212 ~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~  256 (381)
                      ++.|.++|.++||.+++|||.+++|...||....++++.|||+.-
T Consensus       128 ks~GyrLl~~~GW~pe~GLGp~~~Grr~PvrTvlkkdr~GLG~e~  172 (223)
T KOG2384|consen  128 KSLGYRLLSQYGWSPEAGLGPENQGRRAPVRTVLKKDRIGLGTEI  172 (223)
T ss_pred             CCchHHHHHhcCCCcccCCCccccCcccchhHHHhhcccccchhh
Confidence            588999999999999999999999999999999999999999853

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

Probab=97.29  E-value=0.00049  Score=69.59  Aligned_cols=63  Identities=16%  Similarity=0.366  Sum_probs=56.1

Q ss_pred             HHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          296 EVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       296 DI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      |+.-.|+.||+|.+|.|.++...+   ++.-.+||+|++.+++.+|.-.|+.-.++.|.|++.|..
T Consensus       255 DLeiIFSrFG~i~sceVIRD~ktg---dsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQ  317 (479)
T KOG0415|consen  255 DLEIIFSRFGKIVSCEVIRDRKTG---DSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQ  317 (479)
T ss_pred             chhhHHhhcccceeeeEEeccccc---chhheeeeeecchhhHHHHHhhhcceeeccceEEeehhh
Confidence            444678999999999999987654   456789999999999999999999999999999999975

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

Probab=97.15  E-value=0.00098  Score=62.12  Aligned_cols=76  Identities=20%  Similarity=0.198  Sum_probs=61.4

Q ss_pred             EEEEecccCCCCChhhHHHH-HHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          277 VLLLRNMVGPGEVDDELEDE-VGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeD-I~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      .|.+-|      |++-+.++ |.|.|-+.|.|++|.|+++...+   ...|++||+|.++|+|.-|++.||+-..-||.|
T Consensus        11 tiyvgn------ld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~---~~qGygF~Ef~~eedadYAikiln~VkLYgrpI   81 (203)
T KOG0131|consen   11 TLYVGN------LDEKVSEELLYELFIQAGPVVNLHIPKDRVTQ---KHQGYGFAEFRTEEDADYAIKILNMVKLYGRPI   81 (203)
T ss_pred             eEEEec------CCHHHHHHHHHHHHHhcCceeeeecchhhhcc---cccceeEEEEechhhhHHHHHHHHHHHhcCcee
Confidence            566656      33444433 45666799999999999876543   568999999999999999999999999999999


Q ss_pred             EEEecc
Q 016857          356 RATFYD  361 (381)
Q Consensus       356 ~a~fy~  361 (381)
                      ++.-.+
T Consensus        82 rv~kas   87 (203)
T KOG0131|consen   82 RVNKAS   87 (203)
T ss_pred             EEEecc
Confidence            998877

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

Probab=97.13  E-value=0.0012  Score=68.47  Aligned_cols=66  Identities=20%  Similarity=0.252  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee-CCeEEEEEec
Q 016857          292 ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF-GGRVVRATFY  360 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F-~GR~V~a~fy  360 (381)
                      -+++|+.-.|+|-|+|-.+.++.+...+   ..+|.+||.|.+.+.|..|++.||+.-| .|+.|.|+..
T Consensus        95 ~~EdeLvplfEkiG~I~elRLMmD~~sG---~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S  161 (506)
T KOG0117|consen   95 VFEDELVPLFEKIGKIYELRLMMDPFSG---DNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS  161 (506)
T ss_pred             ccchhhHHHHHhccceeeEEEeecccCC---CCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe
Confidence            3577888999999999999999875544   6799999999999999999999999866 7888877654

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

Probab=97.11  E-value=0.0012  Score=64.87  Aligned_cols=69  Identities=19%  Similarity=0.321  Sum_probs=58.4

Q ss_pred             HHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe-eCC--eEEEEEecccccc
Q 016857          293 LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF-FGG--RVVRATFYDEERF  365 (381)
Q Consensus       293 LeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~-F~G--R~V~a~fy~ee~F  365 (381)
                      -+|||+..|.-||.|..|+|.+-.+.    .++|++||+|.+-.+|..||+.|||.. .-|  ..+.+.|.|.++-
T Consensus        32 ~e~dvrrlf~pfG~~~e~tvlrg~dg----~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkE  103 (371)
T KOG0146|consen   32 SEDDVRRLFQPFGNIEECTVLRGPDG----NSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKE  103 (371)
T ss_pred             cHHHHHHHhcccCCcceeEEecCCCC----CCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHH
Confidence            46799999999999999999985443    578999999999999999999999964 333  5788999998753

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=97.01  E-value=0.003  Score=67.10  Aligned_cols=90  Identities=16%  Similarity=0.228  Sum_probs=67.6

Q ss_pred             CceEEEEecccCCCCC-hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEV-DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El-~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      -..||++.|+--.+.. -+-|+--|..-++|||+|.+++++...+.+    ..|.+|++|.+..+|..|++.|||..|+-
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg----tkG~lf~E~~~~~~A~~aVK~l~G~~ldk  132 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG----TKGYLFVEYASMRDAKKAVKSLNGKRLDK  132 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC----eeeEEEEEecChhhHHHHHHhcccceecc
Confidence            4568888886433322 245667788889999999999998665443    57999999999999999999999999987


Q ss_pred             e-EEEEEec-ccccccc
Q 016857          353 R-VVRATFY-DEERFSK  367 (381)
Q Consensus       353 R-~V~a~fy-~ee~F~~  367 (381)
                      + +..+..+ +-++|+.
T Consensus       133 nHtf~v~~f~d~eky~s  149 (698)
T KOG2314|consen  133 NHTFFVRLFKDFEKYES  149 (698)
T ss_pred             cceEEeehhhhHHHhcC
Confidence            5 4444444 3455554

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

Probab=96.88  E-value=0.00076  Score=71.20  Aligned_cols=72  Identities=19%  Similarity=0.291  Sum_probs=57.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  |   -.+++++.+++||.|..|.--.        ...|.|||+|-|+.+|++|++.||++.+.
T Consensus        72 ~~~~~~L~v~nl~~~--V---sn~~L~~~f~~yGeir~ir~t~--------~~~~~~~v~FyDvR~A~~Alk~l~~~~~~  138 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRS--V---SNDTLLRIFGAYGEIREIRETP--------NKRGIVFVEFYDVRDAERALKALNRREIA  138 (549)
T ss_pred             cCccceEEEEecCCc--C---CHHHHHHHHHhhcchhhhhccc--------ccCceEEEEEeehHhHHHHHHHHHHHHhh
Confidence            357889999995321  1   1356678889999999965432        23589999999999999999999999999


Q ss_pred             CeEEE
Q 016857          352 GRVVR  356 (381)
Q Consensus       352 GR~V~  356 (381)
                      |+.|+
T Consensus       139 ~~~~k  143 (549)
T KOG4660|consen  139 GKRIK  143 (549)
T ss_pred             hhhhc
Confidence            99887

>KOG0154 consensus RNA-binding protein RBM5 and related proteins, contain G-patch and RRM domains [General function prediction only]

Probab=96.85  E-value=0.0014  Score=70.15  Aligned_cols=46  Identities=43%  Similarity=0.812  Sum_probs=43.0

Q ss_pred             ChhhHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeec
Q 016857          210 GQMTAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVN  255 (381)
Q Consensus       210 ~~~~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~  255 (381)
                      .+.+++.+||.+|||..|+|||+..+||+.||+.....++.|+|..
T Consensus       510 ~~sn~~~~~l~~~gw~~g~Glg~~~~g~~~~~e~~~~~~~~~lg~~  555 (573)
T KOG0154|consen  510 DTSNVGNRMLQSMGWKEGSGLGKKNQGIKEPIEAEGRDRGAGLGAK  555 (573)
T ss_pred             CCCccchhhhhccCcccccccccccCCCcccccccccccCCCCCcc
Confidence            3568999999999999999999999999999999999999999985

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

Probab=96.62  E-value=0.0036  Score=66.13  Aligned_cols=82  Identities=26%  Similarity=0.350  Sum_probs=65.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +++.+ |++.|+-..-     -+++++..|+-||.|+.|.++.+.+.+   ...|+.||+|.+.++|.+|+..|||-...
T Consensus       276 ~p~~r-l~vgnLHfNi-----te~~lr~ifepfg~Ie~v~l~~d~~tG---~skgfGfi~f~~~~~ar~a~e~lngfelA  346 (549)
T KOG0147|consen  276 GPMRR-LYVGNLHFNI-----TEDMLRGIFEPFGKIENVQLTKDSETG---RSKGFGFITFVNKEDARKALEQLNGFELA  346 (549)
T ss_pred             cchhh-hhhcccccCc-----hHHHHhhhccCcccceeeeeccccccc---cccCcceEEEecHHHHHHHHHHhccceec
Confidence            44454 5666653221     145778889999999999999876544   57899999999999999999999998889


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      ||.|++..+.+
T Consensus       347 Gr~ikV~~v~~  357 (549)
T KOG0147|consen  347 GRLIKVSVVTE  357 (549)
T ss_pred             CceEEEEEeee
Confidence            99999888755

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

Probab=96.60  E-value=0.0074  Score=60.99  Aligned_cols=75  Identities=17%  Similarity=0.292  Sum_probs=60.1

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh-CCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL-DGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-nGR~F~G  352 (381)
                      ..+.|.|.++-+     .-++.||+..|.+||.|++|.|..         ..+.+||+|++-++|+.|...+ |--.++|
T Consensus       227 ~I~tLyIg~l~d-----~v~e~dIrdhFyqyGeirsi~~~~---------~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G  292 (377)
T KOG0153|consen  227 SIKTLYIGGLND-----EVLEQDIRDHFYQYGEIRSIRILP---------RKGCAFVTFTTREAAEKAAEKSFNKLVING  292 (377)
T ss_pred             ceeEEEeccccc-----chhHHHHHHHHhhcCCeeeEEeec---------ccccceeeehhhHHHHHHHHhhcceeeecc
Confidence            456788877654     236789999999999999999973         3578999999999999987554 6557799


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+-..
T Consensus       293 ~Rl~i~Wg~~  302 (377)
T KOG0153|consen  293 FRLKIKWGRP  302 (377)
T ss_pred             eEEEEEeCCC
Confidence            9999995544

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

Probab=96.56  E-value=0.0029  Score=64.41  Aligned_cols=61  Identities=20%  Similarity=0.353  Sum_probs=52.8

Q ss_pred             HHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEE
Q 016857          295 DEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       295 eDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~  358 (381)
                      +-|+..|.-||.|++|.+.-+.-   ....+|++||+|+=.|.|.-|+..|||-..+||.|++.
T Consensus       128 DtiR~AF~PFGPIKSInMSWDp~---T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg  188 (544)
T KOG0124|consen  128 DTIRRAFDPFGPIKSINMSWDPA---TGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG  188 (544)
T ss_pred             HHHHhhccCCCCcceeecccccc---cccccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence            45788899999999998764432   24678999999999999999999999999999999886

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

Probab=96.46  E-value=0.0053  Score=65.46  Aligned_cols=64  Identities=19%  Similarity=0.246  Sum_probs=55.2

Q ss_pred             HHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          295 DEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       295 eDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      .|++..|+|||+|+-.+|..+...   +-...+.||.+.+.++|.+||..||-.-+.||.|.|+-.-
T Consensus       420 tDLKnlFSKyGKVvGAKVVTNaRs---PGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK  483 (940)
T KOG4661|consen  420 TDLKNLFSKYGKVVGAKVVTNARS---PGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK  483 (940)
T ss_pred             hHHHHHHHHhcceeceeeeecCCC---CCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence            578889999999999999876543   2346789999999999999999999999999999987653

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

Probab=96.44  E-value=0.0076  Score=61.61  Aligned_cols=64  Identities=14%  Similarity=0.220  Sum_probs=57.3

Q ss_pred             HHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc
Q 016857          293 LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       293 LeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e  362 (381)
                      .+..+.+.|+.+|.|.+|.|+++. .     +.|.+||.|.+.++|.+|+..||.-.+.|+.|+.-+...
T Consensus        11 ~e~~l~~~f~~~~~v~s~rvc~d~-t-----slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~r   74 (369)
T KOG0123|consen   11 TEAMLFDKFSPAGPVLSIRVCRDA-T-----SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQR   74 (369)
T ss_pred             ChHHHHHHhcccCCceeEEEeecC-C-----ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhcc
Confidence            356778899999999999999865 3     789999999999999999999999999999999877654

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

Probab=96.30  E-value=0.0069  Score=60.12  Aligned_cols=56  Identities=25%  Similarity=0.294  Sum_probs=50.2

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      +.||+..|++||+|..|-|.++           ..||..++...|..|+++|||-.++|..|.++=.
T Consensus        16 ~~elr~lFe~ygkVlECDIvKN-----------YgFVHiEdktaaedairNLhgYtLhg~nInVeaS   71 (346)
T KOG0109|consen   16 EQELRSLFEQYGKVLECDIVKN-----------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEAS   71 (346)
T ss_pred             hHHHHHHHHhhCceEeeeeecc-----------cceEEeecccccHHHHhhcccceecceEEEEEec
Confidence            5788999999999999999864           3788889999999999999999999999988755

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.29  E-value=0.028  Score=50.78  Aligned_cols=80  Identities=28%  Similarity=0.452  Sum_probs=54.9

Q ss_pred             CCCCCceEEEEecccC---CC--CChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHh
Q 016857          270 FNGPPTRVLLLRNMVG---PG--EVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALID  344 (381)
Q Consensus       270 ~~g~pSrVVvL~NMv~---~~--El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~  344 (381)
                      ..|+|.-+|++. +..   .+  .++++|..++.+.+..||.|.=|.+..           +..+|.|.+-++|.+|+ .
T Consensus        22 ~~GPpDaTVvVs-v~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~-----------~~mwVTF~dg~sALaal-s   88 (146)
T PF08952_consen   22 SQGPPDATVVVS-VDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG-----------DTMWVTFRDGQSALAAL-S   88 (146)
T ss_dssp             ----TT-EEEEE-ECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET-----------TCEEEEESSCHHHHHHH-H
T ss_pred             hcCCCCceEEEE-ecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC-----------CeEEEEECccHHHHHHH-c
Confidence            446666666653 333   12  356789999999999999988776652           45999999999999876 5


Q ss_pred             hCCCeeCCeEEEEEeccc
Q 016857          345 LDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       345 LnGR~F~GR~V~a~fy~e  362 (381)
                      |+|-.++|+.|++..=+.
T Consensus        89 ~dg~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   89 LDGIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             GCCSEETTEEEEEEE---
T ss_pred             cCCcEECCEEEEEEeCCc
Confidence            799999999999988765

; PDB: 1UFW_A 2DNR_A.

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

Probab=96.17  E-value=0.0068  Score=65.76  Aligned_cols=79  Identities=18%  Similarity=0.197  Sum_probs=63.7

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      =|+++|+--     .--..||+..|+.||.|.+|.|+.....   ...+|++||.|-+..+|.+|+++|.+.-|-||.+.
T Consensus       615 KIlVRNipF-----eAt~rEVr~LF~aFGqlksvRlPKK~~k---~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLV  686 (725)
T KOG0110|consen  615 KILVRNIPF-----EATKREVRKLFTAFGQLKSVRLPKKIGK---GAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLV  686 (725)
T ss_pred             eeeeeccch-----HHHHHHHHHHHhcccceeeeccchhhcc---hhhccceeeeccCcHHHHHHHHhhcccceechhhh
Confidence            355666541     1234689999999999999999976221   24589999999999999999999999999999999


Q ss_pred             EEecccc
Q 016857          357 ATFYDEE  363 (381)
Q Consensus       357 a~fy~ee  363 (381)
                      .+|...+
T Consensus       687 LEwA~~d  693 (725)
T KOG0110|consen  687 LEWAKSD  693 (725)
T ss_pred             eehhccc
Confidence            9888654

>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]

Probab=96.12  E-value=0.0018  Score=61.99  Aligned_cols=44  Identities=25%  Similarity=0.296  Sum_probs=40.7

Q ss_pred             hHHHHHHHHcCCCCCCCCCCCCCC---cccccccccccCcceeeecC
Q 016857          213 TAAQRMMAKMGWKEGQGLGRQEQG---ITTPLMARKTDRRAGVIVNA  256 (381)
Q Consensus       213 ~~~~kmm~KmGwk~G~GLG~~~qG---I~~Pi~~~~~~~~~Glg~~~  256 (381)
                      ++|+.+|.+|||++|.-||++..+   |++||.+..+..+.|+|...
T Consensus        82 ~~gf~lm~~Mg~kpg~~lgkq~e~~~~r~epI~~dI~~~r~g~G~ed  128 (268)
T KOG1994|consen   82 KPGFSLMNDMGMKPGRFLGKQSEMKNKRLEPIWYDIQVAREGMGDED  128 (268)
T ss_pred             CcChHHHHHhCCCccchhccccccccccccceeehHHHHhhccCccc
Confidence            667999999999999999999999   99999999999999999854

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

Probab=96.06  E-value=0.013  Score=61.02  Aligned_cols=74  Identities=19%  Similarity=0.246  Sum_probs=57.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+++|+-..-.     -+-+++.|..||.|.-.-|+++.      ..+|  -|+|.+.++|++|+..|||-..+||
T Consensus       535 Ka~qIiirNlP~dfT-----WqmlrDKfre~G~v~yadime~G------kskG--VVrF~s~edAEra~a~Mngs~l~Gr  601 (608)
T KOG4212|consen  535 KACQIIIRNLPFDFT-----WQMLRDKFREIGHVLYADIMENG------KSKG--VVRFFSPEDAERACALMNGSRLDGR  601 (608)
T ss_pred             cccEEEEecCCcccc-----HHHHHHHHHhccceehhhhhccC------Cccc--eEEecCHHHHHHHHHHhccCcccCc
Confidence            355689999753211     23566777889999998886532      2234  7999999999999999999999999


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .|.+.|+
T Consensus       602 ~I~V~y~  608 (608)
T KOG4212|consen  602 NIKVTYF  608 (608)
T ss_pred             eeeeeeC
Confidence            9999985

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

Probab=95.96  E-value=0.0058  Score=60.11  Aligned_cols=63  Identities=16%  Similarity=0.261  Sum_probs=54.4

Q ss_pred             HHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          295 DEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       295 eDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      .||...|--||.|++-+|+.++..|   .++.+.||.|.+..+|..||..|||-.++-+.+++.+-
T Consensus       300 aEliQmF~PFGhivSaKVFvDRATN---QSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLK  362 (371)
T KOG0146|consen  300 AELIQMFLPFGHIVSAKVFVDRATN---QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLK  362 (371)
T ss_pred             HHHHHHhccccceeeeeeeehhccc---cccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhc
Confidence            3566788999999999999877654   67899999999999999999999999998888877653

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

Probab=95.85  E-value=0.0065  Score=58.01  Aligned_cols=60  Identities=25%  Similarity=0.318  Sum_probs=50.2

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccccc
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEER  364 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~  364 (381)
                      +.||.+-+.+||.|..|.+-           .|++||+|.+..+|..|+..|||+.|+|-.+.+++--...
T Consensus        15 ~~d~E~~f~~yg~~~d~~mk-----------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~   74 (216)
T KOG0106|consen   15 ERDVERFFKGYGKIPDADMK-----------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKR   74 (216)
T ss_pred             hhHHHHHHhhccccccceee-----------cccceeccCchhhhhcccchhcCceecceeeeeecccccc
Confidence            45777888999999988764           3778999999999999999999999999887777665433

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

Probab=95.79  E-value=0.016  Score=54.18  Aligned_cols=68  Identities=16%  Similarity=0.281  Sum_probs=51.4

Q ss_pred             CChhhHHHHHHHHHhccCCeeEE-EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          288 EVDDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       288 El~dELeeDI~EECsKYG~V~~V-~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      ++|+.+.   ...|++||.+.+. .|++....   ....|+.||-|.+.+.+.+|+..|||.+.+.|.|+++|.-
T Consensus       107 ~vDe~~L---~dtFsafG~l~~~P~i~rd~~t---g~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~  175 (203)
T KOG0131|consen  107 EVDEKLL---YDTFSAFGVLISPPKIMRDPDT---GNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAF  175 (203)
T ss_pred             chhHHHH---HHHHHhccccccCCcccccccC---CCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEE
Confidence            4554444   4556899987652 33333221   2467899999999999999999999999999999999874

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.78  E-value=0.058  Score=48.88  Aligned_cols=63  Identities=19%  Similarity=0.294  Sum_probs=49.6

Q ss_pred             cccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          282 NMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       282 NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      ||-..+|    + ..|....+.||.|.+|..+          +.-.+.|.|.|..+|.+|+.++..|. .|+.++|.+-
T Consensus        97 nm~~~ed----l-~sV~~~Ls~fGpI~SVT~c----------GrqsavVvF~d~~SAC~Av~Af~s~~-pgtm~qCsWq  159 (166)
T PF15023_consen   97 NMQPTED----L-KSVIQRLSVFGPIQSVTLC----------GRQSAVVVFKDITSACKAVSAFQSRA-PGTMFQCSWQ  159 (166)
T ss_pred             cCChHHH----H-HHHHHHHHhcCCcceeeec----------CCceEEEEehhhHHHHHHHHhhcCCC-CCceEEeecc
Confidence            5554443    3 4677888999999999986          23458899999999999999999865 7788887754

>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=95.78  E-value=0.066  Score=44.50  Aligned_cols=72  Identities=15%  Similarity=0.256  Sum_probs=45.6

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhcc-CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKY-GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKY-G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      .|++.|+-...| -.-+..=++..+..+ |+|.+|.             .+.++|+|.+.+.|.+|.+-|+|...-|+.|
T Consensus         4 ~L~V~NLP~~~d-~~~I~~RL~qLsdNCGGkVl~v~-------------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI   69 (90)
T PF11608_consen    4 LLYVSNLPTNKD-PSSIKNRLRQLSDNCGGKVLSVS-------------GGTAILRFPNQEFAERAQKRMEGEDVFGNKI   69 (90)
T ss_dssp             EEEEES--TTS--HHHHHHHHHHHHHTTT--EEE---------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred             EEEEecCCCCCC-HHHHHHHHHHHhhccCCEEEEEe-------------CCEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence            577778764433 134555566667655 4587772             2679999999999999999999999999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      .+.|.+.
T Consensus        70 ~v~~~~~   76 (90)
T PF11608_consen   70 SVSFSPK   76 (90)
T ss_dssp             EEESS--
T ss_pred             EEEEcCC
Confidence            9999975

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=95.77  E-value=0.0071  Score=64.67  Aligned_cols=94  Identities=20%  Similarity=0.313  Sum_probs=72.5

Q ss_pred             CCCCceEEEEecccCCCCChhhHHHHHHHHHh-ccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          271 NGPPTRVLLLRNMVGPGEVDDELEDEVGSECA-KYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       271 ~g~pSrVVvL~NMv~~~El~dELeeDI~EECs-KYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      .+.+|.||.|.|+|.+=.|     -.|+++++ +.|.|+..||..+.         ..|||.|.++++|.....+|||-.
T Consensus       440 R~~~SnvlhI~nLvRPFTl-----gQLkelL~rtgg~Vee~WmDkIK---------ShCyV~yss~eEA~atr~AlhnV~  505 (718)
T KOG2416|consen  440 RKEPSNVLHIDNLVRPFTL-----GQLKELLGRTGGNVEEFWMDKIK---------SHCYVSYSSVEEAAATREALHNVQ  505 (718)
T ss_pred             CCCccceEeeecccccchH-----HHHHHHHhhccCchHHHHHHHhh---------cceeEecccHHHHHHHHHHHhccc
Confidence            4678999999999987443     24666677 78889999987653         469999999999999999999986


Q ss_pred             e---CCeEEEEEeccccc--ccccccCCCCCCCC
Q 016857          350 F---GGRVVRATFYDEER--FSKNELAPLPGEIP  378 (381)
Q Consensus       350 F---~GR~V~a~fy~ee~--F~~~~l~p~~~e~~  378 (381)
                      +   |++.+.|.|...+.  |.++-|.=.+.|++
T Consensus       506 WP~sNPK~L~adf~~~deld~hr~~led~~ae~~  539 (718)
T KOG2416|consen  506 WPPSNPKHLIADFVRADELDKHRNGLEDLEAELP  539 (718)
T ss_pred             cCCCCCceeEeeecchhHHHHHhccchhcccccc
Confidence            6   77899999998765  44454444444443

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

Probab=95.76  E-value=0.03  Score=57.86  Aligned_cols=75  Identities=27%  Similarity=0.344  Sum_probs=59.2

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +.||++.|+- .+-+.   .+-+.-.|+-||.|.+|.|..+..        ..+.|+|.|...|.-|+..|+|...-|+.
T Consensus       297 n~vllvsnln-~~~VT---~d~LftlFgvYGdVqRVkil~nkk--------d~ALIQmsd~~qAqLA~~hL~g~~l~gk~  364 (492)
T KOG1190|consen  297 NVVLLVSNLN-EEAVT---PDVLFTLFGVYGDVQRVKILYNKK--------DNALIQMSDGQQAQLAMEHLEGHKLYGKK  364 (492)
T ss_pred             ceEEEEecCc-hhccc---hhHHHHHHhhhcceEEEEeeecCC--------cceeeeecchhHHHHHHHHhhcceecCce
Confidence            4666666643 22222   234557789999999999998754        35999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |++.|.-
T Consensus       365 lrvt~SK  371 (492)
T KOG1190|consen  365 LRVTLSK  371 (492)
T ss_pred             EEEeecc
Confidence            9999874

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=95.56  E-value=0.066  Score=45.36  Aligned_cols=69  Identities=14%  Similarity=0.276  Sum_probs=45.6

Q ss_pred             hHHHHHHHHHhccCCeeEEE-EeeeCCC--C-CCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE-EEecc
Q 016857          292 ELEDEVGSECAKYGTVTRVL-IFEITEP--N-FPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR-ATFYD  361 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~V~-I~~~~~~--~-~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~-a~fy~  361 (381)
                      .....|.++|++||.|.+.. +.+....  . -......-|.|+|.+..+|.+|+.. ||+.|+|..+. +.+++
T Consensus        17 ~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~~mvGV~~~~   90 (100)
T PF05172_consen   17 SASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGSLMVGVKPCD   90 (100)
T ss_dssp             GGHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTCEEEEEEE-H
T ss_pred             HHHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCcEEEEEEEcH
Confidence            35667889999999998775 1000000  0 0012446899999999999999986 99999986554 55553

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.

>KOG4315 consensus G-patch nucleic acid binding protein [General function prediction only]

Probab=95.45  E-value=0.018  Score=59.47  Aligned_cols=44  Identities=23%  Similarity=0.430  Sum_probs=35.0

Q ss_pred             hHHHHHHHHcCCCCCCCCCCCCCCcccccccccccCcceeeecCC
Q 016857          213 TAAQRMMAKMGWKEGQGLGRQEQGITTPLMARKTDRRAGVIVNAS  257 (381)
Q Consensus       213 ~~~~kmm~KmGwk~G~GLG~~~qGI~~Pi~~~~~~~~~Glg~~~~  257 (381)
                      +||..||.-|||+.|.|+|+++|+.+ +-.-.++..+.|||++-.
T Consensus       155 ~FGlAmLrG~GWkpg~gigk~~q~v~-~~~~~~rpkglGLGa~~~  198 (455)
T KOG4315|consen  155 GFGLAMLRGMGWKPGPGIGKNKQDVK-IKEPFLRPKGLGLGADPA  198 (455)
T ss_pred             HHHHHHHhcCCCCCCCCcCcCCcccc-ccccccCCCCcccCCCcc
Confidence            89999999999999999999988753 333446667778888643

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=95.41  E-value=0.018  Score=55.36  Aligned_cols=80  Identities=18%  Similarity=0.142  Sum_probs=62.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..+.|.+.|+=-.-    .+ ++|.++++-||.|.+|.|..+.-.   .+..|+.||+|.+.+...+|+. |||-.+.|+
T Consensus       100 d~~sv~v~nvd~~~----t~-~~~e~hf~~Cg~i~~~ti~~d~~~---~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~  170 (231)
T KOG4209|consen  100 DAPSVWVGNVDFLV----TL-TKIELHFESCGGINRVTVPKDKFR---GHPKGFAYVEFSSYELVEEAYK-LDGSEIPGP  170 (231)
T ss_pred             CCceEEEecccccc----cc-chhhheeeccCCccceeeeccccC---CCcceeEEEecccHhhhHHHhh-cCCcccccc
Confidence            45667777742111    11 237788899999999999876433   2478999999999999999999 999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+..+-.
T Consensus       171 ~i~vt~~r~  179 (231)
T KOG4209|consen  171 AIEVTLKRT  179 (231)
T ss_pred             cceeeeeee
Confidence            999988754

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

Probab=95.28  E-value=0.05  Score=59.92  Aligned_cols=73  Identities=14%  Similarity=0.301  Sum_probs=59.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .|++|.|..+-.     .-.++||...++.||.|++|.+..+         .|++||+...-.+|.+|+..|+.-.|.++
T Consensus       420 ~SrTLwvG~i~k-----~v~e~dL~~~feefGeiqSi~li~~---------R~cAfI~M~~RqdA~kalqkl~n~kv~~k  485 (894)
T KOG0132|consen  420 CSRTLWVGGIPK-----NVTEQDLANLFEEFGEIQSIILIPP---------RGCAFIKMVRRQDAEKALQKLSNVKVADK  485 (894)
T ss_pred             eeeeeeeccccc-----hhhHHHHHHHHHhcccceeEeeccC---------CceeEEEEeehhHHHHHHHHHhcccccce
Confidence            466666655321     2346788899999999999988643         58999999999999999999999999999


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .|++.+.
T Consensus       486 ~Iki~Wa  492 (894)
T KOG0132|consen  486 TIKIAWA  492 (894)
T ss_pred             eeEEeee
Confidence            9987664

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

Probab=95.02  E-value=0.092  Score=54.86  Aligned_cols=81  Identities=22%  Similarity=0.183  Sum_probs=62.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      -.|.|+|.|+--.-- ..+|++=|+   +|-|.|+=|.+..+...    ..+|++.|+|++.|.++||+..||..-.+||
T Consensus        43 r~R~vfItNIpyd~r-WqdLKdLvr---ekvGev~yveLl~D~~G----K~rGcavVEFk~~E~~qKa~E~lnk~~~~GR  114 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYR-WQDLKDLVR---EKVGEVEYVELLFDESG----KARGCAVVEFKDPENVQKALEKLNKYEVNGR  114 (608)
T ss_pred             ccceEEEecCcchhh-hHhHHHHHH---HhcCceEeeeeecccCC----CcCCceEEEeeCHHHHHHHHHHhhhccccCc
Confidence            456689999742111 244554444   48999999998876543    4689999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.|.--..
T Consensus       115 ~l~vKEd~d  123 (608)
T KOG4212|consen  115 ELVVKEDHD  123 (608)
T ss_pred             eEEEeccCc
Confidence            999876544

>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=94.86  E-value=0.094  Score=48.93  Aligned_cols=66  Identities=23%  Similarity=0.259  Sum_probs=48.6

Q ss_pred             hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC--CCeeCCeEEEEEecccccc
Q 016857          291 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD--GRFFGGRVVRATFYDEERF  365 (381)
Q Consensus       291 dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln--GR~F~GR~V~a~fy~ee~F  365 (381)
                      .+..+.|++.+.+|+.+..+.+.+         .-+||.|.|.+.++|.+|...|+  +..|.|..+++.|......
T Consensus         6 ~~~~~~l~~l~~~~~~~~~~~~L~---------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~~   73 (184)
T PF04847_consen    6 PDNLAELEELFSTYDPPVQFSPLK---------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTPI   73 (184)
T ss_dssp             ---HHHHHHHHHTT-SS-EEEEET---------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS-
T ss_pred             hhhHHHHHHHHHhcCCceEEEEcC---------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccccc
Confidence            456788889999999999998874         34899999999999999999999  9999999999999865444

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.

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

Probab=94.75  E-value=0.018  Score=55.41  Aligned_cols=81  Identities=22%  Similarity=0.142  Sum_probs=63.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+.++|++.||...  +++||.+   |.+-.-|.|.+|.|+...+.     ..-++||.|.++.+-.-|++.|||-...+
T Consensus         7 e~drtl~v~n~~~~--v~eelL~---ElfiqaGPV~kv~ip~~~d~-----~~kFa~v~f~~E~sv~~a~~L~ng~~l~~   76 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSG--VSEELLS---ELFIQAGPVYKVGIPSGQDQ-----EQKFAYVFFPNENSVQLAGQLENGDDLEE   76 (267)
T ss_pred             chhhHHHHHhhhhh--hhHHHHH---HHhhccCceEEEeCCCCccC-----CCceeeeecccccchhhhhhhcccchhcc
Confidence            46778888888643  3344433   44568999999999875443     34489999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.+++.|.+..
T Consensus        77 ~e~q~~~r~G~   87 (267)
T KOG4454|consen   77 DEEQRTLRCGN   87 (267)
T ss_pred             chhhcccccCC
Confidence            99999888764

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

Probab=94.74  E-value=0.12  Score=53.20  Aligned_cols=81  Identities=26%  Similarity=0.548  Sum_probs=59.6

Q ss_pred             CCceEEEEecccCCC-CChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC-ee
Q 016857          273 PPTRVLLLRNMVGPG-EVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR-FF  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~-El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR-~F  350 (381)
                      .+.+||++. ++.+- -+.-   +-|...|.-.|+|.+|.|++.+        .+.+.|+|++.+.|++|...|||- .|
T Consensus       118 ~pN~VLl~T-IlNp~YpItv---DVly~Icnp~GkVlRIvIfkkn--------gVQAmVEFdsv~~AqrAk~alNGADIY  185 (494)
T KOG1456|consen  118 TPNKVLLFT-ILNPQYPITV---DVLYTICNPQGKVLRIVIFKKN--------GVQAMVEFDSVEVAQRAKAALNGADIY  185 (494)
T ss_pred             CCCeEEEEE-eecCccccch---hhhhhhcCCCCceEEEEEEecc--------ceeeEEeechhHHHHHHHhhccccccc
Confidence            356676654 33321 1111   2356889999999999999853        367999999999999999999998 44


Q ss_pred             CC-eEEEEEecccccc
Q 016857          351 GG-RVVRATFYDEERF  365 (381)
Q Consensus       351 ~G-R~V~a~fy~ee~F  365 (381)
                      .| -+++++|.-.++.
T Consensus       186 sGCCTLKIeyAkP~rl  201 (494)
T KOG1456|consen  186 SGCCTLKIEYAKPTRL  201 (494)
T ss_pred             ccceeEEEEecCccee
Confidence            44 6899999876543

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

Probab=94.09  E-value=0.14  Score=49.86  Aligned_cols=69  Identities=16%  Similarity=0.274  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecccccc
Q 016857          293 LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERF  365 (381)
Q Consensus       293 LeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~F  365 (381)
                      +.+||+|.|..||.+.++.|+.+...    ...|.+=|.|..-++|.+|++.|||--.+|+.++.........
T Consensus        96 ~~~Dl~eLF~~~~~~~r~~vhy~~~G----~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~~  164 (243)
T KOG0533|consen   96 IDADLKELFAEFGELKRVAVHYDRAG----RSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPSQ  164 (243)
T ss_pred             chHHHHHHHHHhccceEEeeccCCCC----CCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCccc
Confidence            45688899999999999999976542    3568999999999999999999999989999999888876443

>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation

Probab=94.01  E-value=0.14  Score=43.44  Aligned_cols=72  Identities=18%  Similarity=0.282  Sum_probs=41.3

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC-----eeC
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR-----FFG  351 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR-----~F~  351 (381)
                      ||.+.++-  .++   -.++|++.|++||.|.=|-+.+         +....||+|.+.++|.+|+..+.-.     .+.
T Consensus         3 il~~~g~~--~~~---~re~iK~~f~~~g~V~yVD~~~---------G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~   68 (105)
T PF08777_consen    3 ILKFSGLG--EPT---SREDIKEAFSQFGEVAYVDFSR---------GDTEGYVRFKTPEAAQKALEKLKEANDGKLKIK   68 (105)
T ss_dssp             EEEEEE----SS-----HHHHHHHT-SS--EEEEE--T---------T-SEEEEEESS---HHHHHHHHHHTTTS-B-TT
T ss_pred             EEEEecCC--CCc---CHHHHHHHHHhcCCcceEEecC---------CCCEEEEEECCcchHHHHHHHHHhccCCceEEc
Confidence            56666622  222   2789999999999887665532         3357999999999999999877543     667


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      +..|++.....
T Consensus        69 ~~~~~~~vLeG   79 (105)
T PF08777_consen   69 GKEVTLEVLEG   79 (105)
T ss_dssp             SSSEEEE---H
T ss_pred             CceEEEEECCC
Confidence            77777777753

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=93.80  E-value=0.16  Score=38.02  Aligned_cols=43  Identities=21%  Similarity=0.466  Sum_probs=36.0

Q ss_pred             hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHH
Q 016857          291 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKAL  342 (381)
Q Consensus       291 dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv  342 (381)
                      .+..++|...|..||.|.++.+..         ..-.+||+|.+..+|++|+
T Consensus        11 ~~~~~~vl~~F~~fGeI~~~~~~~---------~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen   11 PDLAEEVLEHFASFGEIVDIYVPE---------STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             chHHHHHHHHHHhcCCEEEEEcCC---------CCcEEEEEECCHHHHHhhC
Confidence            456678889999999999998862         2356999999999999985

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

Probab=93.72  E-value=0.11  Score=53.86  Aligned_cols=73  Identities=23%  Similarity=0.452  Sum_probs=54.0

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC-eeCC-eEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR-FFGG-RVV  355 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR-~F~G-R~V  355 (381)
                      +++.||+-+--|     |=+...|++||.|.+|.-+..+.       .--+.|+|.+.++|..|...|+|| .|+| .++
T Consensus       153 ~iie~m~ypVsl-----DVLHqvFS~fG~VlKIiTF~Knn-------~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtL  220 (492)
T KOG1190|consen  153 TIIENMFYPVSL-----DVLHQVFSKFGFVLKIITFTKNN-------GFQALVQYTDAVSAQAAKLALDGQNIYNGCCTL  220 (492)
T ss_pred             EEeccceeeeEH-----HHHHHHHhhcceeEEEEEEeccc-------chhhhhhccchhhHHHHHHhccCCcccCceeEE
Confidence            445676655333     34578899999999999887532       124889999999999999999999 4555 467


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      +..|..-
T Consensus       221 rId~Skl  227 (492)
T KOG1190|consen  221 RIDFSKL  227 (492)
T ss_pred             Eeehhhc
Confidence            7766543

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=93.44  E-value=0.1  Score=54.31  Aligned_cols=68  Identities=22%  Similarity=0.332  Sum_probs=53.1

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeC---CCC--CC-----CCCceEEEEEeCCHHHHHHHHH
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEIT---EPN--FP-----VDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~---~~~--~~-----~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      +||+||..|+-.     |-..|.|...|+.+|.|..|.|+.+.   .+.  ++     ...+-+++|+|+..+.|.+|..
T Consensus       230 ~srtivaenLP~-----Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e  304 (484)
T KOG1855|consen  230 PSRTIVAENLPL-----DHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARE  304 (484)
T ss_pred             ccceEEEecCCc-----chHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHH
Confidence            899999999762     33457888999999999999999872   221  11     1125679999999999999999


Q ss_pred             hhC
Q 016857          344 DLD  346 (381)
Q Consensus       344 ~Ln  346 (381)
                      .||
T Consensus       305 ~~~  307 (484)
T KOG1855|consen  305 LLN  307 (484)
T ss_pred             hhc
Confidence            884

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=93.21  E-value=0.033  Score=56.10  Aligned_cols=86  Identities=17%  Similarity=0.349  Sum_probs=59.5

Q ss_pred             ChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc---ccc
Q 016857          289 VDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE---ERF  365 (381)
Q Consensus       289 l~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e---e~F  365 (381)
                      +.++..-+=.+-|++||.|.+|.+..............-+||.|+..++|..|+...+|-..+||.++|.|-..   ..|
T Consensus        89 ~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gttkycs~~  168 (327)
T KOG2068|consen   89 LADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGTTKYCSFY  168 (327)
T ss_pred             ccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCCcchhHH
Confidence            33333333346778999999999987542011111223499999999999999999999999999999988764   334


Q ss_pred             cccccCCCC
Q 016857          366 SKNELAPLP  374 (381)
Q Consensus       366 ~~~~l~p~~  374 (381)
                      .+++.-+.+
T Consensus       169 l~~~~c~~~  177 (327)
T KOG2068|consen  169 LRNDICQNP  177 (327)
T ss_pred             hhhhcccCc
Confidence            444444433

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=92.93  E-value=1.2  Score=37.52  Aligned_cols=78  Identities=12%  Similarity=0.147  Sum_probs=54.8

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC----C
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG----G  352 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~----G  352 (381)
                      +|.|+|+-..-. .++|.+.|-+.|  .|...=++++.+-..   ....|.+||-|.+.+.|.+-.+.++|+...    .
T Consensus         3 TvMirNIPn~~t-~~~L~~~l~~~~--~g~yDF~YLPiDf~~---~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~   76 (97)
T PF04059_consen    3 TVMIRNIPNKYT-QEMLIQILDEHF--KGKYDFFYLPIDFKN---KCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSK   76 (97)
T ss_pred             eEEEecCCCCCC-HHHHHHHHHHhc--cCcceEEEeeeeccC---CCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCC
Confidence            688889754422 245666776666  366666777765433   246899999999999999999999999775    2


Q ss_pred             eEEEEEec
Q 016857          353 RVVRATFY  360 (381)
Q Consensus       353 R~V~a~fy  360 (381)
                      +...+.|.
T Consensus        77 Kvc~i~yA   84 (97)
T PF04059_consen   77 KVCEISYA   84 (97)
T ss_pred             cEEEEehh
Confidence            44444444

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

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

Probab=92.85  E-value=0.089  Score=51.57  Aligned_cols=57  Identities=14%  Similarity=0.347  Sum_probs=48.0

Q ss_pred             HHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEE
Q 016857          299 SECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       299 EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~  358 (381)
                      ..|.||=.-..-.+.++...+   ..+|+-||-|.+..++.+|++.|||++.+.|.|.+.
T Consensus       209 raf~Kfpsf~~akviRdkRTg---KSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR  265 (290)
T KOG0226|consen  209 RAFKKFPSFQKAKVIRDKRTG---KSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR  265 (290)
T ss_pred             HHHHhccchhhcccccccccc---ccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence            455688877777777766554   678999999999999999999999999999988754

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

Probab=92.52  E-value=0.099  Score=52.53  Aligned_cols=64  Identities=19%  Similarity=0.242  Sum_probs=48.2

Q ss_pred             hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEE
Q 016857          291 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       291 dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~  358 (381)
                      +.-++.+++.|++||.|..++|+++...   ...+|+.||.|++.++...++..-. ..++||.|.+.
T Consensus        17 ~ttee~Lr~yf~~~Gev~d~~vm~d~~t---~rsrgFgfv~f~~~~~v~~vl~~~~-h~~dgr~ve~k   80 (311)
T KOG4205|consen   17 ETTEESLREYFSQFGEVTDCVVMRDPST---GRSRGFGFVTFATPEGVDAVLNART-HKLDGRSVEPK   80 (311)
T ss_pred             cccHHHHHHHhcccCceeeEEEeccCCC---CCcccccceecCCCcchheeecccc-cccCCccccce
Confidence            3456788899999999999999987654   4688999999999987777766533 23456555443

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

Probab=91.54  E-value=0.12  Score=49.44  Aligned_cols=61  Identities=26%  Similarity=0.338  Sum_probs=50.1

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecccccc
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERF  365 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~F  365 (381)
                      .+||.+-+++||.+....+ .          .++.||+|+..++|.+|+..|+|..+.|+.|.+.+...+..
T Consensus       113 ~qdl~d~~~~~g~~~~~~~-~----------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~~~d~~  173 (216)
T KOG0106|consen  113 WQDLKDHFRPAGEVTYVDA-R----------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKNSRDRS  173 (216)
T ss_pred             HHHHhhhhcccCCCchhhh-h----------ccccceeehhhhhhhhcchhccchhhcCceeeecccCcchh
Confidence            4788899999999944433 1          36799999999999999999999999999999966554444

>KOG2138 consensus Predicted RNA binding protein, contains G-patch domain [RNA processing and modification]

Probab=91.41  E-value=0.11  Score=56.92  Aligned_cols=25  Identities=36%  Similarity=0.728  Sum_probs=22.4

Q ss_pred             CCCChhhHHHHHHHHcCCCCCCCCC
Q 016857          207 GAGGQMTAAQRMMAKMGWKEGQGLG  231 (381)
Q Consensus       207 ~~~~~~~~~~kmm~KmGwk~G~GLG  231 (381)
                      .+|+..++|-+||.+|||++|+|+|
T Consensus       143 v~Pvs~sIgvrlLrsMGWr~GqgIg  167 (883)
T KOG2138|consen  143 VRPVSDSIGVRLLRSMGWREGQGIG  167 (883)
T ss_pred             hhhhhhhHHHHHHHHhcCccCCCcC
Confidence            3466779999999999999999999

>PF15519 RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein; PDB: 3S6E_A 2LQ5_A

Probab=90.68  E-value=0.15  Score=40.90  Aligned_cols=18  Identities=39%  Similarity=0.613  Sum_probs=12.0

Q ss_pred             CCCceEEEEecccCCCCC
Q 016857          272 GPPTRVLLLRNMVGPGEV  289 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El  289 (381)
                      ..+|+||+|+|||++.+.
T Consensus        51 ~~aS~C~lLkNMFDP~~E   68 (73)
T PF15519_consen   51 PIASRCFLLKNMFDPAEE   68 (73)
T ss_dssp             S---SEEEEESSS-TTCG
T ss_pred             CCCCceeeeecCCCcccc
Confidence            469999999999999763

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=90.62  E-value=0.55  Score=51.71  Aligned_cols=82  Identities=20%  Similarity=0.166  Sum_probs=60.9

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+.-|.+-|+-..  |   .++.+-..|+.||.|.+|.|+-++.+.-.....-+.||-|-+-.+|.+|++.|+|..+.++
T Consensus       173 ~TTNlyv~Nlnps--v---~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~  247 (877)
T KOG0151|consen  173 QTTNLYVGNLNPS--V---DENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEY  247 (877)
T ss_pred             cccceeeecCCcc--c---cHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeee
Confidence            4555666674322  1   2345668889999999999997654332233455679999999999999999999999998


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .++..|-
T Consensus       248 e~K~gWg  254 (877)
T KOG0151|consen  248 EMKLGWG  254 (877)
T ss_pred             eeeeccc
Confidence            8877665

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=89.20  E-value=3  Score=35.91  Aligned_cols=57  Identities=14%  Similarity=0.367  Sum_probs=42.9

Q ss_pred             CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC---eEEEEEecccccccc
Q 016857          306 TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG---RVVRATFYDEERFSK  367 (381)
Q Consensus       306 ~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G---R~V~a~fy~ee~F~~  367 (381)
                      .|..+.|.++...     .+--|-++|.+.++|..-...+||+.|+.   -+-++-|+..-.|..
T Consensus        40 ~i~~~riird~~p-----nrymVLikF~~~~~Ad~Fy~~fNGk~FnslEpE~ChvvfV~~Ve~~~   99 (110)
T PF07576_consen   40 DIEHIRIIRDGTP-----NRYMVLIKFRDQESADEFYEEFNGKPFNSLEPETCHVVFVKSVEFTS   99 (110)
T ss_pred             cEEEEEEeeCCCC-----ceEEEEEEECCHHHHHHHHHHhCCCccCCCCCceeEEEEEEEEEEEc
Confidence            5778888875432     35679999999999999999999999976   355666665544443

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=88.87  E-value=0.72  Score=46.37  Aligned_cols=52  Identities=17%  Similarity=0.264  Sum_probs=42.5

Q ss_pred             HHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          296 EVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       296 DI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      -|..+|++||.|.+.+-..+         .-.++|+|....+|.+|+.. ||+.|+|..+..
T Consensus       212 ~vL~~F~~cG~Vvkhv~~~n---------gNwMhirYssr~~A~KALsk-ng~ii~g~vmiG  263 (350)
T KOG4285|consen  212 IVLNLFSRCGEVVKHVTPSN---------GNWMHIRYSSRTHAQKALSK-NGTIIDGDVMIG  263 (350)
T ss_pred             HHHHHHHhhCeeeeeecCCC---------CceEEEEecchhHHHHhhhh-cCeeeccceEEe
Confidence            46688999999999876521         24699999999999999976 999999986643

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

Probab=87.92  E-value=0.6  Score=47.00  Aligned_cols=66  Identities=18%  Similarity=0.206  Sum_probs=52.5

Q ss_pred             HHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc
Q 016857          293 LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       293 LeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e  362 (381)
                      -++|+++.+.+||.|..+.|+.+....   ...|+.||.|.+.++..+++. ..-+.|+|+.|.|.-+-.
T Consensus       110 ~e~~~r~yfe~~g~v~~~~~~~d~~~~---~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~p  175 (311)
T KOG4205|consen  110 TEEDFKDYFEQFGKVADVVIMYDKTTS---RPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIP  175 (311)
T ss_pred             chHHHhhhhhccceeEeeEEeeccccc---ccccceeeEeccccccceecc-cceeeecCceeeEeeccc
Confidence            357889999999999999999876543   568999999999887776654 466788999888876643

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

Probab=87.41  E-value=1.9  Score=47.63  Aligned_cols=77  Identities=22%  Similarity=0.246  Sum_probs=60.3

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+||-+.||--.-+     .+||.+-|.-|-.+-.-.+.+-.+++   .-.|.+-|-|++.++|.+|+..|+|+.+..|+
T Consensus       867 p~V~~~~n~Pf~v~-----l~dI~~FF~dY~~~p~sI~~r~nd~G---~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~  938 (944)
T KOG4307|consen  867 PRVLSCNNFPFDVT-----LEDIVEFFNDYEPDPNSIRIRRNDDG---VPTGECMVAFESQEEARRASMDLDGQKIRNRV  938 (944)
T ss_pred             CeEEEecCCCcccc-----HHHHHHHhcccccCCCceeEeecCCC---CcccceeEeecCHHHHHhhhhccccCccccee
Confidence            34888989853333     35888899988877655555555544   34789999999999999999999999999999


Q ss_pred             EEEEe
Q 016857          355 VRATF  359 (381)
Q Consensus       355 V~a~f  359 (381)
                      |....
T Consensus       939 V~l~i  943 (944)
T KOG4307|consen  939 VSLRI  943 (944)
T ss_pred             EEEEe
Confidence            98754

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

Probab=86.64  E-value=1.8  Score=44.23  Aligned_cols=78  Identities=15%  Similarity=0.181  Sum_probs=60.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeE--------EEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTR--------VLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~--------V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      -..-|++.|+-  .|+   ..+|+.+.++|+|.|.+        |.+++....    ...|...|.|-..+|..-|++.|
T Consensus       133 ~Nt~VYVsgLP--~Di---T~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G----~lKGDaLc~y~K~ESVeLA~~il  203 (382)
T KOG1548|consen  133 VNTSVYVSGLP--LDI---TVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQG----KLKGDALCCYIKRESVELAIKIL  203 (382)
T ss_pred             cCceEEecCCC--Ccc---cHHHHHHHHHhcceEeccCCCCCeeEEEEecCCC----CccCceEEEeecccHHHHHHHHh
Confidence            34457777764  222   24577788999999864        677765442    45788999999999999999999


Q ss_pred             CCCeeCCeEEEEEec
Q 016857          346 DGRFFGGRVVRATFY  360 (381)
Q Consensus       346 nGR~F~GR~V~a~fy  360 (381)
                      ++--|.|+.|+|+-.
T Consensus       204 De~~~rg~~~rVerA  218 (382)
T KOG1548|consen  204 DEDELRGKKLRVERA  218 (382)
T ss_pred             CcccccCcEEEEehh
Confidence            999999999998865

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

Probab=86.55  E-value=1.3  Score=46.26  Aligned_cols=72  Identities=17%  Similarity=0.226  Sum_probs=53.1

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |.++|+-...     ...+|+++|.+||.|+...|......+   ....+.||+|.+..++..|+.+- =-..+||.+.+
T Consensus       291 i~V~nlP~da-----~~~~l~~~Fk~FG~Ik~~~I~vr~~~~---~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~V  361 (419)
T KOG0116|consen  291 IFVKNLPPDA-----TPAELEEVFKQFGPIKEGGIQVRSPGG---KNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNV  361 (419)
T ss_pred             eEeecCCCCC-----CHHHHHHHHhhcccccccceEEeccCC---CcCceEEEEEeecchhhhhhhcC-ccccCCeeEEE
Confidence            7788864222     233478999999999999998865322   22388999999999999999886 44557787766


Q ss_pred             E
Q 016857          358 T  358 (381)
Q Consensus       358 ~  358 (381)
                      +
T Consensus       362 e  362 (419)
T KOG0116|consen  362 E  362 (419)
T ss_pred             E
Confidence            4

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=86.36  E-value=2.5  Score=33.29  Aligned_cols=51  Identities=16%  Similarity=0.219  Sum_probs=40.6

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .+||+--+.+|+-. +|..++          .| .||.|.+..+|.+|.+..||+.|.+..+.
T Consensus        14 v~d~K~~Lr~y~~~-~I~~d~----------tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~   64 (66)
T PF11767_consen   14 VEDFKKRLRKYRWD-RIRDDR----------TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQ   64 (66)
T ss_pred             HHHHHHHHhcCCcc-eEEecC----------CE-EEEEECChHHHHHHHHhcCCCEEEEEEEE
Confidence            46788888888753 555432          24 89999999999999999999998877664

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=85.32  E-value=0.77  Score=46.79  Aligned_cols=59  Identities=14%  Similarity=0.213  Sum_probs=46.0

Q ss_pred             EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEeccc---cccccccc
Q 016857          309 RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDE---ERFSKNEL  370 (381)
Q Consensus       309 ~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~e---e~F~~~~l  370 (381)
                      .|+|+.+.+.   ...++.+-|.|+|...|+.|+..++++-|.|.+|++.++..   -.|.++.+
T Consensus       103 ki~~y~dkeT---~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~~ve~~rg~~  164 (351)
T KOG1995|consen  103 KIKIYTDKET---GAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRTGVESVRGGY  164 (351)
T ss_pred             chhccccccc---cCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhccCcccccccc
Confidence            3555554432   35789999999999999999999999999999999888864   24555544

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=84.89  E-value=0.6  Score=45.87  Aligned_cols=76  Identities=18%  Similarity=0.155  Sum_probs=56.4

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCC---------CCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEP---------NFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~---------~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      +=||+|.|+--..+..     -+++.++.||.|-+|++-.....         +......-..+|+|.+-..|.++...|
T Consensus        74 ~GVvylS~IPp~m~~~-----rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~L  148 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPV-----RLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELL  148 (278)
T ss_pred             ceEEEeccCCCccCHH-----HHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHh
Confidence            4588888876544432     46677889999999999765433         111222334689999999999999999


Q ss_pred             CCCeeCCeEE
Q 016857          346 DGRFFGGRVV  355 (381)
Q Consensus       346 nGR~F~GR~V  355 (381)
                      ||..++|+.-
T Consensus       149 nn~~Iggkk~  158 (278)
T KOG3152|consen  149 NNTPIGGKKK  158 (278)
T ss_pred             CCCccCCCCC
Confidence            9999999864

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

Probab=82.01  E-value=7.4  Score=38.01  Aligned_cols=78  Identities=14%  Similarity=0.178  Sum_probs=50.6

Q ss_pred             HHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC---CeEEEEEeccc-ccccccccC
Q 016857          296 EVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG---GRVVRATFYDE-ERFSKNELA  371 (381)
Q Consensus       296 DI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~---GR~V~a~fy~e-e~F~~~~l~  371 (381)
                      ||.-.|..|-.-+...|-.-...+  ..-..+.||.|.+..+|..|++.|||-.|+   +.+++.++.-- .+-.+....
T Consensus        50 EiynLFR~f~GYEgslLK~Tsk~~--~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr~k~s  127 (284)
T KOG1457|consen   50 EIYNLFRRFHGYEGSLLKYTSKGD--QVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKRRKGS  127 (284)
T ss_pred             HHHHHhccCCCccceeeeeccCCC--ccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCcccccCCCC
Confidence            444555554444555553321111  123467999999999999999999999996   57888888743 444455555


Q ss_pred             CCCC
Q 016857          372 PLPG  375 (381)
Q Consensus       372 p~~~  375 (381)
                      +.|+
T Consensus       128 gtP~  131 (284)
T KOG1457|consen  128 GTPG  131 (284)
T ss_pred             CCCC
Confidence            5544

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

Probab=82.00  E-value=4.3  Score=39.12  Aligned_cols=76  Identities=21%  Similarity=0.343  Sum_probs=52.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+..|+++.|+-  .|...++.+++.+-|.-|..|   .....        -.+.+||+|.+...|..|...|.|-..-
T Consensus       143 ~ppn~ilf~~niP--~es~~e~l~~lf~qf~g~kei---r~i~~--------~~~iAfve~~~d~~a~~a~~~lq~~~it  209 (221)
T KOG4206|consen  143 APPNNILFLTNIP--SESESEMLSDLFEQFPGFKEI---RLIPP--------RSGIAFVEFLSDRQASAAQQALQGFKIT  209 (221)
T ss_pred             CCCceEEEEecCC--cchhHHHHHHHHhhCccccee---EeccC--------CCceeEEecchhhhhHHHhhhhccceec
Confidence            3467778887765  344456666666555555444   33322        2378999999999999999999987665


Q ss_pred             -CeEEEEEec
Q 016857          352 -GRVVRATFY  360 (381)
Q Consensus       352 -GR~V~a~fy  360 (381)
                       ..++++.|.
T Consensus       210 ~~~~m~i~~a  219 (221)
T KOG4206|consen  210 KKNTMQITFA  219 (221)
T ss_pred             cCceEEeccc
Confidence             677777765

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=81.38  E-value=1  Score=44.76  Aligned_cols=75  Identities=24%  Similarity=0.261  Sum_probs=60.0

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecccccccccccCC
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAP  372 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~ee~F~~~~l~p  372 (381)
                      ++||++++..+|.|.+|.++.....+   ...|+.||.|....++.+|+.. +.+..+|+.+...+-.......+.+.+
T Consensus       199 ~d~~~~~~~~~~~i~~~r~~~~~~s~---~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  273 (285)
T KOG4210|consen  199 RDDLKEHFVSSGEITSVRLPTDEESG---DSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPKSDGGLFG  273 (285)
T ss_pred             hHHHhhhccCcCcceeeccCCCCCcc---chhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCccccccccc
Confidence            35666888999999999998765543   4678999999999999999999 999999999988887666555444443

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

Probab=81.22  E-value=6.6  Score=40.84  Aligned_cols=78  Identities=17%  Similarity=0.256  Sum_probs=57.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+..|+.+-. ++...+.   .+-|...+..||.|++|..++-.        .|.+.|+..|...-++|+..||+-..-|
T Consensus       285 ~~g~VmMVyG-Ldh~k~N---~drlFNl~ClYGNV~rvkFmkTk--------~gtamVemgd~~aver~v~hLnn~~lfG  352 (494)
T KOG1456|consen  285 APGCVMMVYG-LDHGKMN---CDRLFNLFCLYGNVERVKFMKTK--------PGTAMVEMGDAYAVERAVTHLNNIPLFG  352 (494)
T ss_pred             CCCcEEEEEe-ccccccc---hhhhhhhhhhcCceeeEEEeecc--------cceeEEEcCcHHHHHHHHHHhccCcccc
Confidence            3556665544 2222221   23455667899999999998743        3789999999999999999999998888


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      ..|.+.+...
T Consensus       353 ~kl~v~~SkQ  362 (494)
T KOG1456|consen  353 GKLNVCVSKQ  362 (494)
T ss_pred             ceEEEeeccc
Confidence            8888877643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	381
2pe8_A	105	Crystal Structure Of The Uhm Domain Of Human Spf45		9e-21
3dxb_A	222	Structure Of The Uhm Domain Of Puf60 Fused To Thior		7e-11
2dny_A	119	Solution Structure Of The Third Rna Binding Domain		5e-10
3ue2_A	118	Crystal Structure Of A Rna Binding Domain Of Poly-U		3e-09

>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free Form) Length = 105

Iteration: 1
 Score = 97.8 bits (242), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 48/98 (48%), Positives = 63/98 (64%), Gaps = 2/98 (2%)
Query: 274 PTRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFE 333
           PT+V+LLRNM                 C KYG V + +IFEI  P  P DEAVRIF++FE
Sbjct: 7   PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PGAPDDEAVRIFLEFE 64
Query: 334 RSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           R E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA
Sbjct: 65  RVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLA 102

>pdb|3DXB|A Chain A, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin Length = 222

Iteration: 1
 Score = 65.1 bits (157), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 36/100 (36%), Positives = 56/100 (56%), Gaps = 5/100 (5%)
Query: 275 TRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V++LRNM                 C K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 124 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 181
Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 182 FSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 221

>pdb|2DNY|A Chain A, Solution Structure Of The Third Rna Binding Domain Of Fbp- Interacting Repressor, Siahbp1 Length = 119

Iteration: 1
 Score = 62.0 bits (149), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 35/98 (35%), Positives = 54/98 (55%), Gaps = 1/98 (1%)
Query: 275 TRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEA-VRIFVQFE 333
           + V++LRNM                 C K+G V RV+I++  +      E  V+IFV+F 
Sbjct: 15  STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFS 74
Query: 334 RSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
            + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 75  IASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 112

>pdb|3UE2|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U Binding Splicing Factor 60kda (Puf60) From Homo Sapiens At 1.23 A Resolution Length = 118

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 35/100 (35%), Positives = 54/100 (54%), Gaps = 5/100 (5%)
Query: 275 TRVLLLRNMXXXXXXXXXXXXXXXXXCAKYGTVTRVLIFEITEPNFPVDEA---VRIFVQ 331
           + V +LRN                  C K+G V RV+I++  E     ++A   V+IFV+
Sbjct: 20  STVXVLRNXVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQ--EKQGEEEDAEIIVKIFVE 77
Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
           F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 78  FSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 117

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	381
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	8e-40
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	2e-35
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	1e-34
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	1e-31
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	1e-29
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	6e-29
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	3e-20
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	9e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	2e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	7e-05
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	1e-04
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	1e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	3e-04
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	4e-04
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	6e-04
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	6e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	7e-04
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	7e-04
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	8e-04

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} PDB: 3us5_A 2dny_A Length = 118

 Score =  136 bits (344), Expect = 8e-40
 Identities = 45/117 (38%), Positives = 70/117 (59%), Gaps = 1/117 (0%)

Query: 256 ASENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEI 315
            S + +   V         + V++LRNMV P ++DD+LE EV  EC K+G V RV+I++ 
Sbjct: 1   GSGSSARHMVMQKLLRKQESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQE 60

Query: 316 TE-PNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
            +      +  V+IFV+F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 61  KQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 117

>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 =  124 bits (313), Expect = 2e-35
 Identities = 36/104 (34%), Positives = 50/104 (48%), Gaps = 6/104 (5%)

Query: 272 GPPTRVLLLRNMVGPGEVDD-----ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAV 326
           G PT VL L NMV P E+ D     E+ ++V  EC+KYG V  + I         V    
Sbjct: 2   GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPR-PVDGVEVPGCG 60

Query: 327 RIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNEL 370
           +IFV+F       KA+  L GR F  RVV   + D + + + + 
Sbjct: 61  KIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRRDF 104

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A Length = 105

 Score =  122 bits (308), Expect = 1e-34
 Identities = 58/103 (56%), Positives = 75/103 (72%), Gaps = 2/103 (1%)

Query: 270 FNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIF 329
               PT+V+LLRNMVG GEVD++LE E   EC KYG V + +IFEI  P  P DEAVRIF
Sbjct: 3   MGKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI--PGAPDDEAVRIF 60

Query: 330 VQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAP 372
           ++FER E   KA++DL+GR+FGGRVV+A FY+ ++F   +LA 
Sbjct: 61  LEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLAE 103

>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 =  114 bits (288), Expect = 1e-31
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 12/98 (12%)

Query: 274 PTRVLLLRNMVGPGEVDD-----ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI 328
            T+   L NM  P   ++     E++D+V  EC K+G V  + + + +           +
Sbjct: 6   ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSA-------QGNV 58

Query: 329 FVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFS 366
           +V+         A+  L GR+F G+++ A +     + 
Sbjct: 59  YVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYH 96

>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 =  109 bits (275), Expect = 1e-29
 Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 14/105 (13%)

Query: 274 PTRVLLLRNMVGPGEVDD------ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVR 327
             RV++++NM  P + +D      E+ +++  EC+K+G + ++L+F              
Sbjct: 14  HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLF-------DRHPDGV 66

Query: 328 IFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD-EERFSKNELA 371
             V F   E+    +  LDGR+FGGR + A  +D    +     +
Sbjct: 67  ASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQSGPSS 111

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, alternative splicing, FBP interacting repressor, RRM, electron transport; 2.20A {Escherichia coli O157} Length = 222

 Score =  111 bits (278), Expect = 6e-29
 Identities = 44/107 (41%), Positives = 68/107 (63%), Gaps = 1/107 (0%)

Query: 266 KSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIF-EITEPNFPVDE 324
            ++  +   + V++LRNMV P ++DD+LE EV  EC K+G V RV+I+ E        + 
Sbjct: 115 ANLAGSAMESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEI 174

Query: 325 AVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELA 371
            V+IFV+F  + +T KA+  L+GR+F GR V A  YD+ERF  ++L+
Sbjct: 175 IVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNSDLS 221

>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 Length = 104

 Score = 83.8 bits (207), Expect = 3e-20
 Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 8/96 (8%)

Query: 269 NFNGPPTRVLLLRNMVGPGEV----DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDE 324
           N          LR+ V   E+    D+  E+       KYG V  + + +    N     
Sbjct: 12  NPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCD----NLGDHL 67

Query: 325 AVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY 360
              ++V+F R E   KA+IDL+ R+F G+ + A   
Sbjct: 68  VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS 103

>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 = 51.8 bits (124), Expect = 9e-09
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 5/93 (5%)

Query: 271 NGPPTRVLLLRNMVG----PGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAV 326
           +G   RV+  +N+V        + D    +      K+G + +V+I   T        + 
Sbjct: 6   SGASVRVVQ-KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSA 64

Query: 327 RIFVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
             +V + RSE   +A+  ++     GR ++A+ 
Sbjct: 65  SAYVTYIRSEDALRAIQCVNNVVVDGRTLKASL 97

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.5 bits (117), Expect = 1e-06
 Identities = 57/380 (15%), Positives = 109/380 (28%), Gaps = 109/380 (28%)

Query: 68  PHSSPAIAPSPD--DAAALPQPALVGVTSTVIEEYDP--ARPNDYEDYRR------EKKK 117
                A   + D  D   +P+  L   +    EE D      +      R       K++
Sbjct: 23  SVFEDAFVDNFDCKDVQDMPKSIL---SK---EEIDHIIMSKDAVSGTLRLFWTLLSKQE 76

Query: 118 KAVDAEIRREL--------ERRRQEGEER--------ERREREERENASASRLNMS-GEE 160
           + V   +   L           + E  +         E+R+R   +N   ++ N+S  + 
Sbjct: 77  EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136

Query: 161 AWKRRAAMSSGGVPPRSPSPPPVNVESGGGGGGFTIGKSETSGLGLGAGGQMTAAQRMMA 220
             K R A+         P+   V ++   G  G   GK+    + L          +M  
Sbjct: 137 YLKLRQALLE-----LRPAKN-VLID---GVLGS--GKTW---VALDVCLSYKVQCKMDF 182

Query: 221 KMGW-------------KEGQGLGRQEQGITTPLMARKTDRRAGVIVNASENKSEKK--V 265
           K+ W             +  Q L  Q   I     +R +D  + + +     ++E +  +
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQ---IDPNWTSR-SDHSSNIKLRIHSIQAELRRLL 238

Query: 266 KSVNFNGPPTRVLL-LRNMVGPGEV-DDELEDEVGSEC-----AKYGTVTRVLIFEIT-- 316
           KS  +       LL L N      V + +  +     C      ++  VT  L    T  
Sbjct: 239 KSKPYE----NCLLVLLN------VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH 288

Query: 317 ------EPNFPVDEAVRIFVQF------ERSEQTTKA---LIDLDGRFFGGRVVRATFYD 361
                       DE   + +++      +   +        + +        +     + 
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 362 EERFSK---------NELAP 372
                K         N L P
Sbjct: 349 HVNCDKLTTIIESSLNVLEP 368

>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 = 42.2 bits (100), Expect = 2e-05
 Identities = 17/94 (18%), Positives = 39/94 (41%), Gaps = 17/94 (18%)

Query: 271 NGPPTRVLLLRNMVGPGEV-DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI- 328
              P   + + N+    ++  DEL+  + +  +++G +  +L          V  ++++ 
Sbjct: 4   ETRPNHTIYINNL--NEKIKKDELKKSLHAIFSRFGQILDIL----------VSRSLKMR 51

Query: 329 ---FVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
              FV F+     T AL  + G  F  + +R  +
Sbjct: 52  GQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 85

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 40.3 bits (95), Expect = 7e-05
 Identities = 17/84 (20%), Positives = 31/84 (36%), Gaps = 14/84 (16%)

Query: 273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQF 332
            PT  L +  + GP      L  E      ++G++  +    +   +F    A   ++Q+
Sbjct: 15  NPTTRLWVGGL-GPNTSLAALAREFD----RFGSIRTIDH--VKGDSF----A---YIQY 60

Query: 333 ERSEQTTKALIDLDGRFFGGRVVR 356
           E  +    A   + G   GG   R
Sbjct: 61  ESLDAAQAACAKMRGFPLGGPDRR 84

>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 = 40.0 bits (94), Expect = 1e-04
 Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 8/90 (8%)

Query: 267 SVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAV 326
             +   P   V+ ++NM  P  V     DE+      Y  +   +  +  E   P  EA 
Sbjct: 7   GSSSGKPGPTVIKVQNM--PFTVS---IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEA- 60

Query: 327 RIFVQFERSEQTTKALIDLDGRFFGGRVVR 356
              V FE  ++ T A+IDL+ R  G R V+
Sbjct: 61  --MVAFESRDEATAAVIDLNDRPIGSRKVK 88

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 41.8 bits (98), Expect = 1e-04
 Identities = 23/115 (20%), Positives = 40/115 (34%), Gaps = 19/115 (16%)

Query: 257 SENKSEKKVKSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEIT 316
                +   K+     PP+  L L N+  P  V    E+++    +  G V +   F   
Sbjct: 102 LHRFKKPGSKNFQNIFPPSATLHLSNI--PPSVS---EEDLKVLFSSNGGVVKGFKFFQK 156

Query: 317 EPNFPVDEAVRIFVQFERSEQTTKALIDLDG-RFFGGRVVRATFYDEERFSKNEL 370
           +            +Q    E+  +ALIDL          +R +      FSK+ +
Sbjct: 157 DRKM-------ALIQMGSVEEAVQALIDLHNHDLGENHHLRVS------FSKSTI 198

>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 = 41.6 bits (97), Expect = 2e-04
 Identities = 15/109 (13%), Positives = 35/109 (32%), Gaps = 12/109 (11%)

Query: 272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQ 331
           G  + VL++  +    +++    D V +    YG V +V   +         +     V+
Sbjct: 1   GADSPVLMVYGLD-QSKMN---CDRVFNVFCLYGNVEKVKFMK--------SKPGAAMVE 48

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNELAPLPGEIPGF 380
                   +A+  L+  F  G+ +      +      +   L      +
Sbjct: 49  MADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSY 97

>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 = 41.5 bits (97), Expect = 2e-04
 Identities = 25/127 (19%), Positives = 46/127 (36%), Gaps = 14/127 (11%)

Query: 235 QGITTPLMARKTDRRAGVIVNASENKSEK-KVKSVNFNGPPTRVLLLRNMVGPGEVDDEL 293
           Q +  P   ++         N+  ++ +K   K+     PP+  L L N+  P  V    
Sbjct: 110 QNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNI--PPSVS--- 164

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG-RFFGG 352
           E+++    +  G V +   F   +            +Q    E+  +ALIDL        
Sbjct: 165 EEDLKVLFSSNGGVVKGFKFFQKDRKM-------ALIQMGSVEEAVQALIDLHNHDLGEN 217

Query: 353 RVVRATF 359
             +R +F
Sbjct: 218 HHLRVSF 224

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 39.5 bits (92), Expect = 3e-04
 Identities = 16/90 (17%), Positives = 39/90 (43%), Gaps = 9/90 (10%)

Query: 271 NGPPTRVLLLRNMVGPGEV-DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIF 329
           +  P++V+L+ N+    EV  ++L+  + +  +  G +  +++    + +    +A   +
Sbjct: 25  HTEPSQVVLITNI--NPEVPKEKLQALLYALASSQGDILDIVVDLSDDNS---GKA---Y 76

Query: 330 VQFERSEQTTKALIDLDGRFFGGRVVRATF 359
           + F   E     +    G  F G  +  TF
Sbjct: 77  IVFATQESAQAFVEAFQGYPFQGNPLVITF 106

>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 = 38.9 bits (91), Expect = 4e-04
 Identities = 18/92 (19%), Positives = 35/92 (38%), Gaps = 13/92 (14%)

Query: 274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPN-FPVDEAVRIFVQF 332
             R+L +RN+  P ++     +E+     KYG + ++ +    E            +V +
Sbjct: 7   VNRILYIRNL--PYKIT---AEEMYDIFGKYGPIRQIRVGNTPETRGTA-------YVVY 54

Query: 333 ERSEQTTKALIDLDGRFFGGRVVRATFYDEER 364
           E       A+  L G     R +   +Y+  R
Sbjct: 55  EDIFDAKNAVDHLSGFNVSNRYLVVLYYNANR 86

>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 = 38.4 bits (90), Expect = 4e-04
 Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 13/68 (19%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI-----FVQFERSEQTTKALIDLDGR 348
           E+++    + YG ++ +          P+D   +      FV F   E   KA  ++DG+
Sbjct: 22  EEDLEKLFSAYGPLSELHY--------PIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQ 73

Query: 349 FFGGRVVR 356
            F GR++ 
Sbjct: 74  VFQGRMLH 81

>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 = 38.2 bits (89), Expect = 6e-04
 Identities = 13/106 (12%), Positives = 35/106 (33%), Gaps = 16/106 (15%)

Query: 266 KSVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEA 325
              +     + V+ +R +     V    E ++     K+GT+  V++             
Sbjct: 6   SGSHHKVSVSPVVHVRGL--CESVV---EADLVEALEKFGTICYVMMMP---------FK 51

Query: 326 VRIFVQFERSEQTTKAL--IDLDGRFFGGRVVRATFYDEERFSKNE 369
            +  V+FE  +   + +        +  G+     +   +R ++  
Sbjct: 52  RQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRITRPG 97

>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 = 37.9 bits (88), Expect = 6e-04
 Identities = 19/93 (20%), Positives = 35/93 (37%), Gaps = 16/93 (17%)

Query: 269 NFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI 328
             +G P+RVL +R +  PGEV    E EV +    +G VT +L+         +    + 
Sbjct: 9   KMDGAPSRVLHIRKL--PGEVT---ETEVIALGLPFGKVTNILM---------LKGKNQA 54

Query: 329 FVQFERSEQTTKAL--IDLDGRFFGGRVVRATF 359
           F++    E     +            + +   +
Sbjct: 55  FLELATEEAAITMVNYYSAVTPHLRNQPIYIQY 87

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 38.1 bits (89), Expect = 7e-04
 Identities = 16/92 (17%), Positives = 27/92 (29%), Gaps = 18/92 (19%)

Query: 273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRI---- 328
            P + +    +     V    E  +   C KYG V  V I         +    R     
Sbjct: 4   IPLKEVTFARL--NDNVR---ETFLKDMCRKYGEVEEVEI--------LLHPRTRKHLGL 50

Query: 329 -FVQFERSEQTTKALIDLDGRFFGGRVVRATF 359
             V F  +    + + +L      G ++ A  
Sbjct: 51  ARVLFTSTRGAKETVKNLHLTSVMGNIIHAQL 82

>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 = 37.6 bits (88), Expect = 7e-04
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 9/63 (14%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E+E+     KYG    V I    +  F        F++ E       A ++LD     G+
Sbjct: 29  EEEMRKLFEKYGKAGEVFI--HKDKGFG-------FIRLETRTLAEIAKVELDNMPLRGK 79

Query: 354 VVR 356
            +R
Sbjct: 80  QLR 82

>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 = 37.3 bits (87), Expect = 8e-04
 Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 8/90 (8%)

Query: 267 SVNFNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAV 326
             +   P   ++ ++NM  P  V     DE+      Y  +   +  +  E   P  EA 
Sbjct: 7   GASSGKPGPTIIKVQNM--PFTVS---IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEA- 60

Query: 327 RIFVQFERSEQTTKALIDLDGRFFGGRVVR 356
              V FE  ++ T A+IDL+ R  G R V+
Sbjct: 61  --MVAFESRDEATAAVIDLNDRPIGSRKVK 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	381
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.92
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.91
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.9
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.87
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.78
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.71
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.67
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.25
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.23
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.2
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.2
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.19
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.19
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.19
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.18
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.18
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.18
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.17
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.15
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.14
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.14
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.13
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.13
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.13
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.12
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.12
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.12
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.11
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.11
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.11
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.11
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.1
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.1
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.1
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.1
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.1
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.1
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.09
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.09
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.09
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.09
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.09
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.09
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.08
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.08
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.08
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.07
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.07
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.07
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.07
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.06
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.06
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.06
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.06
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.06
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.06
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.05
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.05
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.05
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.05
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.05
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.05
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.04
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.04
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.04
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.03
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.03
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.03
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.03
2div_A	99	TRNA selenocysteine associated protein; structural	99.02
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.02
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.02
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.02
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.02
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.02
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.01
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.01
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.01
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.0
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.0
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.0
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	98.99
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.99
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	98.99
1x5p_A	97	Negative elongation factor E; structure genomics,	98.99
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.99
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.98
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	98.98
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	98.98
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.98
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.97
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	98.97
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	98.97
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.96
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.96
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.96
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	98.96
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.96
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	98.95
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	98.95
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	98.95
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	98.95
1x4e_A	85	RNA binding motif, single-stranded interacting pro	98.95
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	98.94
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.93
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	98.93
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	98.93
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	98.93
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.92
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	98.92
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.92
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	98.92
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	98.92
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	98.92
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	98.91
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	98.91
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.9
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.9
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.9
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	98.89
2dis_A	109	Unnamed protein product; structural genomics, RRM	98.89
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.88
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	98.88
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.88
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.88
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.87
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	98.87
1x5o_A	114	RNA binding motif, single-stranded interacting pro	98.86
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	98.86
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.86
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.86
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.86
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	98.85
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.85
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	98.85
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	98.84
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	98.84
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.83
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.83
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	98.83
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	98.83
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	98.82
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	98.82
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	98.82
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	98.82
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.82
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	98.82
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.81
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.81
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	98.81
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.81
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.8
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	98.8
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.8
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	98.79
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.78
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.78
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.77
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.77
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	98.77
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.76
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.76
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.76
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.76
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	98.75
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.75
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.73
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.73
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	98.71
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	98.71
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.71
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.71
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.16
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.7
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.68
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.68
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	98.68
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.66
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.66
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	98.66
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	98.65
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.64
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.64
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.62
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	98.61
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.59
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.58
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.56
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.56
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.55
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.53
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.49
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.48
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.46
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.46
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.44
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.43
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.43
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.43
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.42
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.41
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.39
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.28
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	98.27
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.18
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	97.76
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.65
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	96.89
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	95.34
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	93.49
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	86.35
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	82.77

>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=99.92  E-value=3e-25  Score=188.74  Aligned_cols=99  Identities=43%  Similarity=0.797  Sum_probs=89.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCC-CCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPN-FPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~-~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .||+||+|+|||+++|+++||++||++||+|||.|.+|.|+++.... ....++|++||+|.+.++|.+|+..||||+|+
T Consensus        18 ~ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~   97 (118)
T 3ue2_A           18 QESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA   97 (118)
T ss_dssp             HSCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC
Confidence            48999999999999999999999999999999999999999875421 11245799999999999999999999999999


Q ss_pred             CeEEEEEecccccccccccC
Q 016857          352 GRVVRATFYDEERFSKNELA  371 (381)
Q Consensus       352 GR~V~a~fy~ee~F~~~~l~  371 (381)
                      ||.|+|.||++++|.+++|.
T Consensus        98 GR~i~v~~~~~~~f~~~~~~  117 (118)
T 3ue2_A           98 GRKVVAEVYDQERFDNSDLS  117 (118)
T ss_dssp             TEECEEEEECHHHHHTTCCC
T ss_pred             CcEEEEEEcChHhccccccC
Confidence            99999999999999999874

>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=99.91  E-value=1.8e-24  Score=179.70  Aligned_cols=99  Identities=36%  Similarity=0.575  Sum_probs=88.5

Q ss_pred             CCCCceEEEEecccCCCCChh-----hHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          271 NGPPTRVLLLRNMVGPGEVDD-----ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       271 ~g~pSrVVvL~NMv~~~El~d-----ELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      +|.||+||+|+|||+++++.+     +|++||+++|+|||.|.+|.|+++.... .....|++||+|.+.++|.+|+..|
T Consensus         1 ~g~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~-~~~~~G~~fV~f~~~~~A~~Ai~~l   79 (105)
T 3v4m_A            1 GGHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGV-EVPGCGKIFVEFTSVFDCQKAMQGL   79 (105)
T ss_dssp             CCSCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTB-CCTTTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCC-CcCCcEEEEEEECCHHHHHHHHHHh
Confidence            367999999999999998864     5889999999999999999999765321 1246899999999999999999999


Q ss_pred             CCCeeCCeEEEEEeccccccccccc
Q 016857          346 DGRFFGGRVVRATFYDEERFSKNEL  370 (381)
Q Consensus       346 nGR~F~GR~V~a~fy~ee~F~~~~l  370 (381)
                      |||+|+||.|+|.|+++++|.++++
T Consensus        80 nG~~f~GR~i~v~~~~~~~f~~~~~  104 (105)
T 3v4m_A           80 TGRKFANRVVVTKYCDPDSYHRRDF  104 (105)
T ss_dssp             TTCEETTEECEEEEECHHHHHTTCC
T ss_pred             CCCEeCCCEEEEEEeCHHHHhhccC
Confidence            9999999999999999999998875

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.90  E-value=1e-23  Score=175.32  Aligned_cols=102  Identities=56%  Similarity=0.962  Sum_probs=90.3

Q ss_pred             CCCCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          270 FNGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       270 ~~g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      +.+.+|+||+|+||++++++++++++||+++|++||.|.+|.|+++...  .....|++||+|.+.++|.+|+..||||+
T Consensus         3 i~~~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~--~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~   80 (105)
T 2pe8_A            3 MGKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGA--PDDEAVRIFLEFERVESAIKAVVDLNGRY   80 (105)
T ss_dssp             GGGSCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSC--CTTTSEEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCCCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCC--CCCCcEEEEEEECCHHHHHHHHHHHCCCE
Confidence            3457999999999999999999999999999999999999999986432  12468999999999999999999999999


Q ss_pred             eCCeEEEEEecccccccccccCCC
Q 016857          350 FGGRVVRATFYDEERFSKNELAPL  373 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F~~~~l~p~  373 (381)
                      |+||.|.|.|+++++|..++|.|.
T Consensus        81 ~~Gr~i~v~~a~~~~f~~~~~~~~  104 (105)
T 2pe8_A           81 FGGRVVKACFYNLDKFRVLDLAEQ  104 (105)
T ss_dssp             ETTEECEEEECCHHHHHTTCCCCC
T ss_pred             ECCcEEEEEEcCHHHhhhhhcccC
Confidence            999999999999999999999885

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=99.87  E-value=2.1e-22  Score=170.40  Aligned_cols=89  Identities=25%  Similarity=0.442  Sum_probs=81.6

Q ss_pred             CCceEEEEecccCCCCC-----hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCC
Q 016857          273 PPTRVLLLRNMVGPGEV-----DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG  347 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El-----~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnG  347 (381)
                      .||+||+|+|||+++|+     ++||++||+++|+|||.|.+|.|+++.       ..|++||+|.+.++|.+|++.|||
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~-------~~G~~fV~f~~~e~A~~Ai~~lnG   77 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS-------AQGNVYVKCPSIAAAIAAVNALHG   77 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC-------TTCCEEEECSSHHHHHHHHHHHTT
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC-------CcEEEEEEECCHHHHHHHHHHhCC
Confidence            48999999999999874     468999999999999999999997642       379999999999999999999999


Q ss_pred             CeeCCeEEEEEeccccccccc
Q 016857          348 RFFGGRVVRATFYDEERFSKN  368 (381)
Q Consensus       348 R~F~GR~V~a~fy~ee~F~~~  368 (381)
                      |+|+||.|+|.|++++.|...
T Consensus        78 ~~f~GR~i~v~~~~~~~y~~~   98 (114)
T 3s6e_A           78 RWFAGKMITAAYVPLPTYHNL   98 (114)
T ss_dssp             CEETTEECEEEEECHHHHHHH
T ss_pred             CEECCEEEEEEEEcHHHHHHh
Confidence            999999999999999998764

>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=99.78  E-value=4.5e-19  Score=162.04  Aligned_cols=100  Identities=43%  Similarity=0.784  Sum_probs=90.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCC-CCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNF-PVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~-~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      ...++|++|.||+++.++++++++||++||++||.|.+|.|+++...+. ....+|++||+|.+.++|.+|+..||||+|
T Consensus       121 ~~~s~v~~l~n~v~~~e~~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~  200 (222)
T 3dxb_A          121 AMESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWF  200 (222)
T ss_dssp             CCBCSEEEEESSCCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBS
T ss_pred             ccccccchhhcCCCHHHHHHHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceE
Confidence            4578999999999999999999999999999999999999998754421 235789999999999999999999999999


Q ss_pred             CCeEEEEEecccccccccccC
Q 016857          351 GGRVVRATFYDEERFSKNELA  371 (381)
Q Consensus       351 ~GR~V~a~fy~ee~F~~~~l~  371 (381)
                      +||.|.|.||++++|++++|.
T Consensus       201 ~gr~i~~~~~~~~~f~~~~~~  221 (222)
T 3dxb_A          201 AGRKVVAEVYDQERFDNSDLS  221 (222)
T ss_dssp             SSSBCEEEECCHHHHHTTCCC
T ss_pred             CCeEEEEEEcCHHHhhhcccC
Confidence            999999999999999998874

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.71  E-value=3e-17  Score=135.69  Aligned_cols=83  Identities=30%  Similarity=0.495  Sum_probs=71.3

Q ss_pred             ceEEEEeccc-CCCCC-------------------hhhHHHHHHHHH-hccCCeeEEEEeeeCCCCCCCCCceEEEEEeC
Q 016857          275 TRVLLLRNMV-GPGEV-------------------DDELEDEVGSEC-AKYGTVTRVLIFEITEPNFPVDEAVRIFVQFE  333 (381)
Q Consensus       275 SrVVvL~NMv-~~~El-------------------~dELeeDI~EEC-sKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~  333 (381)
                      |+||+|+||+ ++...                   .+++++||+++| ++||.|.+|.|+++..    ....|++||+|.
T Consensus         1 s~~~~l~nm~~~p~~~~~~~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~----~~~~G~~fV~f~   76 (104)
T 1jmt_A            1 SQTIALLNIYRNPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG----DHLVGNVYVKFR   76 (104)
T ss_dssp             CCEEEEEEEEECCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS----SSSEEEEEEEES
T ss_pred             CcEEEEeeccCCccccccccCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC----CCccEEEEEEEC
Confidence            6899999999 45421                   135779999999 9999999999987542    256899999999


Q ss_pred             CHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          334 RSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       334 d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      +.++|.+|+..|||++|+||.|.|.|++
T Consensus        77 ~~~~A~~A~~~lng~~~~Gr~i~v~~sp  104 (104)
T 1jmt_A           77 REEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             CHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             CHHHHHHHHHHHCCCEECCEEEEEEEcC
Confidence            9999999999999999999999999874

>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=99.67  E-value=1.7e-16  Score=131.35  Aligned_cols=91  Identities=27%  Similarity=0.607  Sum_probs=79.1

Q ss_pred             CCCceEEEEecccCCCCCh------hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          272 GPPTRVLLLRNMVGPGEVD------DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~------dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      ..+|+||+|+||+++.++.      +++++||+++|++||.|.+|.|...       ...|++||+|.+.++|.+|+..|
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~-------~~~G~afV~f~~~~~A~~Ai~~l   84 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR-------HPDGVASVSFRDPEEADYCIQTL   84 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT-------CTTCEEEEECSCHHHHHHHHHHS
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecC-------CCCEEEEEEECCHHHHHHHHHHc
Confidence            4589999999999998754      4589999999999999999987421       25799999999999999999999


Q ss_pred             CCCeeCCeEEEEEeccc-ccccccc
Q 016857          346 DGRFFGGRVVRATFYDE-ERFSKNE  369 (381)
Q Consensus       346 nGR~F~GR~V~a~fy~e-e~F~~~~  369 (381)
                      ||+.|+||.|.+.|+.. .+|..++
T Consensus        85 ng~~~~gr~l~v~~a~~~~~~~~~~  109 (112)
T 2dit_A           85 DGRWFGGRQITAQAWDGTTDYQSGP  109 (112)
T ss_dssp             TTCEETTEECEEEECCSCCCSSCCC
T ss_pred             CCCEECCcEEEEEEeCCCCCcccCC
Confidence            99999999999999876 6776554

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.25  E-value=5.3e-11  Score=98.77  Aligned_cols=82  Identities=18%  Similarity=0.226  Sum_probs=70.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         4 ~p~~~lfV~nL~~--~~t---e~~L~~~F~~~G~i~~v~i~~d~~tg---~~rG~aFV~f~~~~~A~~Ai~~lng~~~~g   75 (110)
T 3s8s_A            4 IPLKEVTFARLND--NVR---ETFLKDMCRKYGEVEEVEILLHPRTR---KHLGLARVLFTSTRGAKETVKNLHLTSVMG   75 (110)
T ss_dssp             SCCCEEEEESCCT--TCC---HHHHHHHHTTTSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEECCCC--CCC---HHHHHHHHHhcCCeeEEEEEECCCCC---ceeeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            4788999999742  222   56788999999999999999865433   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|.+.+...
T Consensus        76 r~i~V~~a~~   85 (110)
T 3s8s_A           76 NIIHAQLDIK   85 (110)
T ss_dssp             EECEEEECST
T ss_pred             eEEEEEECCC
Confidence            9999999865

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.23  E-value=1.9e-11  Score=98.91  Aligned_cols=90  Identities=12%  Similarity=0.114  Sum_probs=75.3

Q ss_pred             CceEEEEecccCCCCCh-hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEVD-DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~-dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++|++.|+-...+.. +-.+++|++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg---~~kG~afV~f~~~~~A~~Ai~~lng~~~~g   81 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATG---KTKGFLFVECGSMNDAKKIIKSFHGKRLDL   81 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTT---EECSEEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCC---ccceEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            47899999986433333 56788999999999999999999876533   467999999999999999999999999999


Q ss_pred             -eEEEEEeccc-cccc
Q 016857          353 -RVVRATFYDE-ERFS  366 (381)
Q Consensus       353 -R~V~a~fy~e-e~F~  366 (381)
                       |.|.+.++.. ++|.
T Consensus        82 ~r~l~V~~a~~~~~~~   97 (100)
T 3ns6_A           82 KHRLFLYTMKDVERYN   97 (100)
T ss_dssp             SCBCEEEESHHHHHHH
T ss_pred             CeEEEEEECchhhhhh
Confidence             9999999864 4554

>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=99.20  E-value=9.4e-11  Score=93.35  Aligned_cols=83  Identities=19%  Similarity=0.390  Sum_probs=69.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      |++.|++.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         1 P~~~l~V~nLp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   72 (96)
T 2x1f_A            1 PSRVVYLGSIPY--DQT---EEQILDLCSNVGPVINLKMMFDPQTG---RSKGYAFIEFRDLESSASAVRNLNGYQLGSR   72 (96)
T ss_dssp             CCSEEEEESCCT--TCC---HHHHHHHHHTTSCEEEEECCBCTTTC---CBCSEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCcEEEEECCCC--CCC---HHHHHHHHHhcCCEEEEEEEeCCCCC---ccceEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            578999999742  222   56788999999999999998764432   4679999999999999999999999999999


Q ss_pred             EEEEEeccccc
Q 016857          354 VVRATFYDEER  364 (381)
Q Consensus       354 ~V~a~fy~ee~  364 (381)
                      .|.+.|.....
T Consensus        73 ~l~V~~a~~~~   83 (96)
T 2x1f_A           73 FLKCGYSSNSD   83 (96)
T ss_dssp             ECEEEECSCSS
T ss_pred             EEEEEEcCCCC
Confidence            99999987643

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

Probab=99.20  E-value=7.8e-11  Score=95.95  Aligned_cols=90  Identities=16%  Similarity=0.311  Sum_probs=72.5

Q ss_pred             CCCceEEEEecccCCC-CChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          272 GPPTRVLLLRNMVGPG-EVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~-El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      ...++.|++.|+-... +-.+..+++|++.|++||.|.+|.|++.  .   ....|++||+|.+.++|.+|+..|||..|
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~--~---g~~~G~afV~f~~~~~A~~Ai~~l~g~~~   86 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEE--D---GKTKGYIFLEYASPAHAVDAVKNADGYKL   86 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCB--T---TBSCCEEEEEECSSSHHHHHHHHCSSEEC
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCC--C---CCeeeEEEEEECCHHHHHHHHHHhCCccc
Confidence            3467899999976321 1122378999999999999999999832  2   24679999999999999999999999999


Q ss_pred             CCe-EEEEEeccc-cccc
Q 016857          351 GGR-VVRATFYDE-ERFS  366 (381)
Q Consensus       351 ~GR-~V~a~fy~e-e~F~  366 (381)
                      +|| .|.+.++.. ++|.
T Consensus        87 ~g~~~l~V~~a~~~~k~~  104 (105)
T 2nlw_A           87 DKQHTFRVNLFTDFDKYM  104 (105)
T ss_dssp             STTCEEEEECSCCCCCCC
T ss_pred             CCCceEEEEEcchHhhhc
Confidence            999 999999864 5553

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.19  E-value=1.2e-10  Score=91.94  Aligned_cols=82  Identities=21%  Similarity=0.216  Sum_probs=68.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|++.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~v~nlp~~--~t---~~~l~~~f~~~G~v~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   83 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLY--TT---ERDLREVFSKYGPIADVSIVYDQQSR---RSRGFAFVYFENVDDAKEAKERANGMELD   83 (95)
T ss_dssp             CCGGGCEEEESCCSS--CC---HHHHHHHHHTTSCEEEEEEEECSSSS---SEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEECCCCC--CC---HHHHHHHHHhcCCeeEEEEEEcCCCC---CcccEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            347889999997532  22   45788999999999999998764432   45799999999999999999999999999


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      |+.|++.|..
T Consensus        84 g~~l~v~~a~   93 (95)
T 2cqc_A           84 GRRIRVSGPS   93 (95)
T ss_dssp             TEEEEEECCS
T ss_pred             CEEEEEEecC
Confidence            9999999864

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.19  E-value=1.4e-10  Score=91.70  Aligned_cols=82  Identities=20%  Similarity=0.296  Sum_probs=69.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         3 ~~~~~l~v~nlp~~--~---t~~~l~~~f~~~G~v~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (95)
T 2dnz_A            3 SGSSGLYVGSLHFN--I---TEDMLRGIFEPFGKIDNIVLMKDSDTG---RSKGYGFITFSDSECARRALEQLNGFELAG   74 (95)
T ss_dssp             SCCCEEEEESCCTT--C---CHHHHHHHHTTTSCEEEEEEECCSSSC---CCCSEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCEeEEEEeecCCCC---ceeeEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            47889999997432  2   256788999999999999999764432   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.|...
T Consensus        75 ~~l~V~~a~~   84 (95)
T 2dnz_A           75 RPMRVGHVTE   84 (95)
T ss_dssp             SCCEEEESSC
T ss_pred             cEEEEEEccc
Confidence            9999999865

>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=99.19  E-value=1.3e-10  Score=89.85  Aligned_cols=80  Identities=24%  Similarity=0.346  Sum_probs=67.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|++.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         5 ~~~~~l~V~nl~~--~~~---~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   76 (85)
T 3mdf_A            5 TTKRVLYVGGLAE--EVD---DKVLHAAFIPFGDITDIQIPLDYETE---KHRGFAFVEFELAEDAAAAIDNMNESELFG   76 (85)
T ss_dssp             CCSSEEEEECCCT--TCC---HHHHHHHHGGGSCEEEEECCEETTTT---EECSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCC--CCC---HHHHHHHHhccCCEEEEEEEECCCCC---ccccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            4788999999742  222   46888999999999999998764432   457899999999999999999999999999


Q ss_pred             eEEEEEec
Q 016857          353 RVVRATFY  360 (381)
Q Consensus       353 R~V~a~fy  360 (381)
                      +.|++.|.
T Consensus        77 ~~l~v~~a   84 (85)
T 3mdf_A           77 RTIRVNLA   84 (85)
T ss_dssp             EECEEEEC
T ss_pred             cEEEEEEc
Confidence            99999875

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

Probab=99.18  E-value=3.3e-11  Score=93.33  Aligned_cols=76  Identities=17%  Similarity=0.272  Sum_probs=62.8

Q ss_pred             ceEEEEecccCCCCCh---hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          275 TRVLLLRNMVGPGEVD---DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       275 SrVVvL~NMv~~~El~---dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +++|++.|+-  .++.   +..++||++.|++||.|.+|.|++..     ....|++||+|.+.++|.+|+..|||..|+
T Consensus         1 ~~~l~V~nLp--~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~-----g~~~g~afV~f~~~~~A~~Ai~~lng~~~~   73 (81)
T 2krb_A            1 DSVIVVDNVP--QVGPDRLEKLKNVIHKIFSKFGKITNDFYPEED-----GKTKGYIFLEYASPAHAVDAVKNADGYKLD   73 (81)
T ss_dssp             CCEEEEESCC--CCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBT-----TBCCCEEEEEESSHHHHHHHHTTSSSCCCS
T ss_pred             CCEEEEeCCC--CCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCC-----CcEeEEEEEEECCHHHHHHHHHHhcCcccC
Confidence            4688999983  3332   23679999999999999999987421     245799999999999999999999999999


Q ss_pred             Ce-EEEE
Q 016857          352 GR-VVRA  357 (381)
Q Consensus       352 GR-~V~a  357 (381)
                      || .|++
T Consensus        74 g~~~l~V   80 (81)
T 2krb_A           74 KQHTFRV   80 (81)
T ss_dssp             SSSCCCC
T ss_pred             CceeEEe
Confidence            99 8765

>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=99.18  E-value=2.1e-10  Score=88.97  Aligned_cols=80  Identities=14%  Similarity=0.305  Sum_probs=67.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         5 ~~~~l~v~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   76 (87)
T 3bs9_A            5 SHFHVFVGDLSPE--I---TTAAIAAAFAPFGRISDARVVKDMATG---KSKGYGFVSFFNKWDAENAIQQMGGQWLGGR   76 (87)
T ss_dssp             -CEEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CceEEEEeCCCCC--C---CHHHHHHHHHhcCCEeEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            5788999997432  2   256788999999999999999864332   4679999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.|..
T Consensus        77 ~l~v~~a~   84 (87)
T 3bs9_A           77 QIRTNWAT   84 (87)
T ss_dssp             ECEEEEEC
T ss_pred             EEEEEecC
Confidence            99999874

>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=99.18  E-value=1.8e-10  Score=93.55  Aligned_cols=78  Identities=14%  Similarity=0.252  Sum_probs=65.8

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      ..|++.|+-.  ++.   ++||++.|++||.|.+|.|.++...+   ...|++||+|.+.++|.+|+..|||..|+||.|
T Consensus        20 t~lfV~nLp~--~~t---e~~L~~~F~~~G~I~~v~i~~d~~tg---~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l   91 (99)
T 4fxv_A           20 TNLIVNYLPQ--NMT---QDELRSLFSSIGEVESAKLIRDKVAG---HSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI   91 (99)
T ss_dssp             SEEEEESCCT--TCC---HHHHHHHHHTTSCEEEEEEEECSSSC---CEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEEeCCCC--CCC---HHHHHHHHHhcCCEEEeEeeecCCCC---cccccEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3588999742  332   46888999999999999999865433   467999999999999999999999999999999


Q ss_pred             EEEecc
Q 016857          356 RATFYD  361 (381)
Q Consensus       356 ~a~fy~  361 (381)
                      ++.|..
T Consensus        92 ~V~~Ak   97 (99)
T 4fxv_A           92 KVSYAR   97 (99)
T ss_dssp             EEEECC
T ss_pred             EEEEee
Confidence            999863

>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=99.17  E-value=2.2e-10  Score=91.35  Aligned_cols=84  Identities=20%  Similarity=0.282  Sum_probs=70.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus         5 ~~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   76 (99)
T 1whw_A            5 SSGSGRLFVRNLSYT--SS---EEDLEKLFSAYGPLSELHYPIDSLTK---KPKGFAFVTFMFPEHAVKAYAEVDGQVFQ   76 (99)
T ss_dssp             CCSCEEEEEECCCTT--CC---HHHHHHHHHTTSCEEEEECCCCTTTC---CCCSEEEEEESSHHHHHHHHHHTTTEESS
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCEeEEEEEecCCCC---CcCeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            347889999997532  22   45788999999999999998764332   46799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.+....
T Consensus        77 g~~l~V~~a~~~   88 (99)
T 1whw_A           77 GRMLHVLPSTIK   88 (99)
T ss_dssp             SCEEEEEECCCC
T ss_pred             CcEEEEEEcCCC
Confidence            999999998653

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=1.8e-10  Score=90.84  Aligned_cols=80  Identities=18%  Similarity=0.325  Sum_probs=67.2

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-.  ++   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        14 ~~~~~l~V~nlp~--~~---t~~~l~~~f~~~G~v~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   85 (94)
T 2e5h_A           14 PSKSTVYVSNLPF--SL---TNNDLYRIFSKYGKVVKVTIMKDKDTR---KSKGVAFILFLDKDSAQNCTRAINNKQLFG   85 (94)
T ss_dssp             CCTTSEEEESCCT--TS---CHHHHHHHTTTTSCEEEEEECCCSSSC---CCTTCEEEEESCHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEECCCC--CC---CHHHHHHHHHhcCCeEEEEEEeCCCCC---CcccEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            4678899999742  22   256788999999999999998764432   457899999999999999999999999999


Q ss_pred             eEEEEEec
Q 016857          353 RVVRATFY  360 (381)
Q Consensus       353 R~V~a~fy  360 (381)
                      +.|++.|.
T Consensus        86 ~~l~v~~a   93 (94)
T 2e5h_A           86 RVIKASIA   93 (94)
T ss_dssp             EEEEEEEC
T ss_pred             cEEEEEec
Confidence            99999885

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.14  E-value=3.8e-10  Score=92.46  Aligned_cols=84  Identities=13%  Similarity=0.306  Sum_probs=70.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPE--I---TTEDIKAAFAPFGRISDARVVKDMATG---KSKGYGFVSFFNKWDAENAIQQMGGQWLG   83 (115)
T ss_dssp             STTCEEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHTTTCEET
T ss_pred             CCCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEEcCCCC---CcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            347889999997422  2   246788999999999999999764332   46799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        84 g~~l~V~~a~~~   95 (115)
T 2dgo_A           84 GRQIRTNWATRK   95 (115)
T ss_dssp             TEECEEEESSCC
T ss_pred             CEEEEEEEccCC
Confidence            999999998653

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.14  E-value=2.4e-10  Score=91.91  Aligned_cols=83  Identities=12%  Similarity=0.270  Sum_probs=70.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~~--~---t~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   83 (103)
T 2cq0_A           12 ADDNATIRVTNLSED--T---RETDLQELFRPFGSISRIYLAKDKTTG---QSKGFAFISFHRREDAARAIAGVSGFGYD   83 (103)
T ss_dssp             CSSSEEEEEESCCTT--C---CHHHHHTTSTTTCCEEEEEEEECSSSC---SEEEEEEEEESSHHHHHHHHHHTTTCEET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhCCCeEEEEEeecCCCC---ceeeEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            347899999997532  2   246788999999999999998764332   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus        84 g~~l~v~~a~~   94 (103)
T 2cq0_A           84 HLILNVEWAKP   94 (103)
T ss_dssp             TEECEEEESSC
T ss_pred             CcEEEEEECCC
Confidence            99999999865

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

Probab=99.13  E-value=7.5e-11  Score=94.15  Aligned_cols=80  Identities=16%  Similarity=0.247  Sum_probs=65.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccC-CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC-CCeeCC
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYG-TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD-GRFFGG  352 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG-~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln-GR~F~G  352 (381)
                      |++|+|+|+-..  +   -++||++.|++|| .|.+|.|+++...+   ..+|++||+|.+.++|.+|+..|+ +..|+|
T Consensus         1 S~~i~v~nLp~~--~---te~~l~~~F~~~G~~v~~v~i~~d~~t~---~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~g   72 (91)
T 2lxi_A            1 SNIVMLRMLPQA--A---TEDDIRGQLQSHGVQAREVRLMRNKSSG---QSRGFAFVEFSHLQDATRWMEANQHSLNILG   72 (91)
T ss_dssp             CCEEEEETCCSS--C---CHHHHHHHHHHHTCCCSBCCSSSCSSSC---CCSSEEEEECSSHHHHHHHHHTTTTEEEETT
T ss_pred             CCEEEEeCCCCC--C---CHHHHHHHHHHhCCEeEEEEEEecCCCC---CcCceEEEEecCHHHHHHHHHhcCCCeEECC
Confidence            679999997432  2   2568889999999 89999998765433   568999999999999999999885 557999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|.+.|...
T Consensus        73 r~i~V~~a~~   82 (91)
T 2lxi_A           73 QKVSMHYSDP   82 (91)
T ss_dssp             EEEEEECCCS
T ss_pred             EEEEEEEcCC
Confidence            9999999864

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

Probab=99.13  E-value=2e-10  Score=98.21  Aligned_cols=85  Identities=16%  Similarity=0.273  Sum_probs=71.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|++.|+-. .--.++|+++|.+.|++||.|.+|.|...      ....|++||+|.+.++|.+|+..|||..|.
T Consensus        26 ~~p~~~LfV~nL~~-~~~e~~L~~~L~~~F~~~G~I~~v~i~~~------~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~   98 (127)
T 2a3j_A           26 TEPSQVVLITNINP-EVPKEKLQALLYALASSQGDILDIVVDLS------DDNSGKAYIVFATQESAQAFVEAFQGYPFQ   98 (127)
T ss_dssp             CSCCSEEEEESCCT-TSCHHHHHHHHHHHHHHHSCEEEEEECCC------CSSCCCEEEEESSHHHHHHHHHHSTTCCCT
T ss_pred             CCCCCEEEEeCCCC-CCCHHHHHHHHHHHhccCCCeEEEEeccC------CCcCCEEEEEECCHHHHHHHHHHHCCCEeC
Confidence            45788999999742 22246788889999999999999998642      135799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|.+.|....
T Consensus        99 gr~l~V~~a~~~  110 (127)
T 2a3j_A           99 GNPLVITFSETP  110 (127)
T ss_dssp             TSCCEEEECCCC
T ss_pred             CCEEEEEEccCc
Confidence            999999998653

>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=99.13  E-value=5.7e-10  Score=85.80  Aligned_cols=80  Identities=15%  Similarity=0.238  Sum_probs=66.3

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      |..|.+.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+.
T Consensus         1 t~~l~V~nlp~--~~t---~~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~   72 (83)
T 3md1_A            1 TFNLFVGDLNV--NVD---DETLRNAFKDFPSYLSGHVMWDMQTG---SSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRP   72 (83)
T ss_dssp             CEEEEEECCCT--TCC---HHHHHHHHTTSTTEEEEEEEECTTTC---CEEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CeEEEEeCCCC--CCC---HHHHHHHHHhcCCeeEEEEEEcCCCC---CccceEEEEECCHHHHHHHHHHhcCCeeCCcE
Confidence            45678888732  222   56788999999999999998764432   46899999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.|...
T Consensus        73 l~v~~a~~   80 (83)
T 3md1_A           73 LRINWAAK   80 (83)
T ss_dssp             CEEEECCC
T ss_pred             EEEEecCc
Confidence            99998754

>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=99.12  E-value=4e-10  Score=88.98  Aligned_cols=81  Identities=22%  Similarity=0.215  Sum_probs=68.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +.   ++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|+..|||..|+
T Consensus        13 ~~~~~~l~v~nlp~~--~~---~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (95)
T 2ywk_A           13 EEADRTVFVGNLEAR--VR---EEILYELFLQAGPLTKVTICKDRE----GKPKSFGFVCFKHPESVSYAIALLNGIRLY   83 (95)
T ss_dssp             TTGGGEEEEECCCTT--CC---HHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSTHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCC--CC---HHHHHHHHHhcCCEEEEEEEECCC----CCCceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            346789999997432  22   467889999999999999998643    246799999999999999999999999999


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      |+.|.+.|..
T Consensus        84 g~~l~V~~a~   93 (95)
T 2ywk_A           84 GRPINVSGPS   93 (95)
T ss_dssp             TEECEEECCC
T ss_pred             CCEEEEEEcC
Confidence            9999998864

>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=99.12  E-value=5.5e-10  Score=90.20  Aligned_cols=81  Identities=20%  Similarity=0.248  Sum_probs=68.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+. .+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        26 ~~~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~-~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   96 (107)
T 3ulh_A           26 VETGGKLLVSNLDF--GVS---DADIQELFAEFGTLKKAAVHYDR-SG---RSLGTADVHFERKADALKAMKQYNGVPLD   96 (107)
T ss_dssp             CCCSEEEEEESCCT--TCC---HHHHHHHHHTTSCEEEEEEEECT-TS---CEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEECC-CC---CcceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            35788999999742  222   46788999999999999999765 22   46799999999999999999999999999


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      |+.|.+.|..
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            9999999864

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.12  E-value=4e-10  Score=90.90  Aligned_cols=83  Identities=13%  Similarity=0.217  Sum_probs=69.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        20 ~~~~~~l~V~nlp~~--~---t~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   91 (106)
T 1p27_B           20 SVEGWILFVTGVHEE--A---TEEDIHDKFAEYGEIKNIHLNLDRRTG---YLKGYTLVEYETYKEAQAAMEGLNGQDLM   91 (106)
T ss_dssp             BTTBEEEEEECCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTS---SEEEEEEEEESCHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHhccCCeEEEEEEecCCCC---ceeeEEEEEECCHHHHHHHHHHhcCCEEC
Confidence            346889999997532  2   246788999999999999998765432   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        92 g~~l~V~~a~~  102 (106)
T 1p27_B           92 GQPISVDWCFV  102 (106)
T ss_dssp             SSBCEEEESEE
T ss_pred             CcEEEEEeecC
Confidence            99999998743

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.11  E-value=2.1e-10  Score=91.97  Aligned_cols=84  Identities=23%  Similarity=0.324  Sum_probs=70.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|+|.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus         9 ~~~~~~l~V~nLp~--~~t---~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 2cqb_A            9 ATTKRVLYVGGLAE--EVD---DKVLHAAFIPFGDITDIQIPLDYETE---KHRGFAFVEFELAEDAAAAIDNMNESELF   80 (102)
T ss_dssp             CCCCSCEEEESCCS--SCC---HHHHHHHHTTTSCCCCEECCCCSSSC---CCSSEEEECCSSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHhhccCCEEEEEEEecCCCC---CcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34788999999743  222   56788999999999999998754332   46799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        81 g~~l~V~~a~~~   92 (102)
T 2cqb_A           81 GRTIRVNLAKPM   92 (102)
T ss_dssp             TEEEEEEECCCC
T ss_pred             CcEEEEEeCCCC
Confidence            999999998654

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.11  E-value=3.7e-10  Score=89.84  Aligned_cols=86  Identities=19%  Similarity=0.233  Sum_probs=69.4

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+....-.....|++||+|.+.++|.+|+..|||..|+|
T Consensus         3 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   77 (98)
T 2cpf_A            3 SGSSGLFIKNLNFS--T---TEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDG   77 (98)
T ss_dssp             CCCCCEEEESCCTT--C---CHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            46789999997422  2   256788999999999999999764310001357899999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|.+.+....
T Consensus        78 ~~l~V~~a~~~   88 (98)
T 2cpf_A           78 HKLEVRISERA   88 (98)
T ss_dssp             EECEEECSSCS
T ss_pred             eEEEEEEccCC
Confidence            99999998653

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.11  E-value=3.2e-10  Score=89.74  Aligned_cols=83  Identities=11%  Similarity=0.264  Sum_probs=69.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEE-EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V-~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .+++.|+|.|+-..  +   -++||++.|++||.|.+| .|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus         3 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~~~~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   74 (96)
T 1x5t_A            3 SGSSGIFIGNLDPE--I---DEKLLYDTFSAFGVILQTPKIMRDPDTG---NSKGYAFINFASFDASDAAIEAMNGQYLC   74 (96)
T ss_dssp             SCCCEEEEECCCTT--C---CHHHHHHHHHTTSCBSSCCEECCCTTTC---SCCSEEEEEBSSHHHHHHHHHTTTTCEET
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeeEEEEEEEcCCCC---CcCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            46789999997532  2   256888999999999999 898754332   46799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        75 g~~l~v~~a~~~   86 (96)
T 1x5t_A           75 NRPITVSYAFKK   86 (96)
T ss_dssp             TEECEEEESCCC
T ss_pred             CEEEEEEEeccc
Confidence            999999998653

>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=99.11  E-value=3.6e-10  Score=92.78  Aligned_cols=83  Identities=14%  Similarity=0.261  Sum_probs=69.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        22 ~~~~~~l~V~nLp~~--~t---~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   93 (115)
T 2cpz_A           22 GPEGANLFIYHLPQE--FG---DQDLLQMFMPFGNVVSAKVFIDKQTN---LSKCFGFVSYDNPVSAQAAIQSMNGFQIG   93 (115)
T ss_dssp             CSTTCCEEEESCCSS--CC---HHHHHHHHGGGSCCSEEEEEECSSSC---SEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCcEEEEeCCCCC--CC---HHHHHHHHHhcCCeEEEEEEECCCCC---CcCccEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456789999997532  22   46788999999999999999865432   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus        94 g~~l~V~~a~~  104 (115)
T 2cpz_A           94 MKRLKVQLKRS  104 (115)
T ss_dssp             TEECEEECCCC
T ss_pred             CEEEEEEEcCC
Confidence            99999999864

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.10  E-value=2.5e-10  Score=91.46  Aligned_cols=83  Identities=19%  Similarity=0.324  Sum_probs=69.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus         9 ~~~~~~l~v~nLp~~--~---t~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFD--T---NEQSLEQVFSKYGQISEVVVVKDRETQ---RSRGFGFVTFENIDDAKDAMMAMNGKSVD   80 (102)
T ss_dssp             CCCCSEEEEESCCTT--C---CHHHHHHHHHHHSCCCEEEECCCSSSC---SCCSEEEEECSSHHHHHHHHHHHTTCCTT
T ss_pred             CCCCCEEEEECCCCC--C---CHHHHHHHHHhcCCeEEEEEEeCCCCC---CcccEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            346889999997422  2   256788999999999999998764432   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus        81 g~~l~v~~a~~   91 (102)
T 1x5s_A           81 GRQIRVDQAGK   91 (102)
T ss_dssp             SCCCEEEEEEC
T ss_pred             CeEEEEEECCC
Confidence            99999999865

>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=99.10  E-value=4.6e-10  Score=92.24  Aligned_cols=86  Identities=17%  Similarity=0.280  Sum_probs=68.2

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHH---HHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVG---SECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~---EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      ...+.|++.|+-..  +.   ++||+   +.|++||.|.+|.|+.+...+......|++||+|.+.++|.+|+..|||..
T Consensus        13 ~~~~~l~V~nLp~~--~~---~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~   87 (111)
T 2cpi_A           13 VQKNLVFVVGLSQR--LA---DPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVV   87 (111)
T ss_dssp             CCSSCEEEEEECTT--TC---CHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred             cCCCEEEEECCCCC--CC---HHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCE
Confidence            35678889997532  21   24566   899999999999998765432222456999999999999999999999999


Q ss_pred             eCCeEEEEEecccc
Q 016857          350 FGGRVVRATFYDEE  363 (381)
Q Consensus       350 F~GR~V~a~fy~ee  363 (381)
                      |+||.|.+.|....
T Consensus        88 ~~gr~l~V~~a~~k  101 (111)
T 2cpi_A           88 VDGRTLKASLGTTK  101 (111)
T ss_dssp             ETTEEEEEESCCCC
T ss_pred             ECCEEEEEEecccc
Confidence            99999999998653

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.10  E-value=5.3e-10  Score=89.41  Aligned_cols=82  Identities=15%  Similarity=0.289  Sum_probs=68.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+. .   ....|++||+|.+.++|.+|+..|||..|+
T Consensus        14 ~~~~~~l~v~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~-~---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   84 (100)
T 2do4_A           14 SLEKHKLFISGLPFS--C---TKEELEEICKAHGTVKDLRLVTNR-A---GKPKGLAYVEYENESQASQAVMKMDGMTIK   84 (100)
T ss_dssp             CCCCSCEEEESCCTT--C---CHHHHHHHHTTTSCEEEEEEEECT-T---SCEEEEEEEEESSHHHHHHHHHHHTTEESS
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhCCCeEEEEEEECC-C---CCEEeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            346788999997532  2   246788999999999999998764 2   245799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        85 g~~l~v~~a~~   95 (100)
T 2do4_A           85 ENIIKVAISNS   95 (100)
T ss_dssp             SCEEEEEECCC
T ss_pred             CEEEEEEECCC
Confidence            99999999754

>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=99.10  E-value=9.4e-10  Score=88.41  Aligned_cols=82  Identities=18%  Similarity=0.254  Sum_probs=69.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++   -++||++.|++||.|.+|.|..+..     ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~--~~---t~~~l~~~F~~~G~i~~v~i~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~g~~~~   81 (103)
T 2cqi_A           12 DGQPRTLYVGNLSR--DV---TEVLILQLFSQIGPCKSCKMITEHT-----SNDPYCFVEFYEHRDAAAALAAMNGRKIL   81 (103)
T ss_dssp             SCCCCEEEEESCCT--TC---CHHHHHHHHHHHSCEEEEEEECCCC-----SSCCEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCc--cC---CHHHHHHHHHhcCCEeEEEEEecCC-----CCCCEEEEEECCHHHHHHHHHHhCCCCcC
Confidence            34788999999753  22   2467889999999999999987532     24799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        82 g~~l~V~~a~~~   93 (103)
T 2cqi_A           82 GKEVKVNWATTP   93 (103)
T ss_dssp             TEEEEEEECCCT
T ss_pred             CCeEEEEECCCC
Confidence            999999998653

>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=99.10  E-value=3.8e-10  Score=87.54  Aligned_cols=82  Identities=18%  Similarity=0.220  Sum_probs=66.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-.  ++   -++||++.|++||.|.+|.|..+...+  ....|++||+|.+.++|.+|+..|||..|+|+
T Consensus         3 ~~~~l~V~nlp~--~~---t~~~l~~~F~~~G~i~~~~i~~~~~~~--~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   75 (88)
T 4a8x_A            3 KPTKVHIGRLTR--NV---TKDHIMEIFSTYGKIKMIDMPVERMHP--HLSKGYAYVEFENPDEAEKALKHMDGGQIDGQ   75 (88)
T ss_dssp             CCCEEEEECCCT--TC---CHHHHHHHHHTTSCEEEEECCEETTEE--EEECSEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCC--CC---CHHHHHHHHHhCCCEEEEEEEeCCCCC--CCCCcEEEEEEecHHHHHHHHHHcCCCeECCe
Confidence            467889999742  22   246788999999999999998765321  11468999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.++..
T Consensus        76 ~l~v~~a~~   84 (88)
T 4a8x_A           76 EITATAVLA   84 (88)
T ss_dssp             ECEEEEECC
T ss_pred             EEEEEECCC
Confidence            999999854

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

Probab=99.10  E-value=3.8e-10  Score=92.88  Aligned_cols=81  Identities=16%  Similarity=0.301  Sum_probs=68.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        37 ~~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~~~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~g~~~~  108 (118)
T 2khc_A           37 GPEGCNLFIYHLPQE--FT---DTDLASTFLPFGNVISAKVFIDKQTS---LSKCFGFVSFDNPDSAQVAIKAMNGFQVG  108 (118)
T ss_dssp             CCCSEEEEEECSCTT--CC---HHHHHHHTTTSCEEEEEEECCCSSSS---CCCCEEEEEEESSHHHHHHHHHCCCCEET
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCEEEEEEEeCCCCC---CcCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            457889999997422  22   46788999999999999998764332   46799999999999999999999999999


Q ss_pred             CeEEEEEec
Q 016857          352 GRVVRATFY  360 (381)
Q Consensus       352 GR~V~a~fy  360 (381)
                      |+.|++.|.
T Consensus       109 g~~l~V~~a  117 (118)
T 2khc_A          109 TKRLKVQLK  117 (118)
T ss_dssp             TEECCEEEC
T ss_pred             CEEEEEEec
Confidence            999999874

>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=99.09  E-value=3.8e-10  Score=90.84  Aligned_cols=83  Identities=14%  Similarity=0.072  Sum_probs=69.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (105)
T 1x5u_A           12 RNQDATVYVGGLDE--KVS---EPLLWELFLQAGPVVNTHMPKDRVTG---QHQGYGFVEFLSEEDADYAIKIMDMIKLY   83 (105)
T ss_dssp             CCTTTEEEEECCCT--TCC---HHHHHHHHHTTSCEEEEECCBCSSSC---SBCSCEEEEESSHHHHHHHHHHSSSCBCS
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEecCCCC---cCCcEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            34788999999742  222   46788999999999999998765332   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        84 g~~l~v~~a~~   94 (105)
T 1x5u_A           84 GKPIRVNKASA   94 (105)
T ss_dssp             SCBCEEEETTT
T ss_pred             CeEEEEEECCC
Confidence            99999999865

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.09  E-value=2.5e-10  Score=91.78  Aligned_cols=83  Identities=22%  Similarity=0.212  Sum_probs=69.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        10 ~~~~~~l~V~nLp~~--~---t~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   81 (103)
T 2dnm_A           10 VDGMITLKVDNLTYR--T---SPDSLRRVFEKYGRVGDVYIPREPHTK---APRGFAFVRFHDRRDAQDAEAAMDGAELD   81 (103)
T ss_dssp             CSCCCEEEEESCCTT--C---CHHHHHHHHTTTSCEEEEECCBCSSSC---SBCSCEEEEESSSSHHHHHHHHHSSCCBT
T ss_pred             CCCCeEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEeCCCCC---CCCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            346889999997532  2   256788999999999999998764432   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        82 g~~l~V~~a~~   92 (103)
T 2dnm_A           82 GRELRVQVARY   92 (103)
T ss_dssp             TBCCEEEECSS
T ss_pred             CcEEEEEECCc
Confidence            99999999865

>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=99.09  E-value=6.4e-10  Score=90.43  Aligned_cols=83  Identities=16%  Similarity=0.216  Sum_probs=69.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        23 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   94 (110)
T 1oo0_B           23 SVEGWILFVTSIHEE--A---QEDEIQEKFCDYGEIKNIHLNLDRRTG---FSKGYALVEYETHKQALAAKEALNGAEIM   94 (110)
T ss_dssp             BTTBEEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEECCBCTTTS---SBCSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEecCCCC---CcceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            347889999997532  2   246788999999999999998764332   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        95 g~~l~V~~a~~  105 (110)
T 1oo0_B           95 GQTIQVDWCFV  105 (110)
T ss_dssp             TEECEEEESEE
T ss_pred             CcEEEEEEccc
Confidence            99999999753

>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=99.09  E-value=9.5e-10  Score=88.38  Aligned_cols=82  Identities=18%  Similarity=0.223  Sum_probs=68.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-.  ++.   ++||++.|++||.|.+|.|..+..     ...|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~--~~t---~~~l~~~f~~~G~v~~v~i~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~g~~~~   81 (103)
T 2cq3_A           12 KSTPKRLHVSNIPF--RFR---DPDLRQMFGQFGKILDVEIIFNER-----GSKGFGFVTFENSADADRAREKLHGTVVE   81 (103)
T ss_dssp             SCCCCEEEEESCCT--TCC---HHHHHHHGGGTSCEEEEEEECCTT-----TTCCEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEecCC-----CCcEEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34688999999742  222   467889999999999999987542     25799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        82 g~~l~v~~a~~~   93 (103)
T 2cq3_A           82 GRKIEVNNATAR   93 (103)
T ss_dssp             TEECEEEECCSS
T ss_pred             CEEEEEEEcccC
Confidence            999999998653

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

Probab=99.09  E-value=3.4e-10  Score=92.35  Aligned_cols=77  Identities=16%  Similarity=0.239  Sum_probs=65.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .|-=|++.|+-..-+     +++|++.|.+||.|.++.|..         .+|++||+|.+.++|.+|++.|||..++||
T Consensus         6 ~~~wL~VgNL~~~~t-----e~~L~~lF~q~G~V~~~~l~~---------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr   71 (89)
T 2wbr_A            6 GSSWLLLKNLTAQID-----GPTLRTLCMQHGPLVSFHPYL---------NQGIALCKYTTREEANKAQMALNNCVLANT   71 (89)
T ss_dssp             CCCEEEEECCCTTCC-----CHHHHHHHHHHSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             ccceEEEeCCCccCC-----HHHHHHHHHhhCCEEEEEEcC---------CCcEEEEEECCHHHHHHHHHHhcCCEECCc
Confidence            466677899653322     368889999999999999964         369999999999999999999999999999


Q ss_pred             EEEEEeccccc
Q 016857          354 VVRATFYDEER  364 (381)
Q Consensus       354 ~V~a~fy~ee~  364 (381)
                      .|.|.|.++++
T Consensus        72 ~I~V~~A~e~~   82 (89)
T 2wbr_A           72 TIFAESPSENE   82 (89)
T ss_dssp             EEEEECCCHHH
T ss_pred             EEEEEECCHHH
Confidence            99999998754

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.09  E-value=1.3e-09  Score=88.95  Aligned_cols=82  Identities=18%  Similarity=0.163  Sum_probs=69.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~~--~---~~~~l~~~f~~~G~i~~~~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   82 (114)
T 2do0_A           12 GRLGSTVFVANLDYK--V---GWKKLKEVFSMAGVVVRADILEDKD----GKSRGIGTVTFEQSIEAVQAISMFNGQLLF   82 (114)
T ss_dssp             CCCCSCEEEESCCTT--C---CHHHHHHHHTTTSCEEEEEEEECTT----CSEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEECCC----CCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            346889999997532  2   2567889999999999999987642    245799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        83 g~~l~v~~a~~   93 (114)
T 2do0_A           83 DRPMHVKMDER   93 (114)
T ss_dssp             TEECEEEECSC
T ss_pred             CCEEEEEEccc
Confidence            99999999864

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.08  E-value=4.7e-10  Score=90.43  Aligned_cols=84  Identities=21%  Similarity=0.228  Sum_probs=69.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeee-CCCCCCCCCceEEEEEeCCHHHHHHHHHhh-CCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEI-TEPNFPVDEAVRIFVQFERSEQTTKALIDL-DGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~-~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-nGR~  349 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+ ...   ....|++||+|.+.++|.+|+..| ||..
T Consensus        12 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~~~~~   83 (107)
T 2cph_A           12 KQTTSKILVRNIPFQ--A---NQREIRELFSTFGELKTVRLPKKMTGT---GAHRGFGFVDFITKQDAKKAFNALCHSTH   83 (107)
T ss_dssp             SSCCCCEEEESCCTT--C---CHHHHHHHHHTTSCEEEEECCCCCSSS---CSSCSEEEEEESSHHHHHHHHHHHHTCCB
T ss_pred             CCCCCEEEEeCCCCc--C---CHHHHHHHHHccCCeEEEEEecCCCCC---CCcCceEEEEECCHHHHHHHHHHhccCCe
Confidence            347889999997532  2   25678899999999999999875 322   246799999999999999999999 9999


Q ss_pred             eCCeEEEEEecccc
Q 016857          350 FGGRVVRATFYDEE  363 (381)
Q Consensus       350 F~GR~V~a~fy~ee  363 (381)
                      |+|+.|.+.|....
T Consensus        84 ~~g~~l~v~~a~~~   97 (107)
T 2cph_A           84 LYGRRLVLEWADSE   97 (107)
T ss_dssp             SSSCBCEEEECCCC
T ss_pred             ECCCEEEEEeCCCC
Confidence            99999999998764

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.08  E-value=7e-10  Score=88.56  Aligned_cols=82  Identities=18%  Similarity=0.211  Sum_probs=68.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+. |||..|+
T Consensus         7 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~-~~~~~~~   77 (99)
T 2dgs_A            7 GSKSNKIFVGGIPHN--C---GETELREYFKKFGVVTEVVMIYDAEKQ---RPRGFGFITFEDEQSVDQAVN-MHFHDIM   77 (99)
T ss_dssp             CSSCCEEEEESCCSS--C---CHHHHHHHHSSSSCEEEEEECCCTTTC---SCCSEEEEEESSHHHHHHHHH-HCCCBSS
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEeCCCCC---CCCceEEEEECCHHHHHHHHH-hCCCEEC
Confidence            347889999997422  2   246788999999999999998764332   467999999999999999999 9999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        78 g~~l~V~~a~~   88 (99)
T 2dgs_A           78 GKKVEVKRAEP   88 (99)
T ss_dssp             SCBCEEEECCC
T ss_pred             CeEEEEEECCC
Confidence            99999999864

>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=99.08  E-value=3.3e-10  Score=93.51  Aligned_cols=80  Identities=21%  Similarity=0.302  Sum_probs=68.4

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.|+-..  +   -++||++.|++||.|.+|.|+.         ..|++||+|.+.++|.+|+..|||..|+|+
T Consensus         9 ~~~~l~V~nLp~~--~---te~~L~~~F~~~G~i~~v~i~~---------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   74 (111)
T 1whx_A            9 SKTVILAKNLPAG--T---LAAEIQETFSRFGSLGRVLLPE---------GGITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             EEEEEEEESCCTT--C---CHHHHHHHHHTTSCEEEEECCS---------SSSCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEeC---------CCCEEEEEeCCHHHHHHHHHHhCCCEECCe
Confidence            4678999997522  2   3568889999999999999864         347899999999999999999999999999


Q ss_pred             EEEEEecccccccc
Q 016857          354 VVRATFYDEERFSK  367 (381)
Q Consensus       354 ~V~a~fy~ee~F~~  367 (381)
                      .|.+.|.....|..
T Consensus        75 ~l~V~~a~~~~~~~   88 (111)
T 1whx_A           75 PLYLEWAPIGVFGA   88 (111)
T ss_dssp             BCEEEEEETTTTCC
T ss_pred             EEEEEECCCCccCC
Confidence            99999998877754

>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=99.07  E-value=8.9e-10  Score=88.13  Aligned_cols=82  Identities=17%  Similarity=0.154  Sum_probs=67.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ....|++.|+-.. --+++|++.|++.|++||.|.+|.|+.+..     . .|++||+|.+.++|.+|+..|||..|+||
T Consensus         8 ~~~~l~V~nL~~~-~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~-----~-rg~afV~f~~~~~A~~Ai~~l~g~~~~gr   80 (96)
T 2dgx_A            8 NGADVQVSNIDYR-LSRKELQQLLQEAFARHGKVKSVELSPHTD-----Y-QLKAVVQMENLQDAIGAVNSLHRYKIGSK   80 (96)
T ss_dssp             SCEEEEEESCCTT-SCHHHHHHHHHHHHHHHSCEEEEEECSCCS-----T-TCCEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHHhccccCcEEEEEEEeCCC-----C-CeEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3567888887422 223566666779999999999999986543     1 68999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|++.+...
T Consensus        81 ~l~V~~a~~   89 (96)
T 2dgx_A           81 KILVSLATG   89 (96)
T ss_dssp             EEEEEECCC
T ss_pred             EEEEEEcCC
Confidence            999998743

>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=99.07  E-value=7e-10  Score=91.13  Aligned_cols=83  Identities=20%  Similarity=0.256  Sum_probs=69.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        23 ~~~~~~l~V~nLp~~--~---te~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~F~~~~~A~~Ai~~l~g~~i~   94 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFN--I---TEDMLRGIFEPFGRIESIQLMMDSETG---RSKGYGFITFSDSECAKKALEQLNGFELA   94 (108)
T ss_dssp             CSSCEEEEEECCCSS--C---CHHHHHHHHTTTSCEEEEEEEEETTTT---EEEEEEEEEESCHHHHHHHHHHHTTCCSS
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEEcCCCC---ccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            457889999997422  2   256788999999999999999875432   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        95 g~~l~V~~a~~  105 (108)
T 2jrs_A           95 GRPMKVGHVTE  105 (108)
T ss_dssp             SSCCEEECSCS
T ss_pred             CEEEEEEEccc
Confidence            99999998753

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.07  E-value=6.6e-10  Score=92.07  Aligned_cols=77  Identities=16%  Similarity=0.314  Sum_probs=65.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe--
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF--  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~--  349 (381)
                      ..|+++|.+.|+-..  +   -++||++.|++||.|.+|.|.+         .+|++||+|++.++|.+|++.|||..  
T Consensus        18 ~~ps~~l~V~NLp~~--~---te~~L~~lF~~fG~V~~v~i~~---------~kg~AFVef~~~~~A~~Av~~ln~~~~~   83 (100)
T 3r27_A           18 TPASPVVHIRGLIDG--V---VEADLVEALQEFGPISYVVVMP---------KKRQALVEFEDVLGACNAVNYAADNQIY   83 (100)
T ss_dssp             CCCCSEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHHHHSCEE
T ss_pred             CCCCcEEEEeCCCCC--C---CHHHHHHHHhccCCEEEEEEEc---------CCCEEEEEECCHHHHHHHHHHhcCCCce
Confidence            468999999998532  2   2467889999999999999974         25899999999999999999999984  


Q ss_pred             eCCeEEEEEeccc
Q 016857          350 FGGRVVRATFYDE  362 (381)
Q Consensus       350 F~GR~V~a~fy~e  362 (381)
                      ++||.|.+.|...
T Consensus        84 i~Gr~i~V~~S~~   96 (100)
T 3r27_A           84 IAGHPAFVNYSTS   96 (100)
T ss_dssp             ETTEEEEEEECSC
T ss_pred             eCCcEEEEEeccc
Confidence            7899999999753

>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=99.07  E-value=3.4e-10  Score=89.71  Aligned_cols=85  Identities=19%  Similarity=0.332  Sum_probs=69.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+- ..--.++|.+.|.+.|++||.|.+|.|.+..      ...|++||+|.+.++|.+|+..|||..|+
T Consensus         5 ~~~~~~l~V~nLp-~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~------~~~g~afV~f~~~~~A~~A~~~l~g~~~~   77 (97)
T 1nu4_A            5 TRPNHTIYINNLN-EKIKKDELKKSLHAIFSRFGQILDILVSRSL------KMRGQAFVIFKEVSSATNALRSMQGFPFY   77 (97)
T ss_dssp             -CCCSEEEEESCC-TTSCHHHHHHHHHHHHGGGSCEEEEECCHHH------HHTTCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCC-CCCCHHHHHHHHHHHHHhCCCEEEEEEEcCC------CcCcEEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            3578899999964 2222356777777999999999999987421      23589999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        78 g~~l~v~~a~~~   89 (97)
T 1nu4_A           78 DKPMRIQYAKTD   89 (97)
T ss_dssp             TEECEEEECSSC
T ss_pred             CcEEEEEEccCC
Confidence            999999998653

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.06  E-value=6.7e-10  Score=88.84  Aligned_cols=81  Identities=15%  Similarity=0.264  Sum_probs=68.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeE--------EEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTR--------VLIFEITEPNFPVDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~--------V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      ..++.+|++.|+-..  +   -++||++.|++||.|.+        |.|..+...+   ...|++||+|.+.++|.+|+.
T Consensus        10 ~~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g---~~~G~afV~f~~~~~a~~Ai~   81 (99)
T 2la6_A           10 HSDNNTIFVQGLGEN--V---TIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG---KLKGEATVSFDDPPSAKAAID   81 (99)
T ss_dssp             CCCCSEEEEECCCSS--C---CHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTC---SEEEEEEEEBSSHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHHhCCEeeccccccccEEEEecCCCC---CeeeEEEEEECCHHHHHHHHH
Confidence            457889999997422  2   25678899999999999        9998764432   467999999999999999999


Q ss_pred             hhCCCeeCCeEEEEEec
Q 016857          344 DLDGRFFGGRVVRATFY  360 (381)
Q Consensus       344 ~LnGR~F~GR~V~a~fy  360 (381)
                      .|||..|+|+.|++.+.
T Consensus        82 ~l~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           82 WFDGKEFSGNPIKVSFA   98 (99)
T ss_dssp             HHTTCBSSSSBCEEEEC
T ss_pred             HhCCCEeCCcEEEEEec
Confidence            99999999999999885

>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=99.06  E-value=9.3e-10  Score=89.49  Aligned_cols=80  Identities=19%  Similarity=0.307  Sum_probs=67.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++   -++||++.|++||.|.+|.|....      ...|++||+|.+.++|.+|++.|||..|+
T Consensus        19 ~~~~~~l~V~nLp~--~~---t~~~l~~~F~~~G~v~~~~i~~~~------~~~g~afV~f~~~~~A~~A~~~l~g~~~~   87 (109)
T 1x4a_A           19 GNNDCRIYVGNLPP--DI---RTKDIEDVFYKYGAIRDIDLKNRR------GGPPFAFVEFEDPRDAEDAVYGRDGYDYD   87 (109)
T ss_dssp             CCCSSEEEEESCCT--TC---CHHHHHHHHGGGSCEEEEEECCSS------SSSCCEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCC--CC---CHHHHHHHHHhcCCeEEEEEEECC------CCCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            45788999999742  22   246788999999999999996532      35799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        88 g~~l~V~~a~~   98 (109)
T 1x4a_A           88 GYRLRVEFPRS   98 (109)
T ss_dssp             TEECEEECCCC
T ss_pred             CeEEEEEEccc
Confidence            99999999865

>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=99.06  E-value=8.5e-10  Score=91.31  Aligned_cols=78  Identities=15%  Similarity=0.296  Sum_probs=66.0

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +.-|++.|+-.  ++.   ++||++.|++||.|.+|.|+.+..     ..+|++||+|.+.++|.+|+..|||..++||.
T Consensus         5 ~~~lfV~nLp~--~~t---e~~L~~~F~~~G~v~~v~i~~d~~-----~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~   74 (115)
T 4f25_A            5 SGNIFIKNLDK--SID---NKALYDTFSAFGNILSCKVVCDEN-----GSKGYGFVHFETQEAAERAIEKMNGMLLNDRK   74 (115)
T ss_dssp             CCEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEEETT-----EEEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEECCCCC--CCC---HHHHHHHHhccCCEEEEEEeecCC-----CCCceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            44689999742  232   468889999999999999998642     35799999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.++..
T Consensus        75 i~V~~a~~   82 (115)
T 4f25_A           75 VFVGRFKS   82 (115)
T ss_dssp             CEEEESSC
T ss_pred             EEEEECCC
Confidence            99999864

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.06  E-value=7.9e-10  Score=93.45  Aligned_cols=85  Identities=19%  Similarity=0.245  Sum_probs=71.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        39 ~~~~~~l~V~nLp~--~~~---~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~  110 (139)
T 1u6f_A           39 PDVLRNLMVNYIPT--TVD---EVQLRQLFERYGPIESVKIVCDRETR---QSRGYGFVKFQSGSSAQQAIAGLNGFNIL  110 (139)
T ss_dssp             TTTTSEEEEESCST--TCC---HHHHHHHHHHHSCEEEEEEEEETTTT---EEEEEEEEEESSHHHHHHHHHHTTTEECS
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEEcCCCC---CcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34678999999743  222   46788999999999999999875432   45799999999999999999999999999


Q ss_pred             CeEEEEEeccccc
Q 016857          352 GRVVRATFYDEER  364 (381)
Q Consensus       352 GR~V~a~fy~ee~  364 (381)
                      |+.|.+.|.....
T Consensus       111 g~~l~v~~a~~~~  123 (139)
T 1u6f_A          111 NKRLKVALAASGH  123 (139)
T ss_dssp             SCEEEEEESSCCC
T ss_pred             CeEEEEEECCCCC
Confidence            9999999987643

>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=99.06  E-value=3.6e-10  Score=89.25  Aligned_cols=81  Identities=26%  Similarity=0.301  Sum_probs=66.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|++.|+-.  ++   -++||++.|++||.|.++.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        13 ~~~~~l~V~nlp~--~~---t~~~l~~~F~~~G~i~~~~~~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   84 (95)
T 2ek1_A           13 PGPTVIKVQNMPF--TV---SIDEILDFFYGYQVIPGSVCLKYNEKG---MPTGEAMVAFESRDEATAAVIDLNDRPIGS   84 (95)
T ss_dssp             --CEEEEEECCCT--TC---CHHHHHHHTTTSCBCTTCCEEEECTTS---CEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCC--CC---CHHHHHHHHHhcCCccceEEEEeCCCC---CEeeEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            3578999999742  22   256788999999999988887764432   457999999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      |.|.+.+.+
T Consensus        85 r~l~v~~a~   93 (95)
T 2ek1_A           85 RKVKLSGPS   93 (95)
T ss_dssp             EECEEECCC
T ss_pred             cEEEEEecc
Confidence            999999864

>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=99.06  E-value=1.1e-09  Score=90.98  Aligned_cols=86  Identities=16%  Similarity=0.285  Sum_probs=71.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+. .   ....|++||+|.+.++|.+|+..|||..|+|
T Consensus         5 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~-~---g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g   75 (116)
T 2fy1_A            5 DHPGKLFIGGLNRE--T---NEKMLKAVFGKHGPISEVLLIKDR-T---SKSRGFAFITFENPADAKNAAKDMNGKSLHG   75 (116)
T ss_dssp             CSCCEEEEECCTTT--C---CHHHHHHHHHTSSCCSEEEEECST-T---TTCCCEEEEECSSHHHHHHHHHHCSSCBCSS
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEECC-C---CCcccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46788999997432  2   256788999999999999998764 2   2467999999999999999999999999999


Q ss_pred             eEEEEEecccccccc
Q 016857          353 RVVRATFYDEERFSK  367 (381)
Q Consensus       353 R~V~a~fy~ee~F~~  367 (381)
                      +.|.+.+........
T Consensus        76 ~~l~V~~a~~~~~~~   90 (116)
T 2fy1_A           76 KAIKVEQAKKPSFQS   90 (116)
T ss_dssp             SBCEEEECCCSSCSS
T ss_pred             EEEEEEECCCCCCCC
Confidence            999999997655443

>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=99.05  E-value=8.3e-10  Score=90.42  Aligned_cols=81  Identities=19%  Similarity=0.323  Sum_probs=68.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|++.|+-  .++.   ++||++.|++||.|.+|.|..+.      ...|++||+|.+.++|.+|+..|||..|+
T Consensus         5 ~~~~~~l~V~nlp--~~~t---~~~l~~~F~~~G~v~~v~i~~~~------~~~g~afV~f~~~~~A~~A~~~l~g~~~~   73 (115)
T 3lqv_A            5 PEVNRILYIRNLP--YKIT---AEEMYDIFGKYGPIRQIRVGNTP------ETRGTAYVVYEDIFDAKNAVDHLSGFNVS   73 (115)
T ss_dssp             TTCCSEEEEESCC--TTCC---HHHHHHHHHTTSCEEEEEEECST------TTTTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCC--CCCC---HHHHHHHHHhcCCeEEEEEeeCC------CCCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            4578899999974  2222   46788999999999999998642      24799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|+...
T Consensus        74 g~~l~v~~a~~~   85 (115)
T 3lqv_A           74 NRYLVVLYYNAN   85 (115)
T ss_dssp             SCBCEEEECCHH
T ss_pred             CeEEEEEEecCC
Confidence            999999999753

>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=99.05  E-value=7.7e-10  Score=89.73  Aligned_cols=83  Identities=18%  Similarity=0.266  Sum_probs=69.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC-----
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD-----  346 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln-----  346 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..||     
T Consensus        12 ~~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~~~~~~~~   83 (111)
T 1x4h_A           12 VTEGKTVFIRNLSFD--S---EEEALGEVLQQFGDLKYVRVVLHPDTE---HSKGCAFAQFMTQEAAQKCLAAASLEAEG   83 (111)
T ss_dssp             CCCCCCEEEESCCTT--C---CHHHHHHHHHTTSCEEEEECCBCSSSC---CBCSEEEEEESSHHHHHHHHHHHCTTTTT
T ss_pred             CCCCCEEEEECCCCC--C---CHHHHHHHHHhcCCeEEEEEEecCCCC---CCccEEEEEECCHHHHHHHHHHhcccccc
Confidence            347889999997532  2   256788999999999999998764432   467999999999999999999999     


Q ss_pred             -CCeeCCeEEEEEeccc
Q 016857          347 -GRFFGGRVVRATFYDE  362 (381)
Q Consensus       347 -GR~F~GR~V~a~fy~e  362 (381)
                       |..|+|+.|.+.|...
T Consensus        84 ~~~~~~g~~l~v~~a~~  100 (111)
T 1x4h_A           84 GGLKLDGRQLKVDLAVT  100 (111)
T ss_dssp             CCEESSSCEEEEECCCC
T ss_pred             CCcEEcCEEEEEEECCC
Confidence             9999999999999865

>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=99.05  E-value=3.9e-10  Score=90.47  Aligned_cols=82  Identities=21%  Similarity=0.293  Sum_probs=68.9

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         7 ~~~~l~V~nlp~~--~---~~~~l~~~f~~~G~i~~~~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   78 (104)
T 1p1t_A            7 SLRSVFVGNIPYE--A---TEEQLKDIFSEVGPVVSFRLVYDRETG---KPKGYGFCEYQDQETALSAMRNLNGREFSGR   78 (104)
T ss_dssp             HHSCEEEESCCTT--S---CHHHHHHHHHTTSCCSEEEEEEETTTT---EEEEEEEEECSCHHHHHHHHHHSSSBSCSSS
T ss_pred             CccEEEEeCCCCc--C---CHHHHHHHHHhcCCeeEEEEEeCCCCC---ccceEEEEEECCHHHHHHHHHHhCCCeeCCc
Confidence            4678999997522  2   256788999999999999999875432   4579999999999999999999999999999


Q ss_pred             EEEEEecccc
Q 016857          354 VVRATFYDEE  363 (381)
Q Consensus       354 ~V~a~fy~ee  363 (381)
                      .|.+.|....
T Consensus        79 ~l~v~~a~~~   88 (104)
T 1p1t_A           79 ALRVDNAASE   88 (104)
T ss_dssp             CBEEEETTCT
T ss_pred             EEEEEeCCCc
Confidence            9999998753

>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=99.05  E-value=6.8e-10  Score=92.37  Aligned_cols=83  Identities=13%  Similarity=0.217  Sum_probs=69.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...+++|+|.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        19 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   90 (126)
T 3ex7_B           19 SVEGWILFVTGVHEE--A---TEEDIHDKFAEYGEIKNIHLNLDRRTG---YLKGYTLVEYETYKEAQAAMEGLNGQDLM   90 (126)
T ss_dssp             CSSSEEEEEESCCTT--C---CHHHHHHHHHTTSCEEEEECCBCTTTS---SBCSCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            346889999997522  2   256788999999999999998764332   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        91 g~~l~v~~a~~  101 (126)
T 3ex7_B           91 GQPISVDWCFV  101 (126)
T ss_dssp             SSBCEEEESEE
T ss_pred             CeEEEEEEecC
Confidence            99999999864

>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=99.05  E-value=1.3e-09  Score=84.80  Aligned_cols=79  Identities=20%  Similarity=0.281  Sum_probs=66.0

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+ .|||..|+|+.
T Consensus         6 ~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~   76 (89)
T 3ucg_A            6 ARSIYVGNVDYG--A---TAEELEAHFHGCGSVNRVTILCDKFSG---HPKGFAYIEFSDKESVRTSL-ALDESLFRGRQ   76 (89)
T ss_dssp             HTEEEEESCCTT--C---CHHHHHHHHGGGCCEEEEEEEESCSSS---SCCEEEEEEESSTHHHHHHG-GGTTCEETTEE
T ss_pred             CCEEEEeCCCCC--C---CHHHHHHHHHhCCCEEEEEEEecCCCC---CcceEEEEEECCHHHHHHHH-hcCCCEECCcE
Confidence            568899997422  2   246788999999999999999764332   45799999999999999999 99999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.+...
T Consensus        77 l~V~~a~~   84 (89)
T 3ucg_A           77 IKVIPKRT   84 (89)
T ss_dssp             CEEEETTT
T ss_pred             EEEEEccC
Confidence            99998754

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.05  E-value=7.8e-10  Score=86.82  Aligned_cols=81  Identities=16%  Similarity=0.101  Sum_probs=67.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +   -++||++.|++||.|.+|.|..+.     ....|++||+|.+.++|.+|+..|||..|+
T Consensus         5 ~~~~~~l~V~nlp~~--~---t~~~l~~~f~~~G~v~~~~i~~~~-----g~~~g~afV~f~~~~~a~~a~~~l~g~~~~   74 (92)
T 2dgv_A            5 SSGACQIFVRNLPFD--F---TWKMLKDKFNECGHVLYADIKMEN-----GKSKGCGVVKFESPEVAERACRMMNGMKLS   74 (92)
T ss_dssp             SSSCCEEEECSCCTT--C---CHHHHHHHHHTTSCEEEEEEEESS-----SCEEEEEEEEESSHHHHHHHHHHHTTCCBT
T ss_pred             CCCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEccC-----CCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            346789999997532  2   256788999999999999998732     245799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        75 g~~l~v~~a~~   85 (92)
T 2dgv_A           75 GREIDVRIDRN   85 (92)
T ss_dssp             TBCCCCEECSC
T ss_pred             CcEEEEEEcCC
Confidence            99999998754

>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=99.05  E-value=6e-10  Score=91.94  Aligned_cols=81  Identities=16%  Similarity=0.306  Sum_probs=67.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC--e
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR--F  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR--~  349 (381)
                      ..++++|++.|+-.  ++   -++||++.|++||.|.+|.|..         .+|++||+|++.++|.+|+..|||.  .
T Consensus        12 ~~p~~~l~V~nLp~--~~---te~~L~~~F~~fG~V~~v~i~~---------~kg~aFVef~~~~~A~~Ai~~l~~~~~~   77 (104)
T 1wex_A           12 VSVSPVVHVRGLCE--SV---VEADLVEALEKFGTICYVMMMP---------FKRQALVEFENIDSAKECVTFAADVPVY   77 (104)
T ss_dssp             CCCCSEEEEESCCS--SC---CHHHHHHHHTTTSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHHHHSCCB
T ss_pred             CCCCCEEEEeCCCC--CC---CHHHHHHHHHhCCCEEEEEEEC---------CCCEEEEEECCHHHHHHHHHHhccCCce
Confidence            45899999999642  23   2567889999999999999874         2589999999999999999999765  4


Q ss_pred             eCCeEEEEEeccccccc
Q 016857          350 FGGRVVRATFYDEERFS  366 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F~  366 (381)
                      ++||.|.+.|.......
T Consensus        78 i~Gr~l~V~~a~~~~~~   94 (104)
T 1wex_A           78 IAGQQAFFNYSTSKRIT   94 (104)
T ss_dssp             SSSSBCEEEECSSSSCC
T ss_pred             ECCEEEEEEEccCcccc
Confidence            99999999999765443

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.04  E-value=1.3e-09  Score=90.80  Aligned_cols=81  Identities=20%  Similarity=0.234  Sum_probs=68.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+. .+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        33 ~~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~v~~v~i~~~~-~g---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  103 (124)
T 2kt5_A           33 ETGAKLLVSNLDF--GVS---DADIQELFAEFGTLKKAAVDYDR-SG---RSLGTADVHFERRADALKAMKQYKGVPLDG  103 (124)
T ss_dssp             SSCEEEEEESCCS--SCC---HHHHHHHHHTTSCCSEEEEECCS-SS---SCCSEEEEEESSHHHHHHHHHHHTTEESSS
T ss_pred             CCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeeEEEEEECC-CC---CEeeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4688999999742  222   46788999999999999998764 22   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus       104 ~~l~V~~a~~  113 (124)
T 2kt5_A          104 RPMDIQLVAS  113 (124)
T ss_dssp             CEEEEEEECC
T ss_pred             cEEEEEEeCC
Confidence            9999999865

>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=99.04  E-value=1.3e-09  Score=94.08  Aligned_cols=82  Identities=13%  Similarity=0.197  Sum_probs=69.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|+|.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        37 ~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  108 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFY--T---TEEQIYELFSKSGDIKKIIMGLDKMKK---TACGFCFVEYYSRADAENAMRYINGTRLDD  108 (156)
T ss_dssp             TTCCEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHTTTSEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46889999997522  2   256788999999999999999865432   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|+|.|...
T Consensus       109 ~~l~V~~a~~  118 (156)
T 1h2v_Z          109 RIIRTDWDAG  118 (156)
T ss_dssp             EECEEEEESC
T ss_pred             eEEEEEECCC
Confidence            9999999864

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.04  E-value=1.9e-09  Score=91.26  Aligned_cols=82  Identities=13%  Similarity=0.181  Sum_probs=68.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|.+||+|.+.++|.+|+..|||+.|+
T Consensus        84 ~~~~~~l~v~nl~~~--~---t~~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~  155 (166)
T 3md3_A           84 SDDTFNLFVGDLNVN--V---DDETLRNAFKDFPSYLSGHVMWDMQTG---SSRGYGFVSFTSQDDAQNAMDSMQGQDLN  155 (166)
T ss_dssp             CTTCEEEEEESCCTT--C---CHHHHHHHHTTSTTEEEEEEEECTTTC---CEEEEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCceEEECCCCCC--C---CHHHHHHHHhccCCeeEEEEEecCCCC---CcceEEEEEeCCHHHHHHHHHHhCCCccC
Confidence            346889999997432  2   246888999999999999999764432   46789999999999999999999999999


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      |+.|.+.|..
T Consensus       156 g~~i~v~~a~  165 (166)
T 3md3_A          156 GRPLRINWAA  165 (166)
T ss_dssp             TEECEEEESC
T ss_pred             CcEEEEEecC
Confidence            9999999874

>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=99.04  E-value=4.4e-10  Score=95.55  Aligned_cols=83  Identities=22%  Similarity=0.243  Sum_probs=69.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        43 ~~~~~~l~V~nLp~~--~t---e~~L~~~F~~~G~I~~v~i~~d~~tg---~~~G~afV~F~~~~~A~~Ai~~lng~~i~  114 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLY--TT---ERDLREVFSKYGPIADVSIVYDQQSR---RSRGFAFVYFENVDDAKEAKERANGMELD  114 (129)
T ss_dssp             CCCSSCBCEETCTTS--CC---HHHHHHHHTTTSCEEEEEEECCSSSS---CCCCEEEEEESCHHHHHHHHHHHTTCCSS
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCeEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            457889999997432  22   45788999999999999998764432   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus       115 g~~l~V~~a~~  125 (129)
T 2kxn_B          115 GRRIRVDFSIT  125 (129)
T ss_dssp             SSCCEESCCSS
T ss_pred             CEEEEEEEecC
Confidence            99999998754

>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=99.03  E-value=1.4e-09  Score=87.54  Aligned_cols=83  Identities=17%  Similarity=0.238  Sum_probs=69.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|+..|||..|.
T Consensus        12 ~~~~~~l~v~nLp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   82 (105)
T 2dnh_A           12 GGRDRKLFVGMLNK--QQS---EEDVLRLFQPFGVIDECTVLRGPD----GSSKGCAFVKFSSHTEAQAAIHALHGSQTM   82 (105)
T ss_dssp             CCCCCEEEEESCCT--TCC---HHHHHHHHTTTSCEEEEEEEECSS----SCEEEEEEEEESSHHHHHHHHHHHSSCCCC
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEECCC----CCcCcEEEEEeCCHHHHHHHHHHHcCCccC
Confidence            34688999999742  222   567889999999999999997642    245799999999999999999999999998


Q ss_pred             C---eEEEEEecccc
Q 016857          352 G---RVVRATFYDEE  363 (381)
Q Consensus       352 G---R~V~a~fy~ee  363 (381)
                      |   +.|.+.|....
T Consensus        83 gg~~~~l~V~~a~~~   97 (105)
T 2dnh_A           83 PGASSSLVVKFADTD   97 (105)
T ss_dssp             TTCSSCCEEEESCSS
T ss_pred             CCCCccEEEEECccC
Confidence            8   99999998653

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.03  E-value=2.6e-09  Score=87.74  Aligned_cols=82  Identities=9%  Similarity=0.118  Sum_probs=68.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+.+.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..||+ .|+
T Consensus        14 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~Ai~~~~~-~~~   84 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYH--T---TDASLRKYFEGFGDIEEAVVITDRQTG---KSRGYGFVTMADRAAAERACKDPNP-IID   84 (116)
T ss_dssp             SCSSSEEEEECCCSS--C---CHHHHHHHHHTTSCEEEEEESCCSSSC---CCCSEEEEEESSHHHHHHHHTCSSC-EET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhCCCeeEEEEEEcCCCC---ccceEEEEEECCHHHHHHHHHhCCC-cCC
Confidence            346789999997432  2   256788999999999999998764432   4679999999999999999999999 899


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        85 g~~l~V~~a~~   95 (116)
T 2cqd_A           85 GRKANVNLAYL   95 (116)
T ss_dssp             TEECEEEESTT
T ss_pred             CEEEEEEEccc
Confidence            99999999854

>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=99.03  E-value=1.5e-09  Score=89.28  Aligned_cols=80  Identities=23%  Similarity=0.377  Sum_probs=66.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh--CCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL--DGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L--nGR~  349 (381)
                      ..++++|++.|+-.  ++   -++||++.|++||.|.+|.|...         +|++||+|++.++|.+|+..|  ++..
T Consensus        12 ~~p~~~l~V~nLp~--~~---te~~L~~~F~~fG~v~~v~i~~~---------kg~aFVef~~~~~A~~Ai~~l~~~~~~   77 (101)
T 2cq1_A           12 GAPSRVLHIRKLPG--EV---TETEVIALGLPFGKVTNILMLKG---------KNQAFLELATEEAAITMVNYYSAVTPH   77 (101)
T ss_dssp             SSCCSEEEEESCCT--TC---CHHHHHHTTTTTSCEEEEEEETT---------TTEEEEEESSHHHHHHHHHHHHHSCCE
T ss_pred             CCCCCEEEEeCCCC--CC---CHHHHHHHHHhcCCEEEEEEECC---------CCEEEEEECCHHHHHHHHHHhccCCce
Confidence            46899999999763  22   25678899999999999998742         589999999999999999987  5788


Q ss_pred             eCCeEEEEEecccccc
Q 016857          350 FGGRVVRATFYDEERF  365 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F  365 (381)
                      ++||.|.+.|......
T Consensus        78 ~~Gr~l~V~~a~~~~~   93 (101)
T 2cq1_A           78 LRNQPIYIQYSNHKEL   93 (101)
T ss_dssp             ETTEECEEEECSCSSC
T ss_pred             ECCcEEEEEEcCcccC
Confidence            9999999999875443

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.03  E-value=8.3e-10  Score=88.73  Aligned_cols=81  Identities=19%  Similarity=0.291  Sum_probs=68.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+  .   ....|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~v~i~~~--~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   81 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDG--ID---DERLRKAFSPFGTITSAKVMME--G---GRSKGFGFVCFSSPEEATKAVTEMNGRIVA   81 (103)
T ss_dssp             CSSCCCEEEECCCTT--CC---HHHHHHTTTTTSCEEEEEEEEC--S---SSEEEEEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCEEEEEEEcC--C---CCcCEEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            347889999997432  22   4678899999999999999875  1   246799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        82 g~~l~V~~a~~   92 (103)
T 2d9p_A           82 TKPLYVALAQR   92 (103)
T ss_dssp             SSBCEEEECSS
T ss_pred             CcEEEEEEecc
Confidence            99999999865

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.02  E-value=1.1e-09  Score=87.30  Aligned_cols=83  Identities=18%  Similarity=0.218  Sum_probs=69.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCee-EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVT-RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~-~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      ..+++.|++.|+-..  +.   ++||++.|++||.|. +|.|..+...+   ...|++||+|.+.++|.+|+..|||..|
T Consensus         6 ~~~~~~l~V~nLp~~--~t---~~~l~~~F~~~G~i~~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~   77 (99)
T 2div_A            6 SGMAASLWMGDLEPY--MD---ENFISRAFATMGETVMSVKIIRNRLTG---IPAGYCFVEFADLATAEKCLHKINGKPL   77 (99)
T ss_dssp             CSSSSEEEECSCCTT--CC---HHHHHHHHHHTTCCCCEEEEEECSSSC---CEEEEEEEECSCHHHHHHHHHTTTTSEE
T ss_pred             CCCccEEEEeCCCCC--CC---HHHHHHHHHHhCCcceEEEEeecCCCC---CcCCEEEEEeCCHHHHHHHHHHHcCCcc
Confidence            347889999997422  22   567889999999999 99998765432   4679999999999999999999999999


Q ss_pred             CCeE----EEEEeccc
Q 016857          351 GGRV----VRATFYDE  362 (381)
Q Consensus       351 ~GR~----V~a~fy~e  362 (381)
                      +|+.    |++.|...
T Consensus        78 ~g~~~~~~l~v~~a~~   93 (99)
T 2div_A           78 PGATPAKRFKLNYATY   93 (99)
T ss_dssp             SSCSSCEECCEEETTC
T ss_pred             CCCCcceeEEEeecCC
Confidence            9999    99988754

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

Probab=99.02  E-value=2.2e-09  Score=86.40  Aligned_cols=81  Identities=15%  Similarity=0.283  Sum_probs=68.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++|| |.+|.|+.+...+   ...|++||+|.+.++|.+|+ .|||..|+
T Consensus        12 ~~~~~~l~V~nLp~~--~---t~~~l~~~F~~~g-i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~-~l~g~~~~   81 (103)
T 2dng_A           12 TEPPYTAYVGNLPFN--T---VQGDIDAIFKDLS-IRSVRLVRDKDTD---KFKGFCYVEFDEVDSLKEAL-TYDGALLG   81 (103)
T ss_dssp             SSSCEEEEEESCCTT--C---CHHHHHHHTTTSC-EEEEEEEECSSSC---SEEEEEEEEESSHHHHHHHG-GGTTCEET
T ss_pred             CCCCeEEEEeCCCCC--C---CHHHHHHHHHhCC-ceEEEEeecCCCC---ccceEEEEEECCHHHHHHHH-hhCCCeEC
Confidence            457899999997422  2   2567889999997 9999999865432   46799999999999999999 99999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        82 g~~l~V~~a~~   92 (103)
T 2dng_A           82 DRSLRVDIAEG   92 (103)
T ss_dssp             TEECEEEECCC
T ss_pred             CeEEEEEEecC
Confidence            99999999865

>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=99.02  E-value=9.7e-10  Score=88.61  Aligned_cols=84  Identities=14%  Similarity=0.169  Sum_probs=69.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee-
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF-  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F-  350 (381)
                      ...++.|++.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..+ 
T Consensus        10 ~~~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~g~~~~   81 (106)
T 2dgp_A           10 DHDAIKLFIGQIPR--NLD---EKDLKPLFEEFGKIYELTVLKDRFTG---MHKGCAFLTYCERESALKAQSALHEQKTL   81 (106)
T ss_dssp             CTTCEEEEEESCCT--TCC---HHHHHHHHHHHSCCCEEECCCCSSSC---SCCSEEEEEESSHHHHHHHHHHHTTTCCC
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCeeEEEEEecCCCC---CcceEEEEEECCHHHHHHHHHHhcCCccc
Confidence            34688999999742  222   45788999999999999998764432   4679999999999999999999999987 


Q ss_pred             --CCeEEEEEecccc
Q 016857          351 --GGRVVRATFYDEE  363 (381)
Q Consensus       351 --~GR~V~a~fy~ee  363 (381)
                        +|+.|.+.|....
T Consensus        82 ~~~g~~l~v~~a~~~   96 (106)
T 2dgp_A           82 PGMNRPIQVKPADSE   96 (106)
T ss_dssp             TTCSSCCEEEECCCC
T ss_pred             CCCCceEEEEECCcc
Confidence              8999999998653

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.02  E-value=1.2e-09  Score=96.88  Aligned_cols=82  Identities=11%  Similarity=0.197  Sum_probs=69.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||+.|+|
T Consensus       123 ~~~~~l~v~nlp~~--~---t~~~l~~~f~~~G~v~~v~i~~~~~~g---~~~g~afV~F~~~~~A~~A~~~l~g~~~~g  194 (216)
T 2qfj_A          123 RAFNRIYVASVHQD--L---SDDDIKSVFEAFGKIKSATLARDPTTG---KHKGYGFIEYEKAQSSQDAVSSMNLFDLGG  194 (216)
T ss_dssp             TTSCEEEEECCCTT--C---CHHHHHHHHTTSSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCcEEEEeCCCCc--C---CHHHHHHHHhccCCeeEEEEEecCCCC---CcCceEEEEecCHHHHHHHHHHccCCEeCC
Confidence            36789999997532  2   257899999999999999999864432   457999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus       195 ~~i~V~~a~~  204 (216)
T 2qfj_A          195 QYLRVGKAVT  204 (216)
T ss_dssp             SBCEEEECSS
T ss_pred             cEEEEEEecC
Confidence            9999999854

>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=99.02  E-value=2.3e-09  Score=86.50  Aligned_cols=75  Identities=21%  Similarity=0.463  Sum_probs=64.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|+|.|+-..  +   -++||++.|++||.|.+|.|.+           +++||+|.+.++|.+|+..|||..|+|
T Consensus         9 ~~~~~l~V~nl~~~--~---t~~~l~~~F~~~G~i~~v~~~~-----------~~afV~f~~~~~a~~A~~~l~g~~~~g   72 (103)
T 2dgu_A            9 AKVKVLFVRNLANT--V---TEEILEKAFSQFGKLERVKKLK-----------DYAFIHFDERDGAVKAMEEMNGKDLEG   72 (103)
T ss_dssp             CCCCCEEEECCCTT--C---CHHHHHHHHHHHSCEEEEEECS-----------SCEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEEC-----------CEEEEEeCCHHHHHHHHHHHCCCccCC
Confidence            46789999997532  2   2467889999999999999873           589999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|.+.|....
T Consensus        73 ~~l~v~~a~~~   83 (103)
T 2dgu_A           73 ENIEIVFAKPP   83 (103)
T ss_dssp             EEEEEEECCCC
T ss_pred             CEEEEEEcCCC
Confidence            99999999653

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

Probab=99.02  E-value=1.5e-09  Score=91.20  Aligned_cols=80  Identities=23%  Similarity=0.329  Sum_probs=66.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-..  +.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        61 ~~~~~l~v~nlp~~--~~---~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  132 (140)
T 2ku7_A           61 TTKRVLYVGGLAEE--VD---DKVLHAAFIPFGDITDIQIPLDYETE---KHRGFAFVEFELAEDAAAAIDNMNESELFG  132 (140)
T ss_dssp             SSCCEEEEECCCTT--CC---HHHHHHHHGGGSCEEEEECCCCTTTC---CCCSEEEEEESCHHHHHHHHHHSTEEEETT
T ss_pred             CCCcEEEEEeCCCC--CC---HHHHHHHHHhcCCEEEEEEeecCCCC---CcCcEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46889999997432  22   46788999999999999998764432   467999999999999999999999999999


Q ss_pred             eEEEEEec
Q 016857          353 RVVRATFY  360 (381)
Q Consensus       353 R~V~a~fy  360 (381)
                      +.|++.|.
T Consensus       133 ~~l~v~~A  140 (140)
T 2ku7_A          133 RTIRVNLA  140 (140)
T ss_dssp             EEEEEEC-
T ss_pred             EEEEEEeC
Confidence            99999873

>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=99.01  E-value=1.8e-09  Score=87.04  Aligned_cols=83  Identities=18%  Similarity=0.223  Sum_probs=68.3

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +.   ++||++.|++|| |.+|.|+.+...  .....|++||+|.+.++|.+|+ .|||..|+
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 KSPPYTAFLGNLPYD--VT---EESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLG   82 (104)
T ss_dssp             SSSCEEEEEESCCSS--CC---HHHHHHHTTTSC-EEEEECCBCSSC--TTSBCSCEEEEESSHHHHHHHH-GGGTCEET
T ss_pred             CCCCCEEEEeCCCCc--CC---HHHHHHHHHHCC-ceEEEEecCCCC--CCCcCeEEEEEECCHHHHHHHH-hcCCCEeC
Confidence            457899999997422  22   467889999999 999999876432  0245799999999999999999 99999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|.+.|....
T Consensus        83 g~~l~V~~a~~~   94 (104)
T 1wi8_A           83 NKRIRVDVADQA   94 (104)
T ss_dssp             TEECEEEECCCC
T ss_pred             CcEEEEEEccCC
Confidence            999999998653

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.01  E-value=2.1e-09  Score=84.76  Aligned_cols=75  Identities=24%  Similarity=0.384  Sum_probs=64.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-.  ++   -++||++.|++||.|.+|.|.+           +++||+|.+.++|.+|+..|||..|+
T Consensus         7 ~~~~~~l~V~nLp~--~~---t~~~l~~~F~~~G~v~~v~~~~-----------~~afV~f~~~~~a~~A~~~l~g~~~~   70 (92)
T 2dgt_A            7 GKASTKLHVGNISP--TC---TNQELRAKFEEYGPVIECDIVK-----------DYAFVHMERAEDAVEAIRGLDNTEFQ   70 (92)
T ss_dssp             CCSSEEEEEESCCS--SC---CHHHHHHHHHTTSCCCEEEECS-----------SEEEEEESCHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCC--CC---CHHHHHHHHHhcCCeEEEEEEC-----------CEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            45788999999842  22   2567889999999999999973           48999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        71 g~~l~V~~a~~   81 (92)
T 2dgt_A           71 GKRMHVQLSTS   81 (92)
T ss_dssp             TEEEEEEESSC
T ss_pred             CcEEEEEEccC
Confidence            99999999864

>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=99.01  E-value=1.2e-09  Score=89.42  Aligned_cols=81  Identities=15%  Similarity=0.185  Sum_probs=67.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+ .|||..|+|+
T Consensus        24 ~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~   94 (114)
T 2cq4_A           24 DARTVFCMQLAAR--IR---PRDLEDFFSAVGKVRDVRIISDRNSR---RSKGIAYVEFCEIQSVPLAI-GLTGQRLLGV   94 (114)
T ss_dssp             HHTEEEEESCCTT--CC---HHHHHHHHTTTSCEEEEEECCSCCSS---SCCCCEEEEESCGGGHHHHH-HHTTEEETTE
T ss_pred             CCCEEEEeCCCCC--CC---HHHHHHHHHhCCCEeEEEEEecCCCC---ccCcEEEEEeCcHHHHHHHH-HcCCCEeCCe
Confidence            4678999997422  22   46788999999999999998754432   45799999999999999999 9999999999


Q ss_pred             EEEEEecccc
Q 016857          354 VVRATFYDEE  363 (381)
Q Consensus       354 ~V~a~fy~ee  363 (381)
                      .|.+.+....
T Consensus        95 ~l~V~~a~~~  104 (114)
T 2cq4_A           95 PIIVQASQAE  104 (114)
T ss_dssp             EEEEEEHHHH
T ss_pred             EEEEEecCCC
Confidence            9999998653

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.00  E-value=1.2e-09  Score=89.50  Aligned_cols=81  Identities=19%  Similarity=0.210  Sum_probs=68.2

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-..  +   -++||++.|++||.|.+|.|..+..     ...|++||+|.+.++|.+|+..|||..|+
T Consensus        26 ~~~~~~l~V~nLp~~--~---te~~l~~~F~~~G~i~~v~i~~~~~-----~~kg~afV~f~~~~~A~~Ai~~l~g~~~~   95 (109)
T 2err_A           26 KSQPKRLHVSNIPFR--F---RDPDLRQMFGQFGKILDVEIIFNER-----GSKGFGFVTFENSADADRAREKLHGTVVE   95 (109)
T ss_dssp             TTCCCEEEEESCCTT--C---CHHHHHHHGGGTCCCSCEEECCBTT-----BCTTEEEEECCCSHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCc--C---CHHHHHHHHHhcCCEEEEEEEECCC-----CCceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            346889999997422  2   2567889999999999999987532     25799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        96 g~~l~V~~a~~  106 (109)
T 2err_A           96 GRKIEVNNATA  106 (109)
T ss_dssp             TEECEEEECCC
T ss_pred             CEEEEEEECCC
Confidence            99999998754

>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=99.00  E-value=2.2e-09  Score=86.39  Aligned_cols=76  Identities=14%  Similarity=0.173  Sum_probs=64.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-.. ++   -++||++.|++||.|.+|.|.           .|++||+|.+.++|.+|+..|||..|+
T Consensus        19 ~~~~~~l~V~nLp~~-~~---t~~~L~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLK-NV---SKEDLFRIFSPYGHIMQINIK-----------NAFGFIQFDNPQSVRDAIEXESQEMNF   83 (97)
T ss_dssp             CCTTCEEEEESCCSS-CC---CHHHHHHHHGGGSCEEEEEEC-----------SSEEEEEESSHHHHHHHHHHHTTSEET
T ss_pred             CCCCCEEEEeCCCcc-cC---CHHHHHHHHHhcCCEEEEEEe-----------CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            457899999997531 22   246788999999999999994           389999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        84 g~~l~V~~a~~   94 (97)
T 2xnq_A           84 GKKLILEVSSS   94 (97)
T ss_dssp             TEECEEEECCC
T ss_pred             CEEEEEEecCC
Confidence            99999998743

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.00  E-value=2.4e-09  Score=88.82  Aligned_cols=80  Identities=14%  Similarity=0.250  Sum_probs=67.4

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+ .|||..|+|+
T Consensus        35 ~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~  105 (124)
T 2jwn_A           35 DKRSVYVGNVDYG--ST---AQDLEAHFSSCGSINRITILCDKFSG---HPKGYAYIEFAERNSVDAAV-AMDETVFRGR  105 (124)
T ss_dssp             HHTEEEEEEECTT--CC---HHHHHHHHHTTSCEEEEEEEEECTTS---SCEEEEEEEESSHHHHHHHH-TTTTCEETTE
T ss_pred             CCCEEEEeCCCCC--CC---HHHHHHHHHhcCCEEEEEEEecCCCC---CcccEEEEEECCHHHHHHHH-hcCCCeECCe
Confidence            4678999997422  22   56788999999999999999865433   46899999999999999999 8999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus       106 ~l~V~~a~~  114 (124)
T 2jwn_A          106 TIKVLPKRT  114 (124)
T ss_dssp             ECEEEESSC
T ss_pred             EEEEEECCC
Confidence            999999764

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.99  E-value=1.4e-09  Score=88.74  Aligned_cols=83  Identities=16%  Similarity=0.247  Sum_probs=68.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCee--------EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVT--------RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~--------~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      ...++.|+|.|+-.  ++.   ++||++.|++||.|.        .|.|+.+...+   ...|++||+|.+.++|.+|+.
T Consensus        12 ~~~~~~l~V~nLp~--~~t---~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~Ai~   83 (113)
T 2cpe_A           12 DSDNSAIYVQGLND--SVT---LDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG---KPKGDATVSYEDPPTAKAAVE   83 (113)
T ss_dssp             CCCCCEEEEECCCT--TCC---HHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTC---SBCSEEEEEBSSHHHHHHHHH
T ss_pred             CCCCCEEEEcCCCC--CCC---HHHHHHHHHhcCCEeEccccCccCEEEEEeCCCC---CeeeEEEEEECCHHHHHHHHH
Confidence            34688999999752  222   467889999999999        68888754332   467999999999999999999


Q ss_pred             hhCCCeeCCeEEEEEeccc
Q 016857          344 DLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       344 ~LnGR~F~GR~V~a~fy~e  362 (381)
                      .|||..|+|+.|++.+...
T Consensus        84 ~l~g~~~~g~~l~V~~a~~  102 (113)
T 2cpe_A           84 WFDGKDFQGSKLKVSLARK  102 (113)
T ss_dssp             HHTTCEETTEECEEECSSC
T ss_pred             HcCCCccCCCEEEEEECCC
Confidence            9999999999999999865

>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=98.99  E-value=1.1e-09  Score=87.01  Aligned_cols=81  Identities=25%  Similarity=0.319  Sum_probs=66.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|++.|+-  .++   -++||++.|++||.|..+.|......+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        13 ~~~~~l~v~nLp--~~~---t~~~l~~~F~~~G~v~~~~~~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   84 (98)
T 2cqp_A           13 PGPTIIKVQNMP--FTV---SIDEILDFFYGYQVIPGSVCLKYNEKG---MPTGEAMVAFESRDEATAAVIDLNDRPIGS   84 (98)
T ss_dssp             CSSEEEEEESCC--TTC---CHHHHHHHTTTSCCCTTTCEEEECSSS---CEEEEEEEEESCHHHHHHHHHHTTTCEETT
T ss_pred             CCCCEEEEeCCC--CCC---CHHHHHHHHHHcCCccceEEEEECCCC---CeeeEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            457889999974  222   246788999999999887777654332   457999999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      |.|.+.+..
T Consensus        85 ~~l~V~~a~   93 (98)
T 2cqp_A           85 RKVKLVLGS   93 (98)
T ss_dssp             EECEEEESS
T ss_pred             eEEEEEEcC
Confidence            999999875

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

Probab=98.99  E-value=1.4e-09  Score=87.43  Aligned_cols=83  Identities=17%  Similarity=0.170  Sum_probs=69.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhc-cCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe-e
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAK-YGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF-F  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsK-YG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~-F  350 (381)
                      .+++.|++.|+-..  +   -++||++.|++ ||.|.+|.|+.+. .+   ...|++||+|.+.++|.+|+..|||.. |
T Consensus         7 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~~G~v~~v~i~~~~-~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~   77 (104)
T 2dhg_A            7 GPEYSLFVGDLTPD--V---DDGMLYEFFVKVYPSCRGGKVVLDQ-TG---VSKGYGFVKFTDELEQKRALTECQGAVGL   77 (104)
T ss_dssp             SCCCCEEEECCCTT--C---CHHHHHHHHHHHCTTEEEEEEEECT-TC---CEEEEEEEEESCHHHHHHHHHHTTTCCSS
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHHhCCCeEEEEEEECC-CC---CccceEEEEECCHHHHHHHHHHccCCccc
Confidence            46788999997532  2   24678899999 9999999999864 32   468999999999999999999999999 9


Q ss_pred             CCeEEEEEeccccc
Q 016857          351 GGRVVRATFYDEER  364 (381)
Q Consensus       351 ~GR~V~a~fy~ee~  364 (381)
                      +|+.|.+.+.....
T Consensus        78 ~g~~l~v~~a~~~~   91 (104)
T 2dhg_A           78 GSKPVRLSVAIPKA   91 (104)
T ss_dssp             SSSCCCCCBCCCCC
T ss_pred             CCEeEEEEEccCCC
Confidence            99999999986543

>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=2.6e-09  Score=85.19  Aligned_cols=75  Identities=12%  Similarity=0.235  Sum_probs=64.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+    ++.   ++||++.|++||.|.+|.|..         ..|++||+|.+.++|.+|+..|||..|+|
T Consensus        13 ~~~~~l~V~n~----~~t---~~~l~~~F~~~G~i~~v~i~~---------~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   76 (97)
T 1x5p_A           13 RKGNTLYVYGE----DMT---PTLLRGAFSPFGNIIDLSMDP---------PRNCAFVTYEKMESADQAVAELNGTQVES   76 (97)
T ss_dssp             CCCSEEEEECS----SCC---HHHHHHHHTTTSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEcCC----CCC---HHHHHHHHhhCCCEEEEEecC---------CCCEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            36788999993    232   567889999999999999952         35899999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|.+.|....
T Consensus        77 ~~l~v~~a~~~   87 (97)
T 1x5p_A           77 VQLKVNIARKQ   87 (97)
T ss_dssp             EEEEEECCSSC
T ss_pred             eEEEEEECCCC
Confidence            99999998653

>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=98.99  E-value=8e-10  Score=91.39  Aligned_cols=78  Identities=17%  Similarity=0.257  Sum_probs=65.2

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC--e
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR--F  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR--~  349 (381)
                      ..++++|.+.|+-. .++   -++||++.|++||.|.+|.|.+.         .|++||+|++.++|.+|+..|||.  .
T Consensus        12 ~~p~~~l~V~nLp~-~~~---te~dL~~lF~~fG~V~~v~i~~~---------kg~aFVef~~~~~A~~Ai~~l~~~~~~   78 (102)
T 1x4d_A           12 VETRRVVHIMDFQR-GKN---LRYQLLQLVEPFGVISNHLILNK---------INEAFIEMATTEDAQAAVDYYTTTPAL   78 (102)
T ss_dssp             CCCCCEEEEESCCC-SSS---HHHHHHTTTGGGSCEEEEEECSS---------SSCEEEEESSHHHHHHHHHHHHHSCCE
T ss_pred             CCCCCEEEEeCCCC-CcC---CHHHHHHHHHhcCCEEEEEEEcC---------CCEEEEEECCHHHHHHHHHHHcCCCce
Confidence            45899999999763 122   35678899999999999999752         378999999999999999999865  5


Q ss_pred             eCCeEEEEEeccc
Q 016857          350 FGGRVVRATFYDE  362 (381)
Q Consensus       350 F~GR~V~a~fy~e  362 (381)
                      |+||.|.+.|...
T Consensus        79 ~~Gr~l~V~~a~~   91 (102)
T 1x4d_A           79 VFGKPVRVHLSQK   91 (102)
T ss_dssp             ETTEECEEEEECC
T ss_pred             ECCcEEEEEECCC
Confidence            9999999999864

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.98  E-value=3.6e-09  Score=91.52  Aligned_cols=79  Identities=23%  Similarity=0.329  Sum_probs=64.3

Q ss_pred             CCCceEEE--EecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceE-EEEEeCCHHHHHHHHHhhCCC
Q 016857          272 GPPTRVLL--LRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVR-IFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       272 g~pSrVVv--L~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~Gr-VFVeF~d~esA~kAv~~LnGR  348 (381)
                      ..+++|+.  +.|+...  +.   +++|++.|++||.|.+|.|+...        .|+ +||+|.+.++|.+|++.|||+
T Consensus        23 ~~ps~VL~I~V~NL~~~--vt---e~~L~~lFs~yG~V~~V~i~~~~--------~gfqAFVef~~~~~A~~Ai~~LnG~   89 (130)
T 3zzy_A           23 AGQSPVLRIIVENLFYP--VT---LDVLHQIFSKFGTVLKIITFTKN--------NQFQALLQYADPVSAQHAKLSLDGQ   89 (130)
T ss_dssp             --CCSEEEEEEESCCSC--CC---HHHHHHHHTTSSCEEEEEEEEET--------TEEEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCCceEEEEECCCCCC--CC---HHHHHHHHhCcCCEEEEEEEcCC--------CCcEEEEEECCHHHHHHHHHHcCCC
Confidence            45788877  8888533  22   44688999999999999998632        376 999999999999999999999


Q ss_pred             eeCC--eEEEEEecccc
Q 016857          349 FFGG--RVVRATFYDEE  363 (381)
Q Consensus       349 ~F~G--R~V~a~fy~ee  363 (381)
                      .|.|  +.|++.|....
T Consensus        90 ~i~g~~~~LrI~~ak~~  106 (130)
T 3zzy_A           90 NIYNACCTLRIDFSKLT  106 (130)
T ss_dssp             EEETTEEEEEEEECSCS
T ss_pred             eecCCCcEEEEEecCCC
Confidence            9988  99999998654

>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=98.98  E-value=1.5e-09  Score=91.92  Aligned_cols=83  Identities=17%  Similarity=0.267  Sum_probs=66.7

Q ss_pred             cCCCCCceEEEEec--ccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          269 NFNGPPTRVLLLRN--MVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       269 ~~~g~pSrVVvL~N--Mv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      .....|++.|++.|  +-..  +   -++||++.|++||.|.+|.|+.         .+|++||+|.+.++|.+|+..||
T Consensus        19 ~~~~~pt~~L~V~Ng~L~~~--~---te~~L~~~F~~fG~v~~v~i~~---------~rgfaFV~f~~~~~A~~Ai~~ln   84 (114)
T 2cq2_A           19 ETVSYATQSLVVANGGLGNG--V---SRNQLLPVLEKCGLVDALLMPP---------NKPYSFARYRTTEESKRAYVTLN   84 (114)
T ss_dssp             CCCSSCCSEEEEETCTGGGT--C---CHHHHHHHHHHHSCEEEEECCT---------TCSCEEEEESSHHHHHHHHHHTT
T ss_pred             cCCCCCCCEEEEECCCCCCC--C---CHHHHHHHHHhcCCeEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhC
Confidence            34456899999965  5321  1   2468889999999999998863         25899999999999999999999


Q ss_pred             CCee-----CCeEEEEEecccccc
Q 016857          347 GRFF-----GGRVVRATFYDEERF  365 (381)
Q Consensus       347 GR~F-----~GR~V~a~fy~ee~F  365 (381)
                      |+.+     .|+.|.+.|...--|
T Consensus        85 G~~~~~~lg~g~~l~v~~a~~~p~  108 (114)
T 2cq2_A           85 GKEVVDDLGQKITLYLNFVEKVQW  108 (114)
T ss_dssp             TCEEECTTSCEEECEEEEESCCCC
T ss_pred             CCEEccccCCCcEEEEEecccCcc
Confidence            9998     789999999865433

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.98  E-value=2.6e-09  Score=83.91  Aligned_cols=75  Identities=21%  Similarity=0.236  Sum_probs=64.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-.  ++.   ++||++.|++||.|.+|.|.           .|++||+|.+.++|.+|+..|||..|+
T Consensus         5 ~~~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~i~~v~~~-----------~g~afV~f~~~~~A~~A~~~l~g~~~~   68 (90)
T 2dnq_A            5 SSGMVKLFIGNLPR--EAT---EQEIRSLFEQYGKVLECDII-----------KNYGFVHIEDKTAAEDAIRNLHHYKLH   68 (90)
T ss_dssp             SSCCEEEEEESCCS--SCC---HHHHHHHHHTSSCEEEEEEE-----------TTEEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCeEEEEeCCCC--CCC---HHHHHHHHHhCCCEEEEEEE-----------CCEEEEEECCHHHHHHHHHHhcCCccC
Confidence            34788999999743  222   46788999999999999997           278999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        69 g~~l~v~~a~~   79 (90)
T 2dnq_A           69 GVNINVEASKN   79 (90)
T ss_dssp             SCBCEEECSSC
T ss_pred             CcEEEEEECCC
Confidence            99999999865

>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=98.98  E-value=1.9e-09  Score=85.84  Aligned_cols=76  Identities=17%  Similarity=0.281  Sum_probs=64.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC-
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG-  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~-  351 (381)
                      .+++.|++.|+-..  +.   ++||++.|++||.|.+|.|...         .|++||+|.+.++|.+|+..|||..|+ 
T Consensus        15 ~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~v~~v~~~~~---------~g~afV~f~~~~~A~~A~~~l~g~~~~~   80 (97)
T 1why_A           15 NPTTRLWVGGLGPN--TS---LAALAREFDRFGSIRTIDHVKG---------DSFAYIQYESLDAAQAACAKMRGFPLGG   80 (97)
T ss_dssp             CCCSCEEEECCCSS--CC---HHHHHHHHHTTSCEEEEEECSS---------SCCEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCeeEEEEeCC---------CCEEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            47789999997532  22   4678899999999999998742         589999999999999999999999999 


Q ss_pred             -CeEEEEEeccc
Q 016857          352 -GRVVRATFYDE  362 (381)
Q Consensus       352 -GR~V~a~fy~e  362 (381)
                       |+.|++.|...
T Consensus        81 ~g~~l~V~~a~~   92 (97)
T 1why_A           81 PDRRLRVDFAKS   92 (97)
T ss_dssp             SSCBCEEEECCC
T ss_pred             CCcEEEEEECCC
Confidence             99999999754

>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=98.97  E-value=6.4e-10  Score=93.73  Aligned_cols=88  Identities=19%  Similarity=0.329  Sum_probs=68.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC--CCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD--GRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln--GR~  349 (381)
                      ..++++|+|.|+-... +   -++||++.|++||.|.+|.|.+         .+|++||+|++.++|.+|+..||  +..
T Consensus        22 ~~p~~~l~V~NLp~~~-~---te~~L~~lF~~fG~V~~v~i~~---------~kg~aFVef~~~~~A~~Ai~~l~~~~~~   88 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSG-Y---SDSAVLKLAEPYGKIKNYILMR---------MKSQAFIEMETREDAMAMVDHCLKKALW   88 (112)
T ss_dssp             SCCCCEEEEESCCCSS-C---CSHHHHTTTTTTSCCSEEEEET---------TTTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCCCEEEEeCCCCcc-C---CHHHHHHHHHhcCCEEEEEEec---------CCCEEEEEECCHHHHHHHHHHhccCCce
Confidence            4589999999976420 1   1357889999999999999974         35899999999999999999886  456


Q ss_pred             eCCeEEEEEecccccccccccCCCC
Q 016857          350 FGGRVVRATFYDEERFSKNELAPLP  374 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F~~~~l~p~~  374 (381)
                      |+||.|.+.|...  .....+.|.+
T Consensus        89 l~Gr~l~V~~a~~--~~~~~~~~~~  111 (112)
T 1x4f_A           89 FQGRCVKVDLSEK--YKKLVSGPSS  111 (112)
T ss_dssp             SSSSCCEEEEECS--CSSSSCCCCC
T ss_pred             ECCEEEEEEECcc--ccccccCCCC
Confidence            9999999999753  3333445443

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.97  E-value=3.3e-09  Score=84.74  Aligned_cols=74  Identities=24%  Similarity=0.436  Sum_probs=64.0

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhcc--CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKY--GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKY--G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      .++++|+|.|+-..  +.   ++||++.|++|  |.|.+|.+.           .|++||+|.+.++|.+|+..|||..|
T Consensus        13 ~~~~~l~V~nLp~~--~t---~~~l~~~F~~~g~g~v~~~~~~-----------~g~afV~f~~~~~A~~A~~~l~g~~~   76 (99)
T 2cpd_A           13 SSVKILYVRNLMLS--TS---EEMIEKEFNNIKPGAVERVKKI-----------RDYAFVHFSNREDAVEAMKALNGKVL   76 (99)
T ss_dssp             SCCCEEEEESCCTT--CC---HHHHHHHHHTTSTTCEEEEEEC-----------SSEEEEEESSHHHHHHHHHHHSSEEE
T ss_pred             CCcCEEEEeCCCCC--CC---HHHHHHHHHhcCCcceEEEEEe-----------CCeEEEEeCCHHHHHHHHHHhCCCEe
Confidence            47889999997532  22   46788999999  999999885           37999999999999999999999999


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      +|+.|++.|...
T Consensus        77 ~g~~l~v~~a~~   88 (99)
T 2cpd_A           77 DGSPIEVTLAKP   88 (99)
T ss_dssp             TTEEEEEECCCC
T ss_pred             CCcEEEEEECCC
Confidence            999999999865

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.97  E-value=2.4e-09  Score=84.20  Aligned_cols=75  Identities=17%  Similarity=0.285  Sum_probs=64.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-..  +   -++||++.|++||.|.+|.|.+           +++||+|.+.++|.+|+..|||..|+|
T Consensus         7 ~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~v~~~~~~~-----------~~afV~f~~~~~a~~A~~~l~g~~~~g   70 (90)
T 2dnp_A            7 GNTWKIFVGNVSAA--C---TSQELRSLFERRGRVIECDVVK-----------DYAFVHMEKEADAKAAIAQLNGKEVKG   70 (90)
T ss_dssp             CCSCCEEEESCCTT--C---CHHHHHHHHHHHSCEEEEEECS-----------SCEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHcCCCEEEEEEEC-----------CEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46788999997532  2   2467889999999999999973           479999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|.+.|....
T Consensus        71 ~~l~v~~a~~~   81 (90)
T 2dnp_A           71 KRINVELSTKG   81 (90)
T ss_dssp             EECEEEESCCC
T ss_pred             cEEEEEECCCC
Confidence            99999998653

>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=98.96  E-value=3.9e-09  Score=92.46  Aligned_cols=82  Identities=16%  Similarity=0.217  Sum_probs=68.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|+|.||-..  +   -+++|++.|++||.|..|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        70 ~~~~~l~V~nLp~~--~---t~~~L~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  141 (165)
T 1rk8_A           70 VEGWILFVTSIHEE--A---QEDEIQEKFCDYGEIKNIHLNLDRRTG---FSKGYALVEYETHKQALAAKEALNGAEIMG  141 (165)
T ss_dssp             C-CEEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTS---SEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHhhcCCCEEEEEEEecCCCC---cEeeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999997532  2   256788999999999999999764432   457999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus       142 ~~l~V~~a~~  151 (165)
T 1rk8_A          142 QTIQVDWCFV  151 (165)
T ss_dssp             EECEEEESEE
T ss_pred             EEEEEEEecC
Confidence            9999999854

>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=98.96  E-value=2.3e-09  Score=91.79  Aligned_cols=80  Identities=13%  Similarity=0.161  Sum_probs=67.4

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-..-     -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+||
T Consensus        93 ~~~~l~v~nlp~~~-----t~~~l~~~f~~~G~v~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  164 (172)
T 2g4b_A           93 GAHKLFIGGLPNYL-----NDDQVKELLTSFGPLKAFNLVKDSATG---LSKGYAFCEYVDINVTDQAIAGLNGMQLGDK  164 (172)
T ss_dssp             TTTCEEEECCCTTC-----CHHHHHHHHHTTSCEEEEEEEECTTTC---SEEEEEEEEESSTTHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEEcCCCcC-----CHHHHHHHHHhcCCceEEEEEecCCCC---CcceEEEEEeCCHHHHHHHHHHcCCCEECCe
Confidence            46788899975422     256889999999999999999864332   4579999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.|.+
T Consensus       165 ~l~V~~As  172 (172)
T 2g4b_A          165 KLLVQRAS  172 (172)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEeCC
Confidence            99999863

>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=98.96  E-value=1.7e-09  Score=92.10  Aligned_cols=80  Identities=23%  Similarity=0.364  Sum_probs=67.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCC--Ce
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG--RF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnG--R~  349 (381)
                      ..++++|+|.|+-..  +   -++||++.|++||.|.+|.|...         +|++||+|++.++|.+|+..|||  ..
T Consensus        28 ~~ps~~LfVgNLp~~--v---te~dL~~lF~~fG~V~~v~i~~~---------kG~AFVeF~~~e~A~~Ai~~l~~~~~~   93 (119)
T 2ad9_A           28 GVPSRVIHIRKLPID--V---TEGEVISLGLPFGKVTNLLMLKG---------KNQAFIEMNTEEAANTMVNYYTSVTPV   93 (119)
T ss_dssp             SSCCSEEEEESCCTT--C---CHHHHHHHHTTTSCCCEEEEEGG---------GTEEEEECSCHHHHHHHHHHHHHHCCC
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEEEEEEeCC---------CCEEEEEECCHHHHHHHHHHhccCCce
Confidence            468999999997632  2   25678899999999999999852         58999999999999999999984  68


Q ss_pred             eCCeEEEEEecccccc
Q 016857          350 FGGRVVRATFYDEERF  365 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F  365 (381)
                      |+||.|.+.|......
T Consensus        94 l~Gr~l~V~~a~~k~~  109 (119)
T 2ad9_A           94 LRGQPIYIQFSNHKEL  109 (119)
T ss_dssp             BTTBCCEEEECSSSSC
T ss_pred             ECCeEEEEEEccCCCC
Confidence            9999999999865444

>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=98.96  E-value=2.7e-09  Score=82.50  Aligned_cols=74  Identities=12%  Similarity=0.247  Sum_probs=63.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh-CCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL-DGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-nGR~F~  351 (381)
                      ..++.|++.|+-..  +   -++||++.|++||.|.+|.|...         .|++||+|.+.++|.+|+..| ||..|+
T Consensus        10 ~~~~~l~V~~l~~~--~---t~~~l~~~f~~~G~i~~~~~~~~---------kg~afV~f~~~~~A~~a~~~l~~~~~~~   75 (85)
T 2ytc_A           10 KTITTLYVGGLGDT--I---TETDLRNHFYQFGEIRTITVVQR---------QQCAFIQFATRQAAEVAAEKSFNKLIVN   75 (85)
T ss_dssp             SSCCCEEEECCTTT--S---CHHHHHHHHHTTSCEEEEEEEGG---------GTEEEEEESSHHHHHHHHHTTTTTCEET
T ss_pred             CCccEEEEcCCCCC--C---CHHHHHHHHHhCCCEeEEEEECC---------CCEEEEEECCHHHHHHHHHHhcCCeeEC
Confidence            46788999997532  2   25678899999999999999852         589999999999999999999 999999


Q ss_pred             CeEEEEEec
Q 016857          352 GRVVRATFY  360 (381)
Q Consensus       352 GR~V~a~fy  360 (381)
                      |+.|.+.|.
T Consensus        76 g~~l~v~~a   84 (85)
T 2ytc_A           76 GRRLNVKWG   84 (85)
T ss_dssp             TEECCEEEC
T ss_pred             CCEEEEEec
Confidence            999999874

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.96  E-value=4.9e-09  Score=89.73  Aligned_cols=78  Identities=24%  Similarity=0.339  Sum_probs=63.1

Q ss_pred             CCCceEEE--EecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceE-EEEEeCCHHHHHHHHHhhCCC
Q 016857          272 GPPTRVLL--LRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVR-IFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       272 g~pSrVVv--L~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~Gr-VFVeF~d~esA~kAv~~LnGR  348 (381)
                      ..|++||.  +.|+-..  +.   +++|++.|++||.|.+|.|+..         .|+ +||+|.+.++|.+|+..|||.
T Consensus        20 ~~ps~vl~l~V~NL~~~--vt---~~~L~~~Fs~yG~V~~v~i~~~---------~Gf~aFVef~~~~~A~~A~~~LnG~   85 (124)
T 2e5i_A           20 SGGNKVLLLSIQNPLYP--IT---VDVLYTVCNPVGKVQRIVIFKR---------NGIQAMVEFESVLCAQKAKAALNGA   85 (124)
T ss_dssp             CCCCSEEEEEEESCCSC--CC---HHHHHHHHTTTSCEEEEEEEES---------SSEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCCcEEEEEEcCcCCC--CC---HHHHHHHHHhcCCEEEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhCCC
Confidence            35788865  5786533  22   4578899999999999999752         175 999999999999999999999


Q ss_pred             eeCC--eEEEEEecccc
Q 016857          349 FFGG--RVVRATFYDEE  363 (381)
Q Consensus       349 ~F~G--R~V~a~fy~ee  363 (381)
                      .|.|  +.|++.|....
T Consensus        86 ~i~g~~~~l~V~~Ak~~  102 (124)
T 2e5i_A           86 DIYAGCCTLKIEYARPT  102 (124)
T ss_dssp             CCBTTBSEEEEECCSCS
T ss_pred             EecCCCeEEEEEEecCC
Confidence            9987  69999998653

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

Probab=98.95  E-value=2.7e-09  Score=87.78  Aligned_cols=75  Identities=23%  Similarity=0.387  Sum_probs=65.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-.  ++.   ++||++.|++||.|.+|.|.           .|++||+|.+.++|.+|+..|||..|+
T Consensus        28 ~~~~~~l~V~nLp~--~~t---~~~L~~~F~~~G~i~~v~i~-----------kg~afV~f~~~~~A~~Ai~~l~g~~~~   91 (108)
T 2jvo_A           28 ELSNTRLFVRPFPL--DVQ---ESELNEIFGPFGPMKEVKIL-----------NGFAFVEFEEAESAAKAIEEVHGKSFA   91 (108)
T ss_dssp             CCSCSEEEECSSCT--TCC---HHHHHHHHTTTSCCCEEEEE-----------TTEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCC--CCC---HHHHHHHHHhcCCEEEEEEE-----------CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            45788999999742  222   56788999999999999997           389999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        92 g~~l~V~~a~~  102 (108)
T 2jvo_A           92 NQPLEVVYSKL  102 (108)
T ss_dssp             TEECEEESCSC
T ss_pred             CeEEEEEEecC
Confidence            99999999854

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

Probab=98.95  E-value=1.4e-09  Score=88.41  Aligned_cols=79  Identities=16%  Similarity=0.284  Sum_probs=64.4

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCC--eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC----
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGT--VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR----  348 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~--V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR----  348 (381)
                      -..|+|.|+-..-     -+++|++.|++||.  |.+|.|+++...+   ..+|++||+|.+.++|.+|++.|||.    
T Consensus         9 m~tlfV~nL~~~~-----tee~L~~~F~~~G~i~v~~v~i~~d~~tg---~srG~aFV~f~~~~~A~~Ai~~lng~~~~~   80 (95)
T 2lkz_A            9 MDTIILRNIAPHT-----VVDSIMTALSPYASLAVNNIRLIKDKQTQ---QNRGFAFVQLSSAMDASQLLQILQSLHPPL   80 (95)
T ss_dssp             CCEEEEESCCTTC-----CHHHHHHHSTTTCCCCGGGEECCCCSSSS---SCSSEEEEECSSSHHHHHHHHHHHSSSSCE
T ss_pred             cCEEEEeCCCCcC-----CHHHHHHHHHhhCCccEEEEEEEecCCCC---CCceEeEEEECCHHHHHHHHHHhcCCCCCc
Confidence            4579999974322     25688899999995  6789988765433   56899999999999999999999997    


Q ss_pred             eeCCeEEEEEecc
Q 016857          349 FFGGRVVRATFYD  361 (381)
Q Consensus       349 ~F~GR~V~a~fy~  361 (381)
                      .++||.|.+.|..
T Consensus        81 ~i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           81 KIDGKTIGVDFAK   93 (95)
T ss_dssp             EETTEEEEEEECC
T ss_pred             eECCEEEEEEEcc
Confidence            5899999999863

>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=98.95  E-value=3.3e-09  Score=86.35  Aligned_cols=77  Identities=17%  Similarity=0.365  Sum_probs=65.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ....+.|++.|+-..  +   -++||++.|++||.|.+|.|...         .|++||+|.+.++|.+|+..|||..|+
T Consensus        22 ~~~~~~l~V~nl~~~--~---t~~~l~~~F~~~G~i~~v~i~~~---------~g~afV~f~~~~~a~~A~~~l~g~~~~   87 (109)
T 1x4g_A           22 SPKNCTVYCGGIASG--L---TDQLMRQTFSPFGQIMEIRVFPE---------KGYSFVRFSTHESAAHAIVSVNGTTIE   87 (109)
T ss_dssp             CSSCCEEEEECCSSC--C---CHHHHHHHHHHHSCEEEEEEETT---------TTEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEeCC---------CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            346788999997532  2   24678899999999999999853         589999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        88 g~~l~v~~a~~   98 (109)
T 1x4g_A           88 GHVVKCYWGKE   98 (109)
T ss_dssp             TEECEEECCCC
T ss_pred             CcEEEEEecCC
Confidence            99999999865

>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=98.95  E-value=2.7e-09  Score=91.83  Aligned_cols=82  Identities=22%  Similarity=0.263  Sum_probs=69.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        68 ~~~~~l~v~nl~~~--~---~~~~l~~~F~~~G~v~~~~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  139 (158)
T 2kn4_A           68 EGMTSLKVDNLTYR--T---SPDTLRRVFEKYGRVGDVYIPRDRYTK---ESRGFAFVRFHDKRDAEDAMDAMDGAVLDG  139 (158)
T ss_dssp             CBCCEEEEESCCTT--C---CHHHHHHHHHHHSCEEEEECCCCSSCT---TSCCEEEEEESBHHHHHHHHHHSTTEESSS
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEeecCCCC---ccceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45789999997422  2   256788999999999999998764332   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus       140 ~~l~v~~a~~  149 (158)
T 2kn4_A          140 RELRVQMARY  149 (158)
T ss_dssp             SEEEEEEECC
T ss_pred             eEEEEEECCC
Confidence            9999999864

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.95  E-value=4.6e-10  Score=87.06  Aligned_cols=79  Identities=15%  Similarity=0.214  Sum_probs=64.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         3 ~~~~~l~v~nlp~--~~t---~~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (85)
T 1x4e_A            3 SGSSGLYIRGLQP--GTT---DQDLVKLCQPYGKIVSTKAILDKTTN---KCKGYGFVDFDSPSAAQKAVTALKASGVQA   74 (85)
T ss_dssp             CCCCEEEEESCCT--TCC---HHHHHTTSTTTSCEEEEEEECCSSSC---SCCSEEEEEESCHHHHHHHHHHHHHHTCCE
T ss_pred             CCCcEEEEeCCCC--CCC---HHHHHHHHHhcCCeEEEEEEecCCCC---CcCcEEEEEECCHHHHHHHHHHhcCCeEee
Confidence            4788999999632  222   46788999999999999998764432   467999999999999999999999999999


Q ss_pred             eEEEEEe
Q 016857          353 RVVRATF  359 (381)
Q Consensus       353 R~V~a~f  359 (381)
                      +.|++.+
T Consensus        75 ~~~~~~~   81 (85)
T 1x4e_A           75 QMAKQSG   81 (85)
T ss_dssp             ESCCSSC
T ss_pred             EEEeecC
Confidence            9887654

>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=98.94  E-value=1.9e-09  Score=86.18  Aligned_cols=76  Identities=22%  Similarity=0.307  Sum_probs=65.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-..  +.   ++||++.|++||.|.+|.|.+.         .|++||+|.+.++|.+|+..|||..|+|
T Consensus        13 ~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~v~~~~~---------kg~afV~f~~~~~a~~a~~~l~g~~~~g   78 (99)
T 2cpj_A           13 TQRSRLFVGNLPPD--IT---EEEMRKLFEKYGKAGEVFIHKD---------KGFGFIRLETRTLAEIAKVELDNMPLRG   78 (99)
T ss_dssp             CCTTEEEEESCCTT--CC---HHHHHHHTSTTCCCSEEEEETT---------TTEEEEECSSSHHHHHHHHHHTTCCBTT
T ss_pred             CCCCEEEEeCCCCC--CC---HHHHHHHHhhcCCeEEEEEecC---------CCEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            46789999997432  22   4678899999999999999742         5899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.|...
T Consensus        79 ~~l~v~~a~~   88 (99)
T 2cpj_A           79 KQLRVRFACH   88 (99)
T ss_dssp             BCCEEEESSC
T ss_pred             ceEEEEEcCC
Confidence            9999999865

>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=98.93  E-value=4.6e-09  Score=89.38  Aligned_cols=80  Identities=16%  Similarity=0.278  Sum_probs=66.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|++.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||+.|+|
T Consensus        87 ~~~~~l~v~nl~~~--~---t~~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  158 (168)
T 1b7f_A           87 IKDTNLYVTNLPRT--I---TDDQLDTIFGKYGSIVQKNILRDKLTG---RPRGVAFVRYNKREEAQEAISALNNVIPEG  158 (168)
T ss_dssp             TTTCEEEEESCCTT--C---CHHHHHHHHTSSSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCCCEEEeCCCCC--C---CHHHHHHhhhcCCcEEEEEEEEcCCCC---CcceEEEEEECCHHHHHHHHHHhcCCEecC
Confidence            46788999997532  2   246889999999999999998865332   457999999999999999999999999988


Q ss_pred             --eEEEEEec
Q 016857          353 --RVVRATFY  360 (381)
Q Consensus       353 --R~V~a~fy  360 (381)
                        +.|++.|.
T Consensus       159 ~~~~l~V~~A  168 (168)
T 1b7f_A          159 GSQPLSVRLA  168 (168)
T ss_dssp             CSSCCEEEEC
T ss_pred             CCeEEEEEeC
Confidence              99999873

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

Probab=98.93  E-value=3.9e-09  Score=83.58  Aligned_cols=78  Identities=21%  Similarity=0.304  Sum_probs=64.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEE-EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V-~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++.|++.|+-.  ++.   ++||++.|++||.|.+| .|+.+.       ..+++||+|.+.++|.+|+..|||..|+|
T Consensus        14 ~~~~l~V~nlp~--~~t---~~~l~~~F~~~G~v~~~~~i~~~~-------~~~~afV~f~~~~~a~~Ai~~l~g~~~~g   81 (96)
T 2e44_A           14 RIRKLQIRNIPP--HLQ---WEVLDSLLVQYGVVESCEQVNTDS-------ETAVVNVTYSSKDQARQALDKLNGFQLEN   81 (96)
T ss_dssp             SCCCEEEEEECS--SSC---HHHHHHHHHHHSCEEEEEEECCSS-------SSEEEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCEEEEEcCCC--CCC---HHHHHHHHHhcCCeEEEEEeecCC-------CCCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            567899999742  222   56788999999999999 577543       23669999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      |.|.+.|....
T Consensus        82 ~~l~V~~a~~~   92 (96)
T 2e44_A           82 FTLKVAYIPDE   92 (96)
T ss_dssp             CBCEEEECCCC
T ss_pred             cEEEEEEcCcc
Confidence            99999998764

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=98.93  E-value=5.4e-09  Score=91.89  Aligned_cols=81  Identities=12%  Similarity=0.049  Sum_probs=67.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccC--CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYG--TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG--~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+.|++.|+-.  ++   -++||++.|++||  .|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        54 ~~~~lfVgnLp~--~~---te~~L~~~F~~~G~i~v~~v~i~~d~~tg---~skGfaFV~f~~~~~A~~Ai~~lng~~~~  125 (156)
T 3n9u_C           54 RRAAVYVGSFSW--WT---TDQQLIQVIRSIGVYDVVELKFAENRANG---QSKGYAEVVVASENSVHKLLELLPGKVLN  125 (156)
T ss_dssp             --CEEEEECCCT--TC---CHHHHHHHHHHTTCCCEEEEEEEECTTTC---CEEEEEEEEESCHHHHHHHHHHSTTCEET
T ss_pred             CCCEEEEeCCCC--CC---CHHHHHHHHHHHCCccEEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456889999742  22   2467889999999  99999999865443   46899999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      ||.|.+.+...
T Consensus       126 Gr~l~V~~a~~  136 (156)
T 3n9u_C          126 GEKVDVRPATR  136 (156)
T ss_dssp             TEECEEEECCH
T ss_pred             CeEeEEEEcCC
Confidence            99999999865

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

Probab=98.93  E-value=2.3e-09  Score=85.52  Aligned_cols=75  Identities=17%  Similarity=0.240  Sum_probs=63.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-.. ++   -++||++.|++||.|.+|.|.           .|++||+|.+.++|.+|+..|||..|+|
T Consensus         8 ~~~~~l~V~nlp~~-~~---t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~A~~A~~~l~g~~~~g   72 (96)
T 2kvi_A            8 PPKSRLFIGNLPLK-NV---SKEDLFRIFSPYGHIMQINIK-----------NAFGFIQFDNPQSVRDAIECESQEMNFG   72 (96)
T ss_dssp             -CCEEEEEESSTTS-CC---CHHHHHHHHTTTCCCCEEEEE-----------TTEEEEEESCHHHHHHHHHHHTCSSCBT
T ss_pred             CCCCEEEEeCCCcc-cC---CHHHHHHHHHhcCCEEEEEEe-----------CCEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            47889999997531 22   246788999999999999995           3899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus        73 ~~l~V~~a~~   82 (96)
T 2kvi_A           73 KKLILEVSSS   82 (96)
T ss_dssp             TTBCEEEEEC
T ss_pred             cEEEEEEcCc
Confidence            9999999854

>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=98.92  E-value=1.1e-08  Score=79.59  Aligned_cols=78  Identities=14%  Similarity=0.177  Sum_probs=64.2

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-.  ++   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+.. +|..|+|
T Consensus         9 ~~~~~l~V~nlp~--~~---t~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~-~~~~~~g   79 (87)
T 3s7r_A            9 EDAGKMFVGGLSW--DT---SKKDLKDYFTKFGEVVDCTIKMDPNTG---RSRGFGFILFKDAASVEKVLDQ-KEHRLDG   79 (87)
T ss_dssp             SCTTEEEEECCCT--TC---CHHHHHHHHTTTSCEEEEEEEECTTTC---CEEEEEEEEESSTHHHHHHHHS-SCEEETT
T ss_pred             CCCCEEEEeCCCC--CC---CHHHHHHHHHhCCCEEEEEEeecCCCC---ccccEEEEEECCHHHHHHHHHh-CCCEECC
Confidence            4678899999742  22   256788999999999999998765432   4689999999999999999965 8889999


Q ss_pred             eEEEEEe
Q 016857          353 RVVRATF  359 (381)
Q Consensus       353 R~V~a~f  359 (381)
                      +.|.+.+
T Consensus        80 ~~i~v~~   86 (87)
T 3s7r_A           80 RVIDPKK   86 (87)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEe
Confidence            9999876

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.92  E-value=3.1e-09  Score=87.14  Aligned_cols=79  Identities=16%  Similarity=0.188  Sum_probs=66.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|.+.|+-..  +   -++||++.|++||.|.+|.|+.+..    ....|++||+|.+.++|.+|+. +||..|+|+
T Consensus        10 ~~~~lfV~~Lp~~--~---te~~L~~~F~~~G~v~~v~i~~d~~----g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr   79 (103)
T 1s79_A           10 KNRSVYIKGFPTD--A---TLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVE-TPGQKYKET   79 (103)
T ss_dssp             GGGCEEEECCCTT--C---CHHHHHHHHHTSSCEEEEEEECCCT----TSCCCEEEEEESSHHHHHHHHT-SSCCCCTTT
T ss_pred             CCCEEEEECCCCC--C---CHHHHHHHHhhcCCEEEEEEEECCC----CCCccEEEEEECCHHHHHHHHH-cCCCEECCE
Confidence            5678999887432  2   2567889999999999999997643    2568999999999999999999 999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        80 ~l~V~~~~~   88 (103)
T 1s79_A           80 DLLILFKDD   88 (103)
T ss_dssp             TCEEEEHHH
T ss_pred             EEEEEEchH
Confidence            999987643

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.92  E-value=5e-09  Score=91.71  Aligned_cols=82  Identities=12%  Similarity=0.154  Sum_probs=69.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-..-     -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus       112 ~~~~~l~v~nl~~~~-----~~~~l~~~f~~~G~v~~~~~~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  183 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYL-----NDDQVKELLTSFGPLKAFNLVKDSATG---LSKGYAFCEYVDINVTDQAIAGLNGMQLGD  183 (198)
T ss_dssp             CCCCEEEEECCCTTC-----CHHHHHHHHHTBSCEEEEEEEECTTTC---SEEEEEEEEESSSSHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCC-----CHHHHHHHHHHcCCccEEEEeecCCCC---CcceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            577899999975422     256889999999999999999864332   457999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus       184 ~~l~v~~a~~  193 (198)
T 2yh0_A          184 KKLLVQRASV  193 (198)
T ss_dssp             EECEEEESCC
T ss_pred             EEEEEEECCC
Confidence            9999999854

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.92  E-value=3.2e-09  Score=88.57  Aligned_cols=77  Identities=23%  Similarity=0.377  Sum_probs=64.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC--CCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD--GRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln--GR~  349 (381)
                      ..++++|.+.|+-.  ++.   ++||++.|++||.|.+|.|.+.         +|++||+|++.++|.+|+..|+  |..
T Consensus        13 ~~~~~~LfV~nLp~--~vt---e~dL~~lF~~fG~V~~v~i~~~---------kGfaFVeF~~~~~A~~Ai~~l~~~~~~   78 (105)
T 1sjq_A           13 GVPSRVIHIRKLPI--DVT---EGEVISLGLPFGKVTNLLMLKG---------KNQAFIEMNTEEAANTMVNYYTSVTPV   78 (105)
T ss_dssp             CCCCCEEEECSCCT--TSC---HHHHHHHHHHHCCEEEEEEETT---------TTEEEEEESSHHHHHHHHHHHTTSCCE
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHhcCCEEEEEEEcC---------CCEEEEEECCHHHHHHHHHHhccCCce
Confidence            35788999999753  222   5678899999999999999852         5899999999999999999886  478


Q ss_pred             eCCeEEEEEeccc
Q 016857          350 FGGRVVRATFYDE  362 (381)
Q Consensus       350 F~GR~V~a~fy~e  362 (381)
                      |+||.|.+.|...
T Consensus        79 l~Gr~l~V~~A~~   91 (105)
T 1sjq_A           79 LRGQPIYIQFSNH   91 (105)
T ss_dssp             ETTEECCBCCCSS
T ss_pred             ECCEEEEEEEcCC
Confidence            9999999998754

>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=98.92  E-value=8.7e-10  Score=87.02  Aligned_cols=78  Identities=14%  Similarity=0.135  Sum_probs=61.5

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccC--CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYG--TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG--~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .|++.|+-.  ++   -++||++.|++||  .|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+||.
T Consensus         3 ~l~V~nL~~--~~---t~~~l~~~F~~~G~~~v~~v~i~~~~~~g---~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~   74 (90)
T 3p5t_L            3 ALYIGNLTW--WT---TDEDLTEAVHSLGVNDILEIKFFENRANG---QSKGFALVGVGSEASSKKLMDLLPKRELHGQN   74 (90)
T ss_dssp             -CEEESCCT--TC---CHHHHHHHHHTTTCCCCCCEEEEECTTTC---CEEEEEEECC-CHHHHHHHHHHGGGSCSSSCC
T ss_pred             EEEEeCCCC--CC---CHHHHHHHHHHhCCCceEEEEEEecCCCC---ccCcEEEEEECCHHHHHHHHHHcCCCeeCCEE
Confidence            356666532  12   2567889999999  99999999865433   46899999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.+...
T Consensus        75 i~V~~~~~   82 (90)
T 3p5t_L           75 PVVTPSNK   82 (90)
T ss_dssp             CEECCC--
T ss_pred             EEEEECCC
Confidence            99988754

>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=98.92  E-value=6e-09  Score=84.96  Aligned_cols=75  Identities=16%  Similarity=0.151  Sum_probs=64.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...+.|++.|+-..  +   -++||++.|++||.|..|.|+.+          |++||+|.+.++|.+|+..|||..|+|
T Consensus        13 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~~~i~~~----------g~afV~f~~~~~a~~Ai~~l~g~~~~g   77 (108)
T 1x4c_A           13 RSENRVVVSGLPPS--G---SWQDLKDHMREAGDVCYADVYRD----------GTGVVEFVRKEDMTYAVRKLDNTKFRS   77 (108)
T ss_dssp             SCCCEEEEESCCSS--C---CHHHHHHHHGGGSCEEEEEEETT----------TEEEEEESSHHHHHHHHHHSSSEEEEC
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCEeEEEEecC----------CEEEEEECCHHHHHHHHHHHCcCCccC
Confidence            35678999997522  2   25678899999999999999752          899999999999999999999999999


Q ss_pred             -----eEEEEEeccc
Q 016857          353 -----RVVRATFYDE  362 (381)
Q Consensus       353 -----R~V~a~fy~e  362 (381)
                           +.|.+.+...
T Consensus        78 ~~~~~~~i~V~~a~~   92 (108)
T 1x4c_A           78 HEGETAYIRVKVDGP   92 (108)
T ss_dssp             TTSCEEEEEEEESSC
T ss_pred             CcCcceEEEEEeCCC
Confidence                 9999999875

>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=98.91  E-value=1.4e-09  Score=85.18  Aligned_cols=78  Identities=23%  Similarity=0.306  Sum_probs=63.1

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      +.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.+ |.+|+..|||..|+|+.|
T Consensus         2 ~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l   72 (90)
T 2ki2_A            2 RNIYVGNLVYS--A---TSEQVKELFSQFGKVFNVKLIYDRETK---KPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTI   72 (90)
T ss_dssp             EEEEEEEECTT--S---SHHHHTTTHHHHTCCSEEEECCCSSSC---CCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSC
T ss_pred             cEEEECCCCCC--C---CHHHHHHHHHhcCCEEEEEEEEcCCCC---CcceEEEEEECCHH-HHHHHHHhCCCEECCeEE
Confidence            46777886422  2   256788999999999999998765432   46899999999999 999999999999999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      .+.+...
T Consensus        73 ~V~~a~~   79 (90)
T 2ki2_A           73 RVTEANP   79 (90)
T ss_dssp             SEEEC--
T ss_pred             EEEEcCC
Confidence            9999765

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.91  E-value=3.2e-09  Score=85.57  Aligned_cols=82  Identities=16%  Similarity=0.196  Sum_probs=68.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+.. ||..|+
T Consensus        13 ~~~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~v~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~a~~~-~~~~~~   83 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWS--T---TQETLRSYFSQYGEVVDCVIMKDKTTN---QSRGFGFVKFKDPNCVGTVLAS-RPHTLD   83 (105)
T ss_dssp             SSSSSEECCBSCCTT--C---CHHHHHHHHHTTSCEEEEEEEECSSSC---CEEEEEEEEESSTTHHHHHHHH-CSEEET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhcCCeEEEEEeeCCCCC---CcceEEEEEECCHHHHHHHHHh-CCCeEC
Confidence            346788999997422  2   256788999999999999999864432   4679999999999999999999 999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        84 g~~l~V~~a~~   94 (105)
T 2dh8_A           84 GRNIDPKPCTP   94 (105)
T ss_dssp             TEEEBCCCSCC
T ss_pred             CEEEEEEEccC
Confidence            99999988754

>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=98.90  E-value=6.7e-09  Score=87.86  Aligned_cols=79  Identities=15%  Similarity=0.220  Sum_probs=64.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-..-     -++||++.|++||.|..|.|..+...+   ...|++||+|.+.++|.+|+..|||+.|+|+
T Consensus        87 ~~~~l~v~nl~~~~-----t~~~l~~~f~~~G~i~~~~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  158 (167)
T 1fxl_A           87 RDANLYVSGLPKTM-----TQKELEQLFSQYGRIITSRILVDQVTG---VSRGVGFIRFDKRIEAEEAIKGLNGQKPSGA  158 (167)
T ss_dssp             TTCEEEEESCCTTC-----CHHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCCCTTC
T ss_pred             CCCcEEECCCCCcC-----CHHHHHHHHHhcCCEeEEEEEecCCCC---CccceEEEEeCCHHHHHHHHHHhcCCccCCC
Confidence            46778898875322     256889999999999999998764332   4579999999999999999999999999997


Q ss_pred             E--EEEEec
Q 016857          354 V--VRATFY  360 (381)
Q Consensus       354 ~--V~a~fy  360 (381)
                      .  |.+.|.
T Consensus       159 ~~~i~v~~A  167 (167)
T 1fxl_A          159 TEPITVKFA  167 (167)
T ss_dssp             SSCCEEEEC
T ss_pred             ccceEEEeC
Confidence            5  887763

>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=98.90  E-value=4.1e-09  Score=85.94  Aligned_cols=75  Identities=20%  Similarity=0.342  Sum_probs=63.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-... +   -++||++.|++||.|.+|.|.           .|++||+|.+.++|.+|+..|||..|+|
T Consensus        25 ~~~~~l~V~nl~~~~-~---t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~A~~A~~~l~g~~~~g   89 (110)
T 1wf1_A           25 SINSRVFIGNLNTAL-V---KKSDVETIFSKYGRVAGCSVH-----------KGYAFVQYSNERHARAAVLGENGRVLAG   89 (110)
T ss_dssp             TCSSEEEECSCCCSS-C---CHHHHHHHHGGGSCCSEEEEE-----------TTEEEEECSSSHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEeCCCccc-C---CHHHHHHHHHhCCCeEEEEEe-----------CCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            356899999974320 2   156788999999999999993           3899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus        90 ~~l~V~~a~~   99 (110)
T 1wf1_A           90 QTLDINMAGE   99 (110)
T ss_dssp             EECCEEESCC
T ss_pred             eEEEEEECCC
Confidence            9999999864

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=98.90  E-value=3.9e-09  Score=84.47  Aligned_cols=74  Identities=16%  Similarity=0.252  Sum_probs=63.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-..  +   -++||++.|++||.|.+|.|..         ..|++||+|.+.++|.+|+..|||..|+|+
T Consensus        26 ~~~~l~V~nlp~~--~---~~~~l~~~f~~~G~i~~~~~~~---------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   91 (101)
T 2la4_A           26 RVTTAYIGNIPHF--A---TEADLIPLFQNFGFILDFKHYP---------EKGCCFIKYDTHEQAAVCIVALANFPFQGR   91 (101)
T ss_dssp             SCCEEEEESCCTT--C---CHHHHHHHHHTTSCCSEEEEET---------TTTEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEcCCCcc--c---CHHHHHHHHHhCCCEEEEEEec---------CCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            4678999997532  2   2567889999999999999973         358999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|++.|..
T Consensus        92 ~l~V~~a~   99 (101)
T 2la4_A           92 NLRTGWGK   99 (101)
T ss_dssp             ECCCCBCC
T ss_pred             EEEEEecc
Confidence            99988764

>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=98.89  E-value=6.3e-09  Score=93.42  Aligned_cols=79  Identities=23%  Similarity=0.379  Sum_probs=63.6

Q ss_pred             CCceEE--EEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          273 PPTRVL--LLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       273 ~pSrVV--vL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      .+++|+  ++.||-..  +.   +++|++.|++||.|.+|.|+...       ..|++||+|.+.++|.+|+..|||+.|
T Consensus        42 ~ps~vl~l~VgNL~~~--vt---ed~L~~~Fs~fG~V~~V~i~~k~-------~rgfAFVeF~d~~~A~~Ai~~LnG~~i  109 (164)
T 1sjr_A           42 GQSPVLRIIVENLFYP--VT---LDVLHQIFSKFGTVLKIITFTKN-------NQFQALLQYADPVSAQHAKLSLDGQNI  109 (164)
T ss_dssp             CCCCEEEEEECSCCSC--CC---HHHHHHHHHHHSCEEEEEEEESS-------SCEEEEEEESCHHHHHHHHHHSTTBCS
T ss_pred             CCCceEEEEEeCcCCC--CC---HHHHHHHHHhcCCEEEEEEEeCC-------CCCEEEEEECCHHHHHHHHHHhCCCEe
Confidence            366664  47787532  32   45788999999999999997532       358999999999999999999999999


Q ss_pred             CC--eEEEEEecccc
Q 016857          351 GG--RVVRATFYDEE  363 (381)
Q Consensus       351 ~G--R~V~a~fy~ee  363 (381)
                      .|  +.|++.|....
T Consensus       110 ~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A          110 YNACCTLRIDFSKLT  124 (164)
T ss_dssp             SSSCSCEEEEECSSS
T ss_pred             cCCCcEEEEEEecCC
Confidence            65  99999998653

>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=98.89  E-value=7.1e-09  Score=83.89  Aligned_cols=83  Identities=17%  Similarity=0.199  Sum_probs=67.0

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCC-eeEEEEe-eeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC--CC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGT-VTRVLIF-EITEPNFPVDEAVRIFVQFERSEQTTKALIDLD--GR  348 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~-V~~V~I~-~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln--GR  348 (381)
                      .+++.|++.|+-.  ++   -++||++.|++||. |.+|.|+ .+...   ....|++||+|.+.++|.+|+..||  +.
T Consensus         6 ~~~~~l~V~nLp~--~~---t~~~l~~~f~~~G~~v~~v~i~~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~~g~~   77 (109)
T 2dis_A            6 SGNCRLFIGGIPK--MK---KREEILEEIAKVTEGVLDVIVYASAADK---MKNRGFAFVEYESHRAAAMARRKLMPGRI   77 (109)
T ss_dssp             CCSEEEEEECCCT--TS---CHHHHHHHHHHHSTTEEEEECCSSSCTT---TTTCCEEEEEESSHHHHHHHHTTTTTCCS
T ss_pred             cCCCEEEEeCCCC--cC---CHHHHHHHHHHhcCCceEEEEEccCCCC---CCcCcEEEEEecCHHHHHHHHHHhhCCCc
Confidence            4678899999742  22   25678899999999 9999997 33322   2467999999999999999999996  58


Q ss_pred             eeCCeEEEEEecccc
Q 016857          349 FFGGRVVRATFYDEE  363 (381)
Q Consensus       349 ~F~GR~V~a~fy~ee  363 (381)
                      .|+|+.|.+.|....
T Consensus        78 ~~~g~~l~V~~a~~~   92 (109)
T 2dis_A           78 QLWGHQIAVDWAEPE   92 (109)
T ss_dssp             CBTTBCCEEEESCSS
T ss_pred             eecCCeEEEEEcCCC
Confidence            999999999998653

>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=98.88  E-value=1.3e-08  Score=86.04  Aligned_cols=81  Identities=12%  Similarity=0.200  Sum_probs=67.9

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|++.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         1 s~~~l~v~nlp~~--~~---~~~l~~~f~~~G~i~~v~~~~~~~~~---~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~   72 (167)
T 1fxl_A            1 SKTNLIVNYLPQN--MT---QEEFRSLFGSIGEIESCKLVRDKITG---QSLGYGFVNYIDPKDAEKAINTLNGLRLQTK   72 (167)
T ss_dssp             CCSEEEEESCCTT--CC---HHHHHHHHHTTSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CcceEEEcCCCCC--CC---HHHHHHHHHhcCCeEEEEEEeCCCCC---cceeEEEEEECCHHHHHHHHHHcCCCccCCc
Confidence            3678899997532  22   56788999999999999998865332   4679999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        73 ~l~v~~~~~   81 (167)
T 1fxl_A           73 TIKVSYARP   81 (167)
T ss_dssp             ECEEEECCC
T ss_pred             eEEEEecCC
Confidence            999998864

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.88  E-value=1.3e-08  Score=79.86  Aligned_cols=79  Identities=22%  Similarity=0.241  Sum_probs=66.0

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...++|++.|+-..  +   -++||++.|++| .|.+|.|+.+ ..+   ...|++||+|.+.++|.+|+. |||..|+|
T Consensus         8 ~~~~~l~v~nLp~~--~---t~~~l~~~F~~~-~i~~v~i~~~-~~g---~~~g~afV~f~~~~~a~~A~~-~~g~~~~g   76 (91)
T 2dgw_A            8 TTCHTVKLRGAPFN--V---TEKNVMEFLAPL-KPVAIRIVRN-AHG---NKTGYIFVDFSNEEEVKQALK-CNREYMGG   76 (91)
T ss_dssp             CCCCEEEEECCCSS--C---CHHHHHHHHTTS-CCSEEEEEEC-TTS---CEEEEEEEECSSHHHHHHHHH-SCSEEETT
T ss_pred             CCccEEEEECCCCC--C---CHHHHHHHHhhC-CceEEEEEEC-CCC---CCceEEEEEECCHHHHHHHHH-hCCceeCC
Confidence            46788999997532  2   256788999999 9999999986 322   457999999999999999999 99999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|.+.+...
T Consensus        77 r~i~v~~a~~   86 (91)
T 2dgw_A           77 RYIEVFREKS   86 (91)
T ss_dssp             EEEEEEEESS
T ss_pred             cEEEEEECCc
Confidence            9999998754

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.88  E-value=6.9e-09  Score=85.17  Aligned_cols=80  Identities=18%  Similarity=0.218  Sum_probs=66.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+.. ||..|+|+
T Consensus        26 ~~~~l~V~nLp~--~~t---e~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~   96 (116)
T 1x4b_A           26 QFRKLFIGGLSF--ETT---EESLRNYYEQWGKLTDCVVMRDPASK---RSRGFGFVTFSSMAEVDAAMAA-RPHSIDGR   96 (116)
T ss_dssp             HHTEEEEECCTT--CCC---HHHHHHHHTSSCCCSEEEEECCTTTS---SCCSEEEEECSSHHHHHHHHTS-CSEEETTE
T ss_pred             CCCEEEEeCCCC--CCC---HHHHHHHHHhcCCEEEEEEEECCCCC---CcCceEEEEeCCHHHHHHHHHh-CCcEECCE
Confidence            467899999742  222   46788999999999999998764432   4679999999999999999999 99999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        97 ~l~V~~a~~  105 (116)
T 1x4b_A           97 VVEPKRAVA  105 (116)
T ss_dssp             EEEEECCSS
T ss_pred             EEEEEECCC
Confidence            999999754

>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=98.88  E-value=6.2e-09  Score=94.88  Aligned_cols=78  Identities=18%  Similarity=0.303  Sum_probs=65.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      |.++++|.+.|+- +.++.   +++|++.|++||.|.+|.|..+        ..|++||+|.+.++|.+|+..|||..|.
T Consensus         1 g~~~~~l~V~nL~-~~~~~---~~~L~~~F~~~G~v~~v~i~~~--------~~g~afV~f~~~~~A~~Ai~~lng~~~~   68 (205)
T 3tyt_A            1 GADSPVLMVYGLD-QSKMN---CDRVFNVFCLYGNVEKVKFMKS--------KPGAAMVEMADGYAVDRAITHLNNNFMF   68 (205)
T ss_dssp             -CCCSEEEEECCC-TTTCC---HHHHHHHHTTTSCEEEEEECTT--------STTCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCC-cccCC---HHHHHHHHHhcCCeEEEEEecC--------CCCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3578899999964 22333   3478899999999999999753        2589999999999999999999999999


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      ||.|.+.|..
T Consensus        69 g~~l~v~~s~   78 (205)
T 3tyt_A           69 GQKMNVCVSK   78 (205)
T ss_dssp             TEECEEEECS
T ss_pred             CceEEEEEcc
Confidence            9999999874

>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=98.87  E-value=8.5e-09  Score=96.05  Aligned_cols=76  Identities=21%  Similarity=0.260  Sum_probs=65.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..++++|+|.||-.  ++   -++||++.|++||.|.+|.|....        .|++||+|.+.++|.+|+..|||+.|+
T Consensus       204 ~~~~~~l~v~nl~~--~~---~~~~l~~~F~~~G~i~~v~~~~~~--------~g~afV~f~~~~~A~~A~~~l~g~~~~  270 (282)
T 3pgw_A          204 NPPNHILFLTNLPE--ET---NELMLSMLFNQFPGFKEVRLVPGR--------HDIAFVEFDNEVQAGAARDALQGFKIT  270 (282)
T ss_pred             CCCCCEEEEeCCCC--cC---CHHHHHHHHHhcCCeEEEEEecCC--------CcEEEEEeCCHHHHHHHHHHcCCcEeC
Confidence            45788999999853  22   356889999999999999998532        489999999999999999999999999


Q ss_pred             -CeEEEEEec
Q 016857          352 -GRVVRATFY  360 (381)
Q Consensus       352 -GR~V~a~fy  360 (381)
                       |+.|++.|.
T Consensus       271 ~g~~l~v~~a  280 (282)
T 3pgw_A          271 QNNAMKISFA  280 (282)
T ss_pred             CCCEEEEEEe
Confidence             999999986

>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=98.87  E-value=3.4e-09  Score=85.31  Aligned_cols=82  Identities=20%  Similarity=0.233  Sum_probs=63.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-..  +.   ++||++.|++|| |.+|.|..+...  .....|++||+|.+.++|.+|+ .|||..|+
T Consensus        16 ~~~~~~l~V~nLp~~--~t---~~~l~~~F~~~G-i~~v~i~~~~~~--~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~   86 (100)
T 2j76_E           16 KSPPYTAFLGNLPYD--VT---EESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLG   86 (100)
T ss_dssp             ----CEEEESCCSSC--CS---SSHHHHHSCSSC-EEEEECSCCTTT--TCCCCSCEEEEECCHHHHHHHH-HTTTCCBT
T ss_pred             CCCCcEEEEeCCCCC--CC---HHHHHHHHHhcC-CeEEEEEecCCc--CCccCeEEEEEECCHHHHHHHH-hcCCCEEC
Confidence            346889999998432  21   346789999999 999999876421  1246799999999999999999 99999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        87 g~~l~V~~a~~   97 (100)
T 2j76_E           87 NRRIRVDVADQ   97 (100)
T ss_dssp             TBCCCCEECCC
T ss_pred             CeEEEEEeccC
Confidence            99999998753

>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=9.5e-09  Score=83.95  Aligned_cols=80  Identities=18%  Similarity=0.267  Sum_probs=66.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee--
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF--  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F--  350 (381)
                      ..++.|++.|+-..  +.   ++||++.|++||.|.+|.|..+. .+   ...|++||+|.+.++|.+|+..|||..|  
T Consensus        23 ~~~~~l~V~nlp~~--~t---~~~l~~~F~~~G~i~~~~i~~~~-~g---~~~g~afV~f~~~~~a~~A~~~l~g~~~~~   93 (114)
T 1x5o_A           23 QDPTNLYISNLPLS--MD---EQELENMLKPFGQVISTRILRDS-SG---TSRGVGFARMESTEKCEAVIGHFNGKFIKT   93 (114)
T ss_dssp             CCTTEEEEESCCTT--CC---HHHHHHTTTTTSCEEEEEEEECS-SS---CEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             CCCCEEEEeCCCCC--CC---HHHHHHHHHhcCCEEEEEEEECC-CC---CcceEEEEEECCHHHHHHHHHHhCCCEEcC
Confidence            35678999997532  22   46788999999999999998864 22   4679999999999999999999999999  


Q ss_pred             ------CCeEEEEEecc
Q 016857          351 ------GGRVVRATFYD  361 (381)
Q Consensus       351 ------~GR~V~a~fy~  361 (381)
                            .++.|.+.|..
T Consensus        94 ~~~~~~~~~~l~v~~a~  110 (114)
T 1x5o_A           94 PPGVSAPTEPLLCKFSG  110 (114)
T ss_dssp             CTTSCCCSSCBEEEECC
T ss_pred             CccccCCCCceeEEccC
Confidence                  57889999875

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=98.86  E-value=1.1e-08  Score=84.03  Aligned_cols=82  Identities=11%  Similarity=0.151  Sum_probs=64.7

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..++ ..|+
T Consensus        22 ~~~~~~lfV~nLp~--~~t---e~~L~~~F~~~G~i~~v~i~~~~~tg---~~kg~afV~f~~~~~A~~Ai~~~~-~~l~   92 (109)
T 2rs2_A           22 GSSGCKMFIGGLSW--QTT---QEGLREYFGQFGEVKECLVMRDPLTK---RSRGFGFVTFMDQAGVDKVLAQSR-HELD   92 (109)
T ss_dssp             ----CCEEEESCCT--TCC---HHHHHHHHTTTSCEEEEEECCCTTTC---CCTTCEEEEESSHHHHHHHHHSSC-EEET
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHccCCeEEEEEEECCCCC---CcCcEEEEEECCHHHHHHHHHHCC-CcCC
Confidence            34678899999742  222   56788999999999999998764432   467999999999999999999975 9999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        93 g~~l~V~~a~~  103 (109)
T 2rs2_A           93 SKTIDPKVAFP  103 (109)
T ss_dssp             TEEEEEEECCC
T ss_pred             CEEEEEEEccC
Confidence            99999998753

>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=98.86  E-value=1.1e-08  Score=87.16  Aligned_cols=81  Identities=12%  Similarity=0.182  Sum_probs=68.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|++.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         2 ~~~~l~v~nlp~~--~~---~~~l~~~f~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~   73 (168)
T 1b7f_A            2 SNTNLIVNYLPQD--MT---DRELYALFRAIGPINTCRIMRDYKTG---YSYGYAFVDFTSEMDSQRAIKVLNGITVRNK   73 (168)
T ss_dssp             CCSEEEEECCCTT--CC---HHHHHHHHHTTSCEEEEECCEETTTT---EECSEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CccEEEEeCCCCC--CC---HHHHHHHHHhcCCeeEEEEEEeCCCC---ccceEEEEEECCHHHHHHHHHhcCCCEeCCc
Confidence            5788999997432  22   56788999999999999998865432   3578999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        74 ~l~v~~~~~   82 (168)
T 1b7f_A           74 RLKVSYARP   82 (168)
T ss_dssp             ECEEEECCC
T ss_pred             EEEEEecCC
Confidence            999998764

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.86  E-value=5.2e-09  Score=87.23  Aligned_cols=84  Identities=18%  Similarity=0.156  Sum_probs=69.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCC---eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGT---VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~---V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      ...++|+|.|+-..-     -++||++.|++||.   |.+|.|..+.. +   ...|++||+|.+.++|.+|+. |||..
T Consensus        15 ~~~~~l~V~nLp~~~-----te~~l~~~F~~~G~~~~v~~v~i~~~~~-g---~~~G~afV~F~~~~~a~~Al~-~~g~~   84 (118)
T 2db1_A           15 GEGYVVKLRGLPWSC-----SIEDVQNFLSDCTIHDGVAGVHFIYTRE-G---RQSGEAFVELESEDDVKLALK-KDRES   84 (118)
T ss_dssp             CCCCEEEEESCCTTC-----CHHHHHHHTTTSCBTTGGGGEEEEECSS-S---CEEEEEEEEBSSHHHHHHHGG-GTTEE
T ss_pred             CCCcEEEEeCCCCCC-----CHHHHHHHHHHcCCccCceeEEEEECCC-C---CCCeEEEEEECCHHHHHHHHh-cCCCe
Confidence            357789999975322     25688999999999   89999987644 2   468999999999999999999 99999


Q ss_pred             eCCeEEEEEeccccccc
Q 016857          350 FGGRVVRATFYDEERFS  366 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F~  366 (381)
                      |+||.|.+.+.....+.
T Consensus        85 ~~gr~i~V~~a~~~~~~  101 (118)
T 2db1_A           85 MGHRYIEVFKSHRTEMD  101 (118)
T ss_dssp             ETTEEEEEEEECHHHHH
T ss_pred             ECCeEEEEEECCHHHHH
Confidence            99999999998776543

>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=98.86  E-value=8.8e-09  Score=104.53  Aligned_cols=82  Identities=17%  Similarity=0.264  Sum_probs=68.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|+|.||-..  +   -+++|.+.|++||.|+.|.|+.+...+   ...|++||+|.+.++|.+|+..|||.+|+|
T Consensus       100 ~~~~~lfV~nL~~~--~---te~~L~~~F~~~G~I~~v~i~~d~~tg---~~kG~aFV~F~~~e~A~~Ai~~lng~~i~g  171 (437)
T 3pgw_S          100 DAFKTLFVARVNYD--T---TESKLRREFEVYGPIKRIHMVYSKRSG---KPRGYAFIEYEHERDMHSAYKHADGKKIDG  171 (437)
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHHcCCeeEEEeeccCCCC---CccceEEEeeccHHHHHHHHHHcCCCEECC
Confidence            46789999997422  2   246788999999999999998754332   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.|.|...
T Consensus       172 r~i~V~~a~~  181 (437)
T 3pgw_S          172 RRVLVDVERG  181 (437)
T ss_pred             EEEEEEEeCC
Confidence            9999999864

>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=98.85  E-value=2e-08  Score=80.62  Aligned_cols=81  Identities=16%  Similarity=0.189  Sum_probs=66.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+.  ++..|+
T Consensus        12 ~~~~~~l~v~nlp~--~~t---~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~--~~~~~~   81 (103)
T 2cqg_A           12 VQKTSDLIVLGLPW--KTT---EQDLKEYFSTFGEVLMVQVKKDLKTG---HSKGFGFVRFTEYETQVKVMS--QRHMID   81 (103)
T ss_dssp             CCCCCCEEEESCCS--SCC---HHHHHHHHGGGSCEEEEEEEECSSSC---SEEEEEEEEESSHHHHHHHHH--SCEEET
T ss_pred             cCCCCEEEEEcCCC--cCC---HHHHHHHHHhcCCeEEEEEEecCCCC---CccceEEEEECCHHHHHHHHH--cCCeeC
Confidence            34678899999642  222   56788999999999999999865432   467999999999999999999  477999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        82 g~~l~v~~a~~   92 (103)
T 2cqg_A           82 GRWCDCKLPNS   92 (103)
T ss_dssp             TEEEEEECCCT
T ss_pred             CeEEEEEecCC
Confidence            99999999864

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=98.85  E-value=1.1e-08  Score=92.50  Aligned_cols=78  Identities=15%  Similarity=0.290  Sum_probs=65.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++.|++.|+-..  +.   ++||++.|++||.|.+|.|+.+..     ...|++||+|.+.++|.+|+..|||..|+||.
T Consensus       103 ~~~l~v~nl~~~--~t---~~~l~~~F~~~G~i~~~~i~~d~~-----~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~  172 (213)
T 4f02_A          103 VGNIFIKNLDKS--ID---NKALYDTFSAFGNILSCKVVCDEN-----GSKGYGFVHFETQEAAERAIEKMNGMLLNDRK  172 (213)
T ss_dssp             TTEEEEESCCTT--CC---HHHHHHHHGGGSCEEEEEEEEETT-----EEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             cccceECCcccc--cH---HHHHHHHHhhcCCeEEEEeeccCC-----CCceEEEEEeCCHHHHHHHHHHhCCCEECCEE
Confidence            456888886432  22   468889999999999999987642     35799999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.++..
T Consensus       173 i~V~~a~~  180 (213)
T 4f02_A          173 VFVGRFKS  180 (213)
T ss_dssp             CEEEECCC
T ss_pred             EEEEEcCC
Confidence            99999865

>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=98.85  E-value=6.1e-09  Score=85.85  Aligned_cols=85  Identities=12%  Similarity=0.044  Sum_probs=69.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCe-eEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTV-TRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V-~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .++++|+|.||-..  +   -++||++.|++||.| .+|.|+.+. .+   ...|++||+|.+.++|.+|+.. ||..|+
T Consensus        13 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~g~v~~~v~i~~d~-~g---~~~G~afV~F~~~~~a~~Al~~-~~~~~~   82 (114)
T 2cpy_A           13 SAKVCAHITNIPFS--I---TKMDVLQFLEGIPVDENAVHVLVDN-NG---QGLGQALVQFKNEDDARKSERL-HRKKLN   82 (114)
T ss_dssp             SCCCEEEEESCCTT--S---CHHHHHHHTTTSCCCSTTEEECCCT-TS---SCSSCEEEECSSHHHHHHHGGG-CSEEET
T ss_pred             CCccEEEEeCcCCc--C---CHHHHHHHHHhCCCcCCeEEEEECC-CC---CcceEEEEEECCHHHHHHHHHh-CCCccC
Confidence            46789999997422  2   256788999999999 889998754 22   4689999999999999999988 999999


Q ss_pred             CeEEEEEecccccccc
Q 016857          352 GRVVRATFYDEERFSK  367 (381)
Q Consensus       352 GR~V~a~fy~ee~F~~  367 (381)
                      ||.|.+.+........
T Consensus        83 gr~i~v~~a~~~~~~~   98 (114)
T 2cpy_A           83 GREAFVHVVTLEDMRE   98 (114)
T ss_dssp             TEEEEEEEECHHHHHH
T ss_pred             CeEEEEEECCHHHHHH
Confidence            9999999998765443

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

Probab=98.84  E-value=9.4e-09  Score=92.00  Aligned_cols=82  Identities=20%  Similarity=0.212  Sum_probs=68.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|+|.|+-.  ++   -++||++.|++||.|.+|.|+.+. .   ....|++||+|.+.++|.+|+..|||..|+|
T Consensus        86 ~~~~~l~V~nLp~--~~---te~~L~~~F~~~G~I~~v~i~~d~-~---g~~kG~afV~F~~~~~A~~Ai~~lng~~l~G  156 (177)
T 2f3j_A           86 ETGAKLLVSNLDF--GV---SDADIQELFAEFGTLKKAAVDYDR-S---GRSLGTADVHFERRADALKAMKQYKGVPLDG  156 (177)
T ss_dssp             TTCEEEEEECCCS--CC---CHHHHHHHHHHTSCCSEEEECCCT-T---SSCSCCEEEEESCHHHHHHHHHHSTTCBCSS
T ss_pred             CCCCEEEEeCCCC--CC---CHHHHHHHHHhcCCeEEEEEEECC-C---CCEeeEEEEEeCCHHHHHHHHHHhCCCEECC
Confidence            4678999999742  22   256788999999999999998754 2   2467999999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      +.|.+.|....
T Consensus       157 r~l~V~~a~~~  167 (177)
T 2f3j_A          157 RPMDIQLVASQ  167 (177)
T ss_dssp             SBCEEEEESSG
T ss_pred             EEEEEEEecCC
Confidence            99999998654

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=98.84  E-value=3e-09  Score=80.52  Aligned_cols=62  Identities=16%  Similarity=0.180  Sum_probs=54.4

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+. |||..|+|+.|.+.+
T Consensus        13 ~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~   74 (75)
T 2mss_A           13 VEDVKHYFEQFGKVDDAMLMFDKTTN---RHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             HHHHHHHHHTTSCCSEECCCBCSSST---TSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEEC
T ss_pred             HHHHHHHHHhcCCEEEEEEEecCCCC---CcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEe
Confidence            56788999999999999998765432   467999999999999999998 999999999999876

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.83  E-value=7.9e-09  Score=85.37  Aligned_cols=76  Identities=11%  Similarity=0.200  Sum_probs=64.5

Q ss_pred             CCceE-EEEecccCCCCChhhHHHHHHHHHhcc-CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          273 PPTRV-LLLRNMVGPGEVDDELEDEVGSECAKY-GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       273 ~pSrV-VvL~NMv~~~El~dELeeDI~EECsKY-G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      .|+.+ |++.|+-..-+ .++|..+|++.|++| |+|.+|.             .|++||+|.+.++|.+|++.|||..|
T Consensus         6 ~p~~T~lYV~NL~~~~~-~~~lk~~L~~lF~~yGG~Vl~Vt-------------gG~AfV~F~~~esA~~A~~~l~G~~l   71 (96)
T 2diu_A            6 SGCHTLLYVYNLPANKD-GKSVSNRLRRLSDNCGGKVLSIT-------------GCSAILRFINQDSAERAQKRMENEDV   71 (96)
T ss_dssp             CCSSEEEEEESCCTTSC-HHHHHHHHHHHHHTTTCCEEECC-------------TTCEEEEESSHHHHHHHHHHHTTCCS
T ss_pred             CCcceEEEEeCCCCcCC-HHHHHHHHHHHHHHcCCeeEEEe-------------cCEEEEEECCHHHHHHHHHHhcCCcc
Confidence            46777 77999753322 267888999999999 5999992             18999999999999999999999999


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      .||.|++.|...
T Consensus        72 ~gr~i~v~~A~~   83 (96)
T 2diu_A           72 FGNRIIVSFTPK   83 (96)
T ss_dssp             SSSCCEEESSCC
T ss_pred             CCceEEEEecCC
Confidence            999999999875

>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=98.83  E-value=1.4e-08  Score=86.83  Aligned_cols=79  Identities=14%  Similarity=0.165  Sum_probs=65.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC--
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG--  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~--  351 (381)
                      .++.|+|.|+-..  +   -++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|+..|||+.+.  
T Consensus        94 ~~~~l~v~nl~~~--~---t~~~l~~~F~~~G~i~~v~~~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g  164 (175)
T 3nmr_A           94 EDRKLFIGMISKK--C---TENDIRVMFSSFGQIEECRILRGPD----GLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEG  164 (175)
T ss_dssp             GGSEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSHHHHHHHHHHHTTSCCCTT
T ss_pred             CCCeEEEcCCCCc--C---CHHHHHHHHHhCCCEEEEEEEECCC----CCEEEEEEEEECCHHHHHHHHHHhcCCcccCC
Confidence            5778999997432  2   2467899999999999999987642    245799999999999999999999998665  


Q ss_pred             -CeEEEEEecc
Q 016857          352 -GRVVRATFYD  361 (381)
Q Consensus       352 -GR~V~a~fy~  361 (381)
                       ||.|.+.|.+
T Consensus       165 ~~~~l~V~~ad  175 (175)
T 3nmr_A          165 CSSPMVVKFAD  175 (175)
T ss_dssp             CSSCCEEEECC
T ss_pred             CCCCeEEEecC
Confidence             4999999874

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.83  E-value=1.3e-08  Score=81.33  Aligned_cols=80  Identities=18%  Similarity=0.216  Sum_probs=63.8

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +   -++||++.|++||.|   .|+.. ..   ....|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nLp~~--~---t~~~l~~~F~~~g~v---~~~~~-~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   79 (101)
T 2fc9_A           12 SGESKTLVLSNLSYS--A---TEETLQEVFEKATFI---KVPQN-QN---GKSKGYAFIEFASFEDAKEALNSCNKREIE   79 (101)
T ss_dssp             SCCCSEEEEESCCTT--C---CHHHHHHHCSSCSEE---ECCBC-SS---SCBCSEEEEECSSHHHHHHHHHHTSSEEET
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHhCCEE---EEEEC-CC---CCEeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            347889999997532  2   246788999999988   34433 11   246799999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|++.|....
T Consensus        80 g~~l~v~~a~~~   91 (101)
T 2fc9_A           80 GRAIRLELQGPR   91 (101)
T ss_dssp             TEEEEEEECSSC
T ss_pred             CeEEEEEEcCCC
Confidence            999999998654

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

Probab=98.83  E-value=1e-08  Score=81.79  Aligned_cols=78  Identities=15%  Similarity=0.252  Sum_probs=63.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-.  ++.   ++||++.|++||.|. +.|...       ...|++||+|.+.++|.+|+..|||..|+
T Consensus        16 ~~~~~~l~V~nL~~--~~t---~~~l~~~F~~~G~v~-~~~~~~-------~~~g~afV~f~~~~~a~~A~~~l~g~~~~   82 (97)
T 2e5j_A           16 APLAADVYVGNLPR--DAR---VSDLKRALRELGSVP-LRLTWQ-------GPRRRAFLHYPDSAAAQQAVSCLQGLRLG   82 (97)
T ss_dssp             SCCCCEEEEECCCT--TCC---HHHHHHHHHHTTCCC-SEEEEE-------TTTTEEEEECSSHHHHHHHHHHHTTCCSS
T ss_pred             CCCCCEEEEeCCCC--cCc---HHHHHHHHHhcCCEE-EEEEcC-------CCCcEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34678999999742  222   467889999999997 555543       24689999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        83 g~~l~V~~a~~   93 (97)
T 2e5j_A           83 TDTLRVALARQ   93 (97)
T ss_dssp             SSCCEEEECCC
T ss_pred             CcEEEEEEcCC
Confidence            99999998754

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

Probab=98.82  E-value=5.8e-09  Score=83.46  Aligned_cols=74  Identities=23%  Similarity=0.300  Sum_probs=62.6

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+-.  ++   -++||++.|++||.|.+|.|..+        ..|++||+|.+.++|.+|+..|||..|+|+.|.
T Consensus         2 ~l~V~nLp~--~~---t~~~l~~~F~~~G~i~~v~i~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   68 (101)
T 2hvz_A            2 KVYVGNLGT--GA---GKGELERAFSYYGPLRTVWIARN--------PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVR   68 (101)
T ss_dssp             EEEEECCCS--SC---SHHHHHHHHHHHCCCSEEEEESS--------SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCE
T ss_pred             EEEEeCCCC--CC---CHHHHHHHHHhcCCeEEEEEeeC--------CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEE
Confidence            467777642  22   25678899999999999999864        368999999999999999999999999999999


Q ss_pred             EEecccc
Q 016857          357 ATFYDEE  363 (381)
Q Consensus       357 a~fy~ee  363 (381)
                      +.+....
T Consensus        69 V~~a~~~   75 (101)
T 2hvz_A           69 VELSTGM   75 (101)
T ss_dssp             EEESSSC
T ss_pred             EEEccCC
Confidence            9998764

>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=98.82  E-value=2.1e-09  Score=87.87  Aligned_cols=80  Identities=23%  Similarity=0.343  Sum_probs=64.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCee----EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVT----RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG  347 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~----~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnG  347 (381)
                      ..++++|+|.|+-.  ++.   ++||++.|++||.|.    .+.+.    .   ....|++||+|.+.++|.+|+..|||
T Consensus        22 ~~~~~~l~V~nLp~--~~t---~~~l~~~f~~~G~v~~~~~~~~~~----~---g~~~g~afV~f~~~~~a~~Ai~~l~g   89 (115)
T 2cpx_A           22 GEPNKVLYLKNLSP--RVT---ERDLVSLFARFQEKKGPPIQFRMM----T---GRMRGQAFITFPNKEIAWQALHLVNG   89 (115)
T ss_dssp             CSCCSEEEEECCCT--TCC---HHHHHHHTHHHHHSSSSCCEEEEE----C---SSSCSEEEEECSSHHHHHHHHHHSTT
T ss_pred             CCCCCEEEEeCCCC--CCC---HHHHHHHHHHhCCccceEEEEEcC----C---CccceEEEEEECCHHHHHHHHHHhCC
Confidence            45789999999742  222   467888999999994    44443    1   24579999999999999999999999


Q ss_pred             CeeCCeEEEEEecccc
Q 016857          348 RFFGGRVVRATFYDEE  363 (381)
Q Consensus       348 R~F~GR~V~a~fy~ee  363 (381)
                      ..|+|+.|.+.|....
T Consensus        90 ~~~~g~~l~v~~a~~~  105 (115)
T 2cpx_A           90 YKLYGKILVIEFGKNK  105 (115)
T ss_dssp             CBCSSCBCEEEECCCC
T ss_pred             CEeCCcEEEEEEccCC
Confidence            9999999999998653

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=98.82  E-value=3.5e-09  Score=90.45  Aligned_cols=81  Identities=22%  Similarity=0.274  Sum_probs=68.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-.  ++   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus        46 ~~~~l~V~nLp~--~~---te~~L~~~F~~~G~i~~v~i~~~~~~g---~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~  117 (135)
T 2lea_A           46 GMTSLKVDNLTY--RT---SPDTLRRVFEKYGRVGDVYIPRDRYTK---ESRGFAFVRFHDKRDAEDAMDAMDGAVLDGR  117 (135)
T ss_dssp             GCCCEEEECCCS--SC---HHHHHHHHHGGGSCCSEEECCCCSSSS---SCCSCCEEECSCHHHHHHHHTTTTTCCSSSS
T ss_pred             CCCEEEEeCCCC--CC---CHHHHHHHHHhcCCEEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            567899999742  22   357888999999999999998754332   4679999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.|...
T Consensus       118 ~l~V~~a~~  126 (135)
T 2lea_A          118 ELRVQMARY  126 (135)
T ss_dssp             CCEEEECCC
T ss_pred             EEEEEECCC
Confidence            999999864

>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=98.82  E-value=9.9e-09  Score=88.07  Aligned_cols=78  Identities=23%  Similarity=0.328  Sum_probs=66.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-..  +.   ++||++.|++||.|.+|.|+.+        ..|++||+|.+.++|.+|+..|||..|+
T Consensus        70 ~~~~~~l~V~nl~~~--~t---~~~l~~~F~~~G~i~~v~i~~~--------~~g~afV~f~~~~~a~~A~~~l~g~~~~  136 (150)
T 2i2y_A           70 CPLDCKVYVGNLGNN--GN---KTELERAFGYYGPLRSVWVARN--------PPGFAFVEFEDPRDAADAVRELDGRTLC  136 (150)
T ss_dssp             STTSCEEEEESCCSC--CS---CHHHHHHHHHHSCEEEEEECSS--------SCSEEEEEESSHHHHHHHHHHHSSSCSS
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhhCCEEEEEEeeC--------CCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            347889999997432  22   3578899999999999999863        3689999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus       137 g~~l~v~~a~~  147 (150)
T 2i2y_A          137 GCRVRVELSNG  147 (150)
T ss_dssp             SSCCEEEECCC
T ss_pred             CeEEEEEEcCC
Confidence            99999998754

>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=98.82  E-value=2e-08  Score=93.57  Aligned_cols=84  Identities=19%  Similarity=0.309  Sum_probs=70.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|++.|+-. .--+++|+..|.+.|++||.|.+|.|.+..      ...|++||+|.+.++|.+|+..|||..|+
T Consensus         6 ~~~~~~l~V~nlp~-~~~~~~l~~~L~~~F~~~G~i~~v~~~~~~------~~~g~afV~f~~~~~a~~A~~~l~g~~~~   78 (282)
T 3pgw_A            6 TRPNHTIYINNLNE-KIKKDELKKSLYAIFSQFGQILDILVSRSL------KMRGQAFVIFKEVSSATNALRSMQGFPFY   78 (282)
T ss_pred             CCCCCEEEEeCCCC-CCCHHHHHHHHHHHHhccCCeEEEEEcCCC------CcceEEEEEECCHHHHHHHHHHhcCCeeC
Confidence            45899999999742 222356777788999999999999998621      35799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus        79 g~~l~v~~a~~   89 (282)
T 3pgw_A           79 DKPMRIQYAKT   89 (282)
T ss_pred             CcEEEEEEecc
Confidence            99999999864

>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=98.82  E-value=1e-08  Score=95.32  Aligned_cols=80  Identities=14%  Similarity=0.126  Sum_probs=66.8

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccC--CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYG--TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG--~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ++.|+|.||-..  +.   ++||++.|++||  .|++|.|+.+...+   ..+|++||+|.+.++|.+|+..|||..|+|
T Consensus        68 ~~~lfVgnL~~~--~t---e~~L~~~F~~~G~~~v~~v~i~~d~~tg---~skGfaFV~f~~~~~a~~Ai~~lng~~~~G  139 (229)
T 3q2s_C           68 RIALYIGNLTWW--TT---DEDLTEAVHSLGVNDILEIKFFENRANG---QSKGFALVGVGSEASSKKLMDLLPKRELHG  139 (229)
T ss_dssp             -CEEEEESCCTT--CC---HHHHHHHHHTTTCCCEEEEEEEECTTTC---CEEEEEEEEESCTTHHHHHHTTSTTSCBTT
T ss_pred             ccEEEEeCCCCC--CC---HHHHHHHHHHHCCcceEEEEEEecCCCC---ccceEEEEEECCHHHHHHHHHHcCCCeECC
Confidence            457889897422  22   467889999999  99999999865433   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      |.|.|.|...
T Consensus       140 r~l~V~~a~~  149 (229)
T 3q2s_C          140 QNPVVTPVNK  149 (229)
T ss_dssp             BCCEEEECCH
T ss_pred             EEeEEEECCC
Confidence            9999999864

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.81  E-value=2.4e-08  Score=81.73  Aligned_cols=79  Identities=22%  Similarity=0.314  Sum_probs=64.8

Q ss_pred             CCCceEEEEecccCC---CCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC
Q 016857          272 GPPTRVLLLRNMVGP---GEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       272 g~pSrVVvL~NMv~~---~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR  348 (381)
                      |+|--+|++...=+.   .-.+++|..+|.+.|+.||.|..|.|..           ++.||+|.+.++|.+|+. |||.
T Consensus         4 GPpd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~-----------d~~fVtF~d~~sAlaAi~-mnG~   71 (91)
T 2dnr_A            4 GSSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVE-----------DKMWVTFLEGSSALNVLS-LNGK   71 (91)
T ss_dssp             CCSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECS-----------SSEEEEESSHHHHHHGGG-GTTC
T ss_pred             CCCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEec-----------CCEEEEECChHHHHHHHh-cCCe
Confidence            556556666443222   2256899999999999999999999975           338999999999999998 9999


Q ss_pred             eeCCeEEEEEeccc
Q 016857          349 FFGGRVVRATFYDE  362 (381)
Q Consensus       349 ~F~GR~V~a~fy~e  362 (381)
                      .++||.|++.+-+.
T Consensus        72 ~v~Gr~LkV~lkt~   85 (91)
T 2dnr_A           72 ELLNRTITIALKSP   85 (91)
T ss_dssp             EETTEEEEEEECCC
T ss_pred             EeCCeEEEEEeCCC
Confidence            99999999998765

>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=98.81  E-value=2.6e-08  Score=87.03  Aligned_cols=80  Identities=13%  Similarity=0.189  Sum_probs=66.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ++++|++.|+-.  ++   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+.. +|..|+|+
T Consensus       103 ~~~~l~V~nLp~--~~---t~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~  173 (196)
T 1l3k_A          103 TVKKIFVGGIKE--DT---EEHHLRDYFEQYGKIEVIEIMTDRGSG---KKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGH  173 (196)
T ss_dssp             CCSEEEEECCTT--TC---CHHHHHHHHTTTSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHC-SCCEETTE
T ss_pred             CcceEEEeCCCC--CC---CHHHHHHHHhcCCCeEEEEEeecCCCC---CccceEEEEECCHHHHHHHHHh-CCcEECCE
Confidence            568899999742  22   256889999999999999999865332   4679999999999999999987 89999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus       174 ~i~v~~a~~  182 (196)
T 1l3k_A          174 NCEVRKALS  182 (196)
T ss_dssp             ECEEEECC-
T ss_pred             EEEEEecCC
Confidence            999999865

>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=98.81  E-value=3.2e-09  Score=88.67  Aligned_cols=84  Identities=13%  Similarity=0.144  Sum_probs=66.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...++|+|.|+-..  +   -++||++.|++||.|..+.++.....+   ...|++||+|.+.++|.+|+. |||..|+|
T Consensus        23 ~~~~~l~V~nLp~~--~---te~~l~~~F~~~G~v~~~~~~~~~~~g---~~~G~afV~F~~~~~a~~Al~-~~g~~~~g   93 (124)
T 1wel_A           23 EAGFCVYLKGLPFE--A---ENKHVIDFFKKLDIVEDSIYIAYGPNG---KATGEGFVEFRNEADYKAALC-RHKQYMGN   93 (124)
T ss_dssp             CCCCEEEEECCCTT--C---CHHHHHHHSCSSCBCTTTCEEEECTTS---SEEEEEEEEBSSSHHHHHHHT-SCSBCSTT
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHhcCCccceEEEEECCCC---CCCeEEEEEECCHHHHHHHHH-hCCCeECC
Confidence            35678999997422  2   256888999999999885544433322   457999999999999999999 99999999


Q ss_pred             eEEEEEecccccc
Q 016857          353 RVVRATFYDEERF  365 (381)
Q Consensus       353 R~V~a~fy~ee~F  365 (381)
                      |.|.+.+.....+
T Consensus        94 r~i~V~~a~~~~~  106 (124)
T 1wel_A           94 RFIQVHPITKKGM  106 (124)
T ss_dssp             SCBEEEEECHHHH
T ss_pred             cEEEEEECCHHHH
Confidence            9999999887544

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=98.81  E-value=2.4e-08  Score=90.22  Aligned_cols=82  Identities=15%  Similarity=0.220  Sum_probs=68.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .|++.|.+.|+-.  ++.   ++||++.|++||.|.+|.|+++...+   ...|++||+|.+.++|.+|+..|||..+.|
T Consensus        13 ~p~~tlfVgnLp~--~~t---e~~L~~~F~~~G~I~~v~i~~d~~tg---~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g   84 (213)
T 4f02_A           13 YPMASLYVGDLHP--DVT---EAMLYEKFSPAGPILSIRVCRDMITR---RSLGYAYVNFQQPADAERALDTMNFDVIKG   84 (213)
T ss_dssp             --CCEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEeCCCC--CCC---HHHHHHHHHhhCCEEEEEEecccCCC---CccccccceeCCHHHHHHHHHHhhhhhcCC
Confidence            4788999999742  222   56788999999999999999865433   568999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+...
T Consensus        85 ~~i~~~~~~~   94 (213)
T 4f02_A           85 KPVRIMWSQR   94 (213)
T ss_dssp             EECEEEECCC
T ss_pred             cccccccccc
Confidence            9999988754

>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=98.80  E-value=1.2e-08  Score=86.91  Aligned_cols=80  Identities=11%  Similarity=0.101  Sum_probs=66.4

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+. |||..|+||
T Consensus        86 ~~~~l~V~nlp~~--~---t~~~l~~~F~~~G~i~~~~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~  156 (167)
T 2cjk_A           86 KTGKIFVGGIGPD--V---RPKEFEEFFSQWGTIIDAQLMLDKDTG---QSRGFGFVTYDSADAVDRVCQ-NKFIDFKDR  156 (167)
T ss_dssp             HCEEEEEEEECTT--C---CHHHHHHHHHTTSCCSEEECCCSSSSS---TTSEEEEEEESSHHHHHHHHH-CSEECSSSS
T ss_pred             CCCeEEECCCCCC--C---CHHHHHHHHHhCccEEEEEEEEcCCCC---ccceEEEEEECCHHHHHHHHh-CCCEEeCCe
Confidence            4678999997532  2   246788999999999999998764332   467999999999999999998 899999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.|...
T Consensus       157 ~i~V~~a~p  165 (167)
T 2cjk_A          157 KIEIKRAEP  165 (167)
T ss_dssp             CEEEEECCC
T ss_pred             EEEEeecCC
Confidence            999998753

>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=98.80  E-value=1.6e-08  Score=82.10  Aligned_cols=84  Identities=17%  Similarity=0.076  Sum_probs=67.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeE-EEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTR-VLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~-V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++|++.|+-..-     -++||++.|++||.|.+ |.|..+ ..   ....|++||+|.+.++|.+|+.. ||..++
T Consensus        13 ~~~~~l~V~nLp~~~-----te~~l~~~F~~~G~v~~~v~i~~~-~~---g~~~G~afV~F~~~~~a~~A~~~-~~~~~~   82 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGC-----SKEEIVQFFSGLEIVPNGMTLPVD-FQ---GRSTGEAFVQFASQEIAEKALKK-HKERIG   82 (104)
T ss_dssp             SCCCEEEEESCCTTC-----CHHHHHHHTTTCCEEEEEEECCBC-SS---SCBCSEEEEEESSHHHHHHHHTT-TTCCSS
T ss_pred             CCCCEEEEeCCCCCC-----CHHHHHHHHHhcCCcceeEEEEEC-CC---CCcceEEEEEECCHHHHHHHHHh-CcchhC
Confidence            356789999975322     25688999999999997 877765 22   24679999999999999999998 999999


Q ss_pred             CeEEEEEeccccccc
Q 016857          352 GRVVRATFYDEERFS  366 (381)
Q Consensus       352 GR~V~a~fy~ee~F~  366 (381)
                      ||.|.+.......+.
T Consensus        83 gr~i~v~~~~~~~~~   97 (104)
T 1wg5_A           83 HRYIEIFKSSRAEVR   97 (104)
T ss_dssp             SSCCEEEEECTTTSC
T ss_pred             CcEEEEEECCHHHHH
Confidence            999999888765543

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

Probab=98.79  E-value=3.5e-09  Score=89.35  Aligned_cols=82  Identities=16%  Similarity=0.228  Sum_probs=68.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeE--EEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC-
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTR--VLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR-  348 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~--V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR-  348 (381)
                      ..+++.|+|.|+-..  +.   ++||++.|++||.|..  |.|+.+...+   ..+|++||+|.+. +|.+|+..|||. 
T Consensus        20 ~~~~~~lfV~nL~~~--~t---e~~L~~~F~~~G~v~~~~v~i~~d~~tg---~~rG~aFV~f~~~-~a~~Ai~~l~g~~   90 (131)
T 2m2b_A           20 ENANDTIILRNLNPH--ST---MDSILGALAPYAVLSSSNVRVIKDKQTQ---LNRGFAFIQLSTI-EAAQLLQILQALH   90 (131)
T ss_dssp             SCCCCEEEECSCCTT--CC---SHHHHHHHGGGCCCCTTTEECCBCSSSS---SBCSCEEEECCHH-HHHHHHHHHTTCC
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHHhCCcceeeEEEEEcCCCC---CcceEEEEEECCH-HHHHHHHHhcCCC
Confidence            457889999997422  21   4678899999999977  8988765433   5689999999999 999999999999 


Q ss_pred             ---eeCCeEEEEEeccc
Q 016857          349 ---FFGGRVVRATFYDE  362 (381)
Q Consensus       349 ---~F~GR~V~a~fy~e  362 (381)
                         .|+||.|.+.|...
T Consensus        91 ~~~~~~gr~l~V~~a~~  107 (131)
T 2m2b_A           91 PPLTIDGKTINVEFAKG  107 (131)
T ss_dssp             CSCCGGGCCCCCEECCC
T ss_pred             CCccCCCEEEEEEECCC
Confidence               99999999999865

>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=98.78  E-value=1.8e-08  Score=79.41  Aligned_cols=75  Identities=13%  Similarity=0.239  Sum_probs=62.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCC-eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCC-Cee
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGT-VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDG-RFF  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~-V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnG-R~F  350 (381)
                      ..++.|++.|+-..  +   -++||++.|++||. |..+.|.          ..|++||+|.+.++|.+|+..||| ..|
T Consensus         6 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~vv~~~~~~----------~~g~afV~f~~~~~A~~A~~~l~g~~~~   70 (93)
T 2cqh_A            6 SGMNKLYIGNLSPA--V---TADDLRQLFGDRKLPLAGQVLL----------KSGYAFVDYPDQNWAIRAIETLSGKVEL   70 (93)
T ss_dssp             CCCCCEEEECCCTT--C---CHHHHHHHHHHTTCCCSSCEEE----------ETTEEEECCSCHHHHHHHHHHHTTTCEE
T ss_pred             CCCcEEEEeCCCCC--C---CHHHHHHHHHHcCCceEEEEEc----------CCCEEEEEECCHHHHHHHHHHccCCeeE
Confidence            46778899997432  2   25678899999999 6666663          248999999999999999999999 999


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      +|+.|.+.|...
T Consensus        71 ~g~~l~v~~a~~   82 (93)
T 2cqh_A           71 HGKIMEVDYSVS   82 (93)
T ss_dssp             TTEECEEEECCC
T ss_pred             CCEEEEEEEccC
Confidence            999999999865

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=98.78  E-value=3.9e-08  Score=83.05  Aligned_cols=78  Identities=21%  Similarity=0.299  Sum_probs=65.1

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      |.|++.|+-..  +.   ++||++.|++||.|.+|.|..+..    ....|.+||+|.+.++|.+|+..|||..++|+.|
T Consensus         1 R~l~V~nlp~~--~t---~~~l~~~f~~~G~i~~v~i~~~~~----~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i   71 (166)
T 3md3_A            1 RVLYVGNLDKA--IT---EDILKQYFQVGGPIANIKIMIDKN----NKNVNYAFVEYHQSHDANIALQTLNGKQIENNIV   71 (166)
T ss_dssp             CEEEEEEEETT--CC---HHHHHHHHGGGSCEEEEEEECCCC-----CCEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEECCCCCc--CC---HHHHHHHHHhcCCeEEEEEEECCC----CCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCee
Confidence            57888887422  22   467889999999999999987643    2467999999999999999999999999999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      .+.+...
T Consensus        72 ~v~~~~~   78 (166)
T 3md3_A           72 KINWAFQ   78 (166)
T ss_dssp             EEEECCC
T ss_pred             EEEEcCC
Confidence            9998854

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

Probab=98.77  E-value=8.4e-09  Score=78.09  Aligned_cols=75  Identities=11%  Similarity=0.160  Sum_probs=60.5

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..+| ..|+|+.|.
T Consensus         2 ~l~v~nlp~~--~t---~~~l~~~F~~~G~v~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~   72 (77)
T 1uaw_A            2 KMFIGGLSWQ--TT---QEGLREYFGQFGEVKECLVMRDPLTK---RSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTID   72 (77)
T ss_dssp             CEEEESCCSS--CC---SHHHHHHHTTTSCCCCEEEECCCCSS---SCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCE
T ss_pred             EEEEeCCCCC--CC---HHHHHHHHHhcCCEEEEEEecCCCCC---CcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEE
Confidence            3667776422  21   35788999999999999998764332   467999999999999999999999 999999999


Q ss_pred             EEec
Q 016857          357 ATFY  360 (381)
Q Consensus       357 a~fy  360 (381)
                      +.+.
T Consensus        73 v~~a   76 (77)
T 1uaw_A           73 PKVA   76 (77)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            8764

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.77  E-value=1.1e-08  Score=90.25  Aligned_cols=77  Identities=26%  Similarity=0.418  Sum_probs=65.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccC-CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYG-TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG-~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .++++|++.|+-..  +   -++||++.|++|| .|.+|.|...        ..|.+||+|.+.++|.+|+..|||+.|+
T Consensus       118 ~~~~~l~v~nl~~~--~---~~~~l~~~f~~~G~~v~~v~i~~~--------~~g~afV~f~~~~~A~~A~~~l~g~~~~  184 (198)
T 1qm9_A          118 PPSATLHLSNIPPS--V---SEEDLKVLFSSNGGVVKGFKFFQK--------DRKMALIQMGSVEEAVQALIDLHNHDLG  184 (198)
T ss_dssp             CCCCEEEECCCCTT--C---CHHHHHHHHHHTTSCCCEEEESST--------TSSCEEEECSSHHHHHHHHHHHTSSCCS
T ss_pred             CCccEEEEeCCCCC--C---CHHHHHHHHHHcCCCceEEEEEeC--------CCcEEEEEeCCHHHHHHHHHHhcCCccC
Confidence            47899999997532  2   2568899999999 9999999642        2589999999999999999999999999


Q ss_pred             -CeEEEEEeccc
Q 016857          352 -GRVVRATFYDE  362 (381)
Q Consensus       352 -GR~V~a~fy~e  362 (381)
                       |+.|++.|...
T Consensus       185 ~g~~l~v~~a~~  196 (198)
T 1qm9_A          185 ENHHLRVSFSKS  196 (198)
T ss_dssp             SCCSCCEEEECC
T ss_pred             CCCeEEEEeecc
Confidence             99999999753

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=98.77  E-value=2.8e-08  Score=83.05  Aligned_cols=76  Identities=16%  Similarity=0.077  Sum_probs=63.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccC-CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYG-TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG-~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ....|++.|+-..  +   -++||++.|++|| .|..|.|...       ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        27 ~~~~l~VgnLp~~--~---te~dL~~~F~~~G~~v~~v~i~~~-------~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           27 KRYRITMKNLPEG--C---SWQDLKDLARENSLETTFSSVNTR-------DFDGTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCEEEEEECSSCC--C---CHHHHHHHHHHHTCCCSEEECSSC-------SSSCCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCEEEEECCCCC--C---CHHHHHHHHHHhCCeeEEEEEEcC-------CCCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4567888897522  2   2567889999999 8999998632       246999999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      |.|.+.+..
T Consensus        95 r~i~V~~a~  103 (111)
T 2jvr_A           95 SVITVERDD  103 (111)
T ss_dssp             EEEEEEESC
T ss_pred             eEEEEEECC
Confidence            999999875

>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=98.76  E-value=2.8e-08  Score=84.53  Aligned_cols=80  Identities=16%  Similarity=0.265  Sum_probs=65.2

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEE--------EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV--------LIFEITEPNFPVDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V--------~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      +.+++.|+|.|+-..  +   -++||++.|++||.|.+|        .+...      ....|++||+|.+.++|.+|+.
T Consensus        42 ~~~~~~l~V~nLp~~--~---te~~L~~~F~~~G~i~~~~~~~~~di~~~~~------g~~~g~afV~f~~~~~A~~Ai~  110 (143)
T 3egn_A           42 GEPNCRIYVKNLAKH--V---QEKDLKYIFGRYVDFSSETQRIMFDIRLMKE------GRMKGQAFIGLPNEKAAAKALK  110 (143)
T ss_dssp             CSCCSEEEEEEECTT--C---CHHHHHHHHGGGCCTTCHHHHHHCEEEEEEE------TTTEEEEEEECSSHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCC--C---CHHHHHHHHHHhCCcccccccceeeEEeccC------CCcccEEEEEeCCHHHHHHHHH
Confidence            568899999997532  2   256788999999998874        33332      1457999999999999999999


Q ss_pred             hhCCCeeCCeEEEEEeccc
Q 016857          344 DLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       344 ~LnGR~F~GR~V~a~fy~e  362 (381)
                      .|||..|+|+.|.+.|...
T Consensus       111 ~lng~~~~g~~l~V~~a~~  129 (143)
T 3egn_A          111 EANGYVLFGKPMVVQFARS  129 (143)
T ss_dssp             HHTTBEETTEECEEEECCC
T ss_pred             HhCCCEeCCcEEEEEECCC
Confidence            9999999999999999853

>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=98.76  E-value=2.4e-08  Score=93.05  Aligned_cols=84  Identities=15%  Similarity=0.116  Sum_probs=70.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|++.|+-..  +  .-++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|+..|||+.|+|
T Consensus       182 ~~~~~l~v~nlp~~--~--~~~~~l~~~f~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  253 (284)
T 3smz_A          182 LHSRCLCVDRLPPG--F--NDVDALCRALSAVHSPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADGLSLGG  253 (284)
T ss_dssp             TSCSEEEEECCCTT--C--CCHHHHHHHTCSSSCCSEEEEEECSS----CCEEEEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCccEEEEecCCcc--c--CCHHHHHHHhhCCCCeEEEEEEECCC----CCcccEEEEEeCCHHHHHHHHHHhCCCccCC
Confidence            46788999997532  1  01568999999999999999987542    2457999999999999999999999999999


Q ss_pred             eEEEEEeccccc
Q 016857          353 RVVRATFYDEER  364 (381)
Q Consensus       353 R~V~a~fy~ee~  364 (381)
                      +.|.+.|.....
T Consensus       254 ~~l~v~~a~~~~  265 (284)
T 3smz_A          254 SHLRVSFCAPGP  265 (284)
T ss_dssp             EECEEEECCSSS
T ss_pred             eEEEEEEecCCC
Confidence            999999997644

>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=98.76  E-value=3e-08  Score=92.74  Aligned_cols=82  Identities=18%  Similarity=0.346  Sum_probs=66.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|+|.|+-... +.   ++||++.|++||.|.+|.|+.+...  .....|++||+|.+.++|.+|+ .|||+.|+|
T Consensus       208 ~~~~~l~v~nlp~~~-~t---~~~l~~~F~~~G~v~~v~i~~~~~~--tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g  280 (292)
T 2ghp_A          208 LEGREIMIRNLSTEL-LD---ENLLRESFEGFGSIEKINIPAGQKE--HSFNNCCAFMVFENKDSAERAL-QMNRSLLGN  280 (292)
T ss_dssp             CTTTEEEEEEECTTT-CC---HHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHG-GGTTEEETT
T ss_pred             CCCceEEEECCCccc-CC---HHHHHHHHhccCCeeEEEEEecCCc--CCCCceEEEEEeCCHHHHHHHH-HhcCCEECC
Confidence            467899999974220 22   4688999999999999999875320  0245799999999999999999 999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      +.|.+.|..
T Consensus       281 ~~i~V~~a~  289 (292)
T 2ghp_A          281 REISVSLAD  289 (292)
T ss_dssp             EEEEEEECC
T ss_pred             cEEEEEEec
Confidence            999999975

>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=98.76  E-value=2.2e-08  Score=78.55  Aligned_cols=77  Identities=16%  Similarity=0.216  Sum_probs=64.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-.  ++.   ++||++.|++| .|.+|.|+         ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus         4 ~~~~l~V~nLp~--~~t---~~~l~~~F~~~-~v~~~~i~---------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   68 (88)
T 1wg1_A            4 GSSGILVKNLPQ--DSN---CQEVHDLLKDY-DLKYCYVD---------RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGK   68 (88)
T ss_dssp             CCCCEEEESCCS--SCC---HHHHHHHTCSS-CCCCEEEE---------GGGTEEEECCSCHHHHHHHHHHHTTEEETTE
T ss_pred             CCCEEEEeCCCC--CCC---HHHHHHHHhhC-CeEEEEEe---------CCCcEEEEEECCHHHHHHHHHHhCCCeECCc
Confidence            467788889742  222   56788999999 99999995         2468999999999999999999999999999


Q ss_pred             EEEEEecccccc
Q 016857          354 VVRATFYDEERF  365 (381)
Q Consensus       354 ~V~a~fy~ee~F  365 (381)
                      .|++.+...+.+
T Consensus        69 ~l~V~~a~~~~~   80 (88)
T 1wg1_A           69 DLIVQLQPTDAL   80 (88)
T ss_dssp             EEEEEECCCCCC
T ss_pred             EEEEEEcCCCce
Confidence            999999877554

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.75  E-value=2.9e-08  Score=82.50  Aligned_cols=83  Identities=16%  Similarity=0.123  Sum_probs=68.1

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+.+|.|.||--.-     -++||++.|++| .|.+|.|+.+.. +   ...|++||+|.+.++|.+|+ .|||..++||
T Consensus        15 ~~~~v~V~nLp~~~-----te~dl~~~F~~~-~v~~v~i~~d~~-g---~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr   83 (109)
T 2dnn_A           15 DDLYVSVHGMPFSA-----MENDVRDFFHGL-RVDAVHLLKDHV-G---RNNGNGLVKFLSPQDTFEAL-KRNRMLMIQR   83 (109)
T ss_dssp             HHHEEEEECCCSSC-----CHHHHHHHTTTS-CCCEEEECCCTT-C---CCCSEEEEECSSHHHHHHHH-HTTTEEETTE
T ss_pred             CCCEEEEeCCCCCC-----CHHHHHHHhccC-CeeEEEEEECCC-C---CCCeEEEEEECCHHHHHHHH-hcCCCeECCe
Confidence            35689999975322     256889999999 899999987643 2   46899999999999999999 7999999999


Q ss_pred             EEEEEecccccccc
Q 016857          354 VVRATFYDEERFSK  367 (381)
Q Consensus       354 ~V~a~fy~ee~F~~  367 (381)
                      .|.+.......|..
T Consensus        84 ~i~V~~a~~~~~~~   97 (109)
T 2dnn_A           84 YVEVSPATERQWVA   97 (109)
T ss_dssp             EEEEEECCHHHHHH
T ss_pred             EEEEEECCccchhh
Confidence            99998887766543

>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=98.75  E-value=1.4e-08  Score=87.73  Aligned_cols=82  Identities=16%  Similarity=0.134  Sum_probs=68.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCC---eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGT---VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF  350 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~---V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F  350 (381)
                      ..++|+|.|+--.-     -++||++.|++||.   |.+|.|..+.. +   ...|++||+|.+.++|.+|+. |||..|
T Consensus        43 ~~~~lfVgnLp~~~-----te~dL~~~F~~~G~v~~v~~v~i~~d~~-g---~srG~aFV~F~~~e~a~~Al~-~~g~~l  112 (136)
T 2hgl_A           43 EGFVVKLRGLPWSC-----SVEDVQNFLSDCTIHDGAAGVHFIYTRE-G---RQSGEAFVELGSEDDVKMALK-KDRESM  112 (136)
T ss_dssp             TTCEEEEESCCTTC-----CHHHHHHHTTTCCCSSSSTTEEEEECSS-S---CEEEEEEEECSSHHHHHHHHT-TTEEES
T ss_pred             CCCEEEEeCCCCCC-----CHHHHHHHHHHhCCcCceeEEEEEECCC-C---CCCeEEEEEECCHHHHHHHHh-cCCCEE
Confidence            56789999975322     25688999999999   89999987654 2   468999999999999999999 999999


Q ss_pred             CCeEEEEEecccccc
Q 016857          351 GGRVVRATFYDEERF  365 (381)
Q Consensus       351 ~GR~V~a~fy~ee~F  365 (381)
                      +||.|.+.+.....+
T Consensus       113 ~gr~i~V~~a~~~e~  127 (136)
T 2hgl_A          113 GHRYIEVFKSHRTEM  127 (136)
T ss_dssp             SSSEEEEEECCHHHH
T ss_pred             CCEEEEEEECChHHH
Confidence            999999998876544

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.73  E-value=2.4e-08  Score=79.01  Aligned_cols=77  Identities=21%  Similarity=0.253  Sum_probs=62.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-..  +   -++||++.|++||.|..|   ...     ....|++||+|.+.++|.+|+..|||..|+|
T Consensus        14 ~~~~~l~V~nL~~~--~---t~~~l~~~F~~~g~v~~~---~~~-----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   80 (96)
T 1fjc_A           14 RAARTLLAKNLSFN--I---TEDELKEVFEDALEIRLV---SQD-----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             TGGGEEEEESCCSS--C---CHHHHHHHHCSEEEECCE---EET-----TEEEEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHhhCCcEEEe---CCC-----CCcceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46889999997422  2   246788999999998777   211     1357999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus        81 ~~l~v~~a~~   90 (96)
T 1fjc_A           81 RSVSLYYTGE   90 (96)
T ss_dssp             EEEEEEECSS
T ss_pred             eEEEEEEcCC
Confidence            9999999754

>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=98.73  E-value=2.4e-08  Score=81.32  Aligned_cols=81  Identities=15%  Similarity=0.078  Sum_probs=65.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ....++|+|.|+-...     -++||++.|++||.| +|.|+.+. .   ....|++||+|.+.++|.+|+ .+||..|+
T Consensus        12 ~~~~~~l~V~nLp~~~-----te~~l~~~F~~~G~~-~v~i~~d~-~---g~~~G~afV~F~~~~~a~~Al-~~~~~~~~   80 (102)
T 1wez_A           12 STTGHCVHMRGLPYRA-----TENDIYNFFSPLNPM-RVHIEIGP-D---GRVTGEADVEFATHEDAVAAM-AKDKANMQ   80 (102)
T ss_dssp             CSSSCEEEEESCCTTC-----CHHHHHHSSCSCCCS-EEEEEESS-S---SCEEEEEEEECSSSHHHHHHH-TTSSCCSS
T ss_pred             CCCCCEEEEeCCCCCC-----CHHHHHHHHHHcCce-EEEEEECC-C---CCEeeEEEEEECCHHHHHHHH-HhCCCeEC
Confidence            3467899999975322     257889999999955 99998764 2   256899999999999999999 57999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|.+......
T Consensus        81 gr~i~V~~~~~~   92 (102)
T 1wez_A           81 HRYVELFLNSTA   92 (102)
T ss_dssp             SSCCEEEEECCC
T ss_pred             CcEEEEEECCCC
Confidence            999999877653

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=98.71  E-value=3.9e-08  Score=87.17  Aligned_cols=81  Identities=16%  Similarity=0.220  Sum_probs=65.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+
T Consensus        27 ~~~~l~V~nLp~~--~t---~~~l~~~f~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~   98 (216)
T 2qfj_A           27 IMSRVYVGSIYYE--LG---EDTIRQAFAPFGPIKSIDMSWDSVTM---KHKGFAFVEYEVPEAAQLALEQMNSVMLGGR   98 (216)
T ss_dssp             HHTEEEEECCCTT--CC---HHHHHHHHGGGSCEEEEEECCC-CC----CCCSEEEEEESSHHHHHHHHHHHSSCCCC-C
T ss_pred             cCCEEEEECCCCC--CC---HHHHHHHHHhCCCEEEEEEeecCCCC---ccCceEEEEeCCHHHHHHHHHHccCCeeCCe
Confidence            4778999997432  22   56788999999999999998754332   4679999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        99 ~l~v~~~~~  107 (216)
T 2qfj_A           99 NIKVGRPSN  107 (216)
T ss_dssp             CCEEECCSC
T ss_pred             eEEEecCCC
Confidence            999987654

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

Probab=98.71  E-value=7.1e-08  Score=76.36  Aligned_cols=79  Identities=14%  Similarity=0.210  Sum_probs=61.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|++.|+-..  +   -++||++.|++||.|.+|.+..  ..     .. ++||+|.+.++|.+|+. |||..|+|
T Consensus         6 ~~~~~l~V~nl~~~--~---t~~~l~~~F~~~G~v~~v~~~~--~~-----g~-~afV~f~~~~~a~~ai~-l~g~~~~g   71 (94)
T 2e5g_A            6 SGLRSVFVSGFPRG--V---DSAQLSEYFLAFGPVASVVMDK--DK-----GV-FAIVEMGDVGAREAVLS-QSQHSLGG   71 (94)
T ss_dssp             TTCCEEEEECCCTT--C---CHHHHHHHGGGTSCEEEEEECS--SS-----CC-EEEEEESSHHHHHHHHT-CSCCEETT
T ss_pred             CCCCEEEEECCCCC--C---CHHHHHHHHHhcCCeEEEEEcC--CC-----Cc-EEEEEECCHHHHHHHHh-cCCeEECC
Confidence            35678999997422  2   2568889999999999983322  11     12 89999999999999999 99999999


Q ss_pred             eEEEEEecccccc
Q 016857          353 RVVRATFYDEERF  365 (381)
Q Consensus       353 R~V~a~fy~ee~F  365 (381)
                      +.|.+.+......
T Consensus        72 ~~l~V~~a~~~~~   84 (94)
T 2e5g_A           72 HRLRVRPREQKEF   84 (94)
T ss_dssp             EECCCBCSCCSCC
T ss_pred             EEEEEEECCcCCC
Confidence            9999987755433

>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=98.71  E-value=3.9e-08  Score=89.84  Aligned_cols=77  Identities=26%  Similarity=0.429  Sum_probs=65.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccC-CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYG-TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG-~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .++++|+|.|+-.  ++.   ++||++.|++|| .|..|.|...        ..|++||+|.+.++|.+|+..|||+.|+
T Consensus       149 ~~~~~l~V~nlp~--~~t---~~~l~~~f~~~G~~i~~v~i~~~--------~~g~afV~f~~~~~A~~Ai~~l~g~~~~  215 (229)
T 2adc_A          149 PPSATLHLSNIPP--SVS---EEDLKVLFSSNGGVVKGFKFFQK--------DRKMALIQMGSVEEAVQALIDLHNHDLG  215 (229)
T ss_dssp             CSCSEEEEECCCT--TCC---HHHHHHHHHTTSCCEEEEEECSS--------STTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCc--cCC---HHHHHHHHHHcCCCeeEEEEEEC--------CCcEEEEEECCHHHHHHHHHHHCCCccC
Confidence            4689999999743  222   578899999999 9999999642        2589999999999999999999999999


Q ss_pred             -CeEEEEEeccc
Q 016857          352 -GRVVRATFYDE  362 (381)
Q Consensus       352 -GR~V~a~fy~e  362 (381)
                       |+.|.+.|...
T Consensus       216 ~g~~l~v~~a~~  227 (229)
T 2adc_A          216 ENHHLRVSFSKS  227 (229)
T ss_dssp             SSCBCEEEECSS
T ss_pred             CCCeEEEEEecC
Confidence             99999999753

>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=98.71  E-value=5.3e-08  Score=75.30  Aligned_cols=71  Identities=24%  Similarity=0.318  Sum_probs=59.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhcc----C-------CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHH
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKY----G-------TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKA  341 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKY----G-------~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kA  341 (381)
                      .+++.|++.|+-..  +   -++||++.|++|    |       .|.+|.|..+         .|++||+|.+.++|.+|
T Consensus         4 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~---------kg~afV~f~~~~~a~~A   69 (87)
T 2hzc_A            4 GSARRLYVGNIPFG--I---TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD---------KNFAFLEFRSVDETTQA   69 (87)
T ss_dssp             GGGGEEEEESCCTT--C---CHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS---------SSEEEEEESSHHHHHHH
T ss_pred             CCCCEEEEeCCCCC--C---CHHHHHHHHHHHhhhcccccCCCCcceEEEecCC---------CcEEEEEcCCHHHHHHH
Confidence            36788999997432  2   246788888999    8       9999998742         58999999999999999


Q ss_pred             HHhhCCCeeCCeEEEEE
Q 016857          342 LIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       342 v~~LnGR~F~GR~V~a~  358 (381)
                      + .|||..|+||.|.+.
T Consensus        70 ~-~l~g~~~~g~~l~V~   85 (87)
T 2hzc_A           70 M-AFDGIIFQGQSLKIR   85 (87)
T ss_dssp             G-GGTTCEETTEECEEE
T ss_pred             H-hcCCCEECCeEEEEe
Confidence            9 999999999999886

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

Probab=98.16  E-value=1.7e-09  Score=89.05  Aligned_cols=82  Identities=15%  Similarity=0.268  Sum_probs=66.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeE--------EEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHh
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTR--------VLIFEITEPNFPVDEAVRIFVQFERSEQTTKALID  344 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~--------V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~  344 (381)
                      .+++.|++.|+-..  +   -++||++.|++||.|..        |.|+.+...+   ...|++||+|.+.++|.+|+..
T Consensus         5 ~~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~Ai~~   76 (116)
T 2lcw_A            5 SDNNTIFVQGLGEN--V---TIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG---KLKGEATVSFDDPPSAKAAIDW   76 (116)
Confidence            36788899997421  2   24578899999999998        7887653322   4579999999999999999999


Q ss_pred             hCCCeeCCeEEEEEeccc
Q 016857          345 LDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       345 LnGR~F~GR~V~a~fy~e  362 (381)
                      |||..|+|+.|.+.+...
T Consensus        77 l~g~~~~g~~l~V~~a~~   94 (116)
T 2lcw_A           77 FDGKEFSGNPIKVSFATR   94 (116)
Confidence            999999999999999865

>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=98.70  E-value=4.3e-08  Score=84.44  Aligned_cols=76  Identities=21%  Similarity=0.260  Sum_probs=62.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.|+-..  +   -++||++.|++||.|..|  .   ..   ....|++||+|.+.++|.+|+..|||+.|+||
T Consensus        98 ~~~~l~v~nlp~~--~---t~~~l~~~F~~~g~v~~~--~---~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  164 (175)
T 1fje_B           98 AARTLLAKNLSFN--I---TEDELKEVFEDALEIRLV--S---QD---GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGR  164 (175)
T ss_dssp             GGGEEEEESCCSS--C---CHHHHHHHCTTCSEEEEE--C---SS---SSCCSEEEEECSSHHHHHHHHHHHTEEEETTE
T ss_pred             cCCEEEEeCCCCC--C---CHHHHHHHHHhcCeEEEe--c---CC---CCCceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            5789999997532  2   246889999999999877  1   11   24579999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.|...
T Consensus       165 ~i~v~~a~~  173 (175)
T 1fje_B          165 SVSLYYTGE  173 (175)
T ss_dssp             EEEEEECSS
T ss_pred             EEEEEecCC
Confidence            999999753

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.68  E-value=5.8e-08  Score=77.54  Aligned_cols=80  Identities=16%  Similarity=0.198  Sum_probs=62.2

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..+++.|+|.|+-..  +.   ++||++.|++|+   .|.|+.+...   ....|++||+|.+.++|.+|+..|||..|+
T Consensus        12 ~~~~~~l~V~nLp~~--~t---~~~l~~~F~~~~---~~~~~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 2fc8_A           12 SQPSKTLFVKGLSED--TT---EETLKESFDGSV---RARIVTDRET---GSSKGFGFVDFNSEEDAKAAKEAMEDGEID   80 (102)
T ss_dssp             SCCCSSEEEECCCTT--CC---HHHHHHTSTTCS---EEEEEECSSS---CSEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCc--cC---HHHHHHHhcCCe---EEEEEecCCC---CCcCcEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            347888999997432  22   457788888875   5555554322   245799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        81 g~~l~V~~a~~   91 (102)
T 2fc8_A           81 GNKVTLDWAKP   91 (102)
T ss_dssp             TEECEEEECCC
T ss_pred             CeEEEEEEecC
Confidence            99999999854

>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=98.68  E-value=1e-08  Score=83.61  Aligned_cols=83  Identities=11%  Similarity=0.098  Sum_probs=67.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCC---eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGT---VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~---V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      ....+|+|.|+--.-.     ++||++.|++||.   |.+|.|..+.. +   ...|++||+|.+.++|.+|+. |||..
T Consensus         9 ~~~~~l~V~nLp~~~t-----e~~l~~~F~~~g~~~~v~~v~i~~~~~-g---~~~G~afV~F~~~~~a~~Al~-~~~~~   78 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCT-----MEDVLNFFSDCRIRNGENGIHFLLNRD-G---KRRGDALIEMESEQDVQKALE-KHRMY   78 (107)
T ss_dssp             SSCCEEEEECCCSSCC-----SHHHHHHTTTSCBTTTTTTEECCCCTT-S---TTCSEEEEEBSSHHHHHHHHT-TTTCC
T ss_pred             CCccEEEEeCCCCCCC-----HHHHHHHHHhcCCcCCcceEEEEECCC-C---CEeeEEEEEECCHHHHHHHHH-hCcce
Confidence            3577899999753221     3578888999888   99999987543 2   468999999999999999999 99999


Q ss_pred             eCCeEEEEEecccccc
Q 016857          350 FGGRVVRATFYDEERF  365 (381)
Q Consensus       350 F~GR~V~a~fy~ee~F  365 (381)
                      ++||.|.+.+.....+
T Consensus        79 ~~gr~i~V~~a~~~~~   94 (107)
T 2lmi_A           79 MGQRYVEVYEINNEDV   94 (107)
T ss_dssp             SSSSCCCCEECCHHHH
T ss_pred             eCCeEEEEEECCHHHH
Confidence            9999999999876554

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=98.68  E-value=4.8e-08  Score=78.22  Aligned_cols=77  Identities=19%  Similarity=0.131  Sum_probs=64.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|++.|+-..  +   -++||++.|++||.|.+|.|+.+. .   ....|++||+|.+.++|.+|+.  ||..++|+
T Consensus         8 ~~~~l~V~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~-~---g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~   76 (102)
T 2xs2_A            8 MPNTVFVGGIDVR--M---DETEIRSFFARYGSVKEVKIITDR-T---GVSKGYGFVSFYNDVDVQKIVE--SQINFHGK   76 (102)
T ss_dssp             EEEEEEEECCCTT--C---CHHHHHHHHGGGSCEEEEEEEECT-T---SCEEEEEEEEESSCCCHHHHTT--CCCEETTE
T ss_pred             CCCEEEEeCCCCC--C---CHHHHHHHHHhCCCeEEEEEEECC-C---CCccceEEEEECCHHHHHHHHh--CCCeECCE
Confidence            5788999997422  2   256788999999999999999864 2   2467999999999999999999  99999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.+.-
T Consensus        77 ~l~v~~a~   84 (102)
T 2xs2_A           77 KLKLGPAI   84 (102)
T ss_dssp             ECEEEEEE
T ss_pred             EEEEEECC
Confidence            99987765

>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=98.66  E-value=5.2e-08  Score=88.97  Aligned_cols=79  Identities=27%  Similarity=0.338  Sum_probs=67.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +.++++|++.|+-. .++.   ++||++.|++||.|.+|.|..+.        .|++||+|.+.++|.+|+..|||..|+
T Consensus        31 ~~~~~~l~V~nLp~-~~~t---e~~L~~~F~~~G~i~~v~i~~~~--------~g~afV~F~~~~~A~~Ai~~l~g~~~~   98 (229)
T 2adc_A           31 GAGNSVLLVSNLNP-ERVT---PQSLFILFGVYGDVQRVKILFNK--------KENALVQMADGNQAQLAMSHLNGHKLH   98 (229)
T ss_dssp             CCCCSEEEEESCCT-TTCC---HHHHHHHHHHHTCEEEEEECCTT--------SCCEEEEESCHHHHHHHHHHHTTCBCS
T ss_pred             CCCCCEEEEeCCCc-ccCC---HHHHHHHHHhCCCeEEEEEEECC--------CCEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            45789999999743 1222   46788999999999999998632        588999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        99 g~~l~v~~a~~  109 (229)
T 2adc_A           99 GKPIRITLSKH  109 (229)
T ss_dssp             SSBCEEECCSC
T ss_pred             CeEEEEEEecC
Confidence            99999999864

>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=98.66  E-value=7.2e-08  Score=79.48  Aligned_cols=79  Identities=25%  Similarity=0.366  Sum_probs=65.7

Q ss_pred             CCCCCceEEEEecccCC----CCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          270 FNGPPTRVLLLRNMVGP----GEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       270 ~~g~pSrVVvL~NMv~~----~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      ..|+|--+|++..+-..    ...+++|..+|.+.|..||.|..|.|..           .+.||+|.+.++|.+|+. |
T Consensus        10 ~~GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~-----------d~~fVtF~d~~sAl~AI~-l   77 (95)
T 1ufw_A           10 FQGPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQ-----------GQMLVTFADSHSALSVLD-V   77 (95)
T ss_dssp             CCCCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEET-----------TEEEEECSCSHHHHHHHH-G
T ss_pred             ecCCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEec-----------CcEEEEEcChHHHHHHHh-c
Confidence            45777777777554322    1256889999999999999999999974           349999999999999998 9


Q ss_pred             CCCeeCCeEEEEEec
Q 016857          346 DGRFFGGRVVRATFY  360 (381)
Q Consensus       346 nGR~F~GR~V~a~fy  360 (381)
                      ||..++||.|++.+-
T Consensus        78 dG~~v~Gr~L~V~~k   92 (95)
T 1ufw_A           78 DGMKVKGRAVKISGP   92 (95)
T ss_dssp             GGSEETTEEEEEECC
T ss_pred             CCeeeCCeEEEEecc
Confidence            999999999999864

>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=98.66  E-value=5e-08  Score=80.74  Aligned_cols=72  Identities=15%  Similarity=0.165  Sum_probs=57.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ....|++.|+-..  +.   ++||++.|++||.|..|.|+.+          |++||+|.+.++|.+|+..|||..|+|+
T Consensus        15 ~~~~l~V~nLp~~--~t---~~~l~~~F~~~G~v~~~~i~~~----------g~afV~f~~~~~a~~Ai~~l~g~~~~gr   79 (115)
T 3beg_B           15 SENRVVVSGLPPS--GS---WQDLKDHMREAGDVCYADVYRD----------GTGVVEFVRKEDMTYAVRKLDNTKFRSH   79 (115)
T ss_dssp             --CCEEEEECCSS--CC---TTHHHHHHGGGSCEEEEEECTT----------SEEEEEESSHHHHHHHHHHHTTCBCCCT
T ss_pred             CCcEEEEeCCCCC--CC---HHHHHHHHHhcCCeEEEEEecC----------CEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            3567888897522  22   3467789999999999999742          8999999999999999999999999999


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .|.+.|+
T Consensus        80 ~~~~~~i   86 (115)
T 3beg_B           80 EGETAYI   86 (115)
T ss_dssp             TSCCCBC
T ss_pred             EeeeEEE
Confidence            8544444

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.65  E-value=9.9e-09  Score=82.09  Aligned_cols=80  Identities=18%  Similarity=0.081  Sum_probs=62.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .+++.|++.|+-..  +.   ++||++.|++||.|.. .++.+...   ....|++||+|.+.++|.+|+. |||..|+|
T Consensus        15 ~~~~~l~V~nLp~~--~t---~~~l~~~F~~~G~v~~-~~~~~~~~---g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g   84 (101)
T 1fj7_A           15 TTPFNLFIGNLNPN--KS---VAELKVAISELFAKND-LAVVDVRT---GTNRKFGYVDFESAEDLEKALE-LTGLKVFG   84 (101)
T ss_dssp             SCSEEEEEECCCTT--SC---HHHHHHHHHHHHHHHT-CCCCEEEE---ETTTTEEEEEESSHHHHHHHHH-GGGCCBTT
T ss_pred             CCCCEEEEeCCCCC--CC---HHHHHHHHHHhCCcce-EEEecCCC---CCcCcEEEEEECCHHHHHHHHh-cCCcEECC
Confidence            36788999997422  22   4678899999999888 33332221   1357999999999999999999 99999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+...
T Consensus        85 ~~l~V~~a~~   94 (101)
T 1fj7_A           85 NEIKLEKPKG   94 (101)
T ss_dssp             BCCEEECCSC
T ss_pred             cEEEEEEcCC
Confidence            9999998754

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.64  E-value=6.4e-08  Score=91.58  Aligned_cols=81  Identities=15%  Similarity=0.242  Sum_probs=67.5

Q ss_pred             CCceEEEEecccCCC---CCh-hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC
Q 016857          273 PPTRVLLLRNMVGPG---EVD-DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~---El~-dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR  348 (381)
                      ..++.|.|.|+-..-   .+. +..+++|++.|++||.|++|.|..         .+|++||+|.+.++|..|+..|||.
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~---------~kG~AFV~F~~~~~Ae~A~~am~g~  202 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE---------SKNCGFVKFKYQANAEFAKEAMSNQ  202 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG---------GGTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC---------CCCEEEEEeCCHHHHHHHHHHhCCC
Confidence            467899999874221   121 346899999999999999999984         3589999999999999999999999


Q ss_pred             ee------------CCeEEEEEeccc
Q 016857          349 FF------------GGRVVRATFYDE  362 (381)
Q Consensus       349 ~F------------~GR~V~a~fy~e  362 (381)
                      .|            +|+.|.|.|...
T Consensus       203 ~l~~~~~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          203 TLLLPSDKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             CCCCTTSTTGGGGGGSCCCEEEECC-
T ss_pred             EEeccccccccccCCCCEEEEEEccC
Confidence            99            899999999865

>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=98.64  E-value=1.6e-07  Score=81.95  Aligned_cols=81  Identities=19%  Similarity=0.238  Sum_probs=67.4

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|+|.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+.. +|..|+|
T Consensus        11 ~~~~~l~V~nLp~--~~t---e~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~A~~A~~~-~~~~~~g   81 (196)
T 1l3k_A           11 EQLRKLFIGGLSF--ETT---DESLRSHFEQWGTLTDCVVMRDPNTK---RSRGFGFVTYATVEEVDAAMNA-RPHKVDG   81 (196)
T ss_dssp             GGGGEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHT-CSCEETT
T ss_pred             CCCCEEEEeCCCC--CCC---HHHHHHHHHhCCCEEEEEEEEcCCCC---CccceEEEEeCCHHHHHHHHhc-CCCEECC
Confidence            4688999999743  222   56788999999999999999864432   4579999999999999999987 9999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+...
T Consensus        82 ~~l~v~~~~~   91 (196)
T 1l3k_A           82 RVVEPKRAVS   91 (196)
T ss_dssp             EECEEEECCC
T ss_pred             EEeeeecccC
Confidence            9999998754

>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=98.62  E-value=2.1e-08  Score=75.71  Aligned_cols=62  Identities=15%  Similarity=0.173  Sum_probs=53.6

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+.. +|..++|+.|.+.+
T Consensus        13 ~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~v~~   74 (75)
T 1iqt_A           13 EEKIREYFGGFGEVESIELPMDNKTN---KRRGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKV   74 (75)
T ss_dssp             HHHHHHHHHHHSCCSEECCCCSCCCS---SSCCCEEEECSSSHHHHHHHTT-SSCCBTTBCCCEEE
T ss_pred             HHHHHHHHHhcCCeEEEEEEecCCCC---CcCCEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            56788999999999999998754432   4679999999999999999996 89999999998875

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.61  E-value=4.8e-08  Score=83.03  Aligned_cols=84  Identities=14%  Similarity=0.149  Sum_probs=67.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCe----eEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTV----TRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V----~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR  348 (381)
                      ....+|+|.|+--.-     -++||++.|++||.|    .+|.|+.+. .+   ...|++||+|.+.++|.+|+.. ||.
T Consensus        21 ~~~~~v~V~nLp~~~-----te~dl~~~F~~~g~v~g~v~~v~i~~d~-~g---r~~G~aFV~F~~~~~A~~Al~~-~~~   90 (123)
T 2dha_A           21 ENQVIVRMRGLPFTA-----TAEEVVAFFGQHCPITGGKEGILFVTYP-DG---RPTGDAFVLFACEEYAQNALRK-HKD   90 (123)
T ss_dssp             CSCCEEEECSCCTTC-----CHHHHHHHHHTTSCCTTGGGGEEEEECT-TS---CEEEEEEECCSSHHHHHHHHTT-TTE
T ss_pred             CCCCEEEEeCCCCCC-----CHHHHHHHHHhhCCccCCcceEEEEECC-CC---CEeeEEEEEECCHHHHHHHHHh-CCC
Confidence            457899999974221     357889999999985    689988753 22   4689999999999999999997 999


Q ss_pred             eeCCeEEEEEeccccccc
Q 016857          349 FFGGRVVRATFYDEERFS  366 (381)
Q Consensus       349 ~F~GR~V~a~fy~ee~F~  366 (381)
                      .++||.|.+.......+.
T Consensus        91 ~l~gR~i~V~~a~~~e~~  108 (123)
T 2dha_A           91 LLGKRYIELFRSTAAEVQ  108 (123)
T ss_dssp             ESSSCEECCEEECHHHHH
T ss_pred             eeCCeEEEEEECCHHHHH
Confidence            999999999888765544

>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=98.59  E-value=3e-07  Score=85.66  Aligned_cols=84  Identities=15%  Similarity=0.308  Sum_probs=69.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...+.|++.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        93 ~~~~~l~v~nlp~~--~---t~~~l~~~f~~~G~i~~~~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~l~~~~~~g  164 (284)
T 3smz_A           93 PTDALLCVANLPPS--L---TQQQFEELVRPFGSLERCFLVYSERTG---QSKGYGFAEYMKKDSAARAKSDLLGKPLGP  164 (284)
T ss_dssp             CCSCEEEEESCCTT--C---CHHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCc--C---CHHHHHHHHHhcCCeeEEEEEeeCCCC---ccceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            35678899997422  2   256888999999999999998765433   467999999999999999999999999999


Q ss_pred             eEEEEEeccccc
Q 016857          353 RVVRATFYDEER  364 (381)
Q Consensus       353 R~V~a~fy~ee~  364 (381)
                      +.|.+.+.....
T Consensus       165 ~~i~v~~a~~~~  176 (284)
T 3smz_A          165 RTLYVHWTDAGQ  176 (284)
T ss_dssp             EECEEEECCGGG
T ss_pred             cEEEEEECCCCC
Confidence            999999987543

>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=98.58  E-value=1.9e-07  Score=92.65  Aligned_cols=82  Identities=20%  Similarity=0.323  Sum_probs=64.6

Q ss_pred             ccCCCCCceEEEEecc-cCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          268 VNFNGPPTRVLLLRNM-VGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       268 ~~~~g~pSrVVvL~NM-v~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      +.....||+.|++.|+ +.- .+   -++||++.|++||.|.+|.|+.         ++|++||+|.+.++|.+|++.||
T Consensus        11 v~~~~~ps~~l~VgN~gl~~-~~---te~~L~~~F~~~G~V~~v~~~~---------~kgfaFV~f~~~~~A~~Ai~~ln   77 (345)
T 3tht_A           11 IETVSYATQSLVVANGGLGN-GV---SRNQLLPVLEKCGLVDALLMPP---------NKPYSFARYRTTEESKRAYVTLN   77 (345)
T ss_dssp             CCCCSSCCSEEEEETCSGGG-TC---CHHHHHHHHHTTSCEEEEECCT---------TCSEEEEEESSHHHHHHHHHHTT
T ss_pred             ceecCCCCCEEEEEcCCCCC-CC---CHHHHHHHHHhcCCeEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhC
Confidence            4445679999999995 211 12   2567889999999999998853         36999999999999999999999


Q ss_pred             CCee---CCe--EEEEEeccc
Q 016857          347 GRFF---GGR--VVRATFYDE  362 (381)
Q Consensus       347 GR~F---~GR--~V~a~fy~e  362 (381)
                      |..+   .|+  .+.+.|...
T Consensus        78 G~~~~~~~g~~~~ly~~~~~~   98 (345)
T 3tht_A           78 GKEVVDDLGQKITLYLNFVEK   98 (345)
T ss_dssp             TCEEECTTSCEEECEEEECSS
T ss_pred             CCccccccCCceEEEEEEeec
Confidence            9988   355  567777754

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.56  E-value=2.2e-07  Score=76.44  Aligned_cols=80  Identities=15%  Similarity=0.165  Sum_probs=61.6

Q ss_pred             CceEEEEecccCCCCC--hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          274 PTRVLLLRNMVGPGEV--DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El--~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .++.|.|..-+...+.  .+--++||++.|++||.|.+|.|+.        ...|++||+|.+.++|.+|+..++|  +.
T Consensus         9 ~~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~--------~~rGfaFVeF~~~~~A~~Ai~~~~~--~~   78 (100)
T 2d9o_A            9 GTPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS--------KKPGTAVVEFATVKAAELAVQNEVG--LV   78 (100)
T ss_dssp             SSCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES--------SSSSEEEEEESCHHHHHHHHHTCCB--CS
T ss_pred             ccceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc--------CCCCEEEEEECCHHHHHHHHHhcCC--CC
Confidence            3556667665543322  1124678999999999999999983        3469999999999999999999776  68


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      |+.|++.|....
T Consensus        79 g~~l~V~~a~~~   90 (100)
T 2d9o_A           79 DNPLKISWLEGQ   90 (100)
T ss_dssp             SSBCEEECSSCC
T ss_pred             CCeEEEEEccCC
Confidence            999999987543

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.56  E-value=7.8e-08  Score=84.79  Aligned_cols=76  Identities=26%  Similarity=0.328  Sum_probs=64.2

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      +++|++.|+-. .++.   ++||++.|++||.|.+|.|..+.        .|++||+|.+.++|.+|+..|||..|+|+.
T Consensus         3 ~~~l~v~nlp~-~~~~---~~~l~~~F~~~G~i~~v~i~~~~--------~g~afV~f~~~~~a~~A~~~l~~~~~~g~~   70 (198)
T 1qm9_A            3 NSVLLVSNLNP-ERVT---PQSLFILFGVYGDVQRVKILFNK--------KENALVQMADGNQAQLAMSHLNGHKLHGKP   70 (198)
T ss_dssp             CCEEEEECCCS-SSCC---HHHHHHHHHTTCCCSEEECSTTC--------SSCCEEECTTTHHHHHHHHHHTTCCCSSCC
T ss_pred             CcEEEEeCCCc-ccCC---HHHHHHHHHhcCCEEEEEEEeCC--------CCEEEEEECCHHHHHHHHHHhCCCeecCeE
Confidence            57899999743 1222   46788999999999999997532        588999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.+...
T Consensus        71 l~v~~a~~   78 (198)
T 1qm9_A           71 IRITLSKH   78 (198)
T ss_dssp             CEEEECCC
T ss_pred             EEEEEecC
Confidence            99999864

>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=98.55  E-value=3e-08  Score=86.05  Aligned_cols=82  Identities=15%  Similarity=0.076  Sum_probs=66.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..++|+|.|+-...     -++||++.|++|| |++|.|..+..    ....|++||+|++.++|.+|+ .|||..|+||
T Consensus        45 ~~~~lfV~nLp~~~-----te~dL~~~F~~~G-i~~v~i~~d~~----g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR  113 (139)
T 2hgn_A           45 TGHCVHMRGLPYKA-----TENDIYNFFSPLN-PVRVHIEIGPD----GRVTGEADVEFATHEEAVAAM-SKDRANMQHR  113 (139)
T ss_dssp             CCCCEECCSCCTTC-----CHHHHHHHHCSCC-CSEEECCCSSS----SCSSCCCEEECSHHHHHHHHT-TCCSCSSSSC
T ss_pred             CCCEEEEeCCCCCC-----CHHHHHHHHHhcC-CeEEEEEECCC----CCCceEEEEEeCCHHHHHHHH-hhCCCEECCE
Confidence            56789999975322     2578999999999 67999987643    256899999999999999999 8999999999


Q ss_pred             EEEEEeccccccc
Q 016857          354 VVRATFYDEERFS  366 (381)
Q Consensus       354 ~V~a~fy~ee~F~  366 (381)
                      .|.+.........
T Consensus       114 ~i~V~~a~~~~~~  126 (139)
T 2hgn_A          114 YIELFLNSTTGAS  126 (139)
T ss_dssp             CCCCEECCCSCC-
T ss_pred             EEEEEECCCCCCC
Confidence            9999887765443

>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=98.53  E-value=4e-07  Score=82.32  Aligned_cols=78  Identities=15%  Similarity=0.140  Sum_probs=64.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.|+-..  +   -+++|++.|++||.|.+|.|+++..    ....|++||+|++.++|.+|+..++. .|+||
T Consensus       108 ~~~~l~V~nLp~~--~---t~~~L~~~F~~~G~v~~v~i~~~~~----~~~kG~aFVeF~~~e~A~~A~~~~~~-~~~Gr  177 (193)
T 2voo_A          108 KNRSVYIKGFPTD--A---TLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVETPGQ-KYKET  177 (193)
T ss_dssp             HHTEEEEECCCTT--C---CHHHHHHHHTTSCCEEEEEEEECTT----CCEEEEEEEEESSHHHHHHHHHCTTC-EETTE
T ss_pred             ccCEEEecCCCCc--C---CHHHHHHHHhcCCCEEEEEEEECCC----CCcccEEEEEECCHHHHHHHHHhCCC-eECCE
Confidence            3678999997522  2   2578899999999999999998543    24689999999999999999988765 89999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.+..
T Consensus       178 ~l~V~~~~  185 (193)
T 2voo_A          178 DLLILFKD  185 (193)
T ss_dssp             ECEEEETT
T ss_pred             EEEEEEhH
Confidence            99998754

>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=98.49  E-value=1.8e-07  Score=80.08  Aligned_cols=81  Identities=19%  Similarity=0.140  Sum_probs=65.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCee--EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVT--RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~--~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .+++|+|.||--.-     -++||++.|++| .|+  +|.|..+.. +   ...|++||+|.+.++|.+|+.. ++..|+
T Consensus        41 ~~~~lfVgnLp~~~-----te~dL~~~F~~~-~i~~~~v~i~~d~~-G---rsrGfaFV~F~~~e~A~~Al~~-~~~~l~  109 (126)
T 2hgm_A           41 NDGFVRLRGLPFGC-----TKEEIVQFFSGL-EIVPNGITLPVDPE-G---KITGEAFVQFASQELAEKALGK-HKERIG  109 (126)
T ss_dssp             SCCEEEEECCCTTC-----CHHHHHHHTTTS-CEEEEEEECCCCSS-S---SSCSEEEEEESSTTHHHHHHTT-TTCCBT
T ss_pred             CCCEEEEeCCCCCC-----CHHHHHHHHhcC-CceeeEEEEEECCC-C---CCceEEEEEECCHHHHHHHHHH-CCCEEC
Confidence            56789999975322     256889999999 566  899887543 2   4689999999999999999985 779999


Q ss_pred             CeEEEEEecccccc
Q 016857          352 GRVVRATFYDEERF  365 (381)
Q Consensus       352 GR~V~a~fy~ee~F  365 (381)
                      ||.|.+.......+
T Consensus       110 gR~I~V~~a~~~e~  123 (126)
T 2hgm_A          110 HRYIEVFKSSQEEV  123 (126)
T ss_dssp             TBCCCCEEECHHHH
T ss_pred             CEEEEEEECCHHHh
Confidence            99999988776554

>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=98.48  E-value=3.6e-07  Score=77.69  Aligned_cols=78  Identities=18%  Similarity=0.244  Sum_probs=62.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      +++.|.+.|+-..  +   -++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..  +..++|+
T Consensus         2 ~~~~l~v~nLp~~--~---t~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~A~~~--~~~~~g~   71 (167)
T 2cjk_A            2 ESCKMFIGGLNWD--T---TEDNLREYFGKYGTVTDLKIMKDPATG---RSRGFGFLSFEKPSSVDEVVKT--QHILDGK   71 (167)
T ss_dssp             GGGEEEECSCCTT--C---CHHHHHHHHTTTCCEEEEECCCCTTTS---SCCSCEEEEESSTHHHHHHHHS--CCEETTE
T ss_pred             CCcEEEEeCCCCC--C---CHHHHHHHHHhCCCEEEEEEEECCCCC---CccceEEEEEccHHHHHHHHhc--ccccCCe
Confidence            5788999997432  2   256788999999999999998764332   4679999999999999999995  5688888


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.+..
T Consensus        72 ~i~v~~~~   79 (167)
T 2cjk_A           72 VIDPKRAI   79 (167)
T ss_dssp             ECCCEECC
T ss_pred             Eccccccc
Confidence            88887764

>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=98.46  E-value=9.2e-07  Score=82.64  Aligned_cols=88  Identities=11%  Similarity=0.137  Sum_probs=67.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|+|.|+-..-.     ++||++.|++||.|.+|.|..+...     ..|++||+|.+.++|.+|+. |||..|+
T Consensus        38 ~~~~~~l~V~nLp~~~t-----~~~l~~~F~~~G~i~~v~i~~~~~~-----~~g~afV~f~~~~~A~~A~~-~~~~~~~  106 (292)
T 2ghp_A           38 NRELTTVLVKNLPKSYN-----QNKVYKYFKHCGPIIHVDVADSLKK-----NFRFARIEFARYDGALAAIT-KTHKVVG  106 (292)
T ss_dssp             ----CEEEEEEECTTCC-----HHHHHHHHGGGSCEEEEEEEECTTS-----SSEEEEEEESSHHHHHHHHT-TTTCEET
T ss_pred             CCCCCEEEEeCCCCCCC-----HHHHHHHHHhcCCeEEEEEEECCCC-----CcEEEEEEECCHHHHHHHHH-hCCcEeC
Confidence            45789999999753222     5678899999999999999885432     36999999999999999995 9999999


Q ss_pred             CeEEEEEeccccccccccc
Q 016857          352 GRVVRATFYDEERFSKNEL  370 (381)
Q Consensus       352 GR~V~a~fy~ee~F~~~~l  370 (381)
                      |+.|.+.+.......-+.|
T Consensus       107 g~~i~v~~~~~~~l~v~nl  125 (292)
T 2ghp_A          107 QNEIIVSHLTECTLWMTNF  125 (292)
T ss_dssp             TEECEEEECCSCEEEEECC
T ss_pred             CcEEEEEECCCCEEEEECC
Confidence            9999998876543333333

>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=98.46  E-value=9.1e-07  Score=75.38  Aligned_cols=83  Identities=14%  Similarity=0.147  Sum_probs=64.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC--
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG--  351 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~--  351 (381)
                      .++.|++.|+-..  +.   ++||++.|++||.|.+|.|..+...+ .....|++||+|.+.++|.+|+..|||..+.  
T Consensus         2 ~~~~l~V~nLp~~--~t---e~~l~~~F~~~G~i~~v~i~~~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~   75 (175)
T 3nmr_A            2 DAIKMFVGQVPRT--WS---EKDLRELFEQYGAVYEINVLRDRSQN-PPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG   75 (175)
T ss_dssp             CCEEEEEESCCTT--CC---HHHHHHHHHTTSCEEEEEEEEECSSS-SCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTT
T ss_pred             CceEEEEeCCCCC--CC---HHHHHHHHHhCCCEEEEEEEecCCCC-CCCcceEEEEEECCHHHHHHHHHHhcCcEEccC
Confidence            3678999997432  22   46788999999999999999865432 0135799999999999999999999998775  


Q ss_pred             -CeEEEEEeccc
Q 016857          352 -GRVVRATFYDE  362 (381)
Q Consensus       352 -GR~V~a~fy~e  362 (381)
                       ++.+.+.+...
T Consensus        76 ~~~~~~~~~~~~   87 (175)
T 3nmr_A           76 MHHPIQMKPADS   87 (175)
T ss_dssp             CSSCCEEEECGG
T ss_pred             CccceEEccccc
Confidence             57777777654

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

Probab=98.44  E-value=7.9e-07  Score=73.10  Aligned_cols=77  Identities=13%  Similarity=0.143  Sum_probs=54.7

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|++.|+-..  +   -++||++.|++||.|. +.++.....+......|++||+|.+.++|.+|+..|++  ++|
T Consensus         6 ~~~~~lfVgnLp~~--~---te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~--~~G   77 (114)
T 2dnl_A            6 SGSRKVFVGGLPPD--I---DEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE--EDG   77 (114)
T ss_dssp             SCCCCEEEECCCTT--C---CHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE--ETT
T ss_pred             CCCCEEEEcCCCCC--C---CHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh--cCC
Confidence            46788999997422  2   2567889999999999 77765433211124689999999999999999999932  344


Q ss_pred             eEEEE
Q 016857          353 RVVRA  357 (381)
Q Consensus       353 R~V~a  357 (381)
                      +.+.+
T Consensus        78 ~~~~~   82 (114)
T 2dnl_A           78 KLYLC   82 (114)
T ss_dssp             EEEEE
T ss_pred             cEEEe
Confidence            44433

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.43  E-value=4.4e-07  Score=79.17  Aligned_cols=83  Identities=10%  Similarity=0.129  Sum_probs=63.2

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCC----HHH----HHHHHH--hh
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFER----SEQ----TTKALI--DL  345 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d----~es----A~kAv~--~L  345 (381)
                      .-|++.|+.+... ..--+++|++.|+.||.|.+|.+..+...+   ...|++||+|.+    .++    |.+|+.  .|
T Consensus         3 ~kI~VgnL~~~~~-~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg---~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~l   78 (136)
T 2j8a_A            3 CEIVVYPAQDSTT-TNIQDISIKNYFKKYGEISHFEAFNDPNSA---LPLHVYLIKYASSDGKINDAAKAAFSAVRKHES   78 (136)
T ss_dssp             CEEEEEESSSSCC-CCCCHHHHHHHHHTTSCCSEEEEEECTTTC---CEEEEEEEECC------CCHHHHHHHHHHHTTT
T ss_pred             cEEEEeCCCCCCC-CCCCHHHHHHHHHhcCCeEEEEEEecCCCC---ceeeEEEEEECCCCCCcchHHHHHHHHHHHhhh
Confidence            4577778733221 111256889999999999999999877654   578999999996    322    899999  89


Q ss_pred             CCCeeCCeEEEEEeccc
Q 016857          346 DGRFFGGRVVRATFYDE  362 (381)
Q Consensus       346 nGR~F~GR~V~a~fy~e  362 (381)
                      ||..|+||.|.|.+=+.
T Consensus        79 ng~~I~Gr~irV~ln~~   95 (136)
T 2j8a_A           79 SGCFIMGFKFEVILNKH   95 (136)
T ss_dssp             TCEEETTEEEEEEECCT
T ss_pred             cCCeecCcEEEEEECcc
Confidence            99999999999987544

>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=98.43  E-value=9.4e-07  Score=82.26  Aligned_cols=83  Identities=19%  Similarity=0.260  Sum_probs=66.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh-CCCee
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL-DGRFF  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-nGR~F  350 (381)
                      ..++++|+|.|+-.  ++.   ++||++.|++||.|.+|.|+.+. .+   ...|++||+|.+.++|.+|+..| +|.++
T Consensus        93 a~~~~~l~v~nl~~--~~t---~~~l~~~F~~~G~i~~v~i~~~~-~g---~~~g~afV~f~~~~~A~~A~~~l~~~~~~  163 (261)
T 3sde_A           93 ATHGAALTVKNLSP--VVS---NELLEQAFSQFGPVEKAVVVVDD-RG---RATGKGFVEFAAKPPARKALERCGDGAFL  163 (261)
T ss_dssp             CCCSSEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEEET-TS---CEEEEEEEEESSHHHHHHHHHHHHHSCEE
T ss_pred             cccCCcccccCCCC--CCC---HHHHHHHHHhcCCeEEEEeeeCC-CC---CcCcEEEEEeCCHHHHHHHHHHhcCCeEE
Confidence            34677899999742  222   46888999999999999999873 22   46899999999999999999999 55566


Q ss_pred             C---CeEEEEEecccc
Q 016857          351 G---GRVVRATFYDEE  363 (381)
Q Consensus       351 ~---GR~V~a~fy~ee  363 (381)
                      .   ||.|.+.+....
T Consensus       164 ~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          164 LTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             SSSSCCBCEEEECCCE
T ss_pred             ecCCCceEEEeecccc
Confidence            5   999999998753

>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=98.43  E-value=5.5e-07  Score=83.87  Aligned_cols=76  Identities=21%  Similarity=0.336  Sum_probs=64.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|++.|+-.  ++   -++||++.|++||.|.+|.|.+         ..|++||+|.+.++|.+|+..|||..++|
T Consensus        20 ~~~~~l~V~nLp~--~~---te~~l~~~F~~~G~i~~v~i~~---------~kg~afV~f~~~~~A~~A~~~l~g~~i~g   85 (261)
T 3sde_A           20 TQRCRLFVGNLPT--DI---TEEDFKRLFERYGEPSEVFINR---------DRGFGFIRLESRTLAEIAKAELDGTILKS   85 (261)
T ss_dssp             CGGGEEEEESCCT--TC---CHHHHHHHTGGGCCCSEEEEET---------TTTEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCC--CC---CHHHHHHHHHhcCCEEEEEEeC---------CCcEEEEEECCHHHHHHHHHHcCCcEECC
Confidence            3577899999742  22   2568889999999999999964         25899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+...
T Consensus        86 ~~l~v~~a~~   95 (261)
T 3sde_A           86 RPLRIRFATH   95 (261)
T ss_dssp             EECEEEECCC
T ss_pred             ceeEeeeccc
Confidence            9999998864

>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=98.42  E-value=6.3e-07  Score=81.52  Aligned_cols=72  Identities=19%  Similarity=0.236  Sum_probs=59.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCe--eEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTV--TRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V--~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~  349 (381)
                      ..|+++|.+.|+-.  ++.   ++||++.|++||.|  .+|.|+...  +   ...|..||+|.+.++|.+|+..|||..
T Consensus       120 ~~p~~~l~v~NLp~--~~t---~~~L~~~F~~~G~v~~~~v~~~~~~--~---~~~g~gfV~f~~~~~A~~Ai~~lng~~  189 (205)
T 3tyt_A          120 QHPSNVLHFFNAPL--EVT---EENFFEICDELGVKRPTSVKVFSGK--S---ERSSSGLLEWDSKSDALETLGFLNHYQ  189 (205)
T ss_dssp             CCCCSEEEEEEECT--TCC---HHHHHHHHHHHTCCCCSEEEECSCC--S---SSSEEEEEECSSHHHHHHHHHHHTTCE
T ss_pred             CCCcceEEEeCCCC--CCC---HHHHHHHHHhcCCcceEEEEEEcCC--C---CCceEEEEEeCCHHHHHHHHHHhCCCC
Confidence            35789999999743  232   56788999999999  899987643  1   235999999999999999999999999


Q ss_pred             eCCe
Q 016857          350 FGGR  353 (381)
Q Consensus       350 F~GR  353 (381)
                      ++|+
T Consensus       190 ~~g~  193 (205)
T 3tyt_A          190 MKNP  193 (205)
T ss_dssp             ECCS
T ss_pred             ccCC
Confidence            9997

>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=98.41  E-value=1.3e-06  Score=69.21  Aligned_cols=73  Identities=18%  Similarity=0.174  Sum_probs=56.2

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee--
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF--  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F--  350 (381)
                      .++..|++.|+-..-     -++||++.|++||.|.+|.|+..        .+|++||+|.+.++|.    .|+|..+  
T Consensus         9 ~~~~~l~V~~Lp~~~-----te~~L~~~F~~~G~i~~v~i~~~--------srGfaFV~F~~~~~A~----~~~~~~~~~   71 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDM-----TAEELQQFFCQYGEVVDVFIPKP--------FRAFAFVTFADDKVAQ----SLCGEDLII   71 (89)
T ss_dssp             --CCEEEEESCCTTC-----CHHHHHHHHTTTSCEEEEECCSS--------CCSEEEEEESCHHHHH----HHTTCEEEE
T ss_pred             CCCCEEEEeCCCCCC-----CHHHHHHHHhccCCEEEEEEeeC--------CCCEEEEEECCHHHHH----HHcCCCccc
Confidence            467788888865322     25688899999999999999852        4699999999999998    3677765  


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      +|+.|.+.+...
T Consensus        72 ~g~~v~v~~a~~   83 (89)
T 3d2w_A           72 KGISVHISNAEP   83 (89)
T ss_dssp             TTEEEEEEECC-
T ss_pred             CCEEEEEEEcCC
Confidence            499999988753

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.39  E-value=1.8e-06  Score=75.34  Aligned_cols=75  Identities=23%  Similarity=0.278  Sum_probs=59.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhcc----C-------CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHH
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKY----G-------TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKA  341 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKY----G-------~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kA  341 (381)
                      ..++.|++.|+-..-     -++||++.|++|    |       .|.++.+..         ..|++||+|.+.++|.+|
T Consensus         2 ~~~~~l~V~nLp~~~-----te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~---------~~g~afV~F~~~~~A~~A   67 (198)
T 2yh0_A            2 AMARRLYVGNIPFGI-----TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ---------DKNFAFLEFRSVDETTQA   67 (198)
T ss_dssp             --CCEEEEESCCTTC-----CHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET---------TTTEEEEEESCSHHHHHH
T ss_pred             CceeEEEEcCCCCCC-----CHHHHHHHHHHHHhhcccccCCCCceEEeEecC---------CCCEEEEEeCCHHHHHHH
Confidence            368899999975322     145778888888    5       677777753         358999999999999999


Q ss_pred             HHhhCCCeeCCeEEEEEeccc
Q 016857          342 LIDLDGRFFGGRVVRATFYDE  362 (381)
Q Consensus       342 v~~LnGR~F~GR~V~a~fy~e  362 (381)
                      + .|||..|+|+.|.+.+...
T Consensus        68 l-~l~g~~~~g~~i~v~~~~~   87 (198)
T 2yh0_A           68 M-AFDGIIFQGQSLKIRRPHD   87 (198)
T ss_dssp             G-GGTTEEETTEEEEEECCCC
T ss_pred             H-HhcCCEEcCceEEEeCCCC
Confidence            9 8999999999999998754

>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=98.28  E-value=2.3e-06  Score=72.94  Aligned_cols=73  Identities=23%  Similarity=0.325  Sum_probs=59.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhcc----C-------CeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHH
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKY----G-------TVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKAL  342 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKY----G-------~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv  342 (381)
                      +++.|++.|+-..  +.   ++||++.|++|    |       .|.++.+..         ..|++||+|.+.++|.+|+
T Consensus         3 ~~~~l~V~nLp~~--~t---~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~---------~~g~afV~f~~~~~A~~A~   68 (172)
T 2g4b_A            3 SARRLYVGNIPFG--IT---EEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ---------DKNFAFLEFRSVDETTQAM   68 (172)
T ss_dssp             GGGEEEEESCCTT--CC---HHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET---------TTTEEEEEESSHHHHHHHG
T ss_pred             cccEEEEcCCCcc--cC---HHHHHHHHHHHhhhcccccCCCCceeeeEecC---------CCCEEEEEeCCHHHHHHHH
Confidence            5788999997432  22   45777888888    7       788888763         2589999999999999999


Q ss_pred             HhhCCCeeCCeEEEEEecc
Q 016857          343 IDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       343 ~~LnGR~F~GR~V~a~fy~  361 (381)
                       .|||..++|+.|.+.+..
T Consensus        69 -~~~~~~~~g~~i~v~~~~   86 (172)
T 2g4b_A           69 -AFDGIIFQGQSLKIRRPH   86 (172)
T ss_dssp             -GGTTCEETTEECEEECCS
T ss_pred             -HhCCcEecCceeeecCCc
Confidence             999999999999998764

>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=98.27  E-value=1.1e-06  Score=68.42  Aligned_cols=73  Identities=22%  Similarity=0.281  Sum_probs=57.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe--e
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF--F  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~--F  350 (381)
                      .+++.|++.|+-  .++.   ++||++.|++||.|.+|.|..+        ..|++||+|.+.++|.+    ++|..  +
T Consensus         3 ~~~~~l~V~nLp--~~~t---e~~l~~~F~~~G~i~~v~i~~~--------~~g~afV~f~~~~~a~~----~~~~~~~~   65 (88)
T 1wf0_A            3 SGSSGVFVGRCT--GDMT---EDELREFFSQYGDVMDVFIPKP--------FRAFAFVTFADDQIAQS----LCGEDLII   65 (88)
T ss_dssp             SCCCEEEEESCC--SSSC---HHHHHHHSTTTSCCCEEECCSS--------CCSCCEEECSCHHHHHH----TTTCEEEE
T ss_pred             CCCcEEEEeCCC--CCCC---HHHHHHHHHHcCCeeEEEEecC--------CCCEEEEEECCHHHHHH----HhcCCcee
Confidence            467899999974  2232   4678899999999999999753        46899999999999975    45554  4


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      +|+.|.+.+...
T Consensus        66 ~g~~l~v~~a~~   77 (88)
T 1wf0_A           66 KGISVHISNAEP   77 (88)
T ss_dssp             TTEEEEEECCCC
T ss_pred             CCEEEEEEecCC
Confidence            899999998764

>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=98.18  E-value=8.9e-07  Score=76.12  Aligned_cols=81  Identities=16%  Similarity=0.151  Sum_probs=58.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...++.|++.|+-..  +.   ++||++.|++||.|..+.|.... .   ....|++||+|.+.++|.+|+ .|||..|+
T Consensus        10 ~~~~~~l~V~nLp~~--~t---~~~l~~~f~~~g~~~~~~~~~~~-~---~~~~g~afV~f~~~~~a~~A~-~l~g~~~~   79 (175)
T 1fje_B           10 STTPFNLFIGNLNPN--KS---VAELKVAISELFAKNDLAVVDVR-T---GTNRKFGYVDFESAEDLEKAL-ELTGLKVF   79 (175)
T ss_dssp             CSSSEEEEEECCCTT--SC---HHHHHHHHHHHHHHHTCCCCEEE-E---ETTTTEEEEEESSHHHHHHHH-HGGGEEET
T ss_pred             CCCCcEEEEeCCCCC--CC---HHHHHHHHHHhCCcceEEEEECC-C---CccccEEEEEECCHHHHHHHH-hcCCCEeC
Confidence            347889999997432  22   34566666666665552222211 1   135799999999999999999 59999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.+...
T Consensus        80 g~~l~v~~~~~   90 (175)
T 1fje_B           80 GNEIKLEKPKG   90 (175)
T ss_dssp             TEEEEEECCCC
T ss_pred             CeEEEEecCCC
Confidence            99999999864

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

Probab=97.76  E-value=6.7e-05  Score=64.10  Aligned_cols=77  Identities=6%  Similarity=0.033  Sum_probs=62.5

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCC-HHHHHHHHHhh--CCCe
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFER-SEQTTKALIDL--DGRF  349 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d-~esA~kAv~~L--nGR~  349 (381)
                      .+..||.+.|+-... +   -++||++.|++||.|..|.|.+..         -..||+|.+ ..+|.+|+..|  +|..
T Consensus        16 ~~G~il~v~~l~~~~-~---sredLke~F~~~G~V~~Vd~~~g~---------~tgfVrf~~~~~~A~~av~~ln~~~~~   82 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQ-T---CREDLHILFSNHGEIKWIDFVRGA---------KEGIILFKEKAKEALGKAKDANNGNLQ   82 (121)
T ss_dssp             CCCCEEEEEESCCSS-C---CHHHHHHHTCSSCCEEEEECCTTC---------SEEEEEESSCHHHHHHHHHHTTTSCBC
T ss_pred             cCCeEEEEecCCCCc-C---CHHHHHHHHHhcCCEEEEEEecCC---------CEEEEEECCChHHHHHHHHHhhcCCcE
Confidence            466788888865431 1   277899999999999999986532         259999999 89999999999  4888


Q ss_pred             eCCeEEEEEeccc
Q 016857          350 FGGRVVRATFYDE  362 (381)
Q Consensus       350 F~GR~V~a~fy~e  362 (381)
                      ++|..++++....
T Consensus        83 i~g~~~~~evL~G   95 (121)
T 1owx_A           83 LRNKEVTWEVLEG   95 (121)
T ss_dssp             TTSSSEEEEECCH
T ss_pred             EeCcEEEEEECCC
Confidence            9999999998874

>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=97.65  E-value=0.00025  Score=59.23  Aligned_cols=89  Identities=19%  Similarity=0.226  Sum_probs=71.6

Q ss_pred             eEEEEecccCCCCC--hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          276 RVLLLRNMVGPGEV--DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       276 rVVvL~NMv~~~El--~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..|++.|+  +.++  .+++++.+++.+..|+.+......+         +-.||-|-|.+.++|.+|...|||..|+|+
T Consensus         6 ntLiitnl--~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lk---------SFRRirv~F~~~~~A~~AR~~Lh~~~f~g~   74 (104)
T 1wey_A            6 SGLIACVA--NDDVFSESETRAKFESLFRTYDKDTTFQYFK---------SFKRVRINFSNPLSAADARLRLHKTEFLGK   74 (104)
T ss_dssp             CEEEEECC--CGGGGSTTTHHHHHHHHHHTTCSSCEEEEET---------TTTEEEEECSSTTHHHHHHHTSTTSEETTE
T ss_pred             ceEEEecC--CHHHcCCHHHHHHHHHHHHhhCcCcceeecC---------cceEEEEEeCChHHHHHHHHHhccceecCc
Confidence            35778886  3343  3678899999999999999987764         346899999999999999999999999999


Q ss_pred             EEEEEecccccccccccCCCCC
Q 016857          354 VVRATFYDEERFSKNELAPLPG  375 (381)
Q Consensus       354 ~V~a~fy~ee~F~~~~l~p~~~  375 (381)
                      .+++.|.....-...-|.|...
T Consensus        75 ~~r~YFgq~~~~~~~~L~pP~p   96 (104)
T 1wey_A           75 EMKLYFAQTLHIGSSHLAPPNP   96 (104)
T ss_dssp             ECEEECCCCSSCCSCCSCCCCC
T ss_pred             eeEEEecCCCCCcccccCCCCc
Confidence            9999998765545555665543

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=96.89  E-value=0.0022  Score=54.32  Aligned_cols=75  Identities=17%  Similarity=0.251  Sum_probs=58.8

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhcc-----CCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKY-----GTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKY-----G~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR  348 (381)
                      -.|+|.|.|+-|.  +.+.   -|+.....|     |.+++|++..+.         +=++|+|.|...|-+|...|||-
T Consensus        20 ~~rtiaL~~ipDt--vnda---rIr~lve~~~~i~~g~i~KI~L~pDH---------~GAivef~d~~~AgKasLaL~G~   85 (117)
T 2l9w_A           20 LETLICLFPLSDK--VSPS---LICQFLQEEIHINEKDIRKILLVSDF---------NGAIIIFRDSKFAAKMLMILNGS   85 (117)
T ss_dssp             TTSCEEEECCCTT--CCHH---HHHHHHHHHTCCCTTTCSEEEEETTT---------TEEEEECSCHHHHHHHHHHHSSE
T ss_pred             CCcEEEEecCCCC--CCHH---HHHHHHhhhhccCccceeEEEEecCC---------CceEEEEccchhhHHHHhhcCCe
Confidence            3678899887643  2222   345555667     999999987543         33999999999999999999999


Q ss_pred             eeCCeEEEEEeccc
Q 016857          349 FFGGRVVRATFYDE  362 (381)
Q Consensus       349 ~F~GR~V~a~fy~e  362 (381)
                      .|+||+|+|.-+.+
T Consensus        86 ef~gr~Lr~gTv~e   99 (117)
T 2l9w_A           86 QFQGKVIRSGTIND   99 (117)
T ss_dssp             EETTEEEEEECHHH
T ss_pred             eecCeEEEecCHHH
Confidence            99999999987765

>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=95.34  E-value=0.047  Score=46.48  Aligned_cols=60  Identities=20%  Similarity=0.336  Sum_probs=48.2

Q ss_pred             hHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC-eEEEEEecc
Q 016857          292 ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG-RVVRATFYD  361 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G-R~V~a~fy~  361 (381)
                      +....|..+|++||.|.+....         ...--+.|+|.+..+|.+|+.. ||+.|+| -.|-|.-+.
T Consensus        35 ~~~~~VL~~F~~~G~Iv~~~~~---------~~~NWihI~Y~s~~~A~rAL~k-NG~ii~g~~mIGV~p~~   95 (119)
T 1wwh_A           35 ASASYILLQFAQYGNILKHVMS---------NTGNWMHIRYQSKLQARKALSK-DGRIFGESIMIGVKPCI   95 (119)
T ss_dssp             GGHHHHHHHHHTTSCEEEEEEC---------SSSSEEEEEESSHHHHHHHHTT-TTCEETTTEECEEEECC
T ss_pred             HHHHHHHHHHHhhCcEEEeccC---------CCCCeEEEEeCCHHHHHHHHHh-CCeEecCCEEEEEEECC
Confidence            3456788999999999998862         1235799999999999999988 9999986 556666653

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=93.49  E-value=0.062  Score=46.54  Aligned_cols=71  Identities=14%  Similarity=0.364  Sum_probs=51.2

Q ss_pred             hHHHHHHHHHhccCCeeE-EEEeeeC---------CCCCCC-CCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEec
Q 016857          292 ELEDEVGSECAKYGTVTR-VLIFEIT---------EPNFPV-DEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFY  360 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~-V~I~~~~---------~~~~~~-~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy  360 (381)
                      +...-|-++|++||.|.. +.+.+..         ....|. .+..-|.|+|.+..+|.+|+.. ||+.|+|..|-|.-|
T Consensus        18 ~~~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~-NG~ii~G~mIGV~Py   96 (132)
T 3p3d_A           18 TMANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE-NGAVFNGVLLGVIPY   96 (132)
T ss_dssp             GGHHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT-TTCEETTEECEEEEC
T ss_pred             HHHHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh-CCeEeCcEEEEEEEC
Confidence            455677899999999866 2221100         001111 2456899999999999999986 999999999999999


Q ss_pred             ccc
Q 016857          361 DEE  363 (381)
Q Consensus       361 ~ee  363 (381)
                      +..
T Consensus        97 ~~~   99 (132)
T 3p3d_A           97 TKD   99 (132)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            764

>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=86.35  E-value=0.25  Score=41.50  Aligned_cols=39  Identities=5%  Similarity=-0.118  Sum_probs=35.5

Q ss_pred             CCceEEEEEeCCHHHHHHHHHhh-CCCeeCCeEEEEEeccc
Q 016857          323 DEAVRIFVQFERSEQTTKALIDL-DGRFFGGRVVRATFYDE  362 (381)
Q Consensus       323 ~~~GrVFVeF~d~esA~kAv~~L-nGR~F~GR~V~a~fy~e  362 (381)
                      ...|+.+|+|.+.++|.+|+..| ||..++| .|.+.+...
T Consensus        11 ~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~   50 (150)
T 2i2y_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATK   50 (150)
T ss_dssp             SSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTT
T ss_pred             cccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccC
Confidence            45799999999999999999999 9999999 999987764

>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=82.77  E-value=1.3  Score=37.21  Aligned_cols=35  Identities=3%  Similarity=-0.089  Sum_probs=27.5

Q ss_pred             EEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC
Q 016857          309 RVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR  348 (381)
Q Consensus       309 ~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR  348 (381)
                      ++.|..+..     ...|+.||+|.+.++|.+|+..+++.
T Consensus         2 ~~kl~ln~~-----~~~G~~fV~f~~~~~A~~al~~~~~~   36 (158)
T 2kn4_A            2 QYKLILNGK-----TLKGETTTEAVDAATAEKVFKQYAND   36 (158)
T ss_dssp             EEEEEEECS-----SCEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             cEEEEecCc-----cccchhHHHHHHHHhHHHHHHhhccc
Confidence            455555543     46899999999999999999888753

---

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	381
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	3e-23
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	4e-15
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 7e-07
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-05
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	1e-04
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	1e-04
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	3e-04
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	0.001
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	0.002
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	0.002
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	0.003
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.003
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	0.003
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	0.004

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.2 bits (226), Expect = 3e-23
 Identities = 36/103 (34%), Positives = 50/103 (48%), Gaps = 6/103 (5%)

Query: 272 GPPTRVLLLRNMVGPGEVDD-----ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAV 326
           G PT VL L NMV P E+ D     E+ ++V  EC+KYG V  + I         V    
Sbjct: 1   GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPR-PVDGVEVPGCG 59

Query: 327 RIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNE 369
           +IFV+F       KA+  L GR F  RVV   + D + + + +
Sbjct: 60  KIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRRD 102

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

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]

 Score = 68.4 bits (167), Expect = 4e-15
 Identities = 26/94 (27%), Positives = 48/94 (51%), Gaps = 13/94 (13%)

Query: 274 PTRVLLLRNMVGPGEVDD------ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVR 327
             RV++++NM  P + +D      E+ +++  EC+K+G + ++L+F+             
Sbjct: 7   HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGV------- 59

Query: 328 IFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD 361
             V F   E+    +  LDGR+FGGR + A  +D
Sbjct: 60  ASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWD 93

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (106), Expect = 7e-07
 Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 4/71 (5%)

Query: 290 DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF 349
           D+  E+       KYG V  + + +    N        ++V+F R E   KA+IDL+ R+
Sbjct: 37  DEFFEEVFTEMEEKYGEVEEMNVCD----NLGDHLVGNVYVKFRREEDAEKAVIDLNNRW 92

Query: 350 FGGRVVRATFY 360
           F G+ + A   
Sbjct: 93  FNGQPIHAELS 103

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 9/66 (13%), Positives = 24/66 (36%), Gaps = 3/66 (4%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E  +  + +  G +  + +         +      +V F++     +AL  ++     G+
Sbjct: 14  EAMLYEKFSPAGPILSIRVCRDMITRRSLG---YAYVNFQQPADAERALDTMNFDVIKGK 70

Query: 354 VVRATF 359
            VR  +
Sbjct: 71  PVRIMW 76

>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 = 38.0 bits (88), Expect = 1e-04
 Identities = 12/66 (18%), Positives = 23/66 (34%), Gaps = 4/66 (6%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           + ++    A++GT+ +  +                 V FER     KA+   +G    GR
Sbjct: 14  DADIQELFAEFGTLKKAAVHYDRSGRSLG----TADVHFERKADALKAMKQYNGVPLDGR 69

Query: 354 VVRATF 359
            +    
Sbjct: 70  PMNIQL 75

>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 = 38.8 bits (90), Expect = 1e-04
 Identities = 18/97 (18%), Positives = 35/97 (36%), Gaps = 11/97 (11%)

Query: 273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQF 332
              R+L +RN+  P ++     +E+     KYG + ++ +    E           +V +
Sbjct: 5   EVNRILYIRNL--PYKIT---AEEMYDIFGKYGPIRQIRVGNTPETRG------TAYVVY 53

Query: 333 ERSEQTTKALIDLDGRFFGGRVVRATFYDEERFSKNE 369
           E       A   L G     R +   +Y+  R  +  
Sbjct: 54  EDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKM 90

>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 = 37.0 bits (85), Expect = 3e-04
 Identities = 18/86 (20%), Positives = 29/86 (33%), Gaps = 8/86 (9%)

Query: 271 NGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFV 330
           N  P   L +  +          E ++    +KYG +  V I    +           FV
Sbjct: 5   NPDPNCCLGVFGL--SLYTT---ERDLREVFSKYGPIADVSIVYDQQSRRSRG---FAFV 56

Query: 331 QFERSEQTTKALIDLDGRFFGGRVVR 356
            FE  +   +A    +G    GR +R
Sbjct: 57  YFENVDDAKEAKERANGMELDGRRIR 82

>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 = 35.8 bits (82), Expect = 0.001
 Identities = 14/63 (22%), Positives = 25/63 (39%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           E+ +    +K G +    I +       +      FV++++ EQ  KAL  L G    G 
Sbjct: 12  EETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGH 71

Query: 354 VVR 356
            + 
Sbjct: 72  KLE 74

>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 = 35.4 bits (81), Expect = 0.002
 Identities = 20/92 (21%), Positives = 35/92 (38%), Gaps = 8/92 (8%)

Query: 273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQF 332
              RVL +  +    EVD   +  + +    +G +T + I    E           FV+F
Sbjct: 3   TTKRVLYVGGL--AEEVD---DKVLHAAFIPFGDITDIQIPLDYETEKHRG---FAFVEF 54

Query: 333 ERSEQTTKALIDLDGRFFGGRVVRATFYDEER 364
           E +E    A+ +++     GR +R       R
Sbjct: 55  ELAEDAAAAIDNMNESELFGRTIRVNLAKPMR 86

>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 = 34.5 bits (79), Expect = 0.002
 Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           +D++ +   KYG++ +  I        P   A   FV++ + E+  +A+  L+     G 
Sbjct: 20  DDQLDTIFGKYGSIVQKNILRDKLTGRPRGVA---FVRYNKREEAQEAISALNNVIPEGG 76

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {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: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.8 bits (79), Expect = 0.003
 Identities = 18/86 (20%), Positives = 36/86 (41%), Gaps = 5/86 (5%)

Query: 276 RVLLLRNMVG----PGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQ 331
           RV+  +N+V        + D    +      K+G + +V+I   T        +   +V 
Sbjct: 4   RVVQ-KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVT 62

Query: 332 FERSEQTTKALIDLDGRFFGGRVVRA 357
           + RSE   +A+  ++     GR ++A
Sbjct: 63  YIRSEDALRAIQCVNNVVVDGRTLKA 88

>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 = 34.2 bits (78), Expect = 0.003
 Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 3/63 (4%)

Query: 294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR 353
           +D+V      +G +    + + +        A   F ++     T +A+  L+G   G +
Sbjct: 15  DDQVKELLTSFGPLKAFNLVKDSATGLSKGYA---FCEYVDINVTDQAIAGLNGMQLGDK 71

Query: 354 VVR 356
            + 
Sbjct: 72  KLL 74

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.3 bits (78), Expect = 0.003
 Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 8/84 (9%)

Query: 273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQF 332
           P   ++ ++NM  P  V     DE+      Y  +   +  +  E   P  EA    V F
Sbjct: 7   PGPTIIKVQNM--PFTVS---IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEA---MVAF 58

Query: 333 ERSEQTTKALIDLDGRFFGGRVVR 356
           E  ++ T A+IDL+ R  G R V+
Sbjct: 59  ESRDEATAAVIDLNDRPIGSRKVK 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 = 33.9 bits (77), Expect = 0.004
 Identities = 14/87 (16%), Positives = 36/87 (41%), Gaps = 9/87 (10%)

Query: 274 PTRVLLLRNMVGPGEVDDE-LEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQF 332
           P   + + N+    ++  + L+  + +  +++G +  +L+    +         + FV F
Sbjct: 2   PNHTIYINNL--NEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRG------QAFVIF 53

Query: 333 ERSEQTTKALIDLDGRFFGGRVVRATF 359
           +     T AL  + G  F  + +R  +
Sbjct: 54  KEVSSATNALRSMQGFPFYDKPMRIQY 80

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	381
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.91
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.81
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	99.59
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.25
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.25
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.23
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.23
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.23
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.22
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.22
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.19
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.19
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.17
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.17
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.17
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.16
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.15
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.14
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.14
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.14
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.14
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.14
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.13
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.12
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.12
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.11
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.11
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.09
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.09
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.08
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.07
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.06
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.06
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.06
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.04
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.04
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.03
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.03
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.03
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.03
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.02
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.01
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.01
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.0
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.0
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.98
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.98
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.97
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.97
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.96
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.95
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	98.94
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.93
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	98.92
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	98.92
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.91
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.9
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.9
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.88
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.87
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.86
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.86
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.86
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	98.86
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.85
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	98.84
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.82
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.81
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.81
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.8
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.79
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.79
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.78
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	98.76
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.74
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	98.73
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.72
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.69
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.68
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.68
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.67
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.58
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.51
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.5
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.34
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.05
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.8
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.62
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.98

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=5.5e-25  Score=180.50  Aligned_cols=98  Identities=36%  Similarity=0.580  Sum_probs=88.0

Q ss_pred             CCCceEEEEecccCCCCCh-----hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          272 GPPTRVLLLRNMVGPGEVD-----DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~-----dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      |+||+||+|+|||++++|.     +++.+||++||+|||.|++|.|+++... ......|+|||+|.+.++|.+|++.||
T Consensus         1 g~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~-~~~~~~g~vfV~f~~~e~A~~A~~~l~   79 (104)
T d1o0pa_           1 GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDG-VEVPGCGKIFVEFTSVFDCQKAMQGLT   79 (104)
T ss_dssp             CCCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTS-SSCTTCCEEEEEESCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCC-CccCCceEEEEEECCHHHHHHHHHHHC
Confidence            6799999999999999875     3688999999999999999999875432 234567999999999999999999999


Q ss_pred             CCeeCCeEEEEEeccccccccccc
Q 016857          347 GRFFGGRVVRATFYDEERFSKNEL  370 (381)
Q Consensus       347 GR~F~GR~V~a~fy~ee~F~~~~l  370 (381)
                      ||+|+||.|.|.||++++|.+++|
T Consensus        80 Gr~f~gR~v~v~f~~~~~y~~~~f  103 (104)
T d1o0pa_          80 GRKFANRVVVTKYCDPDSYHRRDF  103 (104)
T ss_dssp             SCCSSSSCCEEEEECHHHHHHTSC
T ss_pred             CCEECCeEEEEEEcCHHHhhhccC
Confidence            999999999999999999998875

>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=99.81  E-value=2.7e-20  Score=151.29  Aligned_cols=87  Identities=29%  Similarity=0.632  Sum_probs=77.4

Q ss_pred             CCCceEEEEecccCCCCCh------hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          272 GPPTRVLLLRNMVGPGEVD------DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~------dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      ...++||+|+|||++.|++      .+|++||+++|++||.|.+|.|+.+.       ..|++||+|++.++|.+|+..|
T Consensus         5 ~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~-------~~G~~fV~f~~~e~A~~A~~~l   77 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRH-------PDGVASVSFRDPEEADYCIQTL   77 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC-------TTCEEEEECSCHHHHHHHHHHS
T ss_pred             CCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCC-------CccEEEEEECCHHHHHHHHHHh
Confidence            3579999999999998764      47899999999999999999997642       3599999999999999999999


Q ss_pred             CCCeeCCeEEEEEeccc-ccc
Q 016857          346 DGRFFGGRVVRATFYDE-ERF  365 (381)
Q Consensus       346 nGR~F~GR~V~a~fy~e-e~F  365 (381)
                      |||+|+||.|.|.||+. .+|
T Consensus        78 ng~~~~gr~i~v~~~~g~~~~   98 (99)
T d2dita1          78 DGRWFGGRQITAQAWDGTTDY   98 (99)
T ss_dssp             TTCEETTEECEEEECCSCCCS
T ss_pred             CCcEECCEEEEEEEeCCcCCC
Confidence            99999999999999964 555

>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=99.59  E-value=2.2e-15  Score=123.08  Aligned_cols=83  Identities=28%  Similarity=0.436  Sum_probs=66.3

Q ss_pred             ceEEEEecccCCCC-C-------------------hhhHHHHH-HHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeC
Q 016857          275 TRVLLLRNMVGPGE-V-------------------DDELEDEV-GSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFE  333 (381)
Q Consensus       275 SrVVvL~NMv~~~E-l-------------------~dELeeDI-~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~  333 (381)
                      |++|+|.||+...+ .                   .+++.+|+ ++.|+|||.|++|.|+++..    ....|++||+|.
T Consensus         1 s~~~~~~n~y~nP~~~~~~~~~~~~~~~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~----~~~~G~~fV~f~   76 (104)
T d1jmta_           1 SQTIALLNIYRNPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG----DHLVGNVYVKFR   76 (104)
T ss_dssp             CCEEEEEEEEECCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS----SSSEEEEEEEES
T ss_pred             CCEEEEEcccCCccccccccCCcccccchHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCC----CCEeeEEEEEEe
Confidence            68999999975321 1                   02344444 44458999999999986532    357899999999


Q ss_pred             CHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          334 RSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       334 d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      +.++|.+|+..||||+|+||.|.|.|++
T Consensus        77 ~~~~A~~Ai~~lng~~~~gr~i~v~~sP  104 (104)
T d1jmta_          77 REEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             CHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             chhHHHHHHHHHCCCEECCEEEEEEECC
Confidence            9999999999999999999999999975

>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=99.25  E-value=1.9e-11  Score=99.35  Aligned_cols=81  Identities=19%  Similarity=0.300  Sum_probs=68.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...+++|++.|+=  .++.   +++|++.|++||.|.+|.|....      ...|++||+|.+.++|.+|+..|||..|+
T Consensus         4 p~~~r~l~V~nLp--~~~t---e~~l~~~F~~~G~v~~i~~~~~~------~~kG~afV~f~~~~~A~~Ai~~l~g~~~~   72 (114)
T d2f9da1           4 PEVNRILYIRNLP--YKIT---AEEMYDIFGKYGPIRQIRVGNTP------ETRGTAYVVYEDIFDAKNACDHLSGFNVC   72 (114)
T ss_dssp             TTCCSEEEEESCC--TTCC---HHHHHHHHHTTSCEEEEEEECST------TTTTEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             cCCCCEEEEECCC--CCCC---HHHHHHHHhhcCCeEeecccccC------CcCCeEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3468899999983  3332   56788999999999999997532      34699999999999999999999999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|.+.|+...
T Consensus        73 gr~l~V~~a~~~   84 (114)
T d2f9da1          73 NRYLVVLYYNAN   84 (114)
T ss_dssp             TEECEEEECCHH
T ss_pred             CEEEEEEEcCCC
Confidence            999999998653

>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=99.25  E-value=6.4e-12  Score=98.90  Aligned_cols=81  Identities=20%  Similarity=0.390  Sum_probs=70.1

Q ss_pred             CceEEEEecccCCCCC-hhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEV-DDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El-~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      |+++|++.|+  +.++ ++||++.+.+.|++||.|.+|.|.+..      ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         2 P~~tl~V~nL--p~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~------~~~g~afV~F~~~~~A~~A~~~~~~~~~~g   73 (91)
T d1nu4a_           2 PNHTIYINNL--NEKIKKDELKKSLHAIFSRFGQILDILVSRSL------KMRGQAFVIFKEVSSATNALRSMQGFPFYD   73 (91)
T ss_dssp             CCSEEEEESC--CTTSCHHHHHHHHHHHHGGGSCEEEEECCHHH------HHTTCEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEeCC--CCCCCHHHHHHHHHHHhcccccccceEEeeec------cCCCceEEEECCHHHHHHHHHHhCCCEECC
Confidence            7899999996  3444 478999999999999999999987532      246899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.|...
T Consensus        74 ~~l~v~~ak~   83 (91)
T d1nu4a_          74 KPMRIQYAKT   83 (91)
T ss_dssp             EECEEEECSS
T ss_pred             EEEEEEEeCC
Confidence            9999999854

>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=99.23  E-value=1.8e-11  Score=93.89  Aligned_cols=78  Identities=13%  Similarity=0.202  Sum_probs=65.8

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      ..|++.|+-  .++.   ++||++.|++||.|.+|.|.++...+   ...|++||+|.+.++|.+|++.|||..|+|+.|
T Consensus         3 t~l~V~nLp--~~~t---~~~l~~~F~~~G~v~~~~i~~~~~~g---~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l   74 (82)
T d1b7fa1           3 TNLIVNYLP--QDMT---DRELYALFRAIGPINTCRIMRDYKTG---YSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRL   74 (82)
T ss_dssp             SEEEEECCC--TTCC---HHHHHHHHHTTSCEEEEECCEETTTT---EECSEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEEeCCC--CCCC---HHHHHHHHHHhCCcceeeeeeecccC---CccccceEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            458888973  3333   46788999999999999998865433   457899999999999999999999999999999


Q ss_pred             EEEecc
Q 016857          356 RATFYD  361 (381)
Q Consensus       356 ~a~fy~  361 (381)
                      ++.|..
T Consensus        75 ~v~~a~   80 (82)
T d1b7fa1          75 KVSYAR   80 (82)
T ss_dssp             EEEECC
T ss_pred             EEEEcC
Confidence            999864

>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=99.23  E-value=3.2e-11  Score=94.40  Aligned_cols=80  Identities=16%  Similarity=0.253  Sum_probs=67.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..++|++.|+-..-+     ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..++||
T Consensus         6 ~~~~l~V~nL~~~~t-----~~~l~~~F~~~G~i~~v~i~~d~~tg---~~~g~afV~f~~~~~A~~A~~~lng~~l~g~   77 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQ-----EDEIQEKFCDYGEIKNIHLNLDRRTG---FSKGYALVEYETHKQALAAKEALNGAEIMGQ   77 (88)
T ss_dssp             -CEEEEEESCCTTCC-----HHHHHHHHGGGSCEEEEEEEECTTTS---SEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCCCCC-----HHHHHHHHHHcCCccccccccccccc---ccccceeEEECCHHHHHHHHHHcCCCEECCE
Confidence            467999999753322     46888999999999999998765433   4679999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|++.|.-
T Consensus        78 ~l~V~~a~   85 (88)
T d1rk8a_          78 TIQVDWCF   85 (88)
T ss_dssp             ECEEEESE
T ss_pred             EEEEEEec
Confidence            99999863

>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=99.23  E-value=2.3e-11  Score=93.78  Aligned_cols=77  Identities=22%  Similarity=0.266  Sum_probs=65.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      .++++|++.||-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|++.|||..|+|
T Consensus         7 ~~~~~l~V~nL~~--~~t---e~~l~~~F~~~G~i~~v~i~~~~~~~---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   78 (83)
T d2cqca1           7 DPNCCLGVFGLSL--YTT---ERDLREVFSKYGPIADVSIVYDQQSR---RSRGFAFVYFENVDDAKEAKERANGMELDG   78 (83)
T ss_dssp             CGGGCEEEESCCS--SCC---HHHHHHHHHTTSCEEEEEEEECSSSS---SEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCC--CCC---HHHHHHHHHHhCCCcccccccccccc---ccccceEEEECCHHHHHHHHHHcCCCEECC
Confidence            4688999999742  222   46888999999999999998765433   467999999999999999999999999999


Q ss_pred             eEEEE
Q 016857          353 RVVRA  357 (381)
Q Consensus       353 R~V~a  357 (381)
                      |.|++
T Consensus        79 r~i~V   83 (83)
T d2cqca1          79 RRIRV   83 (83)
T ss_dssp             EEEEE
T ss_pred             EEeEC
Confidence            99975

>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=99.22  E-value=1.1e-11  Score=99.81  Aligned_cols=75  Identities=28%  Similarity=0.383  Sum_probs=64.2

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++||++.|+ .+..+.   ++||++.|++||.|++|.|..+.        .|++||+|.+.++|.+|+..|||..|+|+.
T Consensus         2 ~~~l~V~nL-~p~~~t---e~~L~~~F~~fG~I~~v~i~~~~--------kg~afV~f~~~~~A~~ai~~lng~~l~g~~   69 (109)
T d2adca1           2 NSVLLVSNL-NPERVT---PQSLFILFGVYGDVQRVKILFNK--------KENALVQMADGNQAQLAMSHLNGHKLHGKP   69 (109)
T ss_dssp             CSEEEEESC-CTTTCC---HHHHHHHHHHHTCEEEEEECCTT--------SCCEEEEESCHHHHHHHHHHHTTCBCSSSB
T ss_pred             CCEEEEeCC-CcccCC---HHHHHHHHhhccccceEEEEecc--------cceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            679999997 232232   45788999999999999998632        588999999999999999999999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |++.|..
T Consensus        70 l~v~~s~   76 (109)
T d2adca1          70 IRITLSK   76 (109)
T ss_dssp             CEEECCS
T ss_pred             EEEEECC
Confidence            9999964

>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=99.22  E-value=3.1e-11  Score=92.43  Aligned_cols=77  Identities=13%  Similarity=0.219  Sum_probs=64.9

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+-.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|++.|||..|+|+.|+
T Consensus         4 ~l~V~nLp~--~~t---e~~l~~~f~~~G~v~~v~i~~~~~~~---~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~   75 (82)
T d1fxla1           4 NLIVNYLPQ--NMT---QEEFRSLFGSIGEIESCKLVRDKITG---QSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIK   75 (82)
T ss_dssp             EEEEESCCT--TCC---HHHHHHHHHTTSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             EEEEECCCC--CCC---HHHHHHHHHHhCCcccccceeeccCC---CceeeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            488999743  232   46788999999999999998764433   5679999999999999999999999999999999


Q ss_pred             EEecc
Q 016857          357 ATFYD  361 (381)
Q Consensus       357 a~fy~  361 (381)
                      +.|..
T Consensus        76 v~~Ak   80 (82)
T d1fxla1          76 VSYAR   80 (82)
T ss_dssp             EEECC
T ss_pred             EEEee
Confidence            99864

>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=99.19  E-value=6.5e-11  Score=93.61  Aligned_cols=81  Identities=14%  Similarity=0.203  Sum_probs=68.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..|+.|.|.|+-....     ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|++.|||..++|
T Consensus         5 ~~s~tlfV~nlp~~~t-----e~~l~~~F~~~G~i~~v~i~~~~~~~---~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g   76 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTT-----EEQIYELFSKSGDIKKIIMGLDKMKK---TACGFCFVEYYSRADAENAMRYINGTRLDD   76 (93)
T ss_dssp             TTCCEEEEESCCTTCC-----HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHTTTSEETT
T ss_pred             CCCCEEEEeCCCCCCC-----HHHHHHHHHHHCCcceeccccccccc---cccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            4688999999753222     46888999999999999998865433   467999999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      |.|++.|..
T Consensus        77 r~i~V~~a~   85 (93)
T d1h2vz_          77 RIIRTDWDA   85 (93)
T ss_dssp             EECEEEEES
T ss_pred             EEEEEEEcC
Confidence            999999864

>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=99.19  E-value=3.1e-11  Score=98.02  Aligned_cols=90  Identities=18%  Similarity=0.181  Sum_probs=74.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+..|++.|+-..---.|++++++++.|++||.|++|.+.+         +.+++||+|.+.++|.+|+..|||..|+|+
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k---------~~~~afV~f~~~~~A~~Ai~~lng~~~~g~   74 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK---------SFKRVRINFSNPLSAADARLRLHKTEFLGK   74 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET---------TTTEEEEECSSTTHHHHHHHTSTTSEETTE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec---------CCCEEEEEECCHHHHHHHHHHhcccccCCC
Confidence            56779999975432234678889999999999999999974         357899999999999999999999999999


Q ss_pred             EEEEEecccccccccccCC
Q 016857          354 VVRATFYDEERFSKNELAP  372 (381)
Q Consensus       354 ~V~a~fy~ee~F~~~~l~p  372 (381)
                      .|++.|..........+.|
T Consensus        75 ~l~v~~a~~~~~~~~~~~p   93 (104)
T d1weya_          75 EMKLYFAQTLHIGSSHLAP   93 (104)
T ss_dssp             ECEEECCCCSSCCSCCSCC
T ss_pred             EeEEeecccCCCCCcccCC
Confidence            9999999776655554444

>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=99.17  E-value=6.2e-11  Score=92.94  Aligned_cols=81  Identities=12%  Similarity=0.284  Sum_probs=67.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+.+|+|.|+=..  +.   +++|++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         6 ~~~~~i~V~nLp~~--~t---~~~l~~~f~~~G~v~~v~i~~d~~t~---~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g   77 (90)
T d2cq0a1           6 DDNATIRVTNLSED--TR---ETDLQELFRPFGSISRIYLAKDKTTG---QSKGFAFISFHRREDAARAIAGVSGFGYDH   77 (90)
T ss_dssp             SSSEEEEEESCCTT--CC---HHHHHTTSTTTCCEEEEEEEECSSSC---SEEEEEEEEESSHHHHHHHHHHTTTCEETT
T ss_pred             CCCCEEEEECCCCC--CC---HHHHHHHHHHhccccccccccccccc---ccccceeEEECCHHHHHHHHHHhCCCEECC
Confidence            35778999996432  22   45788999999999999998765433   468899999999999999999999999999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      +.|++.|..
T Consensus        78 ~~i~v~~ak   86 (90)
T d2cq0a1          78 LILNVEWAK   86 (90)
T ss_dssp             EECEEEESS
T ss_pred             EEEEEEeee
Confidence            999999864

>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=99.17  E-value=3.8e-11  Score=94.00  Aligned_cols=82  Identities=23%  Similarity=0.338  Sum_probs=68.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|.+.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         3 ~~~~tlfV~nLp~--~~t---e~~l~~~F~~~G~i~~v~i~~d~~~~---~~kg~afV~f~~~~~A~~ai~~l~~~~i~g   74 (89)
T d2cqba1           3 TTKRVLYVGGLAE--EVD---DKVLHAAFIPFGDITDIQIPLDYETE---KHRGFAFVEFELAEDAAAAIDNMNESELFG   74 (89)
T ss_dssp             CCCSCEEEESCCS--SCC---HHHHHHHHTTTSCCCCEECCCCSSSC---CCSSEEEECCSSHHHHHHHHHHHTTEEETT
T ss_pred             CCCcEEEEeCCCC--cCC---HHHHHHHHhhCCeEEecccccccccc---cccceeEEEECCHHHHHHHHHHcCCCEECC
Confidence            3568999999742  232   55888999999999999998765433   467999999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.|...
T Consensus        75 ~~l~v~~a~p   84 (89)
T d2cqba1          75 RTIRVNLAKP   84 (89)
T ss_dssp             EEEEEEECCC
T ss_pred             EEEEEEEeCC
Confidence            9999998753

>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=99.17  E-value=3.2e-11  Score=94.82  Aligned_cols=81  Identities=19%  Similarity=0.283  Sum_probs=62.0

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      ++|.+.|+-..-. ++||. .+++.|++||.|.+|.|.++...+......|++||+|.+.++|.+|+..|||..|+||.|
T Consensus         9 n~vyV~nLp~~~t-~~~l~-~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           9 NLVFVVGLSQRLA-DPEVL-KRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             SCEEEEEECTTTC-CHHHH-HSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CEEEEECCCCccC-HHHHH-HHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            4678888642211 12331 236789999999999999765443333456899999999999999999999999999999


Q ss_pred             EEE
Q 016857          356 RAT  358 (381)
Q Consensus       356 ~a~  358 (381)
                      +|+
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            985

>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=99.16  E-value=4.6e-11  Score=91.53  Aligned_cols=78  Identities=12%  Similarity=0.145  Sum_probs=61.5

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      +.|++.|+  +.++.   ++||++.|++||.|..+.+......+   ...|++||+|.+.++|.+|+..|||..|+|+.|
T Consensus         2 ~tl~v~nL--p~~~t---~~~l~~~f~~~G~v~~~~~~~~~~~~---~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i   73 (81)
T d2ghpa1           2 CTLWMTNF--PPSYT---QRNIRDLLQDINVVALSIRLPSLRFN---TSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTL   73 (81)
T ss_dssp             CEEEEECC--CTTCC---HHHHHHHHHHTTCCCCEEECC----------CCEEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             cEEEEECC--CCcCC---HHHHHHHHHHhCcEEeeeeecccccc---cccceeEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            46888997  33333   46788999999999988887654433   467999999999999999999999999999999


Q ss_pred             EEEecc
Q 016857          356 RATFYD  361 (381)
Q Consensus       356 ~a~fy~  361 (381)
                      .+.|..
T Consensus        74 ~V~~a~   79 (81)
T d2ghpa1          74 VTKVSN   79 (81)
T ss_dssp             EEEECC
T ss_pred             EEEEcc
Confidence            999875

>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=99.15  E-value=1.9e-10  Score=91.45  Aligned_cols=82  Identities=21%  Similarity=0.285  Sum_probs=68.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+.-|+|.|+-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+||
T Consensus         7 ~~~~lfV~nL~~--~~t---~~~l~~~F~~~g~v~~v~i~~d~~tg---~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr   78 (99)
T d1whwa_           7 GSGRLFVRNLSY--TSS---EEDLEKLFSAYGPLSELHYPIDSLTK---KPKGFAFVTFMFPEHAVKAYAEVDGQVFQGR   78 (99)
T ss_dssp             SCEEEEEECCCT--TCC---HHHHHHHHHTTSCEEEEECCCCTTTC---CCCSEEEEEESSHHHHHHHHHHTTTEESSSC
T ss_pred             CCCEEEEECCCC--cCC---HHHHHHHHHhcCCceeeeeccccccc---ccCcceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            456699999742  232   45888999999999999998764433   4689999999999999999999999999999


Q ss_pred             EEEEEecccc
Q 016857          354 VVRATFYDEE  363 (381)
Q Consensus       354 ~V~a~fy~ee  363 (381)
                      .|++.+....
T Consensus        79 ~i~V~~a~~~   88 (99)
T d1whwa_          79 MLHVLPSTIK   88 (99)
T ss_dssp             EEEEEECCCC
T ss_pred             EEEEEECCCC
Confidence            9999998653

>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=99.14  E-value=6.9e-11  Score=90.75  Aligned_cols=76  Identities=14%  Similarity=0.226  Sum_probs=63.7

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |.+.|+=.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|++.|||.+++||.|++
T Consensus         3 lfV~nL~~--~~t---e~~l~~~F~~~G~i~~v~i~~d~~tg---~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v   74 (80)
T d1cvja1           3 LYVGDLHP--DVT---EAMLYEKFSPAGPILSIRVCRDMITR---RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRI   74 (80)
T ss_dssp             EEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEE
T ss_pred             EEEeCCCC--cCC---HHHHHHHHHHhCCEeEEEEEeccccc---CCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            66677532  222   56888999999999999999865543   46899999999999999999999999999999999


Q ss_pred             Eecc
Q 016857          358 TFYD  361 (381)
Q Consensus       358 ~fy~  361 (381)
                      .|..
T Consensus        75 ~~a~   78 (80)
T d1cvja1          75 MWSQ   78 (80)
T ss_dssp             EECC
T ss_pred             EEeC
Confidence            9874

>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=99.14  E-value=1.2e-10  Score=89.05  Aligned_cols=75  Identities=21%  Similarity=0.268  Sum_probs=62.3

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |++.|+=..  +   -++||++.|++||.|.+|.|..+..    ....|++||+|.+.++|.+|++.|||..|+||.|++
T Consensus         3 l~V~nLp~~--~---~~~~l~~~F~~~G~v~~~~i~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V   73 (78)
T d1no8a_           3 LLVSNLDFG--V---SDADIQELFAEFGTLKKAAVHYDRS----GRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNI   73 (78)
T ss_dssp             EEEESCCTT--C---CHHHHHHHHHHHSCEEEEEESCSSC----CCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             EEEECCCCC--C---CHHHHHHHHHHhCCCeEEEEEEeec----cccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            566675322  2   2568889999999999999987542    246799999999999999999999999999999999


Q ss_pred             Eecc
Q 016857          358 TFYD  361 (381)
Q Consensus       358 ~fy~  361 (381)
                      .|.+
T Consensus        74 ~~a~   77 (78)
T d1no8a_          74 QLVT   77 (78)
T ss_dssp             EEEC
T ss_pred             EEee
Confidence            9875

>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=99.14  E-value=6.7e-11  Score=94.75  Aligned_cols=75  Identities=21%  Similarity=0.336  Sum_probs=62.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+..|+|.|+- +..+.   ++||++.|++||.|.+|.|.           +|++||+|.+.++|.+|++.|||+.|+|+
T Consensus        14 ~~~~lfV~nL~-~~~~~---~~~L~~~F~~~G~i~~~~i~-----------rg~aFV~f~~~~~A~~Ai~~lng~~~~g~   78 (98)
T d1wf2a_          14 MNSRVFIGNLN-TLVVK---KSDVEAIFSKYGKIVGCSVH-----------KGFAFVQYVNERNARAAVAGEDGRMIAGQ   78 (98)
T ss_dssp             CCCCEEEEEEC-TTTCC---HHHHHHSSTTSSCEEEEEEE-----------TEEEEEEESSHHHHHHHHHTTTTCEETTE
T ss_pred             CCcEEEEeCCC-cccCC---HHHHHHHHhhcCCEEEEEEe-----------CCeEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45568999973 11221   34788999999999999995           38999999999999999999999999999


Q ss_pred             EEEEEecccc
Q 016857          354 VVRATFYDEE  363 (381)
Q Consensus       354 ~V~a~fy~ee  363 (381)
                      .|++.+....
T Consensus        79 ~l~V~~a~~~   88 (98)
T d1wf2a_          79 VLDINLAAEP   88 (98)
T ss_dssp             ECEEEETTSC
T ss_pred             EEEEEECCCC
Confidence            9999998654

>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=99.14  E-value=8.7e-11  Score=93.05  Aligned_cols=84  Identities=20%  Similarity=0.244  Sum_probs=68.6

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh-CCCeeC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL-DGRFFG  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L-nGR~F~  351 (381)
                      ..++.|+|.|+-  .++.   ++||++.|++||.|.+|.|+.+...  .....|++||+|.+.++|.+|++.| ||..|+
T Consensus         6 ~~~~~l~V~nLp--~~~~---e~~l~~~F~~~G~i~~v~i~~~~~~--~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~   78 (94)
T d2cpha1           6 QTTSKILVRNIP--FQAN---QREIRELFSTFGELKTVRLPKKMTG--TGAHRGFGFVDFITKQDAKKAFNALCHSTHLY   78 (94)
T ss_dssp             SCCCCEEEESCC--TTCC---HHHHHHHHHTTSCEEEEECCCCCSS--SCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS
T ss_pred             CCCCEEEEeCCC--CCCC---HHHHHHHHHHhCCceEEEEEecccc--CCCcccEEEEEECCHHHHHHHHHHccCCcEEC
Confidence            356779999973  2333   4578899999999999999865331  1246899999999999999999998 999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|.+.|...+
T Consensus        79 Gr~l~V~~A~~~   90 (94)
T d2cpha1          79 GRRLVLEWADSE   90 (94)
T ss_dssp             SCBCEEEECCCC
T ss_pred             CEEEEEEEcCCC
Confidence            999999999764

>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=99.14  E-value=9.8e-11  Score=90.46  Aligned_cols=68  Identities=21%  Similarity=0.260  Sum_probs=58.3

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      ++||++.|++||.|.+|.|..+.........+|++||+|.+.++|.+|++.|||..++||.|.+.|..
T Consensus        12 ~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1          12 EETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             HHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             HHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            46788999999999999999865443222347899999999999999999999999999999998863

>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=99.13  E-value=2.2e-10  Score=89.74  Aligned_cols=80  Identities=19%  Similarity=0.267  Sum_probs=67.3

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...++|++.|+-  .++.   ++||++.|++||.|.+|.|..+..     ...|++||+|.+.++|.+|+..|||..|+|
T Consensus         6 ~~~~tl~V~nLp--~~~t---e~~l~~~F~~~G~i~~v~i~~d~~-----~~~~~afV~f~~~~~A~~A~~~l~~~~~~g   75 (90)
T d2cqia1           6 GQPRTLYVGNLS--RDVT---EVLILQLFSQIGPCKSCKMITEHT-----SNDPYCFVEFYEHRDAAAALAAMNGRKILG   75 (90)
T ss_dssp             CCCCEEEEESCC--TTCC---HHHHHHHHHHHSCEEEEEEECCCC-----SSCCEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEECCC--CCCC---HHHHHHHHHhcCCceeeeeecccC-----ccceeeEEEECCHHHHHHHHHHcCCCEECC
Confidence            356789999983  2333   567889999999999999987543     246899999999999999999999999999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|++.|...
T Consensus        76 ~~i~v~~a~~   85 (90)
T d2cqia1          76 KEVKVNWATT   85 (90)
T ss_dssp             EEEEEEECCC
T ss_pred             EEEEEEEcCC
Confidence            9999998743

>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=99.12  E-value=2.4e-10  Score=95.93  Aligned_cols=81  Identities=20%  Similarity=0.268  Sum_probs=68.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|+|.|+-..  +.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..|||..|+||
T Consensus        41 ~~~~l~V~nLp~~--~t---e~~l~~~F~~~G~i~~v~i~~d~~t~---~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr  112 (139)
T d1u6fa1          41 VLRNLMVNYIPTT--VD---EVQLRQLFERYGPIESVKIVCDRETR---QSRGYGFVKFQSGSSAQQAIAGLNGFNILNK  112 (139)
T ss_dssp             TTSEEEEESCSTT--CC---HHHHHHHHHHHSCEEEEEEEEETTTT---EEEEEEEEEESSHHHHHHHHHHTTTEECSSC
T ss_pred             CCCEEEEeCCCCC--CC---HHHHHHHHHhhccccccccccccccc---cccceeeEEECCHHHHHHHHHHhCCCEECCE
Confidence            4678999997422  22   46888999999999999998865433   4579999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|++.|...
T Consensus       113 ~l~V~~a~~  121 (139)
T d1u6fa1         113 RLKVALAAS  121 (139)
T ss_dssp             EEEEEESSC
T ss_pred             EEEEEEcCC
Confidence            999999753

>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=1.2e-10  Score=93.48  Aligned_cols=83  Identities=14%  Similarity=0.261  Sum_probs=69.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +.+++.|+|.|+=..  +.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        15 ~p~~~~l~V~nLp~~--~t---e~~l~~~F~~~G~i~~~~~~~~~~~g---~~kG~afV~f~~~~~A~~Ai~~lng~~~~   86 (102)
T d2cpza1          15 GPEGANLFIYHLPQE--FG---DQDLLQMFMPFGNVVSAKVFIDKQTN---LSKCFGFVSYDNPVSAQAAIQSMNGFQIG   86 (102)
T ss_dssp             CSTTCCEEEESCCSS--CC---HHHHHHHHGGGSCCSEEEEEECSSSC---SEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCC--CC---HHHHHHHHHhhccccccceeeecccC---CCccceEEEeCCHHHHHHHHHHhCCCEEC
Confidence            456778999997532  22   46888999999999999998765443   46799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        87 g~~i~V~~a~~   97 (102)
T d2cpza1          87 MKRLKVQLKRS   97 (102)
T ss_dssp             TEECEEECCCC
T ss_pred             CEEEEEEEeCC
Confidence            99999998743

>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=99.11  E-value=9.8e-11  Score=94.15  Aligned_cols=79  Identities=20%  Similarity=0.274  Sum_probs=66.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.|+-..  +.   ++||++.|++||.|.+|.|..         ..|++||+|.+.++|.+|+..|||..|.||
T Consensus         9 ~~~~l~V~nLp~~--~t---~~~L~~~F~~fG~I~~v~l~~---------~kg~afV~f~~~~~A~~A~~~lng~~~~gr   74 (111)
T d1whxa_           9 SKTVILAKNLPAG--TL---AAEIQETFSRFGSLGRVLLPE---------GGITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             EEEEEEEESCCTT--CC---HHHHHHHHHTTSCEEEEECCS---------SSSCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCEEEEECCCCC--CC---HHHHHhhhhccCCccEEEeec---------cCceEEEEEcCHHHHHHHHHHHcCCccCCC
Confidence            4678999997522  22   467889999999999998853         358999999999999999999999999999


Q ss_pred             EEEEEeccccccc
Q 016857          354 VVRATFYDEERFS  366 (381)
Q Consensus       354 ~V~a~fy~ee~F~  366 (381)
                      .|.+.|.....+.
T Consensus        75 ~l~v~~a~~~~~~   87 (111)
T d1whxa_          75 PLYLEWAPIGVFG   87 (111)
T ss_dssp             BCEEEEEETTTTC
T ss_pred             eEEEEECCCCccc
Confidence            9999998776544

>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=99.11  E-value=1.4e-10  Score=91.58  Aligned_cols=81  Identities=14%  Similarity=0.046  Sum_probs=68.2

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..+.|.+.|+=..-.     ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|++.|||..|+||
T Consensus         8 ~~~tlfV~nLp~~~t-----~~~l~~~F~~~G~v~~v~~~~d~~tg---~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   79 (93)
T d1x5ua1           8 QDATVYVGGLDEKVS-----EPLLWELFLQAGPVVNTHMPKDRVTG---QHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   79 (93)
T ss_dssp             TTTEEEEECCCTTCC-----HHHHHHHHHTTSCEEEEECCBCSSSC---SBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCEEEEeCCCCcCC-----HHHHHHHHHHhCCccccceeeccccc---ccccceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            456899999753322     46888999999999999998765433   4678999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|++.+...
T Consensus        80 ~l~V~~A~~   88 (93)
T d1x5ua1          80 PIRVNKASA   88 (93)
T ss_dssp             BCEEEETTT
T ss_pred             EEEEEEcCC
Confidence            999998765

>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=99.09  E-value=4.2e-10  Score=88.71  Aligned_cols=79  Identities=19%  Similarity=0.233  Sum_probs=66.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ..+.|+|.||-  .++.   ++||++.|++||.|.+|.|+.+..     ...|++||+|.+.++|.+|+..|||..|+||
T Consensus        10 ~~~~l~v~nLp--~~~t---~~~L~~~F~~~G~v~~v~~~~~~~-----~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~   79 (93)
T d2cq3a1          10 TPKRLHVSNIP--FRFR---DPDLRQMFGQFGKILDVEIIFNER-----GSKGFGFVTFENSADADRAREKLHGTVVEGR   79 (93)
T ss_dssp             CCCEEEEESCC--TTCC---HHHHHHHGGGTSCEEEEEEECCTT-----TTCCEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCC--CCCC---HHHHHHHHhhcceeeecccccccc-----CCcceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45568999984  3333   468889999999999999987542     2479999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|++.+...
T Consensus        80 ~l~V~~A~~   88 (93)
T d2cq3a1          80 KIEVNNATA   88 (93)
T ss_dssp             ECEEEECCS
T ss_pred             EEEEEecCc
Confidence            999998754

>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=99.09  E-value=2.3e-10  Score=88.99  Aligned_cols=80  Identities=19%  Similarity=0.355  Sum_probs=62.5

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+.|++.|+-..- .+   +++|++.|++||.|++|.|......  .....|++||+|.+.++|.+|+. |||..|+||.
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 GREIMIRNLSTEL-LD---ENLLRESFEGFGSIEKINIPAGQKE--HSFNNCCAFMVFENKDSAERALQ-MNRSLLGNRE   76 (86)
T ss_dssp             TTEEEEEEECTTT-CC---HHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHGG-GTTEEETTEE
T ss_pred             CCEEEEECCCCCc-cc---HHHHHHHHHhhhhccceeeecccCC--ccccceeeeEEECCHHHHHHHHh-cCCCEECCEE
Confidence            5789999964211 11   2358899999999999998754221  23567999999999999999995 9999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |++.+..
T Consensus        77 l~V~~a~   83 (86)
T d2ghpa3          77 ISVSLAD   83 (86)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9999875

>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=99.08  E-value=2.2e-10  Score=88.42  Aligned_cols=76  Identities=22%  Similarity=0.290  Sum_probs=63.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee-
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF-  350 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F-  350 (381)
                      .+|+++|.+.|+-  .++.   ++||.+.|++||.|.+|.|...        ..|.+||+|.+.++|.+|++.|||..| 
T Consensus         5 ~pP~~tl~V~nLp--~~~t---~~~l~~~f~~~G~i~~v~~~~~--------~~g~afV~f~~~~~A~~A~~~l~g~~~~   71 (83)
T d2b0ga1           5 QPPNQILFLTNLP--EETN---EMMLSMLFNQFPGFKEVRLVPN--------RHDIAFVEFTTELQSNAAKEALQGFKIT   71 (83)
T ss_dssp             CSCCSEEEEESCC--TTCC---HHHHHHHHTTSTTEEEEEECTT--------TCSCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEECCC--CCCC---HHHHHhhhccCccEEEeeeecc--------cceeEEEecCCHHHHHHHHHHhCCcEeC
Confidence            5689999999984  3333   4578899999999999999743        247899999999999999999999888 


Q ss_pred             CCeEEEEEec
Q 016857          351 GGRVVRATFY  360 (381)
Q Consensus       351 ~GR~V~a~fy  360 (381)
                      +|+.|++.|.
T Consensus        72 ~~~~i~v~~a   81 (83)
T d2b0ga1          72 PTHAMKITFA   81 (83)
T ss_dssp             TTCBCEEEEC
T ss_pred             CCcEEEEEEe
Confidence            5789999885

>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=99.07  E-value=1.2e-10  Score=93.29  Aligned_cols=80  Identities=21%  Similarity=0.307  Sum_probs=67.7

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .|.|++.|+=.  ++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..|+|+.
T Consensus         8 ~rtl~V~nLp~--~~t---e~~l~~~f~~~G~i~~v~i~~~~~tg---~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~   79 (104)
T d1p1ta_           8 LRSVFVGNIPY--EAT---EEQLKDIFSEVGPVVSFRLVYDRETG---KPKGYGFCEYQDQETALSAMRNLNGREFSGRA   79 (104)
T ss_dssp             HSCEEEESCCT--TSC---HHHHHHHHHTTSCCSEEEEEEETTTT---EEEEEEEEECSCHHHHHHHHHHSSSBSCSSSC
T ss_pred             CCEEEEECCCC--cCC---HHHHHHhhhcccccccccccccccee---ccCCceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            56799999742  232   56888999999999999998865543   45799999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.+...
T Consensus        80 i~V~~a~~   87 (104)
T d1p1ta_          80 LRVDNAAS   87 (104)
T ss_dssp             BEEEETTC
T ss_pred             EEEEECCC
Confidence            99999754

>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=99.06  E-value=2.7e-10  Score=88.59  Aligned_cols=77  Identities=25%  Similarity=0.375  Sum_probs=63.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee-C
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF-G  351 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F-~  351 (381)
                      .||++|.|.|+-.  ++.   ++||++.|++||.|.++.+...       ...|.+||+|++.++|.+|+..|||..+ +
T Consensus         8 pPs~tL~V~NLp~--~~t---e~~l~~~F~~~G~v~~~~~~~~-------~~~~~afV~f~~~~~A~~A~~~l~~~~i~~   75 (88)
T d2adca2           8 PPSATLHLSNIPP--SVS---EEDLKVLFSSNGGVVKGFKFFQ-------KDRKMALIQMGSVEEAVQALIDLHNHDLGE   75 (88)
T ss_dssp             CSCSEEEEECCCT--TCC---HHHHHHHHHTTSCCEEEEEECS-------SSTTCEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEECCCC--CCC---HHHHHHHhhccCCEEEEEEeee-------cccceeEEEECCHHHHHHHHHhccCCEecC
Confidence            5899999999843  332   5578899999999998877642       2357899999999999999999999876 6


Q ss_pred             CeEEEEEecc
Q 016857          352 GRVVRATFYD  361 (381)
Q Consensus       352 GR~V~a~fy~  361 (381)
                      ||.|++.|..
T Consensus        76 g~~l~v~~sk   85 (88)
T d2adca2          76 NHHLRVSFSK   85 (88)
T ss_dssp             SCBCEEEECS
T ss_pred             CCEEEEEeCC
Confidence            9999999863

>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=99.06  E-value=2.7e-10  Score=91.55  Aligned_cols=79  Identities=16%  Similarity=0.265  Sum_probs=65.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh--CCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL--DGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L--nGR~  349 (381)
                      ..+|+||+|.|+-  .++.   ++||.+.|++||.|.+|.|.+         .++.+||+|.+.++|.+|+..|  ++-.
T Consensus        12 ~~ps~~l~v~nlp--~~~t---e~~l~~~F~~fG~I~~~~~~~---------~k~~AfV~f~~~e~A~~ai~~~~~~~~~   77 (104)
T d1wexa_          12 VSVSPVVHVRGLC--ESVV---EADLVEALEKFGTICYVMMMP---------FKRQALVEFENIDSAKECVTFAADVPVY   77 (104)
T ss_dssp             CCCCSEEEEESCC--SSCC---HHHHHHHHTTTSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHHHHSCCB
T ss_pred             CCCCCEEEEeCCC--CCCC---HHHHHHhhhhcccceEEEEEe---------cceeEEEEeCCHHHHHHHHHHHcCCCcE
Confidence            4589999999983  3343   558889999999999999974         2478999999999999999988  5567


Q ss_pred             eCCeEEEEEeccccc
Q 016857          350 FGGRVVRATFYDEER  364 (381)
Q Consensus       350 F~GR~V~a~fy~ee~  364 (381)
                      ++|+.|.+.|.....
T Consensus        78 ~~g~~l~v~~s~~~~   92 (104)
T d1wexa_          78 IAGQQAFFNYSTSKR   92 (104)
T ss_dssp             SSSSBCEEEECSSSS
T ss_pred             EeeEEEEEEEcCCCc
Confidence            899999999986543

>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=99.06  E-value=4e-10  Score=87.44  Aligned_cols=77  Identities=16%  Similarity=0.249  Sum_probs=63.1

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe--
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR--  353 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR--  353 (381)
                      +.|.+.|+-  .++.   ++||++.|++||.|.+|.|+.+...+   ..+|++||+|.+.++|.+|++.|||..|+|+  
T Consensus         7 ~~lfV~nLp--~~~t---e~~L~~~F~~~G~v~~v~i~~d~~~g---~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~   78 (85)
T d1fxla2           7 ANLYVSGLP--KTMT---QKELEQLFSQYGRIITSRILVDQVTG---VSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATE   78 (85)
T ss_dssp             CEEEEESCC--TTCC---HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CEEEEeCCC--CCCC---HHHHHHHHHHhCCccccccccccccc---cCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCE
Confidence            358888873  2232   56889999999999999999865433   4689999999999999999999999999985  


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .|.+.|.
T Consensus        79 ~i~V~~A   85 (85)
T d1fxla2          79 PITVKFA   85 (85)
T ss_dssp             CCEEEEC
T ss_pred             EEEEEeC
Confidence            4888773

>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=99.04  E-value=4.6e-10  Score=87.39  Aligned_cols=77  Identities=22%  Similarity=0.372  Sum_probs=64.9

Q ss_pred             CCCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh--CCC
Q 016857          271 NGPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL--DGR  348 (381)
Q Consensus       271 ~g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L--nGR  348 (381)
                      .+.||++|.|.|+-..  +.   ++||++.|++||.|.+|.+...         .+.+||+|.+.++|.+|++.|  ++.
T Consensus         4 ~~~Ps~~l~V~nLp~~--~t---~~~L~~~f~~~G~i~~v~~~~~---------~~~afV~f~~~e~A~~a~~~~~~~~~   69 (88)
T d2cq1a1           4 DGAPSRVLHIRKLPGE--VT---ETEVIALGLPFGKVTNILMLKG---------KNQAFLELATEEAAITMVNYYSAVTP   69 (88)
T ss_dssp             CSSCCSEEEEESCCTT--CC---HHHHHHTTTTTSCEEEEEEETT---------TTEEEEEESSHHHHHHHHHHHHHSCC
T ss_pred             CCCCCCEEEEeCCCCC--CC---HHHHHHHHhccccccccccccc---------ceEEEEEeCCHHHHHHHHHHHccCCC
Confidence            4779999999996532  22   5678899999999999998742         378999999999999999865  678


Q ss_pred             eeCCeEEEEEecc
Q 016857          349 FFGGRVVRATFYD  361 (381)
Q Consensus       349 ~F~GR~V~a~fy~  361 (381)
                      .++||.|++.|..
T Consensus        70 ~~~g~~l~v~~sk   82 (88)
T d2cq1a1          70 HLRNQPIYIQYSN   82 (88)
T ss_dssp             EETTEECEEEECS
T ss_pred             ccCCCEEEEEECC
Confidence            9999999999974

>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=99.04  E-value=5.4e-10  Score=86.40  Aligned_cols=77  Identities=17%  Similarity=0.307  Sum_probs=63.8

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC--e
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG--R  353 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G--R  353 (381)
                      +.|.+.||-.  ++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|++.|||..|.|  +
T Consensus         7 t~lfV~nlp~--~~t---e~~l~~~F~~~G~i~~~~~~~d~~~g---~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~   78 (85)
T d1b7fa2           7 TNLYVTNLPR--TIT---DDQLDTIFGKYGSIVQKNILRDKLTG---RPRGVAFVRYNKREEAQEAISALNNVIPEGGSQ   78 (85)
T ss_dssp             CEEEEESCCT--TCC---HHHHHHHHTSSSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CEEEEeCCCC--CCC---HHHHHHHHHhhCCEeeeeeecccccc---cCceeEEEEECCHHHHHHHHHHHCCCEeCCCCe
Confidence            3588999742  232   56788999999999999999865433   468999999999999999999999999987  8


Q ss_pred             EEEEEec
Q 016857          354 VVRATFY  360 (381)
Q Consensus       354 ~V~a~fy  360 (381)
                      .|++.|.
T Consensus        79 ~l~V~~A   85 (85)
T d1b7fa2          79 PLSVRLA   85 (85)
T ss_dssp             CCEEEEC
T ss_pred             EEEEEEC
Confidence            8998874

>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=99.03  E-value=2.3e-10  Score=87.70  Aligned_cols=72  Identities=13%  Similarity=0.213  Sum_probs=62.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.|+ +   +.   ++||++.|++||.|.+|.|.+.         .|++||+|.+.++|.+|+..|||..++|+
T Consensus         4 ~~~ti~V~~~-~---~t---e~~L~~~F~~~G~I~~v~~~~~---------~~~afV~f~~~~~A~~Ai~~lng~~~~g~   67 (79)
T d2bz2a1           4 KGNTLYVYGE-D---MT---PTLLRGAFSPFGNIIDLSMDPP---------RNCAFVTYEKMESADQAVAELNGTQVESV   67 (79)
T ss_dssp             CCCEEEEECS-S---CC---HHHHHHHHSTTCCCSCEEEETT---------TTEEEEECSSHHHHHHHHHHHTTCBCSSC
T ss_pred             CCCEEEEECC-C---CC---HHHHHHHHhccCccceeeeccC---------CCEEEEEEcccHHHHHHHHHhCCCEECCE
Confidence            4568889884 2   33   5688999999999999999742         47899999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|++.|..
T Consensus        68 ~l~V~~a~   75 (79)
T d2bz2a1          68 QLKVNIAR   75 (79)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEEec
Confidence            99999874

>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=99.03  E-value=5.7e-10  Score=88.76  Aligned_cols=74  Identities=16%  Similarity=0.366  Sum_probs=63.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|++.||-  .++.   ++||++.|++||.|++|.|..         .+|++||+|.+.++|.+|+..|||..|+|+
T Consensus        17 ~~~~l~v~nL~--~~~t---e~~L~~~F~~fG~i~~v~i~~---------~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~   82 (96)
T d1x4ga1          17 KNCTVYCGGIA--SGLT---DQLMRQTFSPFGQIMEIRVFP---------EKGYSFVRFSTHESAAHAIVSVNGTTIEGH   82 (96)
T ss_dssp             SCCEEEEECCS--SCCC---HHHHHHHHHHHSCEEEEEEET---------TTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEcCCC--CCCC---HHHHHHHHHHhCCceEEEEEe---------cceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            45689999983  3333   467889999999999999984         258999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|++.|..
T Consensus        83 ~l~v~~ak   90 (96)
T d1x4ga1          83 VVKCYWGK   90 (96)
T ss_dssp             ECEEECCC
T ss_pred             EEEEEEcC
Confidence            99999863

>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=99.03  E-value=2e-10  Score=89.30  Aligned_cols=77  Identities=14%  Similarity=0.259  Sum_probs=64.2

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |.+.|+  +.++.   ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+..|||..++|+.|.+
T Consensus         4 lfV~nl--p~~~t---e~~l~~~F~~~G~v~~v~i~~d~~tg---~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V   75 (85)
T d2u2fa_           4 LFIGGL--PNYLN---DDQVKELLTSFGPLKAFNLVKDSATG---LSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV   75 (85)
T ss_dssp             EEEETC--CSSCC---SHHHHHHHTSSSCEEEEEEECCCSSS---CCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEE
T ss_pred             EEEECC--CCCCC---HHHHHHHHHhcCccceEEeecccccc---ccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            677776  22222   35788999999999999999865433   56899999999999999999999999999999999


Q ss_pred             Eeccc
Q 016857          358 TFYDE  362 (381)
Q Consensus       358 ~fy~e  362 (381)
                      .+...
T Consensus        76 ~~A~~   80 (85)
T d2u2fa_          76 QRASV   80 (85)
T ss_dssp             EECCC
T ss_pred             EECCC
Confidence            99853

>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=99.03  E-value=6.3e-11  Score=94.22  Aligned_cols=83  Identities=23%  Similarity=0.277  Sum_probs=69.5

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +.||++|+|.|+-  .++.   ++||++.|++||.|.++.|..+...+   ...|++||+|.+.++|.+|+..|||..|+
T Consensus        15 ~~ps~tl~V~nLp--~~~t---~~~l~~~f~~~G~v~~~~~~~~~~~g---~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~   86 (102)
T d2cpxa1          15 GEPNKVLYLKNLS--PRVT---ERDLVSLFARFQEKKGPPIQFRMMTG---RMRGQAFITFPNKEIAWQALHLVNGYKLY   86 (102)
T ss_dssp             CSCCSEEEEECCC--TTCC---HHHHHHHTHHHHHSSSSCCEEEEECS---SSCSEEEEECSSHHHHHHHHHHSTTCBCS
T ss_pred             CCCCCEEEEeCCC--CCCC---HHHHHHHHhhccceeeEEeecccccc---cccccceEEeccHHHHHHHHHHhCCCEEC
Confidence            5689999999984  3333   36788999999999998887654332   45799999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|.+.|...
T Consensus        87 g~~l~V~~ak~   97 (102)
T d2cpxa1          87 GKILVIEFGKN   97 (102)
T ss_dssp             SCBCEEEECCC
T ss_pred             CEEEEEEeCCC
Confidence            99999999854

>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=99.02  E-value=4.1e-10  Score=87.97  Aligned_cols=76  Identities=16%  Similarity=0.302  Sum_probs=63.9

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+-.  ++.   ++||++.|++||.|.+|.|..+..     ...|++||+|.+.++|.+|++.|||..|+|+.|.
T Consensus        10 ~l~V~nLp~--~~t---~~~l~~~F~~~G~v~~~~i~~~~~-----~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~   79 (89)
T d1cvja2          10 NIFIKNLDK--SID---NKALYDTFSAFGNILSCKVVCDEN-----GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF   79 (89)
T ss_dssp             EEEEESCCS--SCC---HHHHHHHHHTTSCEEEEEECCBTT-----BCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEE
T ss_pred             EEEEeCCCC--CCC---HHHHHHHHHhcCCceEEEEEeecC-----CCcceeEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            488889742  232   457889999999999999987542     2468999999999999999999999999999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      +.++..
T Consensus        80 V~~a~~   85 (89)
T d1cvja2          80 VGRFKS   85 (89)
T ss_dssp             EEECCC
T ss_pred             EEECCC
Confidence            999853

>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=99.01  E-value=4e-10  Score=87.81  Aligned_cols=79  Identities=20%  Similarity=0.362  Sum_probs=65.5

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      +-|.|.||-..  +.   ++||++.|++||.|.+|.+......+   ...|++||+|.+.++|.+|+..|||..|+|+.|
T Consensus         6 ~kifV~nLp~~--~t---~~~l~~~F~~~G~i~~~~~~~~~~~~---~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l   77 (90)
T d1x5sa1           6 GKLFVGGLSFD--TN---EQSLEQVFSKYGQISEVVVVKDRETQ---RSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQI   77 (90)
T ss_dssp             SEEEEESCCTT--CC---HHHHHHHHHHHSCCCEEEECCCSSSC---SCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCC
T ss_pred             CEEEEECCCCc--CC---HHHHHHhhhccccccceeeccccccc---cccceEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            34888887532  22   35888999999999999988755433   468999999999999999999999999999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      ++.+...
T Consensus        78 ~V~~a~~   84 (90)
T d1x5sa1          78 RVDQAGK   84 (90)
T ss_dssp             EEEEEEC
T ss_pred             EEEEcCC
Confidence            9998754

>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=99.01  E-value=5.9e-10  Score=90.01  Aligned_cols=78  Identities=21%  Similarity=0.360  Sum_probs=64.1

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCee--
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFF--  350 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F--  350 (381)
                      .++..|++.|+-  .++.   ++||++.|++||.|.+|.|....       ..|.+||+|.+.++|.+|+..|||+.+  
T Consensus         5 s~~~~v~V~NL~--~~vt---e~~L~~~F~~~G~i~~~~i~~~~-------~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~   72 (108)
T d2adba1           5 SPVLRIIVENLF--YPVT---LDVLHQIFSKFGTVLKIITFTKN-------NQFQALLQYADPVSAQHAKLSLDGQNIYN   72 (108)
T ss_dssp             CCEEEEESCSCC--STTH---HHHHHHHHTTTSCEEEEEEEEET-------TEEEEEEEESCHHHHHHHHHHHHSCCSST
T ss_pred             CCeEEEEEeCcC--CCCC---HHHHHHHHccCCcEEEEEEEeeC-------CCCeEEEEECCHHHHHHHHHHHCCCEecc
Confidence            356667788873  3333   46888999999999999998753       368999999999999999999999987  


Q ss_pred             CCeEEEEEeccc
Q 016857          351 GGRVVRATFYDE  362 (381)
Q Consensus       351 ~GR~V~a~fy~e  362 (381)
                      .|+.|++.|...
T Consensus        73 ~~~~l~v~~s~~   84 (108)
T d2adba1          73 ACCTLRIDFSKL   84 (108)
T ss_dssp             TCCCCEEEECSS
T ss_pred             CCcEEEEEecCC
Confidence            578999988754

>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=99.00  E-value=4.9e-10  Score=90.13  Aligned_cols=79  Identities=14%  Similarity=0.156  Sum_probs=65.7

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++.|++.||--  ++   -++||++.|+.||.|.+|.|..+...+   ...|++||+|.+.++|.+|+. |||..|+|+.
T Consensus        18 ~~tifV~nL~~--~~---te~~l~~~F~~~G~V~~v~i~~d~~tg---~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~   88 (101)
T d2cq4a1          18 ARTVFCMQLAA--RI---RPRDLEDFFSAVGKVRDVRIISDRNSR---RSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVP   88 (101)
T ss_dssp             HTEEEEESCCT--TC---CHHHHHHHHTTTSCEEEEEECCSCCSS---SCCCCEEEEESCGGGHHHHHH-HTTEEETTEE
T ss_pred             CCEEEEECCCC--CC---CHHHHHHHHcCCCeEEEEEeeecCCCc---cccceEEEEECCHHHHHHHHH-HCCCEECCEE
Confidence            57899999732  22   256788999999999999999765443   568999999999999999995 9999999999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.+...
T Consensus        89 l~V~~a~~   96 (101)
T d2cq4a1          89 IIVQASQA   96 (101)
T ss_dssp             EEEEEHHH
T ss_pred             EEEEECCC
Confidence            99998643

>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=99.00  E-value=6.4e-10  Score=88.27  Aligned_cols=77  Identities=18%  Similarity=0.308  Sum_probs=64.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..||++|+|.|+-..  +.   ++||++.|++||.|.+|.|.+.         .+++||+|.+.++|.+|++.|||..|+
T Consensus        14 ~~Ps~tl~V~nLp~~--~t---~~~l~~~f~~~G~i~~~~~~~~---------~~~afV~f~~~~~A~~A~~~l~~~~i~   79 (97)
T d1whya_          14 ANPTTRLWVGGLGPN--TS---LAALAREFDRFGSIRTIDHVKG---------DSFAYIQYESLDAAQAACAKMRGFPLG   79 (97)
T ss_dssp             CCCCSCEEEECCCSS--CC---HHHHHHHHHTTSCEEEEEECSS---------SCCEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCCEEEEcCCCCC--CC---HHHHHHHHHhhcccceEeeecc---------ccEEEeccCCHHHHHHHHHHhCCCEeC
Confidence            358999999998543  32   4688999999999999998742         478999999999999999999999998


Q ss_pred             C--eEEEEEeccc
Q 016857          352 G--RVVRATFYDE  362 (381)
Q Consensus       352 G--R~V~a~fy~e  362 (381)
                      |  +.|++.|...
T Consensus        80 g~~~~l~v~~ak~   92 (97)
T d1whya_          80 GPDRRLRVDFAKS   92 (97)
T ss_dssp             SSSCBCEEEECCC
T ss_pred             CCceEEEEEeCCC
Confidence            7  5899998753

>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=98.98  E-value=1.4e-10  Score=86.85  Aligned_cols=71  Identities=17%  Similarity=0.277  Sum_probs=57.8

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      |.+.||  +.++.   ++||++.|++||.|.++.+......+   ...|.+||+|.+.++|.+|+..|||+.|+||.|+
T Consensus         1 lyV~nL--p~~~t---e~~l~~~F~~~G~v~~~~~~~~~~~~---~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGL--QPGTT---DQDLVKLCQPYGKIVSTKAILDKTTN---KCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESC--CTTCC---HHHHHTTSTTTSCEEEEEEECCSSSC---SCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCC--CCcCC---HHHHHHHHhhhccccccccccccccc---cccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            456675  33333   45788999999999999998765433   5679999999999999999999999999999763

>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=98.98  E-value=1e-09  Score=86.21  Aligned_cols=77  Identities=16%  Similarity=0.220  Sum_probs=65.4

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh--CCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL--DGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L--nGR~  349 (381)
                      ..+||||.+.|+-...    ..++||.+.|++||.|.+|.|...         .+.+||+|++.++|..|++.|  ++..
T Consensus         5 ~~~sr~v~v~nl~~~~----~t~~eL~~lF~~fG~I~~i~i~~~---------k~~afV~f~~~~~A~~A~~~l~~~~~~   71 (89)
T d1x4da1           5 VETRRVVHIMDFQRGK----NLRYQLLQLVEPFGVISNHLILNK---------INEAFIEMATTEDAQAAVDYYTTTPAL   71 (89)
T ss_dssp             CCCCCEEEEESCCCSS----SHHHHHHTTTGGGSCEEEEEECSS---------SSCEEEEESSHHHHHHHHHHHHHSCCE
T ss_pred             CCCCcEEEEECCCCCc----CCHHHHHHHHHhhCCeEEEEeecc---------ceEEEEEEcchhhHHHHHHHHhhCCCc
Confidence            4689999999974221    357788999999999999999752         357999999999999999966  7889


Q ss_pred             eCCeEEEEEecc
Q 016857          350 FGGRVVRATFYD  361 (381)
Q Consensus       350 F~GR~V~a~fy~  361 (381)
                      ++||.|.+.|..
T Consensus        72 ~~gr~l~V~~s~   83 (89)
T d1x4da1          72 VFGKPVRVHLSQ   83 (89)
T ss_dssp             ETTEECEEEEEC
T ss_pred             cCCceEEEEECC
Confidence            999999999975

>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=98.97  E-value=6.1e-10  Score=89.03  Aligned_cols=74  Identities=15%  Similarity=0.118  Sum_probs=63.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      ....|++.|+-  .++.   ++||++.|++||.|++|.|..          .|++||+|.+.++|.+|++.|||..|+|+
T Consensus        14 ~~~~i~V~Nlp--~~~~---~~~L~~~F~~~G~v~~~~i~~----------~g~afV~f~~~~~a~~Ai~~lng~~~~g~   78 (98)
T d1wg4a_          14 SDFRVLVSGLP--PSGS---WQDLKDHMREAGDVCYADVQK----------DGMGMVEYLRKEDMEYALRKLDDTKFRSH   78 (98)
T ss_dssp             CSCEEEEECCC--SSCC---HHHHHHHHTTSSCEEEEEEET----------TTEEEEEESSHHHHHHHHHHHSSEEEECT
T ss_pred             CCCEEEEECCC--CCCC---HHHHHHHHHhhcccccccccc----------cceEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence            46679999983  3333   457889999999999999863          37999999999999999999999999999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.|...
T Consensus        79 ~i~v~~~~~   87 (98)
T d1wg4a_          79 EGETSYIRV   87 (98)
T ss_dssp             TSCEEEEEE
T ss_pred             EEEEEEEec
Confidence            999999854

>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=98.97  E-value=9e-10  Score=84.52  Aligned_cols=77  Identities=14%  Similarity=0.349  Sum_probs=60.6

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEE-EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V-~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      |.+.|+-.  ++.   ++||++.|++||.|.++ .|..+...+   ...|++||+|.+.++|.+|++.|||..|+||.|+
T Consensus         1 lfV~nLp~--~~t---e~~l~~~F~~~G~i~~~~~i~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~   72 (83)
T d1x5ta1           1 IFIGNLDP--EID---EKLLYDTFSAFGVILQTPKIMRDPDTG---NSKGYAFINFASFDASDAAIEAMNGQYLCNRPIT   72 (83)
T ss_dssp             EEEECCCT--TCC---HHHHHHHHHTTSCBSSCCEECCCTTTC---SCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECE
T ss_pred             CEEcCCCC--cCc---HHHHHHHHHHhCceeeeEEEEeecccc---ccCceEEEEECCHHHHHHHHHhCCCcEECCEEEE
Confidence            45666532  222   56889999999999765 566544332   4679999999999999999999999999999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      +.+...
T Consensus        73 v~~a~~   78 (83)
T d1x5ta1          73 VSYAFK   78 (83)
T ss_dssp             EEESCC
T ss_pred             EEEecC
Confidence            998753

>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=98.96  E-value=1.9e-09  Score=85.05  Aligned_cols=80  Identities=19%  Similarity=0.315  Sum_probs=65.9

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      +.+++.|++.|+=.  ++.   ++||++.|++||.|..|.+....      ...+++||+|.+.++|.+|+..|||..|+
T Consensus        11 ~~~~~~l~V~nLp~--~~t---~~~l~~~F~~~G~v~~~~~~~~~------~~~g~afV~f~~~e~a~~Ai~~l~g~~~~   79 (95)
T d1x4aa1          11 GNNDCRIYVGNLPP--DIR---TKDIEDVFYKYGAIRDIDLKNRR------GGPPFAFVEFEDPRDAEDAVYGRDGYDYD   79 (95)
T ss_dssp             CCCSSEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEECCSS------SSSCCEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCC--CCC---HHHHHHHHhcCCceEEEEecccc------cccceEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34566799999742  232   46788999999999999986532      34689999999999999999999999999


Q ss_pred             CeEEEEEeccc
Q 016857          352 GRVVRATFYDE  362 (381)
Q Consensus       352 GR~V~a~fy~e  362 (381)
                      |+.|++.|...
T Consensus        80 g~~l~V~~a~~   90 (95)
T d1x4aa1          80 GYRLRVEFPRS   90 (95)
T ss_dssp             TEECEEECCCC
T ss_pred             CEEEEEEeccC
Confidence            99999998643

>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=98.95  E-value=2.7e-09  Score=84.03  Aligned_cols=79  Identities=16%  Similarity=0.189  Sum_probs=64.3

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .++.|++.|+-..  +   -++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+..+|  .++||
T Consensus         7 ~~~~lfV~nLp~~--~---te~~l~~~F~~~G~i~~v~i~~d~~tg---~srG~aFV~f~~~~~a~~al~~~~--~l~Gr   76 (90)
T d2cqga1           7 KTSDLIVLGLPWK--T---TEQDLKEYFSTFGEVLMVQVKKDLKTG---HSKGFGFVRFTEYETQVKVMSQRH--MIDGR   76 (90)
T ss_dssp             CCCCEEEESCCSS--C---CHHHHHHHHGGGSCEEEEEEEECSSSC---SEEEEEEEEESSHHHHHHHHHSCE--EETTE
T ss_pred             CCCeEEEECCCCC--C---CHHHHHHHHHhhcccceeeeccCCCCc---ccCCEEEEEECCHHHHHHHHhcCC--ccCCE
Confidence            4566888896422  2   246889999999999999999875543   568999999999999999999655  89999


Q ss_pred             EEEEEeccc
Q 016857          354 VVRATFYDE  362 (381)
Q Consensus       354 ~V~a~fy~e  362 (381)
                      .|.+.+...
T Consensus        77 ~i~v~~a~~   85 (90)
T d2cqga1          77 WCDCKLPNS   85 (90)
T ss_dssp             EEEEECCCT
T ss_pred             EeEEEeCCC
Confidence            999998754

>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=98.94  E-value=7.9e-10  Score=86.13  Aligned_cols=72  Identities=24%  Similarity=0.326  Sum_probs=61.9

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.||-..  +.   ++||++.|++||.|.+|.+..+         .|++||+|.+.++|.+|+..|||..|+|+.|+
T Consensus        10 ~l~V~nLp~~--~~---~~~l~~~F~~~G~i~~i~~~~~---------k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~   75 (86)
T d2cpja1          10 RLFVGNLPPD--IT---EEEMRKLFEKYGKAGEVFIHKD---------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLR   75 (86)
T ss_dssp             EEEEESCCTT--CC---HHHHHHHTSTTCCCSEEEEETT---------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCE
T ss_pred             EEEEECCCCC--CC---HHHHHHHHHHhCCceEeeeecc---------cceEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            4889997632  32   4688999999999999999742         47999999999999999999999999999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      +.|...
T Consensus        76 V~~A~~   81 (86)
T d2cpja1          76 VRFACH   81 (86)
T ss_dssp             EEESSC
T ss_pred             EEECCC
Confidence            998754

>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=98.93  E-value=2.6e-09  Score=82.52  Aligned_cols=74  Identities=19%  Similarity=0.315  Sum_probs=62.6

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+++|.|.|+-.  ++.   ++||++.|++||.|..+.+..         ..|++||+|.+.++|.+|+..|||..++|+
T Consensus         7 ~~k~l~V~nLp~--~~t---e~~l~~~F~~~g~i~~~~~~~---------~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~   72 (86)
T d2cpda1           7 SVKILYVRNLML--STS---EEMIEKEFNNIKPGAVERVKK---------IRDYAFVHFSNREDAVEAMKALNGKVLDGS   72 (86)
T ss_dssp             CCCEEEEESCCT--TCC---HHHHHHHHHTTSTTCEEEEEE---------CSSEEEEEESSHHHHHHHHHHHSSEEETTE
T ss_pred             CCCEEEEcCCCC--CCC---HHHHHHhhcccceeeeEEEcc---------ccEEEEEEeCCHHHHHHHHHHcCCCEECCE
Confidence            467999999743  232   458889999999998888754         248999999999999999999999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.|..
T Consensus        73 ~i~V~~ak   80 (86)
T d2cpda1          73 PIEVTLAK   80 (86)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEecc
Confidence            99999863

>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=98.92  E-value=2.6e-09  Score=83.79  Aligned_cols=80  Identities=19%  Similarity=0.327  Sum_probs=65.7

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC------C
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD------G  347 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln------G  347 (381)
                      ..++|.+.|+-  .++.   ++||++.|++||.|.++.+..+...+   ...|++||+|.+.++|.+|++.||      |
T Consensus         7 ~~~tlfV~nLp--~~~t---e~~l~~~f~~~G~v~~~~~~~~~~~~---~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g   78 (98)
T d1x4ha1           7 EGKTVFIRNLS--FDSE---EEALGEVLQQFGDLKYVRVVLHPDTE---HSKGCAFAQFMTQEAAQKCLAAASLEAEGGG   78 (98)
T ss_dssp             CCCCEEEESCC--TTCC---HHHHHHHHHTTSCEEEEECCBCSSSC---CBCSEEEEEESSHHHHHHHHHHHCTTTTTCC
T ss_pred             CCCEEEEcCCC--CcCC---HHHHHHHHhccccceeeeeccccccc---cccceEEEEEcCHHHHHHHHHHcccccccCC
Confidence            46789999974  2222   56888999999999999998765432   467999999999999999999987      6


Q ss_pred             CeeCCeEEEEEecc
Q 016857          348 RFFGGRVVRATFYD  361 (381)
Q Consensus       348 R~F~GR~V~a~fy~  361 (381)
                      ..++||.|.+.|..
T Consensus        79 ~~~~gr~l~v~~a~   92 (98)
T d1x4ha1          79 LKLDGRQLKVDLAV   92 (98)
T ss_dssp             EESSSCEEEEECCC
T ss_pred             cEECCEEEEEEECC
Confidence            78999999999874

>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=98.92  E-value=2.4e-09  Score=85.85  Aligned_cols=78  Identities=9%  Similarity=0.144  Sum_probs=64.2

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      +-|.+.|+-  .++.   ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|++.+|+ .|+||.|
T Consensus        11 ~~lfV~nLp--~~~t---e~~l~~~F~~~G~i~~v~i~~d~~tg---~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l   81 (103)
T d2cqda1          11 TKIFVGGLP--YHTT---DASLRKYFEGFGDIEEAVVITDRQTG---KSRGYGFVTMADRAAAERACKDPNP-IIDGRKA   81 (103)
T ss_dssp             SEEEEECCC--SSCC---HHHHHHHHHTTSCEEEEEESCCSSSC---CCCSEEEEEESSHHHHHHHHTCSSC-EETTEEC
T ss_pred             cEEEEeCCC--CcCc---HHHHHHHHhhcccccceecccccccc---ccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEE
Confidence            458889973  2332   56788999999999999998765432   4689999999999999999999997 7999999


Q ss_pred             EEEeccc
Q 016857          356 RATFYDE  362 (381)
Q Consensus       356 ~a~fy~e  362 (381)
                      .+.+...
T Consensus        82 ~V~~a~~   88 (103)
T d2cqda1          82 NVNLAYL   88 (103)
T ss_dssp             EEEESTT
T ss_pred             EEEEcCC
Confidence            9988753

>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=98.91  E-value=5.1e-09  Score=79.49  Aligned_cols=73  Identities=12%  Similarity=0.174  Sum_probs=60.1

Q ss_pred             EEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEE
Q 016857          277 VLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVR  356 (381)
Q Consensus       277 VVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~  356 (381)
                      .|++.|+-  .++   -++||++.|++||.|.+|.|..+..     ...+++||+|.+.++|.+|+ .|||..|+|+.|.
T Consensus         2 tv~V~nlp--~~~---t~~~l~~~F~~~G~I~~v~~~~~~~-----~~~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~   70 (75)
T d2ghpa2           2 TVLVKNLP--KSY---NQNKVYKYFKHCGPIIHVDVADSLK-----KNFRFARIEFARYDGALAAI-TKTHKVVGQNEII   70 (75)
T ss_dssp             EEEEEEEC--TTC---CHHHHHHHHGGGSCEEEEEEEECTT-----SSSEEEEEEESSHHHHHHHH-TTTTCEETTEECE
T ss_pred             EEEEECCC--CCC---CHHHHHHHHhcCCceEEEEEEeecc-----ccceEEEEEEcchHHhHHHH-HhcCcEECCEEEE
Confidence            57788873  222   2568889999999999999987643     24589999999999999998 5899999999999


Q ss_pred             EEec
Q 016857          357 ATFY  360 (381)
Q Consensus       357 a~fy  360 (381)
                      +...
T Consensus        71 V~~~   74 (75)
T d2ghpa2          71 VSHL   74 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            8765

>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=98.90  E-value=1.8e-09  Score=83.30  Aligned_cols=77  Identities=23%  Similarity=0.235  Sum_probs=61.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEE-EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV-LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V-~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...+|.|.|+--...     ++||++.|+.||.|... .+... ..   ....|++||+|.+.++|.+|+..|||..++|
T Consensus         8 ~~~~l~v~nLp~~~~-----~~di~~~F~~~~~~~~~~~~~~~-~~---g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~g   78 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVS-----IDEILDFFYGYQVIPGSVCLKYN-EK---GMPTGEAMVAFESRDEATAAVIDLNDRPIGS   78 (86)
T ss_dssp             SSEEEEEESCCTTCC-----HHHHHHHTTTSCCCTTTCEEEEC-SS---SCEEEEEEEEESCHHHHHHHHHHTTTCEETT
T ss_pred             CCCEEEEECCCCCCC-----HHHHHHHHhhcccceeEEEEEeC-CC---CCcceEEEEEEcCcHHHHHHHHHcCCCEECC
Confidence            355789999753322     56888999999999764 44433 22   2468999999999999999999999999999


Q ss_pred             eEEEEEe
Q 016857          353 RVVRATF  359 (381)
Q Consensus       353 R~V~a~f  359 (381)
                      |.|++.+
T Consensus        79 r~i~v~l   85 (86)
T d2cqpa1          79 RKVKLVL   85 (86)
T ss_dssp             EECEEEE
T ss_pred             EEEEEEE
Confidence            9999876

>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=98.90  E-value=1.3e-09  Score=86.16  Aligned_cols=79  Identities=20%  Similarity=0.235  Sum_probs=65.0

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..+++|++.|+-..  +.   ++||++.|++||.|..+....        ...|++||+|.+.++|.+|+..|||..|+|
T Consensus        14 ~~~~~l~V~nL~~~--~t---e~~l~~~F~~~g~v~~~~~~~--------~~~~~afV~f~~~~~A~~A~~~l~~~~~~g   80 (96)
T d1fjca_          14 RAARTLLAKNLSFN--IT---EDELKEVFEDALEIRLVSQDG--------KSKGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             TGGGEEEEESCCSS--CC---HHHHHHHHCSEEEECCEEETT--------EEEEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             CCCCEEEEeCCCCC--CC---HHHHHHHHHhcccceeeeecC--------ccccEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            35789999997533  22   468889999999988775421        346999999999999999999999999999


Q ss_pred             eEEEEEeccccc
Q 016857          353 RVVRATFYDEER  364 (381)
Q Consensus       353 R~V~a~fy~ee~  364 (381)
                      |.|.+.|.....
T Consensus        81 r~i~V~~a~~k~   92 (96)
T d1fjca_          81 RSVSLYYTGEKG   92 (96)
T ss_dssp             EEEEEEECSSSC
T ss_pred             EEEEEEEeCCCC
Confidence            999999987643

>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=98.88  E-value=6.3e-09  Score=80.51  Aligned_cols=76  Identities=18%  Similarity=0.250  Sum_probs=62.7

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+-|++.|+=..-.     ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+. ++|..|+||.
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 LRKLFIGGLSFETT-----DESLRSHFEQWGTLTDCVVMRDPNTK---RSRGFGFVTYATVEEVDAAMN-ARPHKVDGRV   76 (84)
T ss_dssp             GGEEEEESCCTTCC-----HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHH-TCSCEETTEE
T ss_pred             CcEEEEECCCCCCC-----HHHHHHHHHhhccccceeecccccCC---CcccEEEEEEcCHHHHHHHHH-hCCCEECCEE
Confidence            45688888653322     57889999999999999999866543   568999999999999999997 5889999999


Q ss_pred             EEEEe
Q 016857          355 VRATF  359 (381)
Q Consensus       355 V~a~f  359 (381)
                      |.+.-
T Consensus        77 i~V~~   81 (84)
T d1l3ka1          77 VEPKR   81 (84)
T ss_dssp             CEEEE
T ss_pred             EEEEe
Confidence            98864

>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=98.87  E-value=7.1e-09  Score=80.40  Aligned_cols=76  Identities=16%  Similarity=0.168  Sum_probs=62.9

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++.|.+.|+-...     -++||++.|++||.|.+|.|..+..    ...+|++||+|.+.++|.+|+. +||..|+||.
T Consensus         6 ~rtvfV~nlp~~~-----te~~l~~~F~~~G~v~~v~l~~~~~----~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~   75 (85)
T d1zh5a2           6 NRSVYIKGFPTDA-----TLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVE-TPGQKYKETD   75 (85)
T ss_dssp             TTEEEEECCCTTC-----CHHHHHHHHTTSCCEEEEEEEECTT----CCEEEEEEEEESCHHHHHHHHT-CCCCEETTEE
T ss_pred             cCEEEEECCCCCC-----CHHHHHHHHHHhcccccceeeeecc----CCcceEEEEEEcCHHHHHHHHH-HCCCEECCEE
Confidence            5679999975332     2568889999999999999986532    2467999999999999999995 7999999999


Q ss_pred             EEEEec
Q 016857          355 VRATFY  360 (381)
Q Consensus       355 V~a~fy  360 (381)
                      |.+.+-
T Consensus        76 l~v~~~   81 (85)
T d1zh5a2          76 LLILFK   81 (85)
T ss_dssp             CEEEEG
T ss_pred             EEEEEc
Confidence            999864

>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=98.86  E-value=2.6e-09  Score=83.44  Aligned_cols=76  Identities=16%  Similarity=0.180  Sum_probs=60.9

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..++.|+|.|+-..  +   -++||++.|++|| +..+.+..         ..|++||+|.+.++|.+|++.|||..|+|
T Consensus         3 s~s~~i~V~nLp~~--~---t~~~l~~lF~~~G-~~~~~~~~---------~kg~afV~f~~~~~A~~Ai~~ln~~~~~G   67 (88)
T d1wg1a_           3 SGSSGILVKNLPQD--S---NCQEVHDLLKDYD-LKYCYVDR---------NKRTAFVTLLNGEQAQNAIQMFHQYSFRG   67 (88)
T ss_dssp             CCCCCEEEESCCSS--C---CHHHHHHHTCSSC-CCCEEEEG---------GGTEEEECCSCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCc--c---ChHHHHHHHHhcC-ceeeeeec---------cCCceEEEECCHHHHHHHHHHhCCCEECC
Confidence            35778999997532  2   2568889999999 33344432         35899999999999999999999999999


Q ss_pred             eEEEEEecccc
Q 016857          353 RVVRATFYDEE  363 (381)
Q Consensus       353 R~V~a~fy~ee  363 (381)
                      |.|.|.|....
T Consensus        68 ~~l~V~~a~~~   78 (88)
T d1wg1a_          68 KDLIVQLQPTD   78 (88)
T ss_dssp             EEEEEEECCCC
T ss_pred             EEEEEEEcCCC
Confidence            99999998654

>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=98.86  E-value=1.4e-09  Score=81.40  Aligned_cols=62  Identities=16%  Similarity=0.180  Sum_probs=54.5

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      ++||++.|++||.|..+.+......+   ...|.+||+|.+.++|.+|++ |||..|+||.|++..
T Consensus        13 e~~l~~~F~~~G~i~~~~~~~~~~~~---~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~   74 (75)
T d2msta_          13 VEDVKHYFEQFGKVDDAMLMFDKTTN---RHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             HHHHHHHHHTTSCCSEECCBCCTTCT---TSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEE
T ss_pred             HHHHHHHHHHhCCcceeeeeeecccc---ccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEE
Confidence            56899999999999999988765433   467999999999999999996 999999999999875

>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=98.86  E-value=5.3e-09  Score=83.36  Aligned_cols=83  Identities=18%  Similarity=0.236  Sum_probs=64.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ..|+.+|+|.||-.  ++.   ++||++.|++|| |+.+.|+.....  .....|++||+|.+.++|.+|+ .|||..|+
T Consensus        12 ~~p~~~v~V~nLp~--~~t---e~~l~~~f~~~g-~~~~~~~~~~~~--~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~   82 (104)
T d1wi8a_          12 KSPPYTAFLGNLPY--DVT---EESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLG   82 (104)
T ss_dssp             SSSCEEEEEESCCS--SCC---HHHHHHHTTTSC-EEEEECCBCSSC--TTSBCSCEEEEESSHHHHHHHH-GGGTCEET
T ss_pred             CCCCCEEEEeCCCC--cCC---HHHHHHHHHHhc-cccceeeeeecc--CCCcceeeeEEECCHHHHHHHH-HcCCCEEC
Confidence            34778999999842  232   468889999999 777777654322  1246789999999999997665 69999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|++.+....
T Consensus        83 gr~l~V~~a~~~   94 (104)
T d1wi8a_          83 NKRIRVDVADQA   94 (104)
T ss_dssp             TEECEEEECCCC
T ss_pred             CEEEEEEECCCC
Confidence            999999987653

>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=98.86  E-value=4.4e-09  Score=84.82  Aligned_cols=78  Identities=18%  Similarity=0.221  Sum_probs=64.3

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .+.|.|.|+-  .++.   ++||++.|++||.|..|.|..+...+   ...|++||+|.+.++|.+|+. +||..|+||.
T Consensus        20 ~~~lfVgnLp--~~~t---e~~L~~~F~~~G~i~~~~i~~d~~~~---~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~   90 (103)
T d1x4ba1          20 FRKLFIGGLS--FETT---EESLRNYYEQWGKLTDCVVMRDPASK---RSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRV   90 (103)
T ss_dssp             HTEEEEECCT--TCCC---HHHHHHHHTSSCCCSEEEEECCTTTS---SCCSEEEEECSSHHHHHHHHT-SCSEEETTEE
T ss_pred             CCEEEEeCCC--CcCC---HHHHHHHHHhhCcccceeecccccCC---CccCeEEEEECCHHHHHHHHH-hCCCeECCEE
Confidence            3579999973  2222   56889999999999999998765432   568999999999999999985 7999999999


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      |.+.+..
T Consensus        91 i~V~~a~   97 (103)
T d1x4ba1          91 VEPKRAV   97 (103)
T ss_dssp             EEEECCS
T ss_pred             EEEEECc
Confidence            9998764

>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=98.85  E-value=1e-08  Score=77.60  Aligned_cols=75  Identities=13%  Similarity=0.216  Sum_probs=60.5

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEE
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVV  355 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V  355 (381)
                      |-|.+.|+--  ++   -++||++.|++||.|.++.+..+...+   ...|++||+|.+.++|.+|+. |||..|+||.|
T Consensus         3 r~lfV~nLp~--~~---te~~l~~~F~~~G~i~~~~~~~~~~~~---~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i   73 (79)
T d1l3ka2           3 KKIFVGGIKE--DT---EEHHLRDYFEQYGKIEVIEIMTDRGSG---KKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNC   73 (79)
T ss_dssp             SEEEEECCTT--TC---CHHHHHHHHTTTSCEEEEEEEECTTTC---CEEEEEEEEESSHHHHHHHHH-CSCCEETTEEC
T ss_pred             CEEEECCCCC--cC---CHHHHHHHHHHhccccccccccCCCCc---ccccEEEEEEcCHHHHHHHHH-hCCCEECCEEE
Confidence            4577777542  22   256889999999999999998765433   568999999999998888885 89999999999


Q ss_pred             EEEe
Q 016857          356 RATF  359 (381)
Q Consensus       356 ~a~f  359 (381)
                      .+..
T Consensus        74 ~V~~   77 (79)
T d1l3ka2          74 EVRK   77 (79)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9864

>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=98.84  E-value=2.5e-09  Score=81.07  Aligned_cols=61  Identities=18%  Similarity=0.211  Sum_probs=53.7

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEE
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRAT  358 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~  358 (381)
                      ++||++.|++||.|.+|.|..+...+   ...|++||+|.+.++|.+|+. +++..++||.|.+.
T Consensus        13 e~~l~~~F~~~G~i~~~~i~~d~~t~---~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~   73 (75)
T d1hd0a_          13 KKDLKDYFSKFGEVVDCTLKLDPITG---RSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPK   73 (75)
T ss_dssp             HHHHHHHHHTTSCEEEEECCCBTTTT---BCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEEC
T ss_pred             HHHHHHHHHhhccccccccccCCCCC---CcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEee
Confidence            56889999999999999999865543   468999999999999999997 79999999999874

>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=98.82  E-value=6.5e-09  Score=81.98  Aligned_cols=80  Identities=16%  Similarity=0.212  Sum_probs=62.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEE--------EEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhh
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRV--------LIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDL  345 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V--------~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~L  345 (381)
                      ..++|++.||-.  ++.   ++||++.|++||.|..+        .+..+...   ....|++||+|.+.++|.+|+..|
T Consensus         7 ~~~~i~V~nLp~--~~t---e~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~---~~~~g~afV~f~~~~~a~~Ai~~l   78 (101)
T d2cpea1           7 DNSAIYVQGLND--SVT---LDDLADFFKQCGVVKMNKRTGQPMIHIYLDKET---GKPKGDATVSYEDPPTAKAAVEWF   78 (101)
T ss_dssp             CCCEEEEECCCT--TCC---HHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTT---CSBCSEEEEEBSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCC--cCC---HHHHHHHHHHCceEEEeeecccceeEEeecccc---ccccceeeEEecCHHHHHHHHHHh
Confidence            466899999742  232   45788999999998543        33332221   245789999999999999999999


Q ss_pred             CCCeeCCeEEEEEecc
Q 016857          346 DGRFFGGRVVRATFYD  361 (381)
Q Consensus       346 nGR~F~GR~V~a~fy~  361 (381)
                      ||..|+||.|++.+..
T Consensus        79 ~g~~~~gr~i~V~~a~   94 (101)
T d2cpea1          79 DGKDFQGSKLKVSLAR   94 (101)
T ss_dssp             TTCEETTEECEEECSS
T ss_pred             CCCEECCEEEEEEEcC
Confidence            9999999999999874

>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=98.81  E-value=3.1e-09  Score=84.88  Aligned_cols=78  Identities=19%  Similarity=0.354  Sum_probs=64.6

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH--hhCCCe
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALI--DLDGRF  349 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~--~LnGR~  349 (381)
                      ..++++|++.|+-... +   -++||.+.|++||.|.+|.|.++         .|.+||+|.+.++|.+|+.  .+|+..
T Consensus        15 ~~~~~~l~v~nLp~~~-~---te~~l~~~F~~fG~V~~v~~~~~---------k~~afV~f~~~~~A~~Ai~~~~~~~~~   81 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSG-Y---SDSAVLKLAEPYGKIKNYILMRM---------KSQAFIEMETREDAMAMVDHCLKKALW   81 (99)
T ss_dssp             SCCCCEEEEESCCCSS-C---CSHHHHTTTTTTSCCSEEEEETT---------TTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCCCEEEEeCCcCCc-c---CHHHHHhhhccccceeEEEEeec---------CCcEEEEecchHHHHHHHHHHhcCCce
Confidence            4578999999985321 1   13578899999999999999742         4799999999999999998  578999


Q ss_pred             eCCeEEEEEeccc
Q 016857          350 FGGRVVRATFYDE  362 (381)
Q Consensus       350 F~GR~V~a~fy~e  362 (381)
                      |+||.|.+.|...
T Consensus        82 ~~gr~l~V~~s~~   94 (99)
T d1x4fa1          82 FQGRCVKVDLSEK   94 (99)
T ss_dssp             SSSSCCEEEEECS
T ss_pred             ECCEEEEEEEcCC
Confidence            9999999998743

>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=98.81  E-value=3.8e-09  Score=84.18  Aligned_cols=85  Identities=12%  Similarity=0.078  Sum_probs=65.5

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+.||.|.||-  .++.   ++||++.|+.||.|..+.++.....+   ...|++||+|.+.++|.+|+. |||..|+||
T Consensus         7 ~~~~v~v~nLp--~~~t---~~~l~~~F~~~g~i~~~~~~~~~~~g---~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr   77 (103)
T d2cpya1           7 AKVCAHITNIP--FSIT---KMDVLQFLEGIPVDENAVHVLVDNNG---QGLGQALVQFKNEDDARKSER-LHRKKLNGR   77 (103)
T ss_dssp             CCCEEEEESCC--TTSC---HHHHHHHTTTSCCCSTTEEECCCTTS---SCSSCEEEECSSHHHHHHHGG-GCSEEETTE
T ss_pred             CceEEEEeCCC--CCCC---HHHHhhhhcccceEEEEEEEEeCCCC---CcCccEEEEECCHHHHHHHHh-cCCCeECCc
Confidence            45689999984  2222   57888999999999864443332222   468999999999999999996 999999999


Q ss_pred             EEEEEecccccccc
Q 016857          354 VVRATFYDEERFSK  367 (381)
Q Consensus       354 ~V~a~fy~ee~F~~  367 (381)
                      .|.+...+......
T Consensus        78 ~i~V~~~~~~~~~~   91 (103)
T d2cpya1          78 EAFVHVVTLEDMRE   91 (103)
T ss_dssp             EEEEEEECHHHHHH
T ss_pred             EEEEEECCHHHhhh
Confidence            99999987654443

>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=98.80  E-value=2.6e-09  Score=83.04  Aligned_cols=70  Identities=17%  Similarity=0.228  Sum_probs=57.9

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |++.|+-..-.     ++||++.|++||.|.+|.|..          .|++||+|.+.++|.+|+..|||..|+|+.|.+
T Consensus         3 vfV~nlp~~~~-----~~~l~~~F~~~G~v~~~~i~~----------~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v   67 (87)
T d3begb1           3 VVVSGLPPSGS-----WQDLKDHMREAGDVCYADVYR----------DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGET   67 (87)
T ss_dssp             EEEEECCSSCC-----TTHHHHHHGGGSCEEEEEECT----------TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCC
T ss_pred             EEEECCCCcCC-----HHHHHHHHhhhcccccccccc----------cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEE
Confidence            56777643221     347889999999999999863          178999999999999999999999999999999


Q ss_pred             Eeccc
Q 016857          358 TFYDE  362 (381)
Q Consensus       358 ~fy~e  362 (381)
                      .+...
T Consensus        68 ~~~~~   72 (87)
T d3begb1          68 AYIRV   72 (87)
T ss_dssp             CBCEE
T ss_pred             eEEec
Confidence            88753

>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=98.79  E-value=9.8e-09  Score=82.11  Aligned_cols=84  Identities=17%  Similarity=0.118  Sum_probs=67.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+.+|.|+||--.-     -++||++.|..||.|..+.+......+   ...|++||+|.+.++|.+|+. ||+..|+||
T Consensus        14 ~~~~v~v~nLP~~~-----te~dI~~~F~~~g~v~~~v~~~~~~~~---~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR   84 (104)
T d1wg5a_          14 NDGFVRLRGLPFGC-----SKEEIVQFFSGLEIVPNGMTLPVDFQG---RSTGEAFVQFASQEIAEKALK-KHKERIGHR   84 (104)
T ss_dssp             CCCEEEEESCCTTC-----CHHHHHHHTTTCCEEEEEEECCBCSSS---CBCSEEEEEESSHHHHHHHHT-TTTCCSSSS
T ss_pred             CCcEEEEeCCCCCC-----CHHHHHHHHHhcCCceEEEEEEeCCCC---CcceEEEEEeCCHHHHHHHHh-hCCCEEcce
Confidence            46689999985322     257899999999999886665544332   467999999999999998885 999999999


Q ss_pred             EEEEEeccccccc
Q 016857          354 VVRATFYDEERFS  366 (381)
Q Consensus       354 ~V~a~fy~ee~F~  366 (381)
                      .|.+.+.......
T Consensus        85 ~i~V~~~~~~~~~   97 (104)
T d1wg5a_          85 YIEIFKSSRAEVR   97 (104)
T ss_dssp             CCEEEEECTTTSC
T ss_pred             EEEEEECCHHHhc
Confidence            9999998876543

>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=98.79  E-value=1.3e-08  Score=77.13  Aligned_cols=71  Identities=18%  Similarity=0.257  Sum_probs=56.5

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |++.|+-..  +   -++||++.|++|| +..+.+.+         ..|.+||+|.+.++|.+|+..|||..|+||.|.+
T Consensus         1 i~V~nLp~~--~---t~~~l~~~F~~~g-~~~~~~~~---------~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V   65 (75)
T d1wi6a1           1 ILIRGLPGD--V---TNQEVHDLLSDYE-LKYCFVDK---------YKGTAFVTLLNGEQAEAAINTFHQSRLRERELSV   65 (75)
T ss_dssp             EEEECCCTT--C---CHHHHHHHTTTSC-EEEEEEET---------TTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEE
T ss_pred             CEEeCCCCc--C---CHHHHHHHHhccc-ccceeecc---------cceeEEEEECCHHHHHHHHHHhCCccCCCCEEEE
Confidence            456665421  2   2568889999999 55555542         3589999999999999999999999999999999


Q ss_pred             Eecccc
Q 016857          358 TFYDEE  363 (381)
Q Consensus       358 ~fy~ee  363 (381)
                      +|.+.+
T Consensus        66 ~~a~~d   71 (75)
T d1wi6a1          66 QLQPTD   71 (75)
T ss_dssp             EECCST
T ss_pred             EEeCCC
Confidence            998754

>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=98.78  E-value=2.1e-09  Score=82.19  Aligned_cols=73  Identities=11%  Similarity=0.188  Sum_probs=59.3

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRA  357 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a  357 (381)
                      |.+.|+=  .++.   ++||++.|++||.|.+|.|+.+...+   ..+|++||+|.+.++|.+|+. +|+..++||.|.+
T Consensus         3 lfV~nLp--~~~t---e~~l~~~F~~~G~i~~v~i~~d~~tg---~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V   73 (77)
T d1uawa_           3 MFIGGLS--WQTT---QEGLREYFGQFGEVKECLVMRDPLTK---RSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDP   73 (77)
T ss_dssp             EEEESCC--SSCC---SHHHHHHHTTTSCCCCEEEECCCCSS---SCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEE
T ss_pred             EEEeCCC--CcCC---HHHHHHHHHHhCCcceeeeecccCCC---CccceEEEEECCHHHHHHHHH-cCCCEECCeEEEE
Confidence            5667763  2222   35788999999999999998865543   468999999999999999997 6999999999988


Q ss_pred             Ee
Q 016857          358 TF  359 (381)
Q Consensus       358 ~f  359 (381)
                      ..
T Consensus        74 ~~   75 (77)
T d1uawa_          74 KV   75 (77)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=98.76  E-value=6e-09  Score=79.82  Aligned_cols=71  Identities=14%  Similarity=0.238  Sum_probs=58.6

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCe-eCCeEEE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRF-FGGRVVR  356 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~-F~GR~V~  356 (381)
                      |.+.|+-  .++.   ++||++.|++||.|.++.+...         .|++||+|.+.++|.+|++.|||+. |+|+.|.
T Consensus         4 l~V~nLp--~~~t---e~~L~~~F~~~G~i~~~~~~~~---------rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~   69 (80)
T d2cqha1           4 LYIGNLS--PAVT---ADDLRQLFGDRKLPLAGQVLLK---------SGYAFVDYPDQNWAIRAIETLSGKVELHGKIME   69 (80)
T ss_dssp             EEEECCC--TTCC---HHHHHHHHHHTTCCCSSCEEEE---------TTEEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             EEEECCC--CCCC---HHHHHHHHHHhCcEEEeEEecc---------cceEEEEECCHHHHHHHHHHhCCCeEECCEEEE
Confidence            6777863  2232   4688899999999988777653         4899999999999999999999985 9999999


Q ss_pred             EEeccc
Q 016857          357 ATFYDE  362 (381)
Q Consensus       357 a~fy~e  362 (381)
                      +.|...
T Consensus        70 V~~a~~   75 (80)
T d2cqha1          70 VDYSVS   75 (80)
T ss_dssp             EEECCC
T ss_pred             EEEcCC
Confidence            999754

>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=98.74  E-value=9e-09  Score=82.16  Aligned_cols=81  Identities=15%  Similarity=0.080  Sum_probs=64.1

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      ...+.+|+|+||--.-     -++||++.|..||. .+|.+..+..    ....|++||+|.+.++|.+|+. |||..|+
T Consensus        12 ~~~~~~v~v~nLp~~~-----te~dl~~~F~~~~~-~~v~~~~~~~----g~~~G~afVeF~~~~~a~~Al~-~~~~~i~   80 (102)
T d1weza_          12 STTGHCVHMRGLPYRA-----TENDIYNFFSPLNP-MRVHIEIGPD----GRVTGEADVEFATHEDAVAAMA-KDKANMQ   80 (102)
T ss_dssp             CSSSCEEEEESCCTTC-----CHHHHHHSSCSCCC-SEEEEEESSS----SCEEEEEEEECSSSHHHHHHHT-TSSCCSS
T ss_pred             CCCCCEEEEeCCCCcC-----CHHHHHHHHhccCc-ceeeeEEecC----CcceEEEEEEECCHHHHHHHHH-cCCCEEC
Confidence            4467799999985322     25788899999985 4677766433    2457999999999999999975 8999999


Q ss_pred             CeEEEEEecccc
Q 016857          352 GRVVRATFYDEE  363 (381)
Q Consensus       352 GR~V~a~fy~ee  363 (381)
                      ||.|.+.+....
T Consensus        81 gR~I~V~~s~~~   92 (102)
T d1weza_          81 HRYVELFLNSTA   92 (102)
T ss_dssp             SSCCEEEEECCC
T ss_pred             CEEEEEEEcCCC
Confidence            999999887654

>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=98.73  E-value=7.6e-09  Score=82.47  Aligned_cols=75  Identities=16%  Similarity=0.196  Sum_probs=61.2

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      ++.|+|.|+=..-.     ++||++.|++||.|..+.+.....    ....|++||+|.+.++|.+|++.|||+.|.||.
T Consensus        18 ~~~lfV~nLp~~~t-----e~~L~~~F~~~G~i~~~~~~~~~~----~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~   88 (101)
T d1x5oa1          18 PTNLYISNLPLSMD-----EQELENMLKPFGQVISTRILRDSS----GTSRGVGFARMESTEKCEAVIGHFNGKFIKTPP   88 (101)
T ss_dssp             TTEEEEESCCTTCC-----HHHHHHTTTTTSCEEEEEEEECSS----SCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCT
T ss_pred             CCEEEEeCCCCCCC-----HHHHHHHHhhcccccceeeecccc----cccccceeEEeCCHHHHHHHHHHhCCCEECCcC
Confidence            45688999753322     467889999999999999886532    246899999999999999999999999999988


Q ss_pred             EEEE
Q 016857          355 VRAT  358 (381)
Q Consensus       355 V~a~  358 (381)
                      +.+.
T Consensus        89 ~~v~   92 (101)
T d1x5oa1          89 GVSA   92 (101)
T ss_dssp             TSCC
T ss_pred             CccC
Confidence            7654

>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=98.72  E-value=5.2e-09  Score=79.78  Aligned_cols=62  Identities=15%  Similarity=0.173  Sum_probs=53.5

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      ++||++.|++||.|.+|.|+.+...+   ...|++||+|.+.++|.+|+.. ++..++|+.|.+..
T Consensus        13 e~~l~~~F~~~G~I~~v~i~~d~~t~---~~rG~~FV~f~~~~~a~~al~~-~~~~i~g~~i~vk~   74 (75)
T d1x0fa1          13 EEKIREYFGGFGEVESIELPMDNKTN---KRRGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKV   74 (75)
T ss_dssp             HHHHHHHHHHHSCEEEEECCCCTTTC---CTTCCEEEEESSSHHHHHHTTC-SSCCBTTBCCEEEC
T ss_pred             HHHHHHHHHHhCCccccccccccccc---ccccEEEEEECCHHHHHHHHhh-CCCEECCEEeEEEE
Confidence            57888999999999999999865443   5689999999999999999965 77889999998864

>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=98.69  E-value=4.1e-09  Score=82.90  Aligned_cols=78  Identities=17%  Similarity=0.124  Sum_probs=63.0

Q ss_pred             CceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          274 PTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       274 pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      .+..|++.|+-..  +   -++||++.|++||.|.++.|.... .   ....|++||+|.+.++|.+|+. |||..++||
T Consensus        12 ~~~~ifV~nL~~~--~---te~~l~~~F~~~G~i~~~~v~~~~-~---g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~   81 (91)
T d1fjeb1          12 TPFNLFIGNLNPN--K---SVAELKVAISELFAKNDLAVVDVR-T---GTNRKFGYVDFESAEDLEKALE-LTGLKVFGN   81 (91)
T ss_dssp             SSEEEEEECCCTT--S---CHHHHHHHHHHHHHHHTCCCCEEE-E---ETTTTEEEEEESSHHHHHHHHH-GGGEEETTE
T ss_pred             CCcEEEEeCccCc--c---hHHHHHHHHhcCCcEEEeeeeecC-C---CCccEEeEEeeCCHHHHHHHHh-cCCcEECCE
Confidence            5668999997422  2   256788999999999988886542 1   2467999999999999999995 999999999


Q ss_pred             EEEEEecc
Q 016857          354 VVRATFYD  361 (381)
Q Consensus       354 ~V~a~fy~  361 (381)
                      .|.+.+..
T Consensus        82 ~i~V~~ak   89 (91)
T d1fjeb1          82 EIKLEKPK   89 (91)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEecC
Confidence            99998763

>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=98.68  E-value=1.2e-08  Score=79.44  Aligned_cols=75  Identities=19%  Similarity=0.243  Sum_probs=61.8

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ..|+.|+|.|+-.  ++.   ++||++.|++||.|.+|.+..        ...|++||+|.+.++|.+|+.  ++..++|
T Consensus         3 ~~s~~lfV~nLp~--~~t---e~~L~~~F~~~G~v~~v~~~~--------~~~gfafV~f~~~~~a~~a~~--~~~~i~g   67 (88)
T d1wf0a_           3 SGSSGVFVGRCTG--DMT---EDELREFFSQYGDVMDVFIPK--------PFRAFAFVTFADDQIAQSLCG--EDLIIKG   67 (88)
T ss_dssp             SCCCEEEEESCCS--SSC---HHHHHHHSTTTSCCCEEECCS--------SCCSCCEEECSCHHHHHHTTT--CEEEETT
T ss_pred             CCCCEEEEeCCCC--CCC---HHHHHHHHHHcCCceEEEEee--------ccCceEEEEECCHHHHHHHHh--CCCEECC
Confidence            3688999999742  232   568889999999999998753        235899999999999999985  7889999


Q ss_pred             eEEEEEeccc
Q 016857          353 RVVRATFYDE  362 (381)
Q Consensus       353 R~V~a~fy~e  362 (381)
                      +.|.+.+...
T Consensus        68 ~~l~v~~a~~   77 (88)
T d1wf0a_          68 ISVHISNAEP   77 (88)
T ss_dssp             EEEEEECCCC
T ss_pred             EEeEEEeCCC
Confidence            9999998753

>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=98.68  E-value=2.8e-08  Score=79.72  Aligned_cols=71  Identities=18%  Similarity=0.270  Sum_probs=56.0

Q ss_pred             cCCCCCceEEEEec--ccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhC
Q 016857          269 NFNGPPTRVLLLRN--MVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLD  346 (381)
Q Consensus       269 ~~~g~pSrVVvL~N--Mv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~Ln  346 (381)
                      .....|+++|+|.|  +-.  ++   -++||++.|++||.|++|.+..         ..+++||+|.+.++|.+|++.||
T Consensus        12 ~~~~~pt~~l~V~ng~L~~--~v---te~~L~~~F~~~G~i~~i~~~~---------~k~~aFV~f~~~e~A~~A~~~ln   77 (101)
T d2cq2a1          12 ETVSYATQSLVVANGGLGN--GV---SRNQLLPVLEKCGLVDALLMPP---------NKPYSFARYRTTEESKRAYVTLN   77 (101)
T ss_dssp             CCCSSCCSEEEEETCTGGG--TC---CHHHHHHHHHHHSCEEEEECCT---------TCSCEEEEESSHHHHHHHHHHTT
T ss_pred             ccCCCCCceEEEECCCCCC--CC---CHHHHHHHHHhhCcccEEeecc---------CccEEEEEECCHHHHHHHHHHhC
Confidence            34456899999977  321  22   2568889999999999998864         24789999999999999999999


Q ss_pred             CCee-CCe
Q 016857          347 GRFF-GGR  353 (381)
Q Consensus       347 GR~F-~GR  353 (381)
                      |+.+ +++
T Consensus        78 g~~i~~~~   85 (101)
T d2cq2a1          78 GKEVVDDL   85 (101)
T ss_dssp             TCEEECTT
T ss_pred             CCCCCCCC
Confidence            9876 443

>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=98.67  E-value=9.4e-09  Score=83.48  Aligned_cols=85  Identities=13%  Similarity=0.139  Sum_probs=67.0

Q ss_pred             CCCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeC
Q 016857          272 GPPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFG  351 (381)
Q Consensus       272 g~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~  351 (381)
                      .....||+|.||--..     -++||++.|+.||.|..+.++.....+   ...|++||+|.+.++|.+|+. |||..|+
T Consensus        15 ~~~~~~i~v~nLp~~~-----t~~di~~~F~~~g~~~~~~~~~~~~~g---~~~G~afVeF~~~e~a~~al~-~~~~~i~   85 (112)
T d1wela1          15 HEAGFCVYLKGLPFEA-----ENKHVIDFFKKLDIVEDSIYIAYGPNG---KATGEGFVEFRNEADYKAALC-RHKQYMG   85 (112)
T ss_dssp             CCCCCEEEEECCCTTC-----CHHHHHHHSCSSCBCTTTCEEEECTTS---SEEEEEEEEBSSSHHHHHHHT-SCSBCST
T ss_pred             CCCCeEEEEecCCCcC-----cHHHHhhHHhhccccccceeeecCccc---ceeeEEEEEECCHHHHHHHHH-cCCCcCC
Confidence            3467799999975322     256888999999999875555444333   467999999999999998885 9999999


Q ss_pred             CeEEEEEecccccc
Q 016857          352 GRVVRATFYDEERF  365 (381)
Q Consensus       352 GR~V~a~fy~ee~F  365 (381)
                      ||.|.+...+...+
T Consensus        86 gR~i~V~~~~~~~~   99 (112)
T d1wela1          86 NRFIQVHPITKKGM   99 (112)
T ss_dssp             TSCBEEEEECHHHH
T ss_pred             CEEEEEEEcChHHH
Confidence            99999998876554

>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=98.58  E-value=1.4e-07  Score=80.48  Aligned_cols=80  Identities=13%  Similarity=0.191  Sum_probs=66.0

Q ss_pred             CCceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCC
Q 016857          273 PPTRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGG  352 (381)
Q Consensus       273 ~pSrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~G  352 (381)
                      ...+.|++.|+-  ..+.   +++|++.|+.||.|..|.|..+...+   ...|.+||+|.+.++|.+|+. ++|..|+|
T Consensus        95 ~~~~~i~V~~lp--~~~t---e~~L~~~f~~~G~v~~~~i~~~~~~~---~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G  165 (183)
T d1u1qa_          95 LTVKKIFVGGIK--EDTE---EHHLRDYFEQYGKIEVIEIMTDRGSG---KKRGFAFVTFDDHDSVDKIVI-QKYHTVNG  165 (183)
T ss_dssp             CCCSEEEEECCC--TTCC---HHHHHHHHGGGSCEEEEEEEECTTTC---CEEEEEEEEESCHHHHHHHHT-SSCEEETT
T ss_pred             cccceeEEccCC--CcCC---HHHHhhhhccCCceeeeeeecccccC---ccceeEEEEECCHHHHHHHHH-hCCCeECC
Confidence            466789999973  2333   46888999999999999999865433   467999999999999999997 78899999


Q ss_pred             eEEEEEecc
Q 016857          353 RVVRATFYD  361 (381)
Q Consensus       353 R~V~a~fy~  361 (381)
                      +.|.+.+..
T Consensus       166 ~~i~V~~A~  174 (183)
T d1u1qa_         166 HNCEVRKAL  174 (183)
T ss_dssp             EEEEEEECC
T ss_pred             EEEEEEecC
Confidence            999998763

>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=98.51  E-value=1.3e-07  Score=73.24  Aligned_cols=59  Identities=20%  Similarity=0.362  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE-EEEEec
Q 016857          292 ELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV-VRATFY  360 (381)
Q Consensus       292 ELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~-V~a~fy  360 (381)
                      +..++|.++|++||.|.++.+.+         ..+++||+|.+.++|.+|+. |||..|+||. |.+.-+
T Consensus        15 ~~~~~il~~F~~~G~I~~~~~~~---------~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~   74 (81)
T d1wwha1          15 ASASYILLQFAQYGNILKHVMSN---------TGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPC   74 (81)
T ss_dssp             GGHHHHHHHHHTTSCEEEEEECS---------SSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEEC
T ss_pred             HHHHHHHHHHHhhhhhheEEecC---------CCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeC
Confidence            34467778899999999998863         35899999999999999995 9999999985 446554

>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=98.50  E-value=1.7e-07  Score=73.51  Aligned_cols=78  Identities=17%  Similarity=0.210  Sum_probs=60.1

Q ss_pred             EEEecccCCCCChhhHHHHHHHHHhccCC-eeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCC--eeCCeE
Q 016857          278 LLLRNMVGPGEVDDELEDEVGSECAKYGT-VTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGR--FFGGRV  354 (381)
Q Consensus       278 VvL~NMv~~~El~dELeeDI~EECsKYG~-V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR--~F~GR~  354 (381)
                      |.|.|+-..  +.   ++||++.|++||. |.+|.|+.+...  .....|++||+|.+.++|.+|++.|++.  .++|+.
T Consensus         4 LyV~nLp~~--~t---e~~l~~~f~~~g~~i~~v~~~~~~~~--~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~   76 (96)
T d2disa1           4 LFIGGIPKM--KK---REEILEEIAKVTEGVLDVIVYASAAD--KMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQ   76 (96)
T ss_dssp             EEEECCCTT--SC---HHHHHHHHHHHSTTEEEEECCSSSCT--TTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBC
T ss_pred             EEEcCCCCc--CC---HHHHHHHHHHhCCcceEEEEeeeccc--cccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEE
Confidence            667775432  22   4678899999996 999999865322  1346899999999999999999999755  447999


Q ss_pred             EEEEeccc
Q 016857          355 VRATFYDE  362 (381)
Q Consensus       355 V~a~fy~e  362 (381)
                      |.+.|...
T Consensus        77 i~V~~A~p   84 (96)
T d2disa1          77 IAVDWAEP   84 (96)
T ss_dssp             CEEEESCS
T ss_pred             EEEEEcCC
Confidence            99999853

>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=98.34  E-value=8.1e-09  Score=80.29  Aligned_cols=87  Identities=20%  Similarity=0.266  Sum_probs=62.0

Q ss_pred             eEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCC--CCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCe
Q 016857          276 RVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEP--NFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGR  353 (381)
Q Consensus       276 rVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~--~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR  353 (381)
                      |-|.|.|+-  .++.   ++||++.|++||.|..+.+......  .......|++||+|.+.++|.+|+. |||..|+||
T Consensus         2 RrlyVgNLp--~~~t---e~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr   75 (90)
T d1u2fa_           2 RRLYVGNIP--FGIT---EEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQ   75 (90)
T ss_dssp             CEEEECSCC--TTCC---TTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSS
T ss_pred             CEEEEcCCC--Cccc---hHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCE
Confidence            568888873  2222   3577888999999887766532110  0112457999999999999999985 999999999


Q ss_pred             EEEEEecccccccccccCCCCC
Q 016857          354 VVRATFYDEERFSKNELAPLPG  375 (381)
Q Consensus       354 ~V~a~fy~ee~F~~~~l~p~~~  375 (381)
                      .|++.       ...++.|.||
T Consensus        76 ~l~V~-------r~k~~~p~pg   90 (90)
T d1u2fa_          76 SLKIR-------RPHDYQPLPG   90 (90)
T ss_dssp             CCCCB-------CTTCCSCCCC
T ss_pred             EEEEC-------CCCCCCCccC
Confidence            99884       2446666654

>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=98.05  E-value=1.6e-06  Score=70.13  Aligned_cols=57  Identities=11%  Similarity=0.117  Sum_probs=48.2

Q ss_pred             HHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCH-HHHHHHHHhhCCCeeCCeEEEEEe
Q 016857          294 EDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERS-EQTTKALIDLDGRFFGGRVVRATF  359 (381)
Q Consensus       294 eeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~-esA~kAv~~LnGR~F~GR~V~a~f  359 (381)
                      ++||++.|++||.|..|.|.+         ..|++||+|.+. ++|..|+..|||..+.++.+.+.+
T Consensus        25 ee~Lk~~F~~fG~V~~v~i~~---------~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          25 REDLHILFSNHGEIKWIDFVR---------GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             HHHHHHHTCSSCCEEEEECCT---------TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             HHHHHHHHHhcCChheEEEec---------CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            678899999999999999974         358999999986 689999999999988876555544

>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=97.80  E-value=4.2e-05  Score=64.60  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=59.8

Q ss_pred             ceEEEEecccCCCCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeE
Q 016857          275 TRVLLLRNMVGPGEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRV  354 (381)
Q Consensus       275 SrVVvL~NMv~~~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~  354 (381)
                      .|.|++.|+-.  ++.   ++||++.|++||.|.+|.|+.+...   ....|++||+|.+.++|.+|+..+++ .++++.
T Consensus         6 ~r~lfV~nLp~--~~t---e~~L~~~F~~~G~v~~~~~~~~~~~---~~~~g~afv~f~~~~~a~~a~~~~~~-~~~~~~   76 (183)
T d1u1qa_           6 LRKLFIGGLSF--ETT---DESLRSHFEQWGTLTDCVVMRDPNT---KRSRGFGFVTYATVEEVDAAMNARPH-KVDGRV   76 (183)
T ss_dssp             HHEEEEESCCT--TCC---HHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHTCSC-EETTEE
T ss_pred             CCEEEEECCCC--CCC---HHHHHHHHHHcCCEEEEEeeecccC---CCccCceecccCCHHHHHHHHHhcCC-cccccc
Confidence            46788999742  232   5678899999999999999875433   25679999999999999999887655 457777


Q ss_pred             EEEEecc
Q 016857          355 VRATFYD  361 (381)
Q Consensus       355 V~a~fy~  361 (381)
                      +.+..+.
T Consensus        77 ~~~~~~~   83 (183)
T d1u1qa_          77 VEPKRAV   83 (183)
T ss_dssp             CEEEECC
T ss_pred             hhhhhhh
Confidence            7766554

>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=97.62  E-value=7e-05  Score=59.38  Aligned_cols=78  Identities=28%  Similarity=0.470  Sum_probs=62.9

Q ss_pred             cCCCCCceEEEEecccCC-----CCChhhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHH
Q 016857          269 NFNGPPTRVLLLRNMVGP-----GEVDDELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALI  343 (381)
Q Consensus       269 ~~~g~pSrVVvL~NMv~~-----~El~dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~  343 (381)
                      .+.|+|.-+|++ ++...     .+++|.|..++.++|+.||.|.-|.+..           +.++|.|.+-++|.+|++
T Consensus         9 ~~qGPpDgTIvV-~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv~-----------d~mwVTF~dG~SAL~al~   76 (95)
T d1ufwa_           9 SFQGPLDATVVV-NLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQ-----------GQMLVTFADSHSALSVLD   76 (95)
T ss_dssp             CCCCCTTCEEEE-EESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEET-----------TEEEEECSCSHHHHHHHH
T ss_pred             cccCCCCcEEEE-EeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeC-----------CeEEEEECCcHHHHHHhc
Confidence            355777767766 44432     2467889999999999999999998874           469999999999998875


Q ss_pred             hhCCCeeCCeEEEEEe
Q 016857          344 DLDGRFFGGRVVRATF  359 (381)
Q Consensus       344 ~LnGR~F~GR~V~a~f  359 (381)
                       |+|..+.|++|++..
T Consensus        77 -l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          77 -VDGMKVKGRAVKISG   91 (95)
T ss_dssp             -GGGSEETTEEEEEEC
T ss_pred             -cCCeEEcceEEEEec
Confidence             699999999998864

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.98  E-value=0.0019  Score=48.73  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=57.9

Q ss_pred             hhHHHHHHHHHhccCCeeEEEEeeeCCCCCCCCCceEEEEEeCCHHHHHHHHHhhCCCeeCCeEEEEEecc
Q 016857          291 DELEDEVGSECAKYGTVTRVLIFEITEPNFPVDEAVRIFVQFERSEQTTKALIDLDGRFFGGRVVRATFYD  361 (381)
Q Consensus       291 dELeeDI~EECsKYG~V~~V~I~~~~~~~~~~~~~GrVFVeF~d~esA~kAv~~LnGR~F~GR~V~a~fy~  361 (381)
                      +|+++-+.+.|.+||.|.+|.|..-++      ..-.+-|+-.+..+|.-|+..||-+.++++.|.++|..
T Consensus         7 kelqq~L~~~f~~h~~V~sv~l~~~~d------g~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1           7 KELQQLLQEAFARHGKVKSVELSPHTD------YQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEECSCCS------TTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHHHHhheeEEEEEEEeccC------CcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            578888999999999999999986543      34678899999999999999999999999999999975