Psyllid ID: psy17806

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130
Protein Sequence
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRRKRSSRRSSRSRSRD
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHccccEEEEEEcccccccccEEEEEEEccHHHHHHHHHHHHccEEcccEEEEEEccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHcccEEEEEEEccccccccEEEEEEEccHHHHHHHHHHHccccccccEEEEEEcccccHHHHHHHHHHcccccccccccEEEEccccHHHHHHHHccccccccccccccccc
Coil and Loop (DISEMBL)
MQEHYDNFFEDVFVECEDkygeieemnvcdnlgdhlvgnvyikfrrEEDAEKAVNDLnnrwfggrpvyaelspvtdfrEACCRqyemgectrsgfcnfmhlkPISRELRRYLYSRRkrssrrssrsrsrd
Flexible Loop (DISEMBL)
mqehydnffeDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNdlnnrwfggrpvyaelspVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYlysrrkrssrrssrsrsrd
Low Complexity Region (SEG)
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPIsrelrrylysrrkrssrrssrsrsrD
Disordered region (IsUnstruct)
****YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY*****************
Disordered Region (DISOPRED)
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISREL**********************
Disordered Region (DISEMBL)
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYS****************
Disordered Region (DISPRO)
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYS****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRRKRSSRRSSRSRSRD
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	130	2.2.26 [Sep-21-2011]
Q94535	264	Splicing factor U2af 38 k	yes	N/A	0.869	0.428	0.964	6e-62
Q9D883	239	Splicing factor U2AF 35 k	yes	N/A	0.869	0.472	0.876	5e-56
Q01081	240	Splicing factor U2AF 35 k	yes	N/A	0.869	0.470	0.876	5e-56
A1A4K8	237	Splicing factor U2AF 35 k	yes	N/A	0.869	0.476	0.876	5e-56
Q7TP17	220	Splicing factor U2AF 26 k	no	N/A	0.946	0.559	0.8	7e-55
Q8BGJ9	220	Splicing factor U2AF 26 k	no	N/A	0.946	0.559	0.8	7e-55
Q3T127	220	Splicing factor U2AF 26 k	no	N/A	0.869	0.513	0.831	2e-53
Q8WU68	220	Splicing factor U2AF 26 k	no	N/A	0.869	0.513	0.778	2e-50
Q09176	216	Splicing factor U2AF 23 k	yes	N/A	0.892	0.537	0.601	4e-38
Q6AUG0	304	Splicing factor U2af smal	yes	N/A	0.861	0.368	0.592	2e-36

>sp|Q94535|U2AF1_DROME Splicing factor U2af 38 kDa subunit OS=Drosophila melanogaster GN=U2af38 PE=1 SV=2

 Score =  235 bits (600), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 109/113 (96%), Positives = 110/113 (97%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFR E DAEKA NDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRNEADAEKAANDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVY+ELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYSELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

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

>sp|Q9D883|U2AF1_MOUSE Splicing factor U2AF 35 kDa subunit OS=Mus musculus GN=U2af1 PE=1 SV=4

 Score =  215 bits (548), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 99/113 (87%), Positives = 106/113 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 74  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPISRELRR LY
Sbjct: 134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Mus musculus (taxid: 10090)

>sp|Q01081|U2AF1_HUMAN Splicing factor U2AF 35 kDa subunit OS=Homo sapiens GN=U2AF1 PE=1 SV=3

 Score =  215 bits (548), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 99/113 (87%), Positives = 106/113 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 74  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPISRELRR LY
Sbjct: 134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Homo sapiens (taxid: 9606)

>sp|A1A4K8|U2AF1_BOVIN Splicing factor U2AF 35 kDa subunit OS=Bos taurus GN=U2AF1 PE=2 SV=1

 Score =  215 bits (548), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 99/113 (87%), Positives = 106/113 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 74  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPISRELRR LY
Sbjct: 134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Bos taurus (taxid: 9913)

>sp|Q7TP17|U2AF4_RAT Splicing factor U2AF 26 kDa subunit OS=Rattus norvegicus GN=U2af1l4 PE=2 SV=1

 Score =  211 bits (538), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 100/125 (80%), Positives = 111/125 (88%), Gaps = 2/125 (1%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEHYDNFFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAE+AV +LNNR
Sbjct: 74  VQEHYDNFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAERAVAELNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSR--RKR 118
           WF G+ V+AELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PISR LRR LY R  R R
Sbjct: 134 WFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPISRNLRRQLYGRGPRHR 193

Query: 119 SSRRS 123
           S  RS
Sbjct: 194 SPPRS 198

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Rattus norvegicus (taxid: 10116)

>sp|Q8BGJ9|U2AF4_MOUSE Splicing factor U2AF 26 kDa subunit OS=Mus musculus GN=U2af1l4 PE=1 SV=1

 Score =  211 bits (538), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 100/125 (80%), Positives = 111/125 (88%), Gaps = 2/125 (1%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEHYDNFFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAE+AV +LNNR
Sbjct: 74  VQEHYDNFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAERAVAELNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSR--RKR 118
           WF G+ V+AELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PISR LRR LY R  R R
Sbjct: 134 WFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPISRNLRRQLYGRGPRHR 193

Query: 119 SSRRS 123
           S  RS
Sbjct: 194 SPPRS 198

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. It can functionally substitute for U2AF1 in constitutive splicing and enhancer-dependent splicing. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Mus musculus (taxid: 10090)

>sp|Q3T127|U2AF4_BOVIN Splicing factor U2AF 26 kDa subunit OS=Bos taurus GN=U2AF1L4 PE=2 SV=1

 Score =  207 bits (527), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 94/113 (83%), Positives = 106/113 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEHYDNFFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAE+AV +LNNR
Sbjct: 74  VQEHYDNFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAERAVVELNNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WF G+ V+AELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PISR+LRR LY
Sbjct: 134 WFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPISRDLRRQLY 186

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Bos taurus (taxid: 9913)

>sp|Q8WU68|U2AF4_HUMAN Splicing factor U2AF 26 kDa subunit OS=Homo sapiens GN=U2AF1L4 PE=1 SV=2

 Score =  197 bits (500), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 88/113 (77%), Positives = 103/113 (91%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEHYD+FFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREED E+AV +L+NR
Sbjct: 74  VQEHYDSFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDGERAVAELSNR 133

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WF G+ V+ ELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PIS+ L+R LY
Sbjct: 134 WFNGQAVHGELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPISQNLQRQLY 186

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Homo sapiens (taxid: 9606)

>sp|Q09176|U2AF1_SCHPO Splicing factor U2AF 23 kDa subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAP8A3.06 PE=1 SV=2

 Score =  156 bits (394), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 71/118 (60%), Positives = 92/118 (77%), Gaps = 2/118 (1%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           + E +D F+ED+F E   KYGE+E++ VCDN+GDHLVGNVY++F+ EE A+ A++DLN+R
Sbjct: 69  LAEQFDAFYEDMFCEF-SKYGEVEQLVVCDNVGDHLVGNVYVRFKYEESAQNAIDDLNSR 127

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHL-KPISRELRRYLYSRRK 117
           W+  RPVYAELSPVTDFREACCRQ+E  EC R G CNFMH  KP  + LR  + ++RK
Sbjct: 128 WYSQRPVYAELSPVTDFREACCRQHETSECQRGGLCNFMHAKKPSPQLLRDLVLAQRK 185

Necessary for the splicing of pre-mRNA. The SF1-U2AF59-U2AF23 complex has a role in the recognition of the branch site (5'-UACUAAC-3'), the pyrimidine tract and the 3'-splice site at the 3'-end of introns.

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

>sp|Q6AUG0|U2AFB_ORYSJ Splicing factor U2af small subunit B OS=Oryza sativa subsp. japonica GN=U2AF35B PE=2 SV=1

 Score =  150 bits (380), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 67/113 (59%), Positives = 86/113 (76%), Gaps = 1/113 (0%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEH+++F+ED++ E   K+GE+E +NVCDNL DH++GNVY++FR EE A  A N L  R
Sbjct: 74  MQEHFEDFYEDIYEEL-SKFGEVETLNVCDNLADHMIGNVYVQFREEEQAVAAHNALQGR 132

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           ++ GRP+  E SPVTDFREA CRQ+E   C R G+CNFMH+K I RELRR LY
Sbjct: 133 FYSGRPIIVEYSPVTDFREATCRQFEENSCNRGGYCNFMHVKQIGRELRRKLY 185

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	130
156543322	242	PREDICTED: splicing factor U2af 38 kDa s	0.992	0.533	0.930	7e-66
357618954	227	putative U2 snrnp auxiliary factor, smal	0.876	0.502	0.991	2e-62
307172750	240	Splicing factor U2af 38 kDa subunit [Cam	0.869	0.470	0.991	7e-62
307170197	240	Splicing factor U2af 38 kDa subunit [Cam	0.869	0.470	0.991	1e-61
307202736	240	Splicing factor U2af 38 kDa subunit [Har	0.869	0.470	0.991	2e-61
91089827	227	PREDICTED: similar to AGAP002956-PA [Tri	0.869	0.497	0.991	2e-61
328785395	241	PREDICTED: splicing factor U2af 38 kDa s	0.869	0.468	0.991	2e-61
307197303	240	Splicing factor U2af 38 kDa subunit [Har	0.869	0.470	0.982	2e-61
332020538	240	Splicing factor U2af 38 kDa subunit [Acr	0.869	0.470	0.973	4e-61
193613212	249	PREDICTED: splicing factor U2af 38 kDa s	0.869	0.453	0.973	1e-60

>gi|156543322|ref|XP_001606160.1| PREDICTED: splicing factor U2af 38 kDa subunit-like [Nasonia vitripennis]

 Score =  254 bits (649), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 120/129 (93%), Positives = 124/129 (96%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRRKRSS 120
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISR+LRRYLYSR+K   
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRDLRRYLYSRKKGGG 195

Query: 121 RRSSRSRSR 129
           +  SRSRS+
Sbjct: 196 KGRSRSRSK 204

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357618954|gb|EHJ71738.1| putative U2 snrnp auxiliary factor, small subunit [Danaus plexippus]

 Score =  243 bits (620), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 113/114 (99%), Positives = 114/114 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR
Sbjct: 77  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 136

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYS 114
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY+
Sbjct: 137 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYA 190

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307172750|gb|EFN64036.1| Splicing factor U2af 38 kDa subunit [Camponotus floridanus] gi|307174220|gb|EFN64865.1| Splicing factor U2af 38 kDa subunit [Camponotus floridanus]

 Score =  241 bits (615), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 112/113 (99%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVF+ECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFIECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307170197|gb|EFN62583.1| Splicing factor U2af 38 kDa subunit [Camponotus floridanus] gi|332029584|gb|EGI69473.1| Splicing factor U2af 38 kDa subunit [Acromyrmex echinatior]

 Score =  240 bits (613), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 112/113 (99%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307202736|gb|EFN82027.1| Splicing factor U2af 38 kDa subunit [Harpegnathos saltator]

 Score =  240 bits (612), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 112/113 (99%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91089827|ref|XP_969424.1| PREDICTED: similar to AGAP002956-PA [Tribolium castaneum]

 Score =  240 bits (612), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 112/113 (99%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328785395|ref|XP_397281.4| PREDICTED: splicing factor U2af 38 kDa subunit [Apis mellifera] gi|340723033|ref|XP_003399903.1| PREDICTED: splicing factor U2af 38 kDa subunit-like [Bombus terrestris] gi|350423714|ref|XP_003493568.1| PREDICTED: splicing factor U2af 38 kDa subunit-like [Bombus impatiens] gi|380029135|ref|XP_003698237.1| PREDICTED: splicing factor U2af 38 kDa subunit-like [Apis florea] gi|383858860|ref|XP_003704917.1| PREDICTED: splicing factor U2af 38 kDa subunit-like [Megachile rotundata]

 Score =  240 bits (612), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 112/113 (99%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307197303|gb|EFN78595.1| Splicing factor U2af 38 kDa subunit [Harpegnathos saltator]

 Score =  239 bits (611), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 111/113 (98%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVF+ECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFIECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 188

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020538|gb|EGI60953.1| Splicing factor U2af 38 kDa subunit [Acromyrmex echinatior]

 Score =  238 bits (608), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 110/113 (97%), Positives = 113/113 (100%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVF+ECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAE+AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFIECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAERAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISR+LRRYLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRDLRRYLY 188

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193613212|ref|XP_001950331.1| PREDICTED: splicing factor U2af 38 kDa subunit-like isoform 1 [Acyrthosiphon pisum]

 Score =  237 bits (604), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 110/113 (97%), Positives = 111/113 (98%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREE AE AVNDLNNR
Sbjct: 76  MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEHAEAAVNDLNNR 135

Query: 61  WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY 113
           WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELR+YLY
Sbjct: 136 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRKYLY 188

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

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	130
FB|FBgn0017457	264	U2af38 "U2 small nuclear ribop	0.8	0.393	0.961	7.8e-55
UNIPROTKB|Q98SE2	237	U2AF1 "U2snRNP auxiliary facto	0.8	0.438	0.875	1.7e-50
UNIPROTKB|A1A4K8	237	U2AF1 "Splicing factor U2AF 35	0.8	0.438	0.875	1.7e-50
UNIPROTKB|F1PUP0	240	U2AF1 "Uncharacterized protein	0.8	0.433	0.875	1.7e-50
UNIPROTKB|J9P492	240	U2AF1 "Uncharacterized protein	0.8	0.433	0.875	1.7e-50
UNIPROTKB|Q01081	240	U2AF1 "Splicing factor U2AF 35	0.8	0.433	0.875	1.7e-50
MGI|MGI:98884	239	U2af1 "U2 small nuclear ribonu	0.8	0.435	0.875	1.7e-50
ZFIN|ZDB-GENE-020419-1	250	u2af1 "U2(RNU2) small nuclear	0.8	0.416	0.855	1.5e-49
UNIPROTKB|F1PU17	220	U2AF1L4 "Uncharacterized prote	0.8	0.472	0.836	1.8e-48
UNIPROTKB|F1RM65	232	U2AF1L4 "Uncharacterized prote	0.8	0.448	0.836	1.8e-48

FB|FBgn0017457 U2af38 "U2 small nuclear riboprotein auxiliary factor 38" [Drosophila melanogaster (taxid:7227)]

 Score = 566 (204.3 bits), Expect = 7.8e-55, P = 7.8e-55
 Identities = 100/104 (96%), Positives = 101/104 (97%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFR E DAEKA NDLNNR
Sbjct:    76 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRNEADAEKAANDLNNR 135

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WFGGRPVY+ELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI
Sbjct:   136 WFGGRPVYSELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 179

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

GO:0005686 "U2 snRNP" evidence=NAS;TAS

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

GO:0005681 "spliceosomal complex" evidence=ISS

GO:0005634 "nucleus" evidence=IC;NAS

GO:0003729 "mRNA binding" evidence=ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0071011 "precatalytic spliceosome" evidence=IDA

GO:0008380 "RNA splicing" evidence=IMP

UNIPROTKB|Q98SE2 U2AF1 "U2snRNP auxiliary factor small subunit" [Gallus gallus (taxid:9031)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0050733 "RS domain binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

UNIPROTKB|A1A4K8 U2AF1 "Splicing factor U2AF 35 kDa subunit" [Bos taurus (taxid:9913)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0016607 "nuclear speck" evidence=ISS

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0050733 "RS domain binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1PUP0 U2AF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9P492 U2AF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q01081 U2AF1 "Splicing factor U2AF 35 kDa subunit" [Homo sapiens (taxid:9606)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0050733 "RS domain binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0016607 "nuclear speck" evidence=ISS

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

GO:0006397 "mRNA processing" evidence=TAS

GO:0015030 "Cajal body" evidence=TAS

GO:0005681 "spliceosomal complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

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

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

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

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

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

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

MGI|MGI:98884 U2af1 "U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 1" [Mus musculus (taxid:10090)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 91/104 (87%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct:    74 MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   134 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0016607 "nuclear speck" evidence=IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0050733 "RS domain binding" evidence=IPI

GO:0071013 "catalytic step 2 spliceosome" evidence=ISO

ZFIN|ZDB-GENE-020419-1 u2af1 "U2(RNU2) small nuclear RNA auxiliary factor 1" [Danio rerio (taxid:7955)]

 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 89/104 (85%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             M+EHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV +LNNR
Sbjct:    73 MREHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVINLNNR 132

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+P++AELSPVTDFREACCRQYEMGECTR GFCNFMHLKPI
Sbjct:   133 WFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPI 176

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1PU17 U2AF1L4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 506 (183.2 bits), Expect = 1.8e-48, P = 1.8e-48
 Identities = 87/104 (83%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             +QEHYDNFFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAE+AV +LNNR
Sbjct:    74 VQEHYDNFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAERAVAELNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+ V+AELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PI
Sbjct:   134 WFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPI 177

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RM65 U2AF1L4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 506 (183.2 bits), Expect = 1.8e-48, P = 1.8e-48
 Identities = 87/104 (83%), Positives = 98/104 (94%)

Query:     1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
             +QEHYDNFFE+VF E ++KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAE+AV +LNNR
Sbjct:    74 VQEHYDNFFEEVFTELQEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAERAVAELNNR 133

Query:    61 WFGGRPVYAELSPVTDFREACCRQYEMGECTRSGFCNFMHLKPI 104
             WF G+ V+AELSPVTDFRE+CCRQYEMGECTR GFCNFMHL+PI
Sbjct:   134 WFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFCNFMHLRPI 177

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94535	U2AF1_DROME	No assigned EC number	0.9646	0.8692	0.4280	yes	N/A
Q01081	U2AF1_HUMAN	No assigned EC number	0.8761	0.8692	0.4708	yes	N/A
A1A4K8	U2AF1_BOVIN	No assigned EC number	0.8761	0.8692	0.4767	yes	N/A
Q09176	U2AF1_SCHPO	No assigned EC number	0.6016	0.8923	0.5370	yes	N/A
Q6AUG0	U2AFB_ORYSJ	No assigned EC number	0.5929	0.8615	0.3684	yes	N/A
Q9D883	U2AF1_MOUSE	No assigned EC number	0.8761	0.8692	0.4728	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	130
cd12538	104	cd12538, RRM_U2AF35, RNA recognition motif in U2 s	8e-56
cd12287	102	cd12287, RRM_U2AF35_like, RNA recognition motif in	3e-38
cd12539	103	cd12539, RRM_U2AF35B, RNA recognition motif in spl	4e-32
cd12540	105	cd12540, RRM_U2AFBPL, RNA recognition motif in U2	2e-17
cd12285	85	cd12285, RRM3_RBM39_like, RNA recognition motif 3	6e-15
smart00361	70	smart00361, RRM_1, RNA recognition motif	8e-15
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	2e-11
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-09
cd12282	91	cd12282, RRM2_TatSF1_like, RNA recognition motif 2	2e-08
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	3e-08
cd12374	85	cd12374, RRM_UHM_SPF45_PUF60, RNA recognition moti	4e-07
smart00360	73	smart00360, RRM, RNA recognition motif	7e-07
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-06
cd12647	96	cd12647, RRM_UHM_SPF45, RNA recognition motif in U	3e-06
cd12648	98	cd12648, RRM3_UHM_PUF60, RNA recognition motif 3 i	4e-06
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	6e-06
cd12438	98	cd12438, RRM_CNOT4, RNA recognition motif in Eukar	8e-05
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-04
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	0.001
TIGR01645	612	TIGR01645, half-pint, poly-U binding splicing fact	0.001
cd12619	75	cd12619, RRM2_PUB1, RNA recognition motif 2 in yea	0.001
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	0.002
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	0.002
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	0.002
cd12353	75	cd12353, RRM2_TIA1_like, RNA recognition motif 2 i	0.004
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	0.004
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	0.004

>gnl|CDD|240982 cd12538, RRM_U2AF35, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

 Score =  169 bits (429), Expect = 8e-56
 Identities = 63/73 (86%), Positives = 70/73 (95%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEH+D F+EDVFVE E+KYGEIEEMNVCDNLGDHLVGNVY+KFRREEDAEKAVNDLNNR
Sbjct: 32  LQEHFDEFYEDVFVELEEKYGEIEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVNDLNNR 91

Query: 61  WFGGRPVYAELSP 73
           WF G+P+YAELSP
Sbjct: 92  WFNGQPIYAELSP 104

This subgroup corresponds to the RRM of U2AF35, also termed U2AF1, which is one of the small subunits of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF). It has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. 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 (also termed U2AF2). U2AF35 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. U2AF35 binds both U2AF65 and the pre-mRNA through its RRM domain. . Length = 104

>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 =  124 bits (313), Expect = 3e-38
 Identities = 46/73 (63%), Positives = 60/73 (82%), Gaps = 1/73 (1%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +QEH+D F+EDVF+E   ++GEIE++ VCDNLGDHL+GNVY+KF  EEDAE A+  LN R
Sbjct: 31  IQEHFDEFYEDVFLELS-RFGEIEDLVVCDNLGDHLLGNVYVKFETEEDAEAALQALNGR 89

Query: 61  WFGGRPVYAELSP 73
           ++ GRP+Y ELSP
Sbjct: 90  YYAGRPLYPELSP 102

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|240983 cd12539, RRM_U2AF35B, RNA recognition motif in splicing factor U2AF 35 kDa subunit B (U2AF35B)

 Score =  108 bits (273), Expect = 4e-32
 Identities = 41/72 (56%), Positives = 55/72 (76%), Gaps = 1/72 (1%)

Query: 2   QEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW 61
           QEH+++F+ED+F E   K+GE+E +NVCDNLGDH+VGNVY+KFR EE A  A+  L  R+
Sbjct: 33  QEHFEDFYEDIFEEL-SKFGEVEALNVCDNLGDHMVGNVYVKFRDEEHAAAALKALQGRF 91

Query: 62  FGGRPVYAELSP 73
           + GRP+  E SP
Sbjct: 92  YDGRPIIVEFSP 103

This subgroup corresponds to the RRM of U2AF35B, also termed zinc finger CCCH domain-containing protein 60 (C3H60), which is one of the small subunits of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF). It has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. Members in this family are mainly found in plant. They show high sequence homology to vertebrates U2AF35 that 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. U2AF35B 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 domain. 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 = 103

>gnl|CDD|240984 cd12540, RRM_U2AFBPL, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 1 (U2AFBPL) and similar proteins

 Score = 71.5 bits (176), Expect = 2e-17
 Identities = 28/73 (38%), Positives = 44/73 (60%), Gaps = 1/73 (1%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           +   ++ F++DV  E E K+GE+ +  VC N   HL GNVY++++ EE+A  A    N R
Sbjct: 34  LYSDFEEFYDDVLPEFE-KFGEVVQFKVCCNYEPHLRGNVYVQYQSEEEALAAFKMFNGR 92

Query: 61  WFGGRPVYAELSP 73
           W+ G+ +  E SP
Sbjct: 93  WYAGKQLTCEFSP 105

This subgroup corresponds to the RRM of U2AFBPL, a human homolog of the imprinted mouse gene U2afbp-rs, which encodes a U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 1 (U2AFBPL), also termed CCCH type zinc finger, RNA-binding motif and serine/arginine rich protein 1 (U2AF1RS1), or U2 small nuclear RNA auxiliary factor 1-like 1 (U2AF1L1). Although the biological role of U2AFBPL remains unclear, it shows high sequence homology to splicing factor U2AF 35 kDa subunit (U2AF35 or U2AF1) that 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. Like U2AF35, U2AFBPL 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 domain. . Length = 105

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

 Score = 64.5 bits (158), Expect = 6e-15
 Identities = 28/72 (38%), Positives = 37/72 (51%), Gaps = 8/72 (11%)

Query: 6  DNFF----EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW 61
          D +     EDV  EC  K+G +E + V  N      G VY+KF+  E A+K +  LN RW
Sbjct: 18 DEWDDEIKEDVLEECS-KFGPVEHIKVDKN---SPEGVVYVKFKTVEAAQKCIQALNGRW 73

Query: 62 FGGRPVYAELSP 73
          F GR + AE   
Sbjct: 74 FDGRQITAEYVD 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|214637 smart00361, RRM_1, RNA recognition motif

 Score = 64.0 bits (156), Expect = 8e-15
 Identities = 32/70 (45%), Positives = 43/70 (61%), Gaps = 4/70 (5%)

Query: 5  YDNFFEDVFVECEDKYGEIEEMN--VCDNLG--DHLVGNVYIKFRREEDAEKAVNDLNNR 60
           D  FE    E E+ +GE+ ++N    D++G  +H  GNVYI F R EDA +A+ DLN R
Sbjct: 1  KDEDFERELKEEEEYFGEVGKINKIYIDDVGYENHKRGNVYITFERSEDAARAIVDLNGR 60

Query: 61 WFGGRPVYAE 70
          +F GR V AE
Sbjct: 61 YFDGRLVKAE 70

Length = 70

>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 = 55.6 bits (135), Expect = 2e-11
 Identities = 25/69 (36%), Positives = 36/69 (52%), Gaps = 5/69 (7%)

Query: 3  EHYDNFFEDVFVECEDKYGEIEEMNV----CDNLGDHLVGNVYIKFRREEDAEKAVNDLN 58
          E Y+   EDV  EC  KYG++  + +     + +    VG V+++F   EDA+KA   L 
Sbjct: 19 EEYEEILEDVKEECG-KYGKVLSVVIPRPEAEGVDVPGVGKVFVEFADVEDAQKAQLALA 77

Query: 59 NRWFGGRPV 67
           R F GR V
Sbjct: 78 GRKFDGRTV 86

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

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

 Score = 50.4 bits (121), Expect = 2e-09
 Identities = 17/52 (32%), Positives = 27/52 (51%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE 70
          K+GEIE + +  +      G  +++F   EDAEKA+  LN +   GR +   
Sbjct: 21 KFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALNGKELDGRKLKVS 72

RRM, also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs). Length = 72

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

 Score = 48.0 bits (115), Expect = 2e-08
 Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 5/69 (7%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          +D+  ECE K+G+++++ V D    H  G   +KF+  E+A++ +  LN RWF GR + A
Sbjct: 27 DDLREECE-KFGQVKKVVVFD---RHPDGVASVKFKEPEEADRCIEALNGRWFAGRQLEA 82

Query: 70 EL-SPVTDF 77
          E     TD+
Sbjct: 83 ERWDGKTDY 91

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|206064 pfam13893, RRM_5, RNA recognition motif

 Score = 46.7 bits (112), Expect = 3e-08
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 4/54 (7%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
           +G +E++ +         G  +++F  EE AEKAV  LN   FGGRP+  + S
Sbjct: 7  PFGNVEKIKLLKKKP----GFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDYS 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|240820 cd12374, RRM_UHM_SPF45_PUF60, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 44.5 bits (106), Expect = 4e-07
 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 5/71 (7%)

Query: 6  DNFFEDVFVECEDKYGEIEEMNVCDN---LGDHLVGNVYIKFRREEDAEKAVNDLNNRWF 62
          ++  +++  ECE KYG++  + V +      D  V  ++++F   ++A KAV  LN R+F
Sbjct: 17 EDLKDEIEEECE-KYGKVLNVIVHEVASSEADDAV-RIFVEFSDADEAIKAVRALNGRFF 74

Query: 63 GGRPVYAELSP 73
          GGR V A    
Sbjct: 75 GGRKVTARFYD 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|214636 smart00360, RRM, RNA recognition motif

 Score = 43.4 bits (103), Expect = 7e-07
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 19 KYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          K+G++E + +  D       G  +++F  EEDAEKA+  LN +   GRP+ 
Sbjct: 22 KFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLK 72

Length = 73

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

 Score = 43.0 bits (102), Expect = 1e-06
 Identities = 18/50 (36%), Positives = 28/50 (56%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          K+G IE + +  +      G  +++F  EEDAEKA+  LN +  GGR + 
Sbjct: 21 KFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALNGKELGGRELR 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|241091 cd12647, RRM_UHM_SPF45, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 42.3 bits (100), Expect = 3e-06
 Identities = 26/67 (38%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 15 ECEDKYGEIEEMNVCDNLG---DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL 71
          EC  KYG++ ++ + +  G   D     ++++F R E A KAV DLN R+FGGR V A  
Sbjct: 27 ECS-KYGKVTKVLIFEIPGASPDDEAVRIFVEFERVESAIKAVVDLNGRFFGGRTVKASF 85

Query: 72 SPVTDFR 78
               FR
Sbjct: 86 YDEERFR 92

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

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 8/74 (10%)

Query: 10 EDVFVECEDKYGEIE------EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG 63
           +V  EC  K+G +       E    +   + +V  ++++F    +AEKA+  LN RWFG
Sbjct: 21 GEVTEECG-KFGAVNRVIIYQEKQGEEEDAEIIV-KIFVEFSLPSEAEKAIQALNGRWFG 78

Query: 64 GRPVYAELSPVTDF 77
          GR V AEL   T F
Sbjct: 79 GRKVKAELYDQTKF 92

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|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 43.7 bits (103), Expect = 6e-06
 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 10  EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
           +DV  EC  KYG +  + V         G +Y+KF   + A  A   LN R+FGG+ + A
Sbjct: 387 DDVKEECS-KYGGVVHIYVDTKNSA---GKIYLKFSSVDAALAAFQALNGRYFGGKMITA 442

Query: 70  ELSPVTDFREAC 81
                  +  +C
Sbjct: 443 AFVVNDVYDMSC 454

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|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 = 8e-05
 Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 4/55 (7%)

Query: 19 KYGEIE--EMNVCDNLGDHLVGN--VYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          +YG+I+   +N   +       +   Y+ + R+EDA + +  ++  +  GR + A
Sbjct: 31 QYGKIKKIVINRNTSYNGSQGPSASAYVTYSRKEDALRCIQAVDGFYLDGRLLKA 85

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|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 37.1 bits (87), Expect = 2e-04
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           YG++E + +  N  D   G  +++F   EDAE A+  LN     GR + 
Sbjct: 21 PYGKVEGVRLVRN-KDRPRGFAFVEFASPEDAEAALKKLNGLVLDGRTLR 69

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

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

 Score = 37.2 bits (86), Expect = 0.001
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 5/71 (7%)

Query: 3   EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHL----VGNVYIKFRREEDAEKAVNDLN 58
           E Y+  +EDV  E   KYG +  + +    GD      VG V++++     AEKA+  +N
Sbjct: 427 EEYEEIYEDVKTEFS-KYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMN 485

Query: 59  NRWFGGRPVYA 69
            R F  R V A
Sbjct: 486 GRKFNDRVVVA 496

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

 Score = 37.4 bits (86), Expect = 0.001
 Identities = 11/32 (34%), Positives = 20/32 (62%)

Query: 40  VYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL 71
           ++++F    + ++A   L+ R+FGGR V AE 
Sbjct: 568 IFVEFSDSMEVDRAKAALDGRFFGGRTVVAEA 599

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|241063 cd12619, RRM2_PUB1, RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

 Score = 35.2 bits (81), Expect = 0.001
 Identities = 12/27 (44%), Positives = 21/27 (77%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPV 67
          ++ FR ++DAE A+N++N +W G RP+
Sbjct: 45 FVSFRSQQDAENAINEMNGKWLGSRPI 71

This subgroup corresponds to the RRM2 of yeast protein PUB1, also termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein. PUB1 has been identified as both, a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP), which may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. It is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA). However, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 75

>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 = 34.6 bits (80), Expect = 0.002
 Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 10 EDVFVECEDKYGEIEEMNV-CDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          E+   E  + +GEI E+++  D       G  ++ F   E A KA ++L+   F GR ++
Sbjct: 13 EEELRELFEAFGEISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSELDGSIFQGRLLH 72

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

 Score = 34.5 bits (80), Expect = 0.002
 Identities = 14/49 (28%), Positives = 25/49 (51%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
           +G + E+ +         G  +++F  + DAEKA+  +N +   GRPV
Sbjct: 22 PFGFVWEVTIPRKPDGKKKGFAFVQFTSKADAEKAIKGVNGKKIKGRPV 70

This subfamily corresponds to the RRM2 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 76

>gnl|CDD|240826 cd12380, RRM3_I_PABPs, RNA recognition motif 3 found in type I polyadenylate-binding proteins

 Score = 34.5 bits (80), Expect = 0.002
 Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 4/67 (5%)

Query: 7  NFFEDV----FVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF 62
          N  ED+      E   KYG+I    V  +      G  ++ F   E A+KAV +LN +  
Sbjct: 8  NLGEDMDDEKLKELFGKYGKITSAKVMKDDEGKSKGFGFVNFENHEAAQKAVEELNGKEV 67

Query: 63 GGRPVYA 69
           G+ +Y 
Sbjct: 68 NGKKLYV 74

This subfamily corresponds to the RRM3 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

>gnl|CDD|240799 cd12353, RRM2_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins p40-TIA-1 and TIAR

 Score = 33.9 bits (78), Expect = 0.004
 Identities = 11/27 (40%), Positives = 19/27 (70%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPV 67
          ++ F ++EDAE A+  +N +W GGR +
Sbjct: 45 FVSFVKKEDAENAIQSMNGQWLGGRAI 71

This subfamily corresponds to the RRM2 of nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR), both of which are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. TIA-1 and TIAR share high sequence similarity. They are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis. TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both, TIA-1 and TIAR, bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. Length = 75

>gnl|CDD|240859 cd12413, RRM1_RBM28_like, RNA recognition motif 1 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 33.7 bits (78), Expect = 0.004
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 38 GNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          G  Y+ F  EEDA++A+ +     FGGR ++ E +
Sbjct: 42 GFGYVTFALEEDAKRALEEKKKTKFGGRKIHVEFA 76

This subfamily corresponds to the RRM1 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 79

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

 Score = 33.8 bits (78), Expect = 0.004
 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 9/69 (13%)

Query: 7  NFFEDVFVECEDKYGEIEEMNV----CDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF 62
          +    +F     K+GE+E + +     +  G    G  ++ F+    AE A+  LN    
Sbjct: 15 DDLRGIFS----KFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAENALQ-LNGTEL 69

Query: 63 GGRPVYAEL 71
          GGR +   L
Sbjct: 70 GGRKISVSL 78

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	130
KOG2202|consensus	260		100.0
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.7
smart00361	70	RRM_1 RNA recognition motif.	99.66
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.65
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.63
KOG0120|consensus	500		99.59
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.57
KOG0147|consensus	549		99.55
KOG0148|consensus	321		99.47
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.44
KOG1548|consensus	382		99.42
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.39
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.36
KOG1996|consensus	378		99.35
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.23
KOG4207|consensus	256		99.22
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.22
smart00360	71	RRM RNA recognition motif.	99.2
KOG0107|consensus	195		99.18
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.16
smart00362	72	RRM_2 RNA recognition motif.	99.15
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.11
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.11
KOG0113|consensus	335		99.09
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.08
KOG0122|consensus	270		99.07
KOG0127|consensus	678		99.06
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.04
KOG0125|consensus	376		99.02
KOG0124|consensus	544		99.01
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.0
KOG0114|consensus	124		99.0
PLN03120	260	nucleic acid binding protein; Provisional	98.99
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.99
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.96
COG5175	480	MOT2 Transcriptional repressor [Transcription]	98.93
KOG0148|consensus	321		98.9
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.9
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.88
KOG0123|consensus	369		98.85
KOG0130|consensus	170		98.85
KOG0110|consensus	725		98.83
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.83
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.81
KOG0123|consensus	369		98.8
KOG0144|consensus	510		98.79
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.77
PLN03121	243	nucleic acid binding protein; Provisional	98.77
KOG0126|consensus	219		98.76
KOG0108|consensus	435		98.76
KOG4206|consensus	221		98.74
KOG4208|consensus	214		98.73
KOG0145|consensus	360		98.73
PLN03213	759	repressor of silencing 3; Provisional	98.71
KOG0149|consensus	247		98.67
KOG0111|consensus	298		98.64
KOG0121|consensus	153		98.63
KOG0117|consensus	506		98.63
KOG0145|consensus	360		98.63
KOG0117|consensus	506		98.59
KOG0124|consensus	544		98.53
KOG0415|consensus	479		98.51
KOG0127|consensus	678		98.49
KOG0146|consensus	371		98.46
KOG0147|consensus	549		98.43
KOG0131|consensus	203		98.39
KOG0144|consensus	510		98.34
KOG0105|consensus	241		98.32
KOG0109|consensus	346		98.3
KOG4661|consensus	940		98.3
KOG0110|consensus	725		98.21
KOG0131|consensus	203		98.15
KOG0146|consensus	371		98.1
KOG4212|consensus	608		98.07
KOG0153|consensus	377		97.85
KOG0109|consensus	346		97.85
KOG2314|consensus	698		97.84
KOG4209|consensus	231		97.78
KOG4212|consensus	608		97.76
KOG0226|consensus	290		97.75
KOG0533|consensus	243		97.72
KOG0132|consensus	894		97.61
KOG1190|consensus	492		97.59
KOG4660|consensus	549		97.59
KOG4454|consensus	267		97.55
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	97.54
KOG2068|consensus	327		97.48
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.36
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.33
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.29
smart00356	27	ZnF_C3H1 zinc finger.	97.22
PF00642	27	zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si	97.15
KOG0106|consensus	216		96.98
KOG4205|consensus	311		96.95
KOG0106|consensus	216		96.83
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.82
KOG0151|consensus	877		96.45
KOG0116|consensus	419		96.22
KOG4210|consensus	285		95.91
KOG4205|consensus	311		95.87
KOG1456|consensus	494		95.87
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.85
KOG1548|consensus	382		95.82
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	95.8
KOG4285|consensus	350		95.67
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.51
KOG0120|consensus	500		95.44
KOG1365|consensus	508		95.28
KOG1456|consensus	494		95.01
KOG4307|consensus	944		94.94
KOG4211|consensus	510		94.83
KOG1457|consensus	284		94.58
KOG1855|consensus	484		94.39
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	93.48
KOG4211|consensus	510		93.36
KOG1190|consensus	492		93.06
KOG1995|consensus	351		92.23
KOG0128|consensus	881		90.32
KOG0112|consensus	975		89.33
KOG2416|consensus	718		89.11
KOG4574|consensus	1007		88.89
KOG1457|consensus	284		88.22
KOG1040|consensus	325		88.11
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	87.17
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	87.06
PF03439	84	Spt5-NGN: Early transcription elongation factor of	86.74
KOG2494|consensus	331		86.63
KOG2591|consensus	684		86.62
KOG3152|consensus	278		86.29
KOG0115|consensus	275		84.36
KOG2135|consensus	526		84.19
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	83.64
KOG4206|consensus	221		82.87
KOG0128|consensus	881		82.24
KOG1365|consensus	508		81.41
KOG4213|consensus	205		81.21

>KOG2202|consensus

Probab=100.00  E-value=1.7e-38  Score=246.94  Aligned_cols=129  Identities=69%  Similarity=1.194  Sum_probs=121.6

Q ss_pred             ChhhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806          1 MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus         1 ~q~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      +|.+||+|+|||+.|++.|||+|++++|++|..+|++|+|||.|..+++|++|+..|||+||+|+||+++++|+++|++|
T Consensus        74 ~q~~~defyEd~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea  153 (260)
T KOG2202|consen   74 LQRHEDEFYEDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREA  153 (260)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhh
Confidence            58899999999999994499999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcccccCCCCCCCCcceeeecCCCHHHHHHHHhhcccccccCccCCCC
Q psy17806         81 CCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRRKRSSRRSSRSRSR  129 (130)
Q Consensus        81 ~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  129 (130)
                      +|++|+.+.|++|+.|||||++.++++|.+.|++.+.+..+++|+++++
T Consensus       154 ~C~~~e~~~C~rG~~CnFmH~k~~sr~L~r~l~~~~~~~~~~~sra~~~  202 (260)
T KOG2202|consen  154 ICGQFERTECSRGGACNFMHVKRLSRSLRRELYGRQRKRYPRRSRARAR  202 (260)
T ss_pred             hhcccccccCCCCCcCcchhhhhhhHHHHHHhhhhhhcccccccccccc
Confidence            9999999999999999999999999999999999988887666654443

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

Probab=99.70  E-value=5.4e-17  Score=140.63  Aligned_cols=76  Identities=22%  Similarity=0.427  Sum_probs=68.8

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCCC-----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccch
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNLG-----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFR   78 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~~-----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~   78 (130)
                      -.++|++||++|| +|||.|++|.|+.+..     +|..|+|||+|.+.++|.+|++.||||||+||+|.|+|++.++|.
T Consensus       528 ldedl~eDV~eEC-~K~G~V~~v~I~~~~~~~~~~~~~~g~VfV~F~~~~~A~~A~~~LnGR~F~GR~V~a~~yd~~~f~  606 (612)
T TIGR01645       528 IDEFLEGEIREEC-GKFGVVDRVIINFEKQGEEEDAEIIVKIFVEFSDSMEVDRAKAALDGRFFGGRTVVAEAYDQILFD  606 (612)
T ss_pred             hHHHHHHHHHHHh-hcCceeEEEEEecCCCCccccccceEEEEEEECCHHHHHHHHHHhcCCeECCeEEEEEEcCHHHhh
Confidence            3456999999999 7999999999998543     367899999999999999999999999999999999999999997


Q ss_pred             hh
Q psy17806         79 EA   80 (130)
Q Consensus        79 ~a   80 (130)
                      .+
T Consensus       607 ~~  608 (612)
T TIGR01645       607 HA  608 (612)
T ss_pred             cc
Confidence            64

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.

>smart00361 RRM_1 RNA recognition motif

Probab=99.66  E-value=7e-16  Score=98.94  Aligned_cols=64  Identities=45%  Similarity=0.782  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEE-Eee-CCC--CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEE
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMN-VCD-NLG--DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE   70 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~-v~~-~~~--~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~   70 (130)
                      ++|.+.+.++| ++||.|.+|. |.. +.+  ++++|++||+|.+.++|.+|++.|||++|+||+|+|.
T Consensus         3 ~~l~~~~~~~~-~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        3 EDFEREFSEEE-EYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             hhHHHHHHHHH-HhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            56778888899 6999999995 443 333  7899999999999999999999999999999999874

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

Probab=99.65  E-value=3.9e-16  Score=129.68  Aligned_cols=75  Identities=29%  Similarity=0.574  Sum_probs=68.7

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      +.|.+|.+||++|| ++||.|+.|.|+.+   ...|+|||+|.+.++|.+|++.|||++|+||+|.|.|++++.|..+.
T Consensus       380 ~~~~~~~~dv~~e~-~k~G~v~~v~v~~~---~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~~~~~~~~~  454 (457)
T TIGR01622       380 NFDNEILDDVKEEC-SKYGGVVHIYVDTK---NSAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVVNDVYDMSC  454 (457)
T ss_pred             hHHHHHHHHHHHHH-HhcCCeeEEEEeCC---CCceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEcHHHHHhhc
Confidence            46889999999999 79999999999864   35799999999999999999999999999999999999999987653

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.

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

Probab=99.63  E-value=9.4e-16  Score=128.77  Aligned_cols=77  Identities=30%  Similarity=0.495  Sum_probs=69.4

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccch
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFR   78 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~   78 (130)
                      ++|+++.+||+++| ++||.|++|.|+.+..    ....|+|||+|.++++|.+|+..|||++|+||+|.|.|++++.|.
T Consensus       427 ~~~~~~~edl~~~f-~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~~~~~  505 (509)
T TIGR01642       427 EEYEEIYEDVKTEF-SKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGEDCYK  505 (509)
T ss_pred             chHHHHHHHHHHHH-HhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCHHHhh
Confidence            46899999999999 7999999999997532    345799999999999999999999999999999999999999886


Q ss_pred             hh
Q psy17806         79 EA   80 (130)
Q Consensus        79 ~a   80 (130)
                      ..
T Consensus       506 ~~  507 (509)
T TIGR01642       506 AG  507 (509)
T ss_pred             cc
Confidence            53

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

>KOG0120|consensus

Probab=99.59  E-value=3.2e-15  Score=126.69  Aligned_cols=77  Identities=27%  Similarity=0.541  Sum_probs=71.2

Q ss_pred             hhhhHHHHHHHHHHhhccCCceEEEEEeeC-CC---CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          2 QEHYDNFFEDVFVECEDKYGEIEEMNVCDN-LG---DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         2 q~~~d~~~eDi~~e~~skfG~I~~v~v~~~-~~---~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      .++|++|+|||+.|| ++||.|.+|.|+++ ..   ....|+|||+|.+.+++++|+.+|+|+.|+||+|.+.|+++++|
T Consensus       416 d~EyeeIlEdvr~ec-~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDkY  494 (500)
T KOG0120|consen  416 DEEYEEILEDVRTEC-AKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDKY  494 (500)
T ss_pred             hHHHHHHHHHHHHHh-cccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHHh
Confidence            378999999999999 89999999999987 43   34689999999999999999999999999999999999999999


Q ss_pred             hh
Q psy17806         78 RE   79 (130)
Q Consensus        78 ~~   79 (130)
                      ..
T Consensus       495 ~~  496 (500)
T KOG0120|consen  495 HA  496 (500)
T ss_pred             hc
Confidence            64

>PF13893 RRM_5: RNA recognition motif

Probab=99.57  E-value=2.3e-14  Score=87.69  Aligned_cols=56  Identities=30%  Similarity=0.636  Sum_probs=50.8

Q ss_pred             HHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         12 VFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        12 i~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |++.| ++||+|.+|.+..+.    .|.+||+|.+.++|..|++.|||++|+|++|.|+|+
T Consensus         1 L~~~f-~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLF-SKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHH-TTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHh-CCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            57789 799999999998763    599999999999999999999999999999999985

(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 ....

>KOG0147|consensus

Probab=99.55  E-value=8.4e-15  Score=123.98  Aligned_cols=71  Identities=34%  Similarity=0.589  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      .+|.|||.+|| +|||+|..|.|..+.    .|+|||+|.+.+.|..|+++|||+||+||.|++.|.|++.|....
T Consensus       464 ~eI~edV~Eec-~k~g~v~hi~vd~ns----~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~F  534 (549)
T KOG0147|consen  464 QEIREDVIEEC-GKHGKVCHIFVDKNS----AGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKF  534 (549)
T ss_pred             hHHHHHHHHHH-HhcCCeeEEEEccCC----CceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhC
Confidence            57999999999 799999999999874    499999999999999999999999999999999999999987543

>KOG0148|consensus

Probab=99.47  E-value=1.4e-13  Score=108.86  Aligned_cols=103  Identities=18%  Similarity=0.346  Sum_probs=83.8

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh-------
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA-------   80 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a-------   80 (130)
                      .|+|++.| .+||+|.+.+|+++. +.+++|++||.|.+.++|+.||..|||.|+++|.|+..++.....++.       
T Consensus        76 ~e~lr~aF-~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfd  154 (321)
T KOG0148|consen   76 NEKLREAF-APFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFD  154 (321)
T ss_pred             hHHHHHHh-ccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHH
Confidence            48899999 799999999999875 689999999999999999999999999999999999999954432221       


Q ss_pred             -hhcccccCCCCCCCCcceeeecCCCHHHHHHHHhh
Q psy17806         81 -CCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSR  115 (130)
Q Consensus        81 -~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l~~~  115 (130)
                       +-+|....+|+  -+|.-+-- .++++|++++|..
T Consensus       155 eV~NQssp~Nts--VY~G~I~~-~lte~~mr~~Fs~  187 (321)
T KOG0148|consen  155 EVYNQSSPDNTS--VYVGNIAS-GLTEDLMRQTFSP  187 (321)
T ss_pred             HHhccCCCCCce--EEeCCcCc-cccHHHHHHhccc
Confidence             23454455676  57765332 6899999999974

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.44  E-value=5.6e-13  Score=107.01  Aligned_cols=69  Identities=14%  Similarity=0.264  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +.-.++|++.| ++||.|.+++|+.+. ++.++|++||+|.+.++|.+|+..|||..|+||+|.|+|....
T Consensus       280 ~~~e~~L~~~F-~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~  349 (352)
T TIGR01661       280 DTDETVLWQLF-GPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK  349 (352)
T ss_pred             CCCHHHHHHHH-HhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence            34568899999 799999999999876 6889999999999999999999999999999999999998543

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

>KOG1548|consensus

Probab=99.42  E-value=4.6e-13  Score=108.65  Aligned_cols=70  Identities=33%  Similarity=0.706  Sum_probs=63.1

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCccch
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDFR   78 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~f~   78 (130)
                      ..++.+||.++| .+||.|.+|.|+..   |+.|.|-|.|.+.++|..|++.|+||||+||+|+|+++ ..++|.
T Consensus       286 ~~dlkedl~eec-~K~G~v~~vvv~d~---hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~t~~~  356 (382)
T KOG1548|consen  286 LNDLKEDLTEEC-EKFGQVRKVVVYDR---HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGKTKFQ  356 (382)
T ss_pred             HHHHHHHHHHHH-HHhCCcceEEEecc---CCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCcceee
Confidence            356889999999 69999999999984   77899999999999999999999999999999999999 445554

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

Probab=99.39  E-value=2.6e-12  Score=93.41  Aligned_cols=67  Identities=13%  Similarity=0.235  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +.-.+||++.| ++||.|.++.|+.+. +++++|++||+|.+.++|++|++.|||..++|++|.|++..
T Consensus        45 ~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         45 GTDDASLRDAF-AHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             CCCHHHHHHHH-hcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            34578999999 799999999999865 57899999999999999999999999999999999999983

>PF00076 RRM_1: RNA recognition motif

Probab=99.36  E-value=6.8e-12  Score=78.12  Aligned_cols=60  Identities=32%  Similarity=0.501  Sum_probs=55.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEE
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY   68 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~   68 (130)
                      ..++|++.| ++||.|..+.+..+..++..|++||+|.+.++|.+|++.|||..++|++|+
T Consensus        11 t~~~l~~~f-~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen   11 TEEELRDFF-SQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             SHHHHHHHH-HTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CHHHHHHHH-HHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            458999999 799999999999977788999999999999999999999999999999985

(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 ....

>KOG1996|consensus

Probab=99.35  E-value=1.6e-12  Score=104.03  Aligned_cols=75  Identities=31%  Similarity=0.544  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCC--CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLG--DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~--~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      -++|.+++++|| .|||+|..|.|....+  .+-...+||+|+..++|.+|+-.||||||+||.+.+.|+++++|+..
T Consensus       296 d~elede~keEc-eKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs~~  372 (378)
T KOG1996|consen  296 DEELEDETKEEC-EKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFSNL  372 (378)
T ss_pred             cHHHHHHHHHHH-HhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhhhh
Confidence            468899999999 5999999999997543  45667999999999999999999999999999999999999999743

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.23  E-value=1.2e-10  Score=73.41  Aligned_cols=61  Identities=26%  Similarity=0.417  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEE
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY   68 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~   68 (130)
                      .-.+||.+.| +.||.|..+.+..+..+..+|.+||+|.++++|.+|++.++|.+++||.|.
T Consensus        10 ~~~~~l~~~f-~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen   10 TTEEDLRNFF-SRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             --HHHHHHHC-TTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCHHHHHHHH-HhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            3458999999 799999999999976677899999999999999999999999999999884

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 ....

>KOG4207|consensus

Probab=99.22  E-value=9.2e-12  Score=95.65  Aligned_cols=66  Identities=18%  Similarity=0.394  Sum_probs=60.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...-+||+..| .|||.|-+|.|+.+. +..++||+||.|....+|+.|+.+|+|..++||.|.|+++
T Consensus        24 RTspd~LrrvF-ekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a   90 (256)
T KOG4207|consen   24 RTSPDDLRRVF-EKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA   90 (256)
T ss_pred             cCCHHHHHHHH-HHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence            34458999999 599999999999875 6789999999999999999999999999999999999887

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.22  E-value=5.7e-11  Score=95.40  Aligned_cols=67  Identities=25%  Similarity=0.346  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +.-.+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..+.|++|.+.++.
T Consensus        14 ~~~e~~l~~~F-~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~   81 (352)
T TIGR01661        14 TMTQEEIRSLF-TSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR   81 (352)
T ss_pred             CCCHHHHHHHH-HccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence            34568999999 799999999999864 57889999999999999999999999999999999999873

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

>smart00360 RRM RNA recognition motif

Probab=99.20  E-value=1.2e-10  Score=70.82  Aligned_cols=62  Identities=31%  Similarity=0.494  Sum_probs=55.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEE
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE   70 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~   70 (130)
                      -.+||+..| ++||.|..+.+..+. ++.++|++||+|.+.++|..|++.|+|..++|+.|.++
T Consensus         9 ~~~~l~~~f-~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        9 TEEELRELF-SKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CHHHHHHHH-HhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            357899999 699999999999865 36788999999999999999999999999999999863

>KOG0107|consensus

Probab=99.18  E-value=4.2e-11  Score=89.78  Aligned_cols=63  Identities=27%  Similarity=0.350  Sum_probs=58.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-..||..+| ++||.|.+|+|..++    .|||||+|+++.+|..|+..|||+.+.|..|.|+++..
T Consensus        22 a~k~eLE~~F-~~yG~lrsvWvArnP----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G   84 (195)
T KOG0107|consen   22 ATKRELERAF-SKYGPLRSVWVARNP----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG   84 (195)
T ss_pred             cchHHHHHHH-HhcCcceeEEEeecC----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence            4567899999 899999999999964    59999999999999999999999999999999999843

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

Probab=99.16  E-value=1.2e-10  Score=99.62  Aligned_cols=68  Identities=25%  Similarity=0.390  Sum_probs=62.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      ..++|++.| ++||.|.++.|..+.++.++|++||+|.+.++|.+|+..|||++++|++|.|.++....
T Consensus       298 ~~~~L~~~F-~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~  365 (562)
T TIGR01628       298 TDEKLRELF-SECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKE  365 (562)
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcH
Confidence            458899999 79999999999998778899999999999999999999999999999999999986543

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

>smart00362 RRM_2 RNA recognition motif

Probab=99.15  E-value=3.2e-10  Score=69.23  Aligned_cols=61  Identities=36%  Similarity=0.556  Sum_probs=55.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEE
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE   70 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~   70 (130)
                      -.+||++.| .+||.|..+.+..+. +.+.|.+||+|.+.++|.+|++.|+|..++|++|.+.
T Consensus        12 ~~~~l~~~~-~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362       12 TEEDLKELF-SKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CHHHHHHHH-HhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            357899999 699999999999866 6678999999999999999999999999999999863

>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=99.11  E-value=8.5e-10  Score=67.66  Aligned_cols=63  Identities=33%  Similarity=0.563  Sum_probs=57.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      -.++|++.| ..||.|..+.+.........|.+||+|.+.++|..|++.++|..++|+.|.+.+
T Consensus        12 ~~~~i~~~~-~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590          12 TEEDLRELF-SKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CHHHHHHHH-HhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            357899999 699999999999876556789999999999999999999999999999999864

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).

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.11  E-value=1.6e-10  Score=94.83  Aligned_cols=68  Identities=15%  Similarity=0.270  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ++...++|++.| ++||.|++|+|+.+. +++++|++||+|.++++|.+|++.|||..+.+++|.+.++.
T Consensus       117 ~~~te~~L~~lF-~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~  185 (346)
T TIGR01659       117 QDMTDRELYALF-RTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYAR  185 (346)
T ss_pred             CCCCHHHHHHHH-HhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccc
Confidence            345678999999 799999999999764 57889999999999999999999999999999999999874

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).

>KOG0113|consensus

Probab=99.09  E-value=2.8e-10  Score=91.16  Aligned_cols=68  Identities=22%  Similarity=0.439  Sum_probs=63.8

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .|+.-+.+|+.+| ++||.|+.|.|+.+ .++.++|+|||+|+++.+...|.+..+|..++||.|.|++-
T Consensus       110 nydT~EskLrreF-~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE  178 (335)
T KOG0113|consen  110 NYDTSESKLRREF-EKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE  178 (335)
T ss_pred             cccccHHHHHHHH-HhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence            5777889999999 69999999999998 47899999999999999999999999999999999999987

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

Probab=99.08  E-value=9.5e-10  Score=93.14  Aligned_cols=62  Identities=21%  Similarity=0.232  Sum_probs=56.5

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..++|++.| +.||.|.+|+|+.+.    +|++||+|.+.++|..|+..|||..+.|++|.|.++..
T Consensus       289 t~~~L~~lF-~~yG~V~~vki~~~~----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~  350 (481)
T TIGR01649       289 NCDRLFNLF-CVYGNVERVKFMKNK----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ  350 (481)
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence            457899999 799999999999863    69999999999999999999999999999999999843

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).

>KOG0122|consensus

Probab=99.07  E-value=4.6e-10  Score=87.86  Aligned_cols=66  Identities=20%  Similarity=0.258  Sum_probs=60.2

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -++||.+.| .+||.|..|.|.++. ++.++|++||.|.+.++|++|+..|||.-|+.-.|.|+|+..
T Consensus       202 ~E~dL~eLf-~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP  268 (270)
T KOG0122|consen  202 REDDLEELF-RPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP  268 (270)
T ss_pred             ChhHHHHHh-hccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence            357887778 699999999999976 688999999999999999999999999999999999999843

>KOG0127|consensus

Probab=99.06  E-value=3.8e-10  Score=96.40  Aligned_cols=70  Identities=23%  Similarity=0.451  Sum_probs=65.0

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCccchhh
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDFREA   80 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~f~~a   80 (130)
                      .||+..| ++||.|..|.||+...+.+.|++||.|....+|..|++.|||..++||+|-|+|+ +.+.|..+
T Consensus       132 ~dLk~vF-s~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~t  202 (678)
T KOG0127|consen  132 PDLKNVF-SNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDT  202 (678)
T ss_pred             HHHHHHH-hhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccccccccc
Confidence            5899999 8999999999999888889999999999999999999999999999999999999 77777653

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.04  E-value=1.1e-09  Score=89.78  Aligned_cols=68  Identities=24%  Similarity=0.366  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|+.+.|+.+. +++++|++||+|.+.++|.+|++.|||..+.|  ++|.|.++.+.
T Consensus       205 vtee~L~~~F-~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       205 ITDDQLDTIF-GKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH  275 (346)
T ss_pred             ccHHHHHHHH-HhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence            3468999999 799999999999765 57889999999999999999999999999976  79999998554

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).

>KOG0125|consensus

Probab=99.02  E-value=5.7e-10  Score=90.44  Aligned_cols=63  Identities=17%  Similarity=0.295  Sum_probs=57.8

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -||+..| .+||+|++|.|+-|. ..++|++||+|++.+||.+|-.+|||..+.||+|.|.-+.-
T Consensus       111 pDL~aMF-~kfG~VldVEIIfNE-RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa  173 (376)
T KOG0125|consen  111 PDLRAMF-EKFGKVLDVEIIFNE-RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA  173 (376)
T ss_pred             ccHHHHH-HhhCceeeEEEEecc-CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence            5899999 599999999999986 45799999999999999999999999999999999988743

>KOG0124|consensus

Probab=99.01  E-value=7.1e-10  Score=91.36  Aligned_cols=75  Identities=21%  Similarity=0.528  Sum_probs=64.4

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCC-----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLG-----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~-----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      -+++..+|.+|| +|||.|.+|.|.....     ......+||+|....++.+|..+||||||+||.|.++.++...|..
T Consensus       461 De~LegEi~EEC-gKfG~V~rViI~nekq~e~edaeiiVKIFVefS~~~e~~rak~ALdGRfFgGr~VvAE~YDQ~~FD~  539 (544)
T KOG0124|consen  461 DEDLEGEITEEC-GKFGAVNRVIIYNEKQGEEEDAEIIVKIFVEFSIASETHRAKQALDGRFFGGRKVVAEVYDQERFDN  539 (544)
T ss_pred             hhHHHHHHHHHH-hcccceeEEEEEecccccccchhhhheeeeeechhhHHHHHHHhhccceecCceeehhhhhhhcccc
Confidence            356778999999 8999999999996432     2345689999999999999999999999999999999998887754


Q ss_pred             h
Q psy17806         80 A   80 (130)
Q Consensus        80 a   80 (130)
                      +
T Consensus       540 ~  540 (544)
T KOG0124|consen  540 S  540 (544)
T ss_pred             c
Confidence            3

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

Probab=99.00  E-value=1.5e-09  Score=92.84  Aligned_cols=67  Identities=24%  Similarity=0.472  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +..+++|++.| ++||.|.+|+|+++. +++++|++||+|.+.++|.+|+..||+..+.|++|.+.++.
T Consensus        11 ~vte~~L~~~F-~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~   78 (562)
T TIGR01628        11 DVTEAKLYDLF-KPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ   78 (562)
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence            34568999999 799999999999876 47889999999999999999999999999999999999874

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

>KOG0114|consensus

Probab=99.00  E-value=9.8e-10  Score=76.51  Aligned_cols=73  Identities=19%  Similarity=0.325  Sum_probs=62.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCccchhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDFREA   80 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~f~~a   80 (130)
                      |+-.-|++.+.| ++||.|..|+|-..  ...+|-+||.|++..+|.+|+..|+|..+++|.+.|-|+ |...|+..
T Consensus        28 ~~ITseemydlF-Gkyg~IrQIRiG~~--k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~~~~~~  101 (124)
T KOG0114|consen   28 FKITSEEMYDLF-GKYGTIRQIRIGNT--KETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPEDAFKLM  101 (124)
T ss_pred             ccccHHHHHHHh-hcccceEEEEecCc--cCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHHHHHHH
Confidence            445568999999 89999999999754  346899999999999999999999999999999999999 44455433

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.99  E-value=1.3e-09  Score=86.28  Aligned_cols=66  Identities=17%  Similarity=0.110  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ++...+||++.| +.||+|++|.|+.+.  ...|++||+|.++++|..|+. |||..+.||+|.+..++.
T Consensus        14 ~~tTE~dLrefF-S~~G~I~~V~I~~d~--~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120         14 LKATERDIKEFF-SFSGDIEYVEMQSEN--ERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED   79 (260)
T ss_pred             CCCCHHHHHHHH-HhcCCeEEEEEeecC--CCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence            345578999999 799999999999864  357999999999999999995 999999999999998743

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

Probab=98.99  E-value=8.3e-10  Score=96.23  Aligned_cols=67  Identities=18%  Similarity=0.346  Sum_probs=60.3

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |+...++|++.| ++||.|.+|.|+.+. +++++|++||+|.+.++|.+|++.|||..++||.|.+...
T Consensus       117 ~~~tEe~Lr~lF-~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp  184 (612)
T TIGR01645       117 FELREDTIRRAF-DPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  184 (612)
T ss_pred             CCCCHHHHHHHH-HccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence            345578999999 799999999999764 5789999999999999999999999999999999999854

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.

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

Probab=98.96  E-value=3.1e-09  Score=88.40  Aligned_cols=65  Identities=20%  Similarity=0.362  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||.|..|.|+.+. ++..+|++||+|.+.++|.+|+..|||..+.|++|.|.|+.
T Consensus       199 te~~l~~~f-~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       199 TEQELRQIF-EPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            467899999 799999999999765 35889999999999999999999999999999999999974

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=98.93  E-value=2.3e-09  Score=87.60  Aligned_cols=100  Identities=21%  Similarity=0.443  Sum_probs=77.0

Q ss_pred             HhhccCCceEEEEEeeCCC--CCce--eEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhhcccccC-C
Q psy17806         15 ECEDKYGEIEEMNVCDNLG--DHLV--GNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMG-E   89 (130)
Q Consensus        15 e~~skfG~I~~v~v~~~~~--~~~~--G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c~~~~~~-~   89 (130)
                      |++++||+|.+|.|-+...  ....  .=|||+|.+.++|..||.+.+|.+++||.|.|.|- .++|    |..|..+ .
T Consensus       139 eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYG-TTKY----CtsYLRn~~  213 (480)
T COG5175         139 EYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYG-TTKY----CTSYLRNAV  213 (480)
T ss_pred             hhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecC-chHH----HHHHHcCCC
Confidence            4448999999999986431  1122  24699999999999999999999999999999984 6777    9999988 7


Q ss_pred             CCCCCCcceeeecCCCHHHH--HHHHhhccccc
Q psy17806         90 CTRSGFCNFMHLKPISRELR--RYLYSRRKRSS  120 (130)
Q Consensus        90 c~rg~~Cn~lh~~~~~~~l~--~~l~~~~~~~~  120 (130)
                      |+. +.|=|||-..+-.+..  ++|-..|.+..
T Consensus       214 CpN-p~CMyLHEpg~e~Ds~tK~el~n~qh~~~  245 (480)
T COG5175         214 CPN-PDCMYLHEPGPEKDSLTKDELCNSQHKLH  245 (480)
T ss_pred             CCC-CCeeeecCCCcccccccHHHHhhhhhhcc
Confidence            996 7999999876554432  34555544443

>KOG0148|consensus

Probab=98.90  E-value=4.5e-09  Score=83.53  Aligned_cols=60  Identities=23%  Similarity=0.395  Sum_probs=55.7

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .++|++.| +.||.|.+|+|.++     +|++||+|++.|+|..||-.|||..+.|.+|.|.+-.+
T Consensus       178 e~~mr~~F-s~fG~I~EVRvFk~-----qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  178 EDLMRQTF-SPFGPIQEVRVFKD-----QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             HHHHHHhc-ccCCcceEEEEecc-----cceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence            46788899 89999999999986     69999999999999999999999999999999998744

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

Probab=98.90  E-value=7.1e-09  Score=87.23  Aligned_cols=66  Identities=11%  Similarity=0.202  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .-.++|++.| ++||.|..+.|+.+. ++.++|++||+|.+.++|..|+..|||..++|+.|.|.++.
T Consensus       307 ~~~~~l~~~f-~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~  373 (509)
T TIGR01642       307 LGEDQIKELL-ESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC  373 (509)
T ss_pred             CCHHHHHHHH-HhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence            3458899999 699999999998764 57789999999999999999999999999999999999973

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

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

Probab=98.88  E-value=5.9e-09  Score=77.45  Aligned_cols=67  Identities=27%  Similarity=0.448  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...++|++.| .+||.|..+.|..+. ++.++|++||+|.+.++|..|+..|+|..|.|++|.|.+..
T Consensus       126 ~~~~~~l~~~F-~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         126 DVTEEDLRELF-KKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CCCHHHHHHHH-HhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            44578999999 799999999999874 68899999999999999999999999999999999999963

>KOG0123|consensus

Probab=98.85  E-value=9e-09  Score=85.17  Aligned_cols=68  Identities=26%  Similarity=0.488  Sum_probs=60.9

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      .+|++.| +.||+|++++|..+..+ ++|+ ||+|+++++|.+|+..|||..+.|++|.|........+.+
T Consensus        91 ~~~~d~f-~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~  158 (369)
T KOG0123|consen   91 KSLYDTF-SEFGNILSCKVATDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREA  158 (369)
T ss_pred             HHHHHHH-HhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcc
Confidence            6788888 89999999999998766 8999 9999999999999999999999999999998866555544

>KOG0130|consensus

Probab=98.85  E-value=4.4e-09  Score=76.42  Aligned_cols=66  Identities=20%  Similarity=0.329  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +..++||.+.| +.||+|++|++--+. ++-.+|++.|+|++.++|++|+.+|||..+-|.+|.|+|+
T Consensus        83 EatEedi~d~F-~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~  149 (170)
T KOG0130|consen   83 EATEEDIHDKF-ADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC  149 (170)
T ss_pred             chhHHHHHHHH-hhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence            45679999999 799999999998653 6789999999999999999999999999999999999998

>KOG0110|consensus

Probab=98.83  E-value=2.3e-08  Score=87.32  Aligned_cols=105  Identities=16%  Similarity=0.248  Sum_probs=84.2

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCCCC----CceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNLGD----HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~----~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      .|++..+++...| .+.|.|.++.|.....+    .+.|++||+|.++++|+.|++.|+|..++|..|.+.+++ .+- .
T Consensus       524 nf~Tt~e~l~~~F-~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~-~k~-~  600 (725)
T KOG0110|consen  524 NFDTTLEDLEDLF-SKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE-NKP-A  600 (725)
T ss_pred             CcccchhHHHHHH-HhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc-Ccc-c
Confidence            4778889999999 69999999999964322    356999999999999999999999999999999999997 111 1


Q ss_pred             hhhcccccCCCCCCCCcceeeecCCCHHHH----HHHHhh
Q psy17806         80 ACCRQYEMGECTRSGFCNFMHLKPISRELR----RYLYSR  115 (130)
Q Consensus        80 a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~----~~l~~~  115 (130)
                      +.-+    .+|+.-..|+=+||+++|-...    ++||..
T Consensus       601 ~~~g----K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~a  636 (725)
T KOG0110|consen  601 STVG----KKKSKKKKGTKILVRNIPFEATKREVRKLFTA  636 (725)
T ss_pred             cccc----cccccccccceeeeeccchHHHHHHHHHHHhc
Confidence            1111    4677767799999999887654    457765

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

Probab=98.83  E-value=3.2e-08  Score=83.91  Aligned_cols=63  Identities=19%  Similarity=0.268  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh--CCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL--NNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l--nGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+..     +|++||+|.+.++|.+|++.|  |+..+.|++|.|.|+..
T Consensus        13 ~~te~~L~~~f-~~fG~V~~v~i~~~-----k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~   77 (481)
T TIGR01649        13 DVVEADLVEAL-IPFGPVSYVMMLPG-----KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTS   77 (481)
T ss_pred             CCCHHHHHHHH-HhcCCeeEEEEECC-----CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCC
Confidence            44578999999 79999999999863     689999999999999999974  78999999999999853

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

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

Probab=98.81  E-value=1.8e-08  Score=87.55  Aligned_cols=58  Identities=22%  Similarity=0.382  Sum_probs=53.4

Q ss_pred             HHHHHHHHhhccC--CceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKY--GEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skf--G~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++|  |.|++|.+.+       |++||+|.+.++|.+|++.|||..|+|++|.|+++.
T Consensus       246 tee~L~~~F-~~f~~G~I~rV~~~r-------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Ak  305 (578)
T TIGR01648       246 TEEIIEKSF-SEFKPGKVERVKKIR-------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAK  305 (578)
T ss_pred             CHHHHHHHH-HhcCCCceEEEEeec-------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            458899999 799  9999998764       799999999999999999999999999999999993

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.

>KOG0123|consensus

Probab=98.80  E-value=1.4e-08  Score=83.97  Aligned_cols=82  Identities=20%  Similarity=0.348  Sum_probs=70.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhhcccc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYE   86 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c~~~~   86 (130)
                      ....+|++.| +.+|+|++|+||++. . +.|++||.|.++++|.+|+..||...+.|++|.+-++..+.-.        
T Consensus        10 v~e~~l~~~f-~~~~~v~s~rvc~d~-t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~--------   78 (369)
T KOG0123|consen   10 VTEAMLFDKF-SPAGPVLSIRVCRDA-T-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSL--------   78 (369)
T ss_pred             CChHHHHHHh-cccCCceeEEEeecC-C-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCce--------
Confidence            3467889999 899999999999998 5 9999999999999999999999999999999999999554322        


Q ss_pred             cCCCCCCCCcceeeecCCCHHHHHH
Q psy17806         87 MGECTRSGFCNFMHLKPISRELRRY  111 (130)
Q Consensus        87 ~~~c~rg~~Cn~lh~~~~~~~l~~~  111 (130)
                                  +.|+++++++.++
T Consensus        79 ------------~~i~nl~~~~~~~   91 (369)
T KOG0123|consen   79 ------------VFIKNLDESIDNK   91 (369)
T ss_pred             ------------eeecCCCcccCcH
Confidence                        6777777776654

>KOG0144|consensus

Probab=98.79  E-value=1e-08  Score=85.75  Aligned_cols=72  Identities=19%  Similarity=0.307  Sum_probs=62.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe-CC--eeEEEEeccCccchhh
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GG--RPVYAELSPVTDFREA   80 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~G--R~I~v~~~~~~~f~~a   80 (130)
                      .+.||++.| ++||.|+++.|.++..+.++|++||+|.+.+-|..||++|||.+- .|  .||.|.|++..+-+..
T Consensus       137 te~evr~iF-s~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~~  211 (510)
T KOG0144|consen  137 TENEVREIF-SRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKDG  211 (510)
T ss_pred             cHHHHHHHH-HhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCchH
Confidence            457999999 899999999999988888999999999999999999999999864 44  7999999977654433

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

Probab=98.77  E-value=1.7e-08  Score=87.67  Aligned_cols=66  Identities=26%  Similarity=0.345  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC-CeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG-GRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~-GR~I~v~~~   72 (130)
                      +..+++|++.| ++||.|.+++|+.+.++.++|++||+|.+.++|.+|++.|||..+. |+.|.+..+
T Consensus        69 ~~tEd~L~~~F-~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S  135 (578)
T TIGR01648        69 DLYEDELVPLF-EKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS  135 (578)
T ss_pred             CCCHHHHHHHH-HhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence            44578999999 7999999999998877889999999999999999999999999884 787766544

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.

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.77  E-value=3.5e-08  Score=77.33  Aligned_cols=64  Identities=19%  Similarity=0.193  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ....+||++.| +.||+|.+|.|+.+  +...|++||+|.++++|..|+ .|||..+.+++|.+.-++
T Consensus        16 ~tTE~dLrefF-S~~G~I~~V~I~~D--~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~   79 (243)
T PLN03121         16 KATEKDVYDFF-SHCGAIEHVEIIRS--GEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG   79 (243)
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEecC--CCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence            44578999999 89999999999987  345689999999999999999 699999999999998764

>KOG0126|consensus

Probab=98.76  E-value=8e-10  Score=83.58  Aligned_cols=67  Identities=21%  Similarity=0.345  Sum_probs=61.1

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |+..+.||.--| |+||+|++|.+.++. ++.++||+|+.|++..+...|+..|||-.+.||.|.|+..
T Consensus        45 ~~LtEgDil~VF-SqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   45 YELTEGDILCVF-SQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             ccccCCcEEEEe-eccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            555667888888 899999999999876 6899999999999999999999999999999999999865

>KOG0108|consensus

Probab=98.76  E-value=1.5e-08  Score=85.35  Aligned_cols=73  Identities=21%  Similarity=0.289  Sum_probs=66.0

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      .|+-..++|...| +..|.|.+++++.+. ++.++|++|++|.+.++|..|++.|||..+.||+|.|.|...++-
T Consensus        27 p~~~se~~l~~~~-~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~  100 (435)
T KOG0108|consen   27 PYEGSEEQLLSIF-SGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKN  100 (435)
T ss_pred             CCcccHHHHHHHH-hccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccch
Confidence            3677789999999 799999999999765 689999999999999999999999999999999999999865543

>KOG4206|consensus

Probab=98.74  E-value=2.5e-08  Score=77.07  Aligned_cols=67  Identities=18%  Similarity=0.409  Sum_probs=60.2

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -+++..-|...| ++||+|.+|.+...  .+++|-|||.|.+.+.|..|+++|+|..|-|+++.+.|+..
T Consensus        23 ~~elkrsL~~LF-sqfG~ildI~a~kt--~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s   89 (221)
T KOG4206|consen   23 KDELKRSLYLLF-SQFGKILDISAFKT--PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKS   89 (221)
T ss_pred             HHHHHHHHHHHH-HhhCCeEEEEecCC--CCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccC
Confidence            356677777789 89999999999975  57899999999999999999999999999999999999933

>KOG4208|consensus

Probab=98.73  E-value=3e-08  Score=75.97  Aligned_cols=67  Identities=18%  Similarity=0.320  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhccC-CceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          8 FFEDVFVECEDKY-GEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         8 ~~eDi~~e~~skf-G~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +...+..-| .+| |.|..+++.+|. ++.++|++||+|++++.|.-|...||+.-|.|+.|.|.+.|.+
T Consensus        62 ~e~~~~~~~-~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen   62 FETEILNYF-RQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE  130 (214)
T ss_pred             hHHHHhhhh-hhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence            445667777 577 888888888876 6899999999999999999999999999999999999999887

>KOG0145|consensus

Probab=98.73  E-value=3.7e-08  Score=78.35  Aligned_cols=67  Identities=21%  Similarity=0.329  Sum_probs=61.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ..|+++..| +..|+|++++++++. ++++.|++||.|.++++|.+|+..|||-.+..+.|.|.|+...
T Consensus        54 TqdE~rSLF-~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS  121 (360)
T KOG0145|consen   54 TQDELRSLF-GSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS  121 (360)
T ss_pred             CHHHHHHHh-hcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence            357899999 899999999999876 6899999999999999999999999999999999999999553

>PLN03213 repressor of silencing 3; Provisional

Probab=98.71  E-value=3.3e-08  Score=84.19  Aligned_cols=72  Identities=13%  Similarity=0.139  Sum_probs=60.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCH--HHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRRE--EDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~--e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      |+...+||...| +.||.|.+|.|++.. +  +||+||+|.+.  .++.+||..|||..+.||.|.|.-+.+ .|....
T Consensus        20 ydVTEDDLravF-SeFGsVkdVEIpRET-G--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP-~YLeRL   93 (759)
T PLN03213         20 ESVGRDDLLKIF-SPMGTVDAVEFVRTK-G--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE-HYLARL   93 (759)
T ss_pred             CCCCHHHHHHHH-HhcCCeeEEEEeccc-C--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH-HHHHHH
Confidence            455678999999 799999999999543 3  99999999987  689999999999999999999998733 344333

>KOG0149|consensus

Probab=98.67  E-value=2.9e-08  Score=77.36  Aligned_cols=68  Identities=25%  Similarity=0.378  Sum_probs=58.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      |+.-.|+|++-| .+||+|++.+|+.+. +++++|++||+|.+.++|.+|++..| -.+|||...|.++..
T Consensus        22 w~T~~~~l~~yF-eqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   22 WETHKETLRRYF-EQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL   90 (247)
T ss_pred             cccchHHHHHHH-HHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence            445568999999 599999999888765 68999999999999999999998766 458999999998855

>KOG0111|consensus

Probab=98.64  E-value=3.6e-08  Score=76.75  Aligned_cols=69  Identities=20%  Similarity=0.358  Sum_probs=57.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +.-|-|....+-.||.|.+|.+|.+- +.+-+|++||+|...|+|.+||..||+..+-||.|+|.|+-..
T Consensus        21 eVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~   90 (298)
T KOG0111|consen   21 EVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE   90 (298)
T ss_pred             HHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence            34444443333799999999999764 4677999999999999999999999999999999999999443

>KOG0121|consensus

Probab=98.63  E-value=9e-08  Score=68.97  Aligned_cols=76  Identities=22%  Similarity=0.386  Sum_probs=63.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhhcccc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYE   86 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c~~~~   86 (130)
                      .+|.|++.| ++-|.|..|.+--+. +..+-|+.||+|.+.++|..|++.+||..++.|+|.+++-+-  |.++  +||-
T Consensus        49 tEEqiyELF-s~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~G--F~eG--RQyG  123 (153)
T KOG0121|consen   49 TEEQIYELF-SKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAG--FVEG--RQYG  123 (153)
T ss_pred             cHHHHHHHH-HhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecccc--chhh--hhhc
Confidence            468899999 899999999998664 345789999999999999999999999999999999998643  4443  4554


Q ss_pred             cC
Q psy17806         87 MG   88 (130)
Q Consensus        87 ~~   88 (130)
                      .|
T Consensus       124 RG  125 (153)
T KOG0121|consen  124 RG  125 (153)
T ss_pred             CC
Confidence            33

>KOG0117|consensus

Probab=98.63  E-value=8.2e-08  Score=80.59  Aligned_cols=66  Identities=24%  Similarity=0.392  Sum_probs=60.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEe-CCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~GR~I~v~~~   72 (130)
                      |.+++||...| .+-|+|-++++..+ -++..+|++||+|.+.++|+.|++.||+..+ .|+.|.|..+
T Consensus        94 D~~EdeLvplf-EkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S  161 (506)
T KOG0117|consen   94 DVFEDELVPLF-EKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS  161 (506)
T ss_pred             cccchhhHHHH-HhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe
Confidence            56778999999 59999999999987 5788999999999999999999999999987 8999998875

>KOG0145|consensus

Probab=98.63  E-value=1.3e-07  Score=75.28  Aligned_cols=62  Identities=15%  Similarity=0.310  Sum_probs=57.4

Q ss_pred             HHHHHhhccCCceEEEEEeeCCC-CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806         11 DVFVECEDKYGEIEEMNVCDNLG-DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus        11 Di~~e~~skfG~I~~v~v~~~~~-~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -+++.| +.||.|..|+|.++.+ .+-+|++||...+-++|..|+..|||..+++|.|+|.|-.
T Consensus       294 ~LWQlF-gpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKt  356 (360)
T KOG0145|consen  294 ILWQLF-GPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKT  356 (360)
T ss_pred             HHHHHh-CcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEec
Confidence            478888 8999999999999864 7889999999999999999999999999999999999863

>KOG0117|consensus

Probab=98.59  E-value=1.5e-07  Score=79.04  Aligned_cols=60  Identities=25%  Similarity=0.455  Sum_probs=53.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVT   75 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~   75 (130)
                      ..|-|+++| ++||.|+.|+.+++       ++||.|.+.++|.+|++.|||..++|.+|-|.++ |+.
T Consensus       272 TeE~lk~~F-~~~G~veRVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~  332 (506)
T KOG0117|consen  272 TEETLKKLF-NEFGKVERVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVD  332 (506)
T ss_pred             hHHHHHHHH-HhccceEEeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChh
Confidence            456677778 79999999999864       9999999999999999999999999999999999 443

>KOG0124|consensus

Probab=98.53  E-value=8.1e-08  Score=79.38  Aligned_cols=62  Identities=19%  Similarity=0.363  Sum_probs=56.1

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      ++-|+..| ..||.|++|.+..++ +.+-+|++||+|+-+|.|+.|++.|||..++||-|.|..
T Consensus       127 EDtiR~AF-~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr  189 (544)
T KOG0124|consen  127 EDTIRRAF-DPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR  189 (544)
T ss_pred             hHHHHhhc-cCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence            45578888 799999999999765 688999999999999999999999999999999998874

>KOG0415|consensus

Probab=98.51  E-value=1.7e-07  Score=77.07  Aligned_cols=95  Identities=19%  Similarity=0.361  Sum_probs=76.8

Q ss_pred             HHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCcc--chhhhh---
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTD--FREACC---   82 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~--f~~a~c---   82 (130)
                      |||.-.| |.||+|.++.|.++. ++.+.-++||+|++.++..+|.-.|++-.++.|.|+|+|+ ++.+  |+..--   
T Consensus       254 eDLeiIF-SrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk~k~r~k~~~~~  332 (479)
T KOG0415|consen  254 EDLEIIF-SRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSKVKYRQKGSQKE  332 (479)
T ss_pred             cchhhHH-hhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhhhhccccccccc
Confidence            6788888 899999999999864 5667789999999999999999999999999999999999 4544  543321   


Q ss_pred             cccccCCCCCCCCcceeeecCCC
Q psy17806         83 RQYEMGECTRSGFCNFMHLKPIS  105 (130)
Q Consensus        83 ~~~~~~~c~rg~~Cn~lh~~~~~  105 (130)
                      ..+-...|..|..-+|.|-.++.
T Consensus       333 ~d~~~~d~~~~~~~k~~~kd~~~  355 (479)
T KOG0415|consen  333 TDHRAKDCVGGPSSKFIHKDQNR  355 (479)
T ss_pred             cchhhhccccCCcccchhccCCC
Confidence            11222379998999999986654

>KOG0127|consensus

Probab=98.49  E-value=2.9e-07  Score=79.02  Aligned_cols=68  Identities=19%  Similarity=0.384  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHh-----CC-CEeCCeeEEEEec
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDL-----NN-RWFGGRPVYAELS   72 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~l-----nG-r~f~GR~I~v~~~   72 (130)
                      .||...|+|.++| ++||+|.-+.|+.+. ++|++|.+||.|.++.+|+.||.+.     .| -.++||.|.|..+
T Consensus       301 ~fD~tEEel~~~f-skFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~A  375 (678)
T KOG0127|consen  301 PFDTTEEELKEHF-SKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLA  375 (678)
T ss_pred             CccccHHHHHHHH-HhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeec
Confidence            3888999999999 799999999999754 7999999999999999999999988     34 6789999999987

>KOG0146|consensus

Probab=98.46  E-value=4.5e-07  Score=72.43  Aligned_cols=70  Identities=21%  Similarity=0.311  Sum_probs=61.7

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe---CCeeEEEEeccCccchh
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF---GGRPVYAELSPVTDFRE   79 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f---~GR~I~v~~~~~~~f~~   79 (130)
                      +|||+..| ..||.|+++.|.+...+.++|++||+|.+..+|..||..|||..-   ..-.|.|.|.+.++-+.
T Consensus        33 e~dvrrlf-~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkER~  105 (371)
T KOG0146|consen   33 EDDVRRLF-QPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKERT  105 (371)
T ss_pred             HHHHHHHh-cccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHHHH
Confidence            68999999 799999999999987788999999999999999999999999754   44688999998776553

>KOG0147|consensus

Probab=98.43  E-value=4e-07  Score=77.84  Aligned_cols=68  Identities=24%  Similarity=0.344  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ||.-..++++..| ..||+|+.|.+..+. ++..+|++||+|.+.++|.+|+..|||-.++||.|.|...
T Consensus       287 HfNite~~lr~if-epfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v  355 (549)
T KOG0147|consen  287 HFNITEDMLRGIF-EPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVV  355 (549)
T ss_pred             ccCchHHHHhhhc-cCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEe
Confidence            4555667888889 599999999999986 7899999999999999999999999999999999998876

>KOG0131|consensus

Probab=98.39  E-value=4.7e-07  Score=68.53  Aligned_cols=63  Identities=24%  Similarity=0.325  Sum_probs=55.7

Q ss_pred             HHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +-|++.| -+-|+|++++||++. +....|++||+|.++|+|.-|++.||+-.+-||+|++.-+.
T Consensus        24 ~~l~EL~-iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen   24 ELLYELF-IQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             HHHHHHH-HhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            3456666 799999999999875 45679999999999999999999999999999999999875

>KOG0144|consensus

Probab=98.34  E-value=1.2e-06  Score=73.53  Aligned_cols=68  Identities=24%  Similarity=0.340  Sum_probs=58.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEe---CCeeEEEEeccCcc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWF---GGRPVYAELSPVTD   76 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f---~GR~I~v~~~~~~~   76 (130)
                      -+.||++.|+ +||.|.+|.|+++. ++.++|+.||+|.+.++|.+|+.+||+..-   ..-+|.|.|++-++
T Consensus        47 sE~dlr~lFe-~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~  118 (510)
T KOG0144|consen   47 SEKDLRELFE-KYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGER  118 (510)
T ss_pred             cHHHHHHHHH-HhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhh
Confidence            3689999995 99999999999876 578999999999999999999999999764   33689999886544

>KOG0105|consensus

Probab=98.32  E-value=7.1e-07  Score=68.04  Aligned_cols=63  Identities=19%  Similarity=0.244  Sum_probs=55.2

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..||.+.| .|||.|..|.+-..  ..+.+++||+|+++.+|..||..-||--|+|-.|.|+|..-
T Consensus        20 ekeieDlF-yKyg~i~~ieLK~r--~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprg   82 (241)
T KOG0105|consen   20 EKEIEDLF-YKYGRIREIELKNR--PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRG   82 (241)
T ss_pred             hccHHHHH-hhhcceEEEEeccC--CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccC
Confidence            36788888 79999999988754  34578999999999999999999999999999999999843

>KOG0109|consensus

Probab=98.30  E-value=1e-06  Score=70.83  Aligned_cols=56  Identities=29%  Similarity=0.563  Sum_probs=52.5

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ++++..| .+||.|.++.|++       +++||.|.-.++|..|++.|||+.|+|++++|.++.
T Consensus        93 ~ElRa~f-e~ygpviecdivk-------dy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~st  148 (346)
T KOG0109|consen   93 QELRAKF-EKYGPVIECDIVK-------DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLST  148 (346)
T ss_pred             HHHhhhh-cccCCceeeeeec-------ceeEEEEeeccchHHHHhcccccccccceeeeeeec
Confidence            6899999 5999999999986       699999999999999999999999999999999983

>KOG4661|consensus

Probab=98.30  E-value=1.2e-06  Score=76.01  Aligned_cols=62  Identities=19%  Similarity=0.264  Sum_probs=57.4

Q ss_pred             HHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .||+..| +|||+|+..+|+.|. ++-.+.++||++.+.++|.+||..|+-..+.||.|.|+-+
T Consensus       420 tDLKnlF-SKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka  482 (940)
T KOG4661|consen  420 TDLKNLF-SKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA  482 (940)
T ss_pred             hHHHHHH-HHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence            6899999 899999999999986 3556889999999999999999999999999999999977

>KOG0110|consensus

Probab=98.21  E-value=1.7e-06  Score=75.98  Aligned_cols=75  Identities=15%  Similarity=0.253  Sum_probs=65.8

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      .|+.-..+|+..| +.||.|.+|.||... ..-.+|++||+|-++.+|..|+.+|.+..|-||.|..+|+..+.-.+
T Consensus       622 pFeAt~rEVr~LF-~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~~~e  697 (725)
T KOG0110|consen  622 PFEATKREVRKLF-TAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDNTME  697 (725)
T ss_pred             chHHHHHHHHHHH-hcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccchHHH
Confidence            4788899999999 799999999999863 24468999999999999999999999999999999999996654333

>KOG0131|consensus

Probab=98.15  E-value=2.9e-06  Score=64.27  Aligned_cols=63  Identities=14%  Similarity=0.248  Sum_probs=52.4

Q ss_pred             HHHHHhhccCCceEE--EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806         11 DVFVECEDKYGEIEE--MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus        11 Di~~e~~skfG~I~~--v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -++..| ++||.|.+  =.+..+.++.++|++||.|.+.+.+.+|+..|||.++..|+|+++|+-.
T Consensus       112 ~L~dtF-safG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k  176 (203)
T KOG0131|consen  112 LLYDTF-SAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK  176 (203)
T ss_pred             HHHHHH-HhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence            366777 89999876  2223334578899999999999999999999999999999999999833

>KOG0146|consensus

Probab=98.10  E-value=2.7e-06  Score=68.02  Aligned_cols=64  Identities=14%  Similarity=0.188  Sum_probs=57.5

Q ss_pred             HHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .+|...| -.||.|.+.+|..+. ++.++.++||.|.++.+|+.||.+|||-.++.+.|.|.+-..
T Consensus       300 aEliQmF-~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP  364 (371)
T KOG0146|consen  300 AELIQMF-LPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP  364 (371)
T ss_pred             HHHHHHh-ccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence            4688888 699999999998764 678999999999999999999999999999999999988744

>KOG4212|consensus

Probab=98.07  E-value=9.5e-06  Score=68.55  Aligned_cols=71  Identities=23%  Similarity=0.318  Sum_probs=64.7

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .||--.+||++.+..+-|+|+-|.+..+.+++++|++-|+|+++|.+++|++.||-..+.||+|.|.-.+-
T Consensus        53 pyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d  123 (608)
T KOG4212|consen   53 PYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD  123 (608)
T ss_pred             cchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence            36677788888887899999999999998899999999999999999999999999999999999986643

>KOG0153|consensus

Probab=97.85  E-value=4.9e-05  Score=62.40  Aligned_cols=63  Identities=22%  Similarity=0.301  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCC-CEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN-RWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnG-r~f~GR~I~v~~~~~   74 (130)
                      ..++.||++.| .+||+|..|.|...     +|.|||+|.+.++|+.|...+-. -.++|+.|.+.|.+.
T Consensus       239 ~v~e~dIrdhF-yqyGeirsi~~~~~-----~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  239 EVLEQDIRDHF-YQYGEIRSIRILPR-----KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             chhHHHHHHHH-hhcCCeeeEEeecc-----cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            34678999999 69999999999864     58999999999999988776555 456999999998765

>KOG0109|consensus

Probab=97.85  E-value=4.5e-05  Score=61.57  Aligned_cols=57  Identities=19%  Similarity=0.330  Sum_probs=52.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -..+|+..| .+||+|+++.|++|       ++||..++...|..|+..|||-.++|..|.|+-+
T Consensus        15 ~~~elr~lF-e~ygkVlECDIvKN-------YgFVHiEdktaaedairNLhgYtLhg~nInVeaS   71 (346)
T KOG0109|consen   15 TEQELRSLF-EQYGKVLECDIVKN-------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEAS   71 (346)
T ss_pred             chHHHHHHH-HhhCceEeeeeecc-------cceEEeecccccHHHHhhcccceecceEEEEEec
Confidence            357899999 49999999999986       8899999999999999999999999999999987

>KOG2314|consensus

Probab=97.84  E-value=3.9e-05  Score=66.43  Aligned_cols=64  Identities=20%  Similarity=0.276  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCe-eEEEEe
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR-PVYAEL   71 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR-~I~v~~   71 (130)
                      -|..-|...| +++|+|..+.+|-+..+..+|++|++|.+..+|..|++.|||..++-. ...|..
T Consensus        76 klk~vl~kvf-sk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~  140 (698)
T KOG2314|consen   76 KLKKVLTKVF-SKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRL  140 (698)
T ss_pred             HHHHHHHHHH-HhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEeeh
Confidence            3445566677 899999999999776667999999999999999999999999999764 444443

>KOG4209|consensus

Probab=97.78  E-value=2.6e-05  Score=61.00  Aligned_cols=68  Identities=19%  Similarity=0.269  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      |....+++..+| ..+|.|..+.|+.+. .++++|++||+|.+.+.+..|++ |||..+.|+.+.+.+.-.
T Consensus       111 ~~~t~~~~e~hf-~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~  179 (231)
T KOG4209|consen  111 FLVTLTKIELHF-ESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRT  179 (231)
T ss_pred             cccccchhhhee-eccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeee
Confidence            444556688999 699999999998765 46899999999999999999999 999999999999998733

>KOG4212|consensus

Probab=97.76  E-value=3.3e-05  Score=65.36  Aligned_cols=63  Identities=21%  Similarity=0.320  Sum_probs=55.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |+-..+-|++.| ..||.|+-+.|..+  ++++|  -|+|.++++|+.|+..|||..++||.|.|.|.
T Consensus       546 ~dfTWqmlrDKf-re~G~v~yadime~--GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~  608 (608)
T KOG4212|consen  546 FDFTWQMLRDKF-REIGHVLYADIMEN--GKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF  608 (608)
T ss_pred             ccccHHHHHHHH-Hhccceehhhhhcc--CCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence            555678899999 69999999999665  55677  69999999999999999999999999999874

>KOG0226|consensus

Probab=97.75  E-value=2.5e-05  Score=61.94  Aligned_cols=62  Identities=21%  Similarity=0.441  Sum_probs=51.1

Q ss_pred             HHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      +|+....+.+|-.-...+|.++. +++++|+.||.|.+..++..|++.|||++.+.|+|...-
T Consensus       204 d~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk  266 (290)
T KOG0226|consen  204 DDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK  266 (290)
T ss_pred             HHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence            34443333677777778888765 689999999999999999999999999999999998653

>KOG0533|consensus

Probab=97.72  E-value=8.7e-05  Score=58.52  Aligned_cols=72  Identities=25%  Similarity=0.404  Sum_probs=64.3

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      +|..+.+||++.| ..||.+..+.|.-+..+.+.|.+=|.|...++|.+|++.+||--++|++|.........
T Consensus        92 ~~~V~~~Dl~eLF-~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~  163 (243)
T KOG0533|consen   92 PYGVIDADLKELF-AEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPS  163 (243)
T ss_pred             CcCcchHHHHHHH-HHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcc
Confidence            3556779999999 69999999999988888999999999999999999999999999999999998884433

>KOG0132|consensus

Probab=97.61  E-value=0.00013  Score=65.03  Aligned_cols=59  Identities=25%  Similarity=0.375  Sum_probs=54.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .+.||...| ..||.|.+|.+.-+     +|++||+.....+|.+|+.+|+...+.++.|++.|.
T Consensus       434 ~e~dL~~~f-eefGeiqSi~li~~-----R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa  492 (894)
T KOG0132|consen  434 TEQDLANLF-EEFGEIQSIILIPP-----RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA  492 (894)
T ss_pred             hHHHHHHHH-HhcccceeEeeccC-----CceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence            468999999 59999999999764     799999999999999999999999999999999988

>KOG1190|consensus

Probab=97.59  E-value=0.00035  Score=58.69  Aligned_cols=61  Identities=21%  Similarity=0.339  Sum_probs=54.4

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +-|+..| +-||.|.+|+|..+.    +-.+-|+|.+...|+-|+..|+|..+-|++|++.++.-+
T Consensus       313 d~LftlF-gvYGdVqRVkil~nk----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~  373 (492)
T KOG1190|consen  313 DVLFTLF-GVYGDVQRVKILYNK----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHT  373 (492)
T ss_pred             hHHHHHH-hhhcceEEEEeeecC----CcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCc
Confidence            5577788 899999999999875    368999999999999999999999999999999999433

>KOG4660|consensus

Probab=97.59  E-value=2.8e-05  Score=66.86  Aligned_cols=56  Identities=29%  Similarity=0.461  Sum_probs=49.3

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEE
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA   69 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v   69 (130)
                      +++|+..| +.||+|..|..-.    +..|-+||+|.+..+|++|+++||++.+.|+.|.+
T Consensus        89 n~~L~~~f-~~yGeir~ir~t~----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~  144 (549)
T KOG4660|consen   89 NDTLLRIF-GAYGEIREIRETP----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIKR  144 (549)
T ss_pred             HHHHHHHH-Hhhcchhhhhccc----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcC
Confidence            57899999 7999999965543    45799999999999999999999999999998883

>KOG4454|consensus

Probab=97.55  E-value=0.0001  Score=57.49  Aligned_cols=71  Identities=15%  Similarity=0.104  Sum_probs=59.5

Q ss_pred             hhhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          2 QEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         2 q~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +..+...-|++..|++-.-|.|.+|.|+.......+ +|||.|.++-+..-|++.|||-.+.++++.+.+-.
T Consensus        15 ~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~   85 (267)
T KOG4454|consen   15 QNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRC   85 (267)
T ss_pred             HhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhccccc
Confidence            344556667776666678999999999987655566 99999999999999999999999999999988763

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

Probab=97.54  E-value=0.00051  Score=50.31  Aligned_cols=59  Identities=22%  Similarity=0.472  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +++..+|.+.| +.||+|.=|++..       |..+|+|.+-++|.+|+. |+|..+.|+.|++.+-.
T Consensus        47 d~l~~~ll~~~-~~~GevvLvRfv~-------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKt  105 (146)
T PF08952_consen   47 DNLMDELLQKF-AQYGEVVLVRFVG-------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKT  105 (146)
T ss_dssp             HHHHHHHHHHH-HCCS-ECEEEEET-------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE--
T ss_pred             HHHHHHHHHHH-HhCCceEEEEEeC-------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCC
Confidence            45778999999 7999998887775       578999999999999886 99999999999999863

; PDB: 1UFW_A 2DNR_A.

>KOG2068|consensus

Probab=97.48  E-value=4.4e-05  Score=62.24  Aligned_cols=83  Identities=25%  Similarity=0.464  Sum_probs=65.2

Q ss_pred             ccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhhcccccC-CCCC
Q psy17806         18 DKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYEMG-ECTR   92 (130)
Q Consensus        18 skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c~~~~~~-~c~r   92 (130)
                      ++||+|.+|.+.....    ...---+||+|...++|..|+...+|-.++|+.+.+.+- .+.|    |..|..+ .|++
T Consensus       102 gqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~g-ttky----cs~~l~~~~c~~  176 (327)
T KOG2068|consen  102 GQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLG-TTKY----CSFYLRNDICQN  176 (327)
T ss_pred             cccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhC-CCcc----hhHHhhhhcccC
Confidence            7899999999987541    111123999999999999999999999999999888875 5566    7667666 7887


Q ss_pred             CCCcceeeecCCCH
Q psy17806         93 SGFCNFMHLKPISR  106 (130)
Q Consensus        93 g~~Cn~lh~~~~~~  106 (130)
                       ..|=|||-..--.
T Consensus       177 -~~cmylhe~~~~~  189 (327)
T KOG2068|consen  177 -PDCMYLHEIGDQE  189 (327)
T ss_pred             -ccccccccccccc
Confidence             5599999755433

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

Probab=97.36  E-value=0.00051  Score=41.86  Aligned_cols=42  Identities=31%  Similarity=0.601  Sum_probs=35.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAV   54 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~   54 (130)
                      +..++|+..| +.||+|.++.++..     .-.+||+|.+..+|++|+
T Consensus        12 ~~~~~vl~~F-~~fGeI~~~~~~~~-----~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen   12 DLAEEVLEHF-ASFGEIVDIYVPES-----TNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             hHHHHHHHHH-HhcCCEEEEEcCCC-----CcEEEEEECCHHHHHhhC
Confidence            3457888899 69999999999843     348999999999999984

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=97.33  E-value=0.00039  Score=46.79  Aligned_cols=58  Identities=17%  Similarity=0.261  Sum_probs=37.8

Q ss_pred             HHHHHHHHhhccC-CceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          8 FFEDVFVECEDKY-GEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         8 ~~eDi~~e~~skf-G~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +..-|+..+. .. |+|.+|.         .|.+.|.|.+.+.|.+|.+-|+|...-|+.|.|.|.|..
T Consensus        19 I~~RL~qLsd-NCGGkVl~v~---------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~   77 (90)
T PF11608_consen   19 IKNRLRQLSD-NCGGKVLSVS---------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN   77 (90)
T ss_dssp             HHHHHHHHHH-TTT--EEE-----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred             HHHHHHHHhh-ccCCEEEEEe---------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence            3344555552 44 4776662         378999999999999999999999999999999999764

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

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

Probab=97.29  E-value=0.00097  Score=45.93  Aligned_cols=63  Identities=16%  Similarity=0.106  Sum_probs=44.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEe-eC-------CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeE-EEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVC-DN-------LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV-YAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~-~~-------~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I-~v~~~   72 (130)
                      ....|..+| ++||.|++..-. ++       +......-+.|+|.++.+|.+|+. -||+.++|..| -|.+.
T Consensus        18 ~~~~Vl~~F-~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~   89 (100)
T PF05172_consen   18 ASNQVLRHF-SSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPC   89 (100)
T ss_dssp             GHHHHHHHH-HCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-
T ss_pred             HHHHHHHHH-HhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEc
Confidence            456789999 799999888611 11       001224589999999999999997 89999998654 46655

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.

>smart00356 ZnF_C3H1 zinc finger

Probab=97.22  E-value=0.00017  Score=37.35  Aligned_cols=25  Identities=24%  Similarity=0.743  Sum_probs=21.9

Q ss_pred             chhhhhcccccCCCCCCCCcceeee
Q psy17806         77 FREACCRQYEMGECTRSGFCNFMHL  101 (130)
Q Consensus        77 f~~a~c~~~~~~~c~rg~~Cn~lh~  101 (130)
                      ++...|..|..|.|.+|+.|.|+|.
T Consensus         2 ~k~~~C~~~~~g~C~~g~~C~~~H~   26 (27)
T smart00356        2 YKTELCKFFKRGYCPYGDRCKFAHP   26 (27)
T ss_pred             CCCCcCcCccCCCCCCCCCcCCCCc
Confidence            4456899999999999999999996

>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.15  E-value=6.5e-05  Score=39.77  Aligned_cols=26  Identities=27%  Similarity=0.690  Sum_probs=19.2

Q ss_pred             chhhhhccccc-CCCCCCCCcceeeec
Q psy17806         77 FREACCRQYEM-GECTRSGFCNFMHLK  102 (130)
Q Consensus        77 f~~a~c~~~~~-~~c~rg~~Cn~lh~~  102 (130)
                      |+...|..|.. |.|+.|+.|+|+|.+
T Consensus         1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~   27 (27)
T PF00642_consen    1 YKTKLCRFFMRTGTCPFGDKCRFAHGE   27 (27)
T ss_dssp             TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred             CccccChhhccCCccCCCCCcCccCCC
Confidence            45678988887 899999999999963

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....

>KOG0106|consensus

Probab=96.98  E-value=0.00048  Score=53.47  Aligned_cols=61  Identities=26%  Similarity=0.382  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      |..-..||..-| .+||+|.++.+-       .|++||.|.+..+|..|+..|||+.|.|-.+.+++..
T Consensus        11 ~~~~~~d~E~~f-~~yg~~~d~~mk-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r   71 (216)
T KOG0106|consen   11 YRARERDVERFF-KGYGKIPDADMK-------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR   71 (216)
T ss_pred             CccchhHHHHHH-hhccccccceee-------cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence            334467888888 699999988775       3888999999999999999999999999888777763

>KOG4205|consensus

Probab=96.95  E-value=0.00053  Score=55.85  Aligned_cols=66  Identities=17%  Similarity=0.272  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ++...|.|++.| ++||+|.++.|.++. +++++|++||+|.+++....++. ..-..++||.|-+.-+
T Consensus        16 w~ttee~Lr~yf-~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~a   82 (311)
T KOG4205|consen   16 WETTEESLREYF-SQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRA   82 (311)
T ss_pred             ccccHHHHHHHh-cccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceec
Confidence            466788999999 799999999999865 58899999999999887776654 4455688888877665

>KOG0106|consensus

Probab=96.83  E-value=0.00069  Score=52.61  Aligned_cols=58  Identities=21%  Similarity=0.397  Sum_probs=49.2

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.||.+.| +++|++....+       ..+.++|+|++.++|..|+..|+|..+.|+.|++.....
T Consensus       113 ~qdl~d~~-~~~g~~~~~~~-------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~~~  170 (216)
T KOG0106|consen  113 WQDLKDHF-RPAGEVTYVDA-------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKNSR  170 (216)
T ss_pred             HHHHhhhh-cccCCCchhhh-------hccccceeehhhhhhhhcchhccchhhcCceeeecccCc
Confidence            48999999 79999944333       368999999999999999999999999999999955433

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

Probab=96.82  E-value=0.003  Score=43.65  Aligned_cols=58  Identities=24%  Similarity=0.405  Sum_probs=37.5

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCC-----EeCCeeEEEEec
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR-----WFGGRPVYAELS   72 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr-----~f~GR~I~v~~~   72 (130)
                      .+||++.| ++||.|.=|.+...     .-.+||+|.++++|+.|+..+.-.     .+.+..++++..
T Consensus        15 re~iK~~f-~~~g~V~yVD~~~G-----~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL   77 (105)
T PF08777_consen   15 REDIKEAF-SQFGEVAYVDFSRG-----DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL   77 (105)
T ss_dssp             HHHHHHHT--SS--EEEEE--TT------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred             HHHHHHHH-HhcCCcceEEecCC-----CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence            68999999 79998887777653     358999999999999999988755     556666666654

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

>KOG0151|consensus

Probab=96.45  E-value=0.0051  Score=54.89  Aligned_cols=64  Identities=11%  Similarity=0.098  Sum_probs=55.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..+.+...| +.||.|.+|+|.-+.+    ....-++||-|.+..+|.+|++.|+|.++.++++...|.
T Consensus       187 ~E~~ll~tf-GrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg  254 (877)
T KOG0151|consen  187 DENFLLRTF-GRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG  254 (877)
T ss_pred             cHHHHHHHh-cccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence            356788889 8999999999997653    345678999999999999999999999999999998877

>KOG0116|consensus

Probab=96.22  E-value=0.0056  Score=51.78  Aligned_cols=66  Identities=17%  Similarity=0.184  Sum_probs=53.2

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ++....+|++.| .+||.|+...|.... .+.+..++||+|.+.+++..|+.+- =-.++||.+.|+--
T Consensus       298 ~da~~~~l~~~F-k~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek  364 (419)
T KOG0116|consen  298 PDATPAELEEVF-KQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEK  364 (419)
T ss_pred             CCCCHHHHHHHH-hhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEec
Confidence            345567788899 799999999998643 3444489999999999999999865 66789999999864

>KOG4210|consensus

Probab=95.91  E-value=0.0039  Score=50.19  Aligned_cols=69  Identities=23%  Similarity=0.327  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      |..-.+||+.++ ..+|.|..+.++... ++.+.|++||.|.+...+..|+.. ..+..+|+++.+++.+..
T Consensus       195 f~~~~d~~~~~~-~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  195 FSLTRDDLKEHF-VSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPR  264 (285)
T ss_pred             cccchHHHhhhc-cCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCC
Confidence            444567788888 799999999999754 578899999999999999999988 999999999999987543

>KOG4205|consensus

Probab=95.87  E-value=0.0079  Score=49.08  Aligned_cols=66  Identities=17%  Similarity=0.235  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +..++++++.| .+||.|..+.+..+. ....+|++||.|.++++..+++. ..-+.|.|++|-|.-+-
T Consensus       108 ~~~e~~~r~yf-e~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~  174 (311)
T KOG4205|consen  108 DTTEEDFKDYF-EQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAI  174 (311)
T ss_pred             CCchHHHhhhh-hccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeecc
Confidence            44678999999 599999999998754 56789999999999887777764 88889999999998883

>KOG1456|consensus

Probab=95.87  E-value=0.056  Score=45.41  Aligned_cols=97  Identities=18%  Similarity=0.208  Sum_probs=71.1

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc--------------
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT--------------   75 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~--------------   75 (130)
                      +-|+..| ..||.|++|+..+..    .|-+-|+..+..+.++|+..||+-.+.|..|.+.++-..              
T Consensus       303 drlFNl~-ClYGNV~rvkFmkTk----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgS  377 (494)
T KOG1456|consen  303 DRLFNLF-CLYGNVERVKFMKTK----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGS  377 (494)
T ss_pred             hhhhhhh-hhcCceeeEEEeecc----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccCCceecCCCC
Confidence            5678888 699999999999854    489999999999999999999999999999998877322              


Q ss_pred             ----cchhhhhcccccC---CCCCC-CCcceeeecCCCHHHHHH
Q psy17806         76 ----DFREACCRQYEMG---ECTRS-GFCNFMHLKPISRELRRY  111 (130)
Q Consensus        76 ----~f~~a~c~~~~~~---~c~rg-~~Cn~lh~~~~~~~l~~~  111 (130)
                          +|.+..-..|...   .-+|= .--|.||..+.|-.+..+
T Consensus       378 pSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe  421 (494)
T KOG1456|consen  378 PSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEE  421 (494)
T ss_pred             cchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHH
Confidence                2334433333322   11221 246788998876665555

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

Probab=95.85  E-value=0.092  Score=35.92  Aligned_cols=64  Identities=8%  Similarity=0.109  Sum_probs=47.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeC----CeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFG----GRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~----GR~I~v~~~~   73 (130)
                      .+.+.|-+.|   .|...=+.+|.+. +....|+|||-|.+++.|.+-.+.++|+...    .++..+.|+.
T Consensus        17 ~L~~~l~~~~---~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr   85 (97)
T PF04059_consen   17 MLIQILDEHF---KGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR   85 (97)
T ss_pred             HHHHHHHHhc---cCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence            3444454444   4777888888764 4567899999999999999999999999774    4555566553

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

>KOG1548|consensus

Probab=95.82  E-value=0.029  Score=46.39  Aligned_cols=64  Identities=17%  Similarity=0.237  Sum_probs=56.4

Q ss_pred             HHHHHHHHhhccCCceE--------EEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIE--------EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~--------~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..+++.+.+ +++|-|.        .|++.++..++++|-+-+.|-..++...|++.|++..|.|+.|+|+-+
T Consensus       147 T~dE~~~~~-sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerA  218 (382)
T KOG1548|consen  147 TVDEFAEVM-SKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERA  218 (382)
T ss_pred             cHHHHHHHH-HhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehh
Confidence            456777777 7999886        467777777999999999999999999999999999999999999976

>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=95.80  E-value=0.038  Score=41.91  Aligned_cols=65  Identities=14%  Similarity=0.193  Sum_probs=47.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhC--CCEeCCeeEEEEeccCccc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLN--NRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~ln--Gr~f~GR~I~v~~~~~~~f   77 (130)
                      +..+.|+..| .+|+.+..+.+...     -+.+-|.|.+.++|..|...|+  +..|.|..+.+.|......
T Consensus         7 ~~~~~l~~l~-~~~~~~~~~~~L~s-----FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~~   73 (184)
T PF04847_consen    7 DNLAELEELF-STYDPPVQFSPLKS-----FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTPI   73 (184)
T ss_dssp             --HHHHHHHH-HTT-SS-EEEEETT-----TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS-
T ss_pred             hhHHHHHHHH-HhcCCceEEEEcCC-----CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccccc
Confidence            3456677777 79999999988764     4789999999999999999999  9999999999999854443

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.

>KOG4285|consensus

Probab=95.67  E-value=0.025  Score=46.16  Aligned_cols=51  Identities=20%  Similarity=0.209  Sum_probs=43.0

Q ss_pred             HHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEE
Q psy17806         11 DVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY   68 (130)
Q Consensus        11 Di~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~   68 (130)
                      -|..+| +++|.|++.....+.     -..+|+|.+.-+|.+|+. -||+.|+|-++.
T Consensus       212 ~vL~~F-~~cG~Vvkhv~~~ng-----NwMhirYssr~~A~KALs-kng~ii~g~vmi  262 (350)
T KOG4285|consen  212 IVLNLF-SRCGEVVKHVTPSNG-----NWMHIRYSSRTHAQKALS-KNGTIIDGDVMI  262 (350)
T ss_pred             HHHHHH-HhhCeeeeeecCCCC-----ceEEEEecchhHHHHhhh-hcCeeeccceEE
Confidence            367889 799999998887542     379999999999999997 799999987654

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.51  E-value=0.046  Score=40.31  Aligned_cols=55  Identities=20%  Similarity=0.356  Sum_probs=46.0

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..|...+ +.||+|.+|..+..      --|-|.|.+..+|=+|+.++..+ --|..++|.+-
T Consensus       105 ~sV~~~L-s~fGpI~SVT~cGr------qsavVvF~d~~SAC~Av~Af~s~-~pgtm~qCsWq  159 (166)
T PF15023_consen  105 KSVIQRL-SVFGPIQSVTLCGR------QSAVVVFKDITSACKAVSAFQSR-APGTMFQCSWQ  159 (166)
T ss_pred             HHHHHHH-HhcCCcceeeecCC------ceEEEEehhhHHHHHHHHhhcCC-CCCceEEeecc
Confidence            5677788 79999999999964      46889999999999999999885 56777777764

>KOG0120|consensus

Probab=95.44  E-value=0.012  Score=50.84  Aligned_cols=63  Identities=13%  Similarity=0.267  Sum_probs=56.4

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCC-CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLG-DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~-~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...+.+.+ ..||.+....++.+.. +.++|++|.+|.+..-+..|+..|||..+++++++|..+
T Consensus       303 ~~q~~Ell-~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A  366 (500)
T KOG0120|consen  303 EDQVKELL-DSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA  366 (500)
T ss_pred             HHHHHHHH-HhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence            34577777 6899999999998764 688999999999999999999999999999999999987

>KOG1365|consensus

Probab=95.28  E-value=0.015  Score=48.94  Aligned_cols=78  Identities=17%  Similarity=0.223  Sum_probs=64.0

Q ss_pred             hhHHHHHHHHHHhhccCCceE---EEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806          4 HYDNFFEDVFVECEDKYGEIE---EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~---~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      .|+...|||..-| ..|..-+   .|++.-|..+++.|-+||+|.+.++|..|+..-+.....+|.|.+--++.++..++
T Consensus       289 Py~AtvEdIL~Fl-gdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~eeln~v  367 (508)
T KOG1365|consen  289 PYEATVEDILDFL-GDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCSVEELNEV  367 (508)
T ss_pred             ChhhhHHHHHHHH-HHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeeccHHHHHHH
Confidence            3777888888777 5666432   47888888899999999999999999999999999988899888887777777765


Q ss_pred             hh
Q psy17806         81 CC   82 (130)
Q Consensus        81 ~c   82 (130)
                      .-
T Consensus       368 L~  369 (508)
T KOG1365|consen  368 LS  369 (508)
T ss_pred             Hh
Confidence            43

>KOG1456|consensus

Probab=95.01  E-value=0.087  Score=44.32  Aligned_cols=62  Identities=18%  Similarity=0.276  Sum_probs=50.5

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCE-eCC-eeEEEEeccCcc
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW-FGG-RPVYAELSPVTD   76 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~-f~G-R~I~v~~~~~~~   76 (130)
                      +-|+..| -..|+|..|.|.+..    --.+-|+|++.+.|++|..+|||-. |.| -+|.++|+..++
T Consensus       137 DVly~Ic-np~GkVlRIvIfkkn----gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r  200 (494)
T KOG1456|consen  137 DVLYTIC-NPQGKVLRIVIFKKN----GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR  200 (494)
T ss_pred             hhhhhhc-CCCCceEEEEEEecc----ceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence            4567788 799999999999752    2478999999999999999999975 455 588899885443

>KOG4307|consensus

Probab=94.94  E-value=0.06  Score=48.33  Aligned_cols=66  Identities=21%  Similarity=0.317  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHHhhccCCceE-EEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          5 YDNFFEDVFVECEDKYGEIE-EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~-~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      |+.-.+||.+-| ..|-.+- +|.+-.+..+...|-+-|-|++.++|..|...|+++.+..|+|.+.+
T Consensus       877 f~v~l~dI~~FF-~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  877 FDVTLEDIVEFF-NDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             ccccHHHHHHHh-cccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            566789999888 7886654 44444566678899999999999999999999999999999998865

>KOG4211|consensus

Probab=94.83  E-value=0.059  Score=46.33  Aligned_cols=64  Identities=20%  Similarity=0.307  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |....+||.+-| +.. .|+++.+++.. ++..|-|||+|.+++++.+|++ .+-..+..|-|-|--+
T Consensus        20 wsat~~ei~~Ff-~~~-~I~~~~~~r~~-Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~   83 (510)
T KOG4211|consen   20 WSATEKEILDFF-SNC-GIENLEIPRRN-GRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA   83 (510)
T ss_pred             ccccHHHHHHHH-hcC-ceeEEEEeccC-CCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence            456778999877 444 79998888753 6778999999999999999998 6666777777776555

>KOG1457|consensus

Probab=94.58  E-value=0.17  Score=39.99  Aligned_cols=61  Identities=20%  Similarity=0.237  Sum_probs=42.3

Q ss_pred             HHHHHhhccCCceEEEEEeeCC-C-CCceeEEEEEecCHHHHHHHHHHhCCCEeC---CeeEEEEec
Q psy17806         11 DVFVECEDKYGEIEEMNVCDNL-G-DHLVGNVYIKFRREEDAEKAVNDLNNRWFG---GRPVYAELS   72 (130)
Q Consensus        11 Di~~e~~skfG~I~~v~v~~~~-~-~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~---GR~I~v~~~   72 (130)
                      +|+..|. .|---+...+-... . ...+-++||+|.+..+|.+|+++|||-.||   +..|+.+++
T Consensus        50 EiynLFR-~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElA  115 (284)
T KOG1457|consen   50 EIYNLFR-RFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELA  115 (284)
T ss_pred             HHHHHhc-cCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeeh
Confidence            4555552 44333443333211 1 123468999999999999999999999996   578999988

>KOG1855|consensus

Probab=94.39  E-value=0.037  Score=46.95  Aligned_cols=53  Identities=21%  Similarity=0.298  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC---C---CC--------ceeEEEEEecCHHHHHHHHHHhCC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL---G---DH--------LVGNVYIKFRREEDAEKAVNDLNN   59 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~---~---~~--------~~G~vfV~F~~~e~A~~A~~~lnG   59 (130)
                      |..+|.|.+.| +.+|.|..|.||.+.   .   +.        .+-.++|+|+..+.|.+|...||-
T Consensus       242 Dh~~enl~kiF-g~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  242 DHSYENLSKIF-GTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             chHHHHHHHHh-hcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            45678999999 899999999999982   1   11        244699999999999999998854

>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=93.48  E-value=0.13  Score=32.89  Aligned_cols=53  Identities=21%  Similarity=0.202  Sum_probs=41.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEE
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA   69 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v   69 (130)
                      ..+|++..+ .+|+-. +|....      .| .||.|.+..+|.+|....||+.+.+..|.+
T Consensus        13 ~v~d~K~~L-r~y~~~-~I~~d~------tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   13 TVEDFKKRL-RKYRWD-RIRDDR------TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             cHHHHHHHH-hcCCcc-eEEecC------CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            457899999 588643 333322      35 489999999999999999999998877765

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

>KOG4211|consensus

Probab=93.36  E-value=0.12  Score=44.50  Aligned_cols=72  Identities=17%  Similarity=0.185  Sum_probs=53.3

Q ss_pred             HHHHHHHHhhccCCceEE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          8 FFEDVFVECEDKYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~-v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      ..+||.+-| +-.=-|.+ |.++.+...++.|-+||+|++.+.|++|+. =|.+.++-|-|-+--+...+++.+.
T Consensus       116 te~dI~~FF-aGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~Ss~~e~~~~~  188 (510)
T KOG4211|consen  116 TEEDIVEFF-AGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRSSRAEVKRAA  188 (510)
T ss_pred             cHHHHHHHh-cCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehhHHHHHHhhc
Confidence            467888777 56644444 455666667789999999999999999987 5666678888888777666655543

>KOG1190|consensus

Probab=93.06  E-value=0.19  Score=42.65  Aligned_cols=72  Identities=17%  Similarity=0.291  Sum_probs=53.2

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCcee-EEEEEecCHHHHHHHHHHhCCCEe-CC-eeEEEEeccCcc----chhhhh
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVG-NVYIKFRREEDAEKAVNDLNNRWF-GG-RPVYAELSPVTD----FREACC   82 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G-~vfV~F~~~e~A~~A~~~lnGr~f-~G-R~I~v~~~~~~~----f~~a~c   82 (130)
                      +=|...| ++||.|.+|.-....    .| .+-|+|.+.+.|+.|..+|+|+-+ +| -.|+++|+..++    |..-.-
T Consensus       165 DVLHqvF-S~fG~VlKIiTF~Kn----n~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkS  239 (492)
T KOG1190|consen  165 DVLHQVF-SKFGFVLKIITFTKN----NGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKS  239 (492)
T ss_pred             HHHHHHH-hhcceeEEEEEEecc----cchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeecccccc
Confidence            4566777 899999999888632    34 478999999999999999999954 55 478888885543    444444


Q ss_pred             cccc
Q psy17806         83 RQYE   86 (130)
Q Consensus        83 ~~~~   86 (130)
                      |.|.
T Consensus       240 RDyT  243 (492)
T KOG1190|consen  240 RDYT  243 (492)
T ss_pred             cccc
Confidence            4443

>KOG1995|consensus

Probab=92.23  E-value=0.14  Score=42.43  Aligned_cols=62  Identities=15%  Similarity=0.201  Sum_probs=48.9

Q ss_pred             HHHHHHhhccCCceE--------EEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         10 EDVFVECEDKYGEIE--------EMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        10 eDi~~e~~skfG~I~--------~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .+|.+-| .+.|.|.        .|+|-++. +..++|-+-|.|++...|+.|+..++++.|.|-+|.|.++
T Consensus        81 ~~~~~~f-~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a  151 (351)
T KOG1995|consen   81 NDNADFF-LQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLA  151 (351)
T ss_pred             HHHHHHH-hhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhh
Confidence            4555555 5666664        34444443 5678999999999999999999999999999999988877

>KOG0128|consensus

Probab=90.32  E-value=0.086  Score=47.95  Aligned_cols=68  Identities=13%  Similarity=0.136  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-..++++..+ +++|.+.++.++....+.++|.+||.|.++.+|.++...+++..+.-+-+.+..+++
T Consensus       747 ~gt~e~~k~l~-~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp  814 (881)
T KOG0128|consen  747 QGTKEELKSLA-SKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP  814 (881)
T ss_pred             CCchHHHHhhc-cccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence            33457788888 899999999999887789999999999999999999999999999888888888643

>KOG0112|consensus

Probab=89.33  E-value=0.34  Score=44.53  Aligned_cols=56  Identities=25%  Similarity=0.442  Sum_probs=48.5

Q ss_pred             HHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEec
Q psy17806         11 DVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELS   72 (130)
Q Consensus        11 Di~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~   72 (130)
                      -+-.+| ..||.|..|.+     +|..-++||.|++...|+.|+..|-|--|+|  +.+.|.|+
T Consensus       471 ~l~r~f-d~fGpir~Idy-----~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla  528 (975)
T KOG0112|consen  471 RLNREF-DRFGPIRIIDY-----RHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLA  528 (975)
T ss_pred             HHHHHh-hccCcceeeec-----ccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccc
Confidence            356788 79999999877     4556799999999999999999999999977  67888887

>KOG2416|consensus

Probab=89.11  E-value=0.17  Score=44.68  Aligned_cols=64  Identities=14%  Similarity=0.238  Sum_probs=50.1

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe---CCeeEEEEeccCccch
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF---GGRPVYAELSPVTDFR   78 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f---~GR~I~v~~~~~~~f~   78 (130)
                      -.|+.++...-|.|++.+|.     +.+-..||.|.+.++|..-..+|||-..   +++-|.++|...+...
T Consensus       459 gQLkelL~rtgg~Vee~WmD-----kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~deld  525 (718)
T KOG2416|consen  459 GQLKELLGRTGGNVEEFWMD-----KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRADELD  525 (718)
T ss_pred             HHHHHHHhhccCchHHHHHH-----HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecchhHHH
Confidence            45777772255667777663     4577899999999999999999999755   7789999999766554

>KOG4574|consensus

Probab=88.89  E-value=0.29  Score=44.88  Aligned_cols=91  Identities=20%  Similarity=0.333  Sum_probs=69.1

Q ss_pred             HHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe--CCeeEEEEeccCccchhhhhcccccCC
Q psy17806         12 VFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF--GGRPVYAELSPVTDFREACCRQYEMGE   89 (130)
Q Consensus        12 i~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f--~GR~I~v~~~~~~~f~~a~c~~~~~~~   89 (130)
                      |-..| ++||.|.+++..++.     --+-|+|.+.+.|..|..+|.|+..  .|-|.+|.|+....+-+.--+      
T Consensus       315 L~~l~-s~yg~v~s~wtlr~~-----N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~~ep~ln------  382 (1007)
T KOG4574|consen  315 LATLC-SDYGSVASAWTLRDL-----NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPMYEPPLN------  382 (1007)
T ss_pred             HHHHH-Hhhcchhhheecccc-----cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccccccCCcC------
Confidence            45567 899999999998764     3678999999999999999999965  788999999866544332211      


Q ss_pred             CCCCCCcceeeecCCCHHHHHHHHhhc
Q psy17806         90 CTRSGFCNFMHLKPISRELRRYLYSRR  116 (130)
Q Consensus        90 c~rg~~Cn~lh~~~~~~~l~~~l~~~~  116 (130)
                        --++=||-|-....+.|...||.-|
T Consensus       383 --~~g~nn~~~~~~l~e~ln~g~~n~q  407 (1007)
T KOG4574|consen  383 --LTGYNNFNHQPLLQEQLNTGLFNTQ  407 (1007)
T ss_pred             --cccccCCCCCcchhhhhccccceec
Confidence              1145778788888888887777643

>KOG1457|consensus

Probab=88.22  E-value=1.1  Score=35.48  Aligned_cols=50  Identities=14%  Similarity=0.203  Sum_probs=38.7

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF   62 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f   62 (130)
                      +++++..| +.|--...++|--.   ...-.+||.|++.+.|..||..|.|-.+
T Consensus       224 ed~l~~~~-~~~~gf~~l~~~~~---~g~~vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  224 EDELKQLL-SRYPGFHILKIRAR---GGMPVAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             HHHHHHHH-HhCCCceEEEEecC---CCcceEeecHHHHHHHHHHHHHhhccee
Confidence            46788888 78876666666532   1245899999999999999999998765

>KOG1040|consensus

Probab=88.11  E-value=0.16  Score=41.73  Aligned_cols=28  Identities=21%  Similarity=0.618  Sum_probs=24.9

Q ss_pred             ccchhhhhcccccCCCCCCCCcceeeec
Q psy17806         75 TDFREACCRQYEMGECTRSGFCNFMHLK  102 (130)
Q Consensus        75 ~~f~~a~c~~~~~~~c~rg~~Cn~lh~~  102 (130)
                      ......+|+-|..|-|.+|+.|+|||-.
T Consensus        73 ~~~~~~vcK~~l~glC~kgD~C~Flhe~  100 (325)
T KOG1040|consen   73 DSRGKVVCKHWLRGLCKKGDQCEFLHEY  100 (325)
T ss_pred             ccCCceeehhhhhhhhhccCcCcchhhh
Confidence            4677889999999999999999999953

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=87.17  E-value=1.8  Score=27.53  Aligned_cols=43  Identities=28%  Similarity=0.461  Sum_probs=25.4

Q ss_pred             ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         22 EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        22 ~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .|-+|.|..+       +.||+-.. +.|..++..|++..+.|++|.++.+
T Consensus        32 ~IG~I~I~~~-------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   32 DIGRIDIFDN-------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GEEEEEE-SS--------EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred             hEEEEEEeee-------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence            4667777664       67777665 5789999999999999999999753

; PDB: 2G0C_A 3MOJ_B.

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

Probab=87.06  E-value=2.8  Score=29.21  Aligned_cols=42  Identities=26%  Similarity=0.366  Sum_probs=34.8

Q ss_pred             ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC
Q psy17806         22 EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG   64 (130)
Q Consensus        22 ~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G   64 (130)
                      .|..++|.++... .+=-|-++|.+.++|..-....||+.|+.
T Consensus        40 ~i~~~riird~~p-nrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   40 DIEHIRIIRDGTP-NRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             cEEEEEEeeCCCC-ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            5778888887532 34468899999999999999999999965

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

>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain

Probab=86.74  E-value=1.1  Score=29.40  Aligned_cols=39  Identities=23%  Similarity=0.345  Sum_probs=27.5

Q ss_pred             ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC
Q psy17806         22 EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG   64 (130)
Q Consensus        22 ~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G   64 (130)
                      .|.++.++.    +.+|++||+=.++.+...|++.+.+-+...
T Consensus        33 ~I~Si~~~~----~lkGyIyVEA~~~~~V~~ai~gi~~i~~~~   71 (84)
T PF03439_consen   33 NIYSIFAPD----SLKGYIYVEAERESDVKEAIRGIRHIRGSR   71 (84)
T ss_dssp             ---EEEE-T----TSTSEEEEEESSHHHHHHHHTT-TTEEEEC
T ss_pred             ceEEEEEeC----CCceEEEEEeCCHHHHHHHHhcccceeecc
Confidence            567777765    478999999999999999998887754433

The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.

>KOG2494|consensus

Probab=86.63  E-value=0.23  Score=40.80  Aligned_cols=26  Identities=27%  Similarity=0.666  Sum_probs=22.0

Q ss_pred             hhhhhcccccCCCCCCCC-cceeeecC
Q psy17806         78 REACCRQYEMGECTRSGF-CNFMHLKP  103 (130)
Q Consensus        78 ~~a~c~~~~~~~c~rg~~-Cn~lh~~~  103 (130)
                      ...+||+|..|.|.||+. |.|.|--.
T Consensus        36 ~~eVCReF~rn~C~R~d~~CkfaHP~~   62 (331)
T KOG2494|consen   36 TLEVCREFLRNTCSRGDRECKFAHPPK   62 (331)
T ss_pred             HHHHHHHHHhccccCCCccccccCCCC
Confidence            356899999999999997 99998643

>KOG2591|consensus

Probab=86.62  E-value=0.68  Score=40.79  Aligned_cols=58  Identities=26%  Similarity=0.406  Sum_probs=40.6

Q ss_pred             HHHHHHhhc-cCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCC--EeCCeeEEEEecc
Q psy17806         10 EDVFVECED-KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR--WFGGRPVYAELSP   73 (130)
Q Consensus        10 eDi~~e~~s-kfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr--~f~GR~I~v~~~~   73 (130)
                      |+|+..|.+ ..-++.++...-|      -+-||+|++..||++|.+.|.-+  .|.|++|.|.+-+
T Consensus       190 e~Vk~lf~~encPk~iscefa~N------~nWyITfesd~DAQqAykylreevk~fqgKpImARIKa  250 (684)
T KOG2591|consen  190 EVVKALFKGENCPKVISCEFAHN------DNWYITFESDTDAQQAYKYLREEVKTFQGKPIMARIKA  250 (684)
T ss_pred             HHHHHHhccCCCCCceeeeeeec------CceEEEeecchhHHHHHHHHHHHHHhhcCcchhhhhhh
Confidence            455555510 1235555555554      36899999999999999999875  5899998886543

>KOG3152|consensus

Probab=86.29  E-value=0.28  Score=39.24  Aligned_cols=55  Identities=18%  Similarity=0.245  Sum_probs=44.1

Q ss_pred             HHHHHhhccCCceEEEEEeeCCC---------CCc----eeEEEEEecCHHHHHHHHHHhCCCEeCCee
Q psy17806         11 DVFVECEDKYGEIEEMNVCDNLG---------DHL----VGNVYIKFRREEDAEKAVNDLNNRWFGGRP   66 (130)
Q Consensus        11 Di~~e~~skfG~I~~v~v~~~~~---------~~~----~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~   66 (130)
                      -|++.| +.||.|-.|.+..+..         +..    ---++|+|.+...|..+...|||..++|+.
T Consensus        90 rlReil-~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk  157 (278)
T KOG3152|consen   90 RLREIL-SQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKK  157 (278)
T ss_pred             HHHHHH-HhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence            477888 7999999999986531         111    123789999999999999999999999984

>KOG0115|consensus

Probab=84.36  E-value=0.98  Score=36.16  Aligned_cols=60  Identities=23%  Similarity=0.302  Sum_probs=48.0

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC----CeeEEEE
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG----GRPVYAE   70 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~----GR~I~v~   70 (130)
                      +.+..+| +.||.|+..+++.+..+.+.|-..|.|...-.|.+|....+-.-|.    ++++-|+
T Consensus        46 dll~~~f-~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve  109 (275)
T KOG0115|consen   46 DLLEQAF-RRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE  109 (275)
T ss_pred             HHHHHhh-hhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence            4567778 7999999999988766778899999999999999999998666554    3455444

>KOG2135|consensus

Probab=84.19  E-value=0.75  Score=39.69  Aligned_cols=59  Identities=17%  Similarity=0.196  Sum_probs=49.6

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..++-..| ++||+|..|-|-.+.     --+-|+|.+..+|-.|.. .+|-.|++|.|.+-+-..
T Consensus       387 ~a~ln~hf-A~fG~i~n~qv~~~~-----~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp  445 (526)
T KOG2135|consen  387 IADLNPHF-AQFGEIENIQVDYSS-----LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP  445 (526)
T ss_pred             Hhhhhhhh-hhcCccccccccCch-----hhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence            46888899 799999999997652     356699999999977765 899999999999998855

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=83.64  E-value=4  Score=27.44  Aligned_cols=42  Identities=17%  Similarity=0.393  Sum_probs=36.3

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCC
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN   59 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnG   59 (130)
                      .||.+.| +.||.|.=-+|-+       .-+||...+.+.|..|++.++-
T Consensus        23 ~DI~qlF-spfG~I~VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen   23 SDIYQLF-SPFGQIYVSWIND-------TSAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             HHHHHHC-CCCCCEEEEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred             hhHHHHh-ccCCcEEEEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence            6899999 8999997777754       4799999999999999998863

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>KOG4206|consensus

Probab=82.87  E-value=4.5  Score=31.65  Aligned_cols=51  Identities=12%  Similarity=0.240  Sum_probs=39.3

Q ss_pred             ccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC-CeeEEEEec
Q psy17806         18 DKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG-GRPVYAELS   72 (130)
Q Consensus        18 skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~-GR~I~v~~~   72 (130)
                      ..|.--..|+.+.+.    .|.+||+|.+...|..|...|.|-.+- .-++.+.++
T Consensus       168 ~qf~g~keir~i~~~----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a  219 (221)
T KOG4206|consen  168 EQFPGFKEIRLIPPR----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFA  219 (221)
T ss_pred             hhCcccceeEeccCC----CceeEEecchhhhhHHHhhhhccceeccCceEEeccc
Confidence            456666666666543    589999999999999999999998776 666666654

>KOG0128|consensus

Probab=82.24  E-value=0.26  Score=44.97  Aligned_cols=59  Identities=25%  Similarity=0.330  Sum_probs=45.4

Q ss_pred             HHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEE
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY   68 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~   68 (130)
                      .+|+...+ +.+|.|..+.|... ..+..+|.+||.|..+++|.+|+....+..++...+.
T Consensus       681 ~~dl~~~~-~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~  740 (881)
T KOG0128|consen  681 EEDLSERF-SPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVA  740 (881)
T ss_pred             Cchhhhhc-CccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhhhhh
Confidence            36888888 79999888877732 2467899999999999999999987666665543333

>KOG1365|consensus

Probab=81.41  E-value=3.1  Score=35.38  Aligned_cols=50  Identities=24%  Similarity=0.275  Sum_probs=37.9

Q ss_pred             hHHHHHHHHHHhhcc----CCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHH
Q psy17806          5 YDNFFEDVFVECEDK----YGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVN   55 (130)
Q Consensus         5 ~d~~~eDi~~e~~sk----fG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~   55 (130)
                      ||....||.+-| ..    -|-++.|..+....++..|-+||.|..+++|+.|+.
T Consensus       171 fdat~~dVv~FF-~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~  224 (508)
T KOG1365|consen  171 FDATALDVVEFF-GPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALR  224 (508)
T ss_pred             CCcchHHHHHhc-CCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHH
Confidence            566677777655 31    235667777766668899999999999999999986

>KOG4213|consensus

Probab=81.21  E-value=4.3  Score=31.09  Aligned_cols=59  Identities=14%  Similarity=0.134  Sum_probs=41.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCC--CceeEEEEEecCHHHHHHHHHHhCCCEeCCeeE
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGD--HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV   67 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~--~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I   67 (130)
                      -++..+||..-. +  |++..|..-+....  ..+|-+||+|.+.+.|.++++.- +..+.-++|
T Consensus       119 td~ql~~l~qw~-~--~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~-e~~~~e~el  179 (205)
T KOG4213|consen  119 TDDQLDDLNQWA-S--GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTH-EEKGAETEL  179 (205)
T ss_pred             CHHHHHHHHHHh-c--ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhh-hhhccchHH
Confidence            356777877665 4  89988888764332  46899999999999999877643 333333333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	130
1jmt_A	104	X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER		5e-33
2dit_A	112	Solution Structure Of The Rrm_1 Domain Of Hiv Tat S		3e-05
2pe8_A	105	Crystal Structure Of The Uhm Domain Of Human Spf45		4e-04

>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER Length = 104

Iteration: 1
 Score =  135 bits (341), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 61/73 (83%), Positives = 68/73 (93%)
Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 32  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 91
Query: 61  WFGGRPVYAELSP 73
           WF G+P++AELSP
Sbjct: 92  WFNGQPIHAELSP 104

>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat Specific Factor 1 Variant Length = 112

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 4/61 (6%)
Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          ED+ VEC  K+G+I ++ + D    H  G   + FR  E+A+  +  L+ RWFGGR + A
Sbjct: 41 EDLRVECS-KFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITA 96
Query: 70 E 70
          +
Sbjct: 97 Q 97

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 38/66 (57%), Gaps = 3/66 (4%)
Query: 15 ECEDKYGEIEEMNVCDNLG--DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          ECE KYG++ +  + +  G  D     ++++F R E A KAV DLN R+FGGR V A   
Sbjct: 33 ECE-KYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFY 91
Query: 73 PVTDFR 78
           +  FR
Sbjct: 92 NLDKFR 97

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	130
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	6e-33
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	5e-25
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	1e-23
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	2e-22
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	6e-21
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	3e-18
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	3e-14
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	4e-07
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	9e-07
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	5e-06
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-05
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-04
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	5e-06
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	8e-06
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	9e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	2e-05
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	3e-05
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-05
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	3e-05
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	5e-05
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	5e-05
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	6e-05
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	8e-05
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	1e-04
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-04
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	2e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-04
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-04
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	3e-04
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	3e-04
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	3e-04
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	3e-04
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	3e-04
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	3e-04
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	3e-04
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	3e-04
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	3e-04
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	3e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	4e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	5e-04
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	5e-04
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	6e-04
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	8e-04

>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 =  110 bits (277), Expect = 6e-33
 Identities = 61/73 (83%), Positives = 68/73 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 32  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 91

Query: 61  WFGGRPVYAELSP 73
           WF G+P++AELSP
Sbjct: 92  WFNGQPIHAELSP 104

>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 = 90.9 bits (226), Expect = 5e-25
 Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 4/77 (5%)

Query: 3  EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF 62
                 +DV  EC  K+G +  + V  N      GNVY+K      A  AVN L+ RWF
Sbjct: 25 GWDTEIKDDVIEECN-KHGGVIHIYVDKNSAQ---GNVYVKCPSIAAAIAAVNALHGRWF 80

Query: 63 GGRPVYAELSPVTDFRE 79
           G+ + A   P+  +  
Sbjct: 81 AGKMITAAYVPLPTYHN 97

>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 = 87.5 bits (217), Expect = 1e-23
 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 5/78 (6%)

Query: 2   QEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW 61
               +   ED+ VEC  K+G+I ++ + D    H  G   + FR  E+A+  +  L+ RW
Sbjct: 33  PLVLNEIREDLRVECS-KFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGRW 88

Query: 62  FGGRPVYAEL-SPVTDFR 78
           FGGR + A+     TD++
Sbjct: 89  FGGRQITAQAWDGTTDYQ 106

>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 = 84.4 bits (209), Expect = 2e-22
 Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 3   EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHL-----VGNVYIKFRREEDAEKAVNDL 57
           +  D+   +V  EC  K+G +  + +             +  ++++F    +  KA+  L
Sbjct: 33  DIDDDLEGEVTEECG-KFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQAL 91

Query: 58  NNRWFGGRPVYAELSPVTDFRE 79
           N RWF GR V AE+     F  
Sbjct: 92  NGRWFAGRKVVAEVYDQERFDN 113

>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 = 80.2 bits (198), Expect = 6e-21
 Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 4/80 (5%)

Query: 3   EHYDNFFEDVFVECEDKYGEIEEMNV---CDNLGDHLVGNVYIKFRREEDAEKAVNDLNN 59
           E Y+   EDV  EC  KYG ++ + +    D +     G ++++F    D +KA+  L  
Sbjct: 23  EEYEEIVEDVRDECS-KYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG 81

Query: 60  RWFGGRPVYAELSPVTDFRE 79
           R F  R V  +      +  
Sbjct: 82  RKFANRVVVTKYCDPDSYHR 101

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

 Score = 72.9 bits (179), Expect = 3e-18
 Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 3/79 (3%)

Query: 2  QEHYDNFFEDVFVECEDKYGEIEEMNVCD--NLGDHLVGNVYIKFRREEDAEKAVNDLNN 59
           E  ++   +   ECE KYG++ +  + +     D     ++++F R E A KAV DLN 
Sbjct: 20 GEVDEDLEVETKEECE-KYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNG 78

Query: 60 RWFGGRPVYAELSPVTDFR 78
          R+FGGR V A    +  FR
Sbjct: 79 RYFGGRVVKACFYNLDKFR 97

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 63.2 bits (154), Expect = 3e-14
 Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 6/84 (7%)

Query: 6  DNFFEDVFVECEDKYGEIEEMNVC--DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG 63
          DN  E    +   KYGE+EE+ +        HL G   + F     A++ V +L+     
Sbjct: 16 DNVRETFLKDMCRKYGEVEEVEILLHPRTRKHL-GLARVLFTSTRGAKETVKNLHLTSVM 74

Query: 64 GRPVYAELSPVTDFREACCRQYEM 87
          G  ++A+L       +   + YE+
Sbjct: 75 GNIIHAQLDI---KGQQRMKYYEL 95

>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 = 46.0 bits (109), Expect = 4e-07
 Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 8/78 (10%)

Query: 6   DNFFEDVFVECEDKYGEIE------EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN 59
           D+   +V  EC  K+G +       E    +   + +V  ++++F    +  KA+  LN 
Sbjct: 140 DDLEGEVTEEC-GKFGAVNRVIIYQEKQGEEEDAEIIV-KIFVEFSIASETHKAIQALNG 197

Query: 60  RWFGGRPVYAELSPVTDF 77
           RWF GR V AE+     F
Sbjct: 198 RWFAGRKVVAEVYDQERF 215

>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 = 43.7 bits (103), Expect = 9e-07
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 4/59 (6%)

Query: 18 DKYGEIEEMNVCDNLGD----HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
           K+G+I ++ + ++           + Y+ + R EDA +A+  +NN    GR + A L 
Sbjct: 40 GKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG 98

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 43.0 bits (102), Expect = 5e-06
 Identities = 13/72 (18%), Positives = 28/72 (38%), Gaps = 1/72 (1%)

Query: 10  EDVFVECEDKYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           +  F E    +G +E   +          G  + ++ +++ A +A +DL  +  G R +Y
Sbjct: 109 QQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLY 168

Query: 69  AELSPVTDFREA 80
              +       A
Sbjct: 169 VHWTDAGQLTPA 180

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 8/50 (16%), Positives = 15/50 (30%)

Query: 19  KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
                    +       L G   +++   E AE+A    +    GG  + 
Sbjct: 208 AVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLR 257

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 8/33 (24%), Positives = 14/33 (42%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
          ++     E AE A+N  +      R +  +L P
Sbjct: 61 FVTLLNGEQAEAAINAFHQSRLRERELSVQLQP 93

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 41.5 bits (98), Expect = 5e-06
 Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 8/77 (10%)

Query: 19  KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDF 77
           ++G++E +    +         +I F   + A KA+ ++N +   G  +    + P    
Sbjct: 34  QFGKLERVKKLKDYA-------FIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQK 86

Query: 78  REACCRQYEMGECTRSG 94
           R+    Q +      SG
Sbjct: 87  RKERKAQRQAASGPSSG 103

>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 = 40.7 bits (96), Expect = 8e-06
 Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 38 GNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT 75
          G   + F   ++A  AV DLN+R  G R V  +LS  +
Sbjct: 58 GEAMVAFESRDEATAAVIDLNDRPIGSRKV--KLSGPS 93

>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 = 40.7 bits (96), Expect = 9e-06
 Identities = 13/35 (37%), Positives = 17/35 (48%)

Query: 38 GNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          G   + F   ++A  AV DLN+R  G R V   L 
Sbjct: 58 GEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG 92

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 10/32 (31%), Positives = 14/32 (43%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
           YI    +EDA   V  LN     G  +  ++S
Sbjct: 163 YIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS 194

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 6/60 (10%)

Query: 11  DVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE 70
             F  C    G I  ++V D+L  +      I+F R + A  A+   +    G   +   
Sbjct: 60  KYFKHC----GPIIHVDVADSLKKNF-RFARIEFARYDGALAAITKTHKV-VGQNEIIVS 113

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 40.0 bits (94), Expect = 2e-05
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
           +G+I E+ V    G       +++F   E A  A+  +N     G  V
Sbjct: 48 PFGQIMEIRVFPEKG---YS--FVRFSTHESAAHAIVSVNGTTIEGHVV 91

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 40.8 bits (96), Expect = 3e-05
 Identities = 6/28 (21%), Positives = 17/28 (60%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           +I++ + + ++ AV+ +N    GG+ + 
Sbjct: 171 FIEYEKAQSSQDAVSSMNLFDLGGQYLR 198

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 40.2 bits (95), Expect = 3e-05
 Identities = 10/60 (16%), Positives = 21/60 (35%), Gaps = 1/60 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          +          G I    +  D    +  G  ++ F  E D+++A+  LN      + + 
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76

>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-05
 Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 19  KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
             G+I ++ V  +  +   G  YI F  +E A+  V       F G P+    S
Sbjct: 56  SQGDILDIVVDLSDDNS--GKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFS 107

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 39.9 bits (94), Expect = 5e-05
 Identities = 11/28 (39%), Positives = 15/28 (53%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           YI+F+ E DAEK + +       GR V 
Sbjct: 140 YIEFKSEADAEKNLEEKQGAEIDGRSVS 167

>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 = 39.9 bits (93), Expect = 5e-05
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 20 YGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          YG+++ + +  N       N  ++      A+ A++ LN     G+P+   LS
Sbjct: 28 YGDVQRVKILFNKK----ENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS 76

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 38.6 bits (90), Expect = 6e-05
 Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 5/62 (8%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFR 78
          ++G +  + + +           ++F    +A KA   L    F   P+Y E +P+  F 
Sbjct: 33 RFGSLGRVLLPEG-----GITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFG 87

Query: 79 EA 80
           A
Sbjct: 88 AA 89

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 37.9 bits (89), Expect = 8e-05
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 19 KYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
           +G I +  V  D       G  ++ F  + DAE A+  +  +W GGR +
Sbjct: 29 PFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI 78

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 39.5 bits (91), Expect = 1e-04
 Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          ++G+I ++ V  +L   + G  ++ F+    A  A+  +    F  +P+  + +
Sbjct: 36 QFGQILDILVSRSLK--MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA 87

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 37.7 bits (88), Expect = 1e-04
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 5/49 (10%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
           +G I +       G       +IK+   E A   +  L N  F GR +
Sbjct: 50 NFGFILDFKHYPEKG---CC--FIKYDTHEQAAVCIVALANFPFQGRNL 93

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 37.7 bits (88), Expect = 1e-04
 Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 7/54 (12%)

Query: 19  KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
            +G ++E+ + +          +++F   E A KA+ +++ + F  +P+    S
Sbjct: 54  PFGPMKEVKILNGFA-------FVEFEEAESAAKAIEEVHGKSFANQPLEVVYS 100

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 7/28 (25%), Positives = 17/28 (60%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           ++ F  ++DA+ A++ +  +   GRP+ 
Sbjct: 133 FVSFTSQDDAQNAMDSMQGQDLNGRPLR 160

>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 = 37.2 bits (87), Expect = 2e-04
 Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          ++G+I ++ V  +L   + G  ++ F+    A  A+  +    F  +P+  + +
Sbjct: 35 RFGQILDILVSRSLK--MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA 86

>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 = 38.4 bits (89), Expect = 2e-04
 Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 20  YGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
           YG+++ + +  N       N  ++      A+ A++ LN     G+P+   LS 
Sbjct: 59  YGDVQRVKILFNKK----ENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK 108

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           ++ F  +E AE+A+  +N      R V+
Sbjct: 147 FVHFETQEAAERAIEKMNGMLLNDRKVF 174

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
          E +  E     G I  + VC D +    +G  Y+ F++  DAE+A++ +N     G+PV
Sbjct: 29 EAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPV 87

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 36.7 bits (86), Expect = 2e-04
 Identities = 7/28 (25%), Positives = 17/28 (60%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          ++ F  ++DA+ A++ +  +   GRP+ 
Sbjct: 47 FVSFTSQDDAQNAMDSMQGQDLNGRPLR 74

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 4/28 (14%), Positives = 12/28 (42%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           + ++      ++A+  LN    G + + 
Sbjct: 160 FCEYVDINVTDQAIAGLNGMQLGDKKLL 187

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 38.1 bits (89), Expect = 3e-04
 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          E+ F    ++YGE  E+ +  + G       +I+      AE A  +L+      RP+ 
Sbjct: 36 EEDFKRLFERYGEPSEVFINRDRG-----FGFIRLESRTLAEIAKAELDGTILKSRPLR 89

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 37.0 bits (86), Expect = 3e-04
 Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 11/63 (17%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          E +F     KYG +   +V            ++++  E  A  AV   N R   G+ +  
Sbjct: 46 ETIF----SKYGRVAGCSVHKGYA-------FVQYSNERHARAAVLGENGRVLAGQTLDI 94

Query: 70 ELS 72
           ++
Sbjct: 95 NMA 97

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 11/63 (17%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
            +F    ++ G + E +V  +         ++   +E DA+ A+  LN +   G+ +  
Sbjct: 27 RSLF----ERRGRVIECDVVKDYA-------FVHMEKEADAKAAIAQLNGKEVKGKRINV 75

Query: 70 ELS 72
          ELS
Sbjct: 76 ELS 78

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 36.5 bits (85), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 17/32 (53%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          ++ F   EDA +A+  LN +   G P+   L+
Sbjct: 55 FVHFSNREDAVEAMKALNGKVLDGSPIEVTLA 86

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 36.8 bits (86), Expect = 3e-04
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          ++ F   E+A KAV ++N R    +P+Y
Sbjct: 59 FVCFSSPEEATKAVTEMNGRIVATKPLY 86

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 6/28 (21%), Positives = 15/28 (53%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          +I F   + ++ A+  +N ++   RP+ 
Sbjct: 52 FINFASFDASDAAIEAMNGQYLCNRPIT 79

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 11/63 (17%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
            +F      YG I ++N+ +  G       +I+F   +    A+   +     G+ +  
Sbjct: 29 FRIF----SPYGHIMQINIKNAFG-------FIQFDNPQSVRDAIECESQEMNFGKKLIL 77

Query: 70 ELS 72
          E+S
Sbjct: 78 EVS 80

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Length = 81

 Score = 36.2 bits (84), Expect = 3e-04
 Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR 65
          K+G+I      +  G    G +++++     A  AV + +      +
Sbjct: 30 KFGKITNDFYPEEDGKTK-GYIFLEYASPAHAVDAVKNADGYKLDKQ 75

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 36.5 bits (85), Expect = 3e-04
 Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 11/63 (17%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
            +F      YG I ++N+            +I+F   +    A+   +     G+ +  
Sbjct: 41 FRIF----SPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLIL 89

Query: 70 ELS 72
          E+S
Sbjct: 90 EVS 92

>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 = 36.5 bits (85), Expect = 3e-04
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 5/50 (10%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          KYG+  E+ +  + G    G  +I+      AE A  +L+N    G+ + 
Sbjct: 38 KYGKAGEVFIHKDKG---FG--FIRLETRTLAEIAKVELDNMPLRGKQLR 82

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 36.6 bits (85), Expect = 4e-04
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPV 67
          ++ F  + DAE A+  +  +W GGR +
Sbjct: 61 FVSFFNKWDAENAIQQMGGQWLGGRQI 87

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 36.8 bits (86), Expect = 5e-04
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVC-DNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          ++ F       GEIE   +  D +    +G  ++ +   +DAEKA+N LN      + + 
Sbjct: 16 QEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIK 75

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 35.9 bits (83), Expect = 5e-04
 Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 2/55 (3%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
          +YG +E     +   D     V + +  ++ A +A++ LN        +     P
Sbjct: 38 QYGVVESCEQVNT--DSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIP 90

>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 Length = 107

 Score = 35.7 bits (83), Expect = 6e-04
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 41  YIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
            + F R+ DA KA+   N     GRP+  +L  
Sbjct: 74  DVHFERKADALKAMKQYNGVPLDGRPMNIQLVT 106

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Length = 105

 Score = 35.5 bits (82), Expect = 8e-04
 Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR 65
          K+G+I      +  G    G +++++     A  AV + +      +
Sbjct: 44 KFGKITNDFYPEEDGKTK-GYIFLEYASPAHAVDAVKNADGYKLDKQ 89

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	130
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.86
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.84
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.84
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.83
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.81
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.74
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.68
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.61
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.59
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.59
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.56
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.55
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.55
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.54
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.54
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.53
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.53
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.53
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.53
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.51
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.5
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.5
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.5
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.5
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.5
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.5
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.49
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.49
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.49
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.48
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.48
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.48
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.48
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.48
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.47
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.47
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.47
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.47
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.47
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.47
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.47
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.47
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.46
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.46
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.46
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.46
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.46
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.46
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.45
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.45
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.45
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.45
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.45
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.45
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.45
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.45
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.44
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.44
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.44
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.43
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.43
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.43
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.43
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.43
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.43
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.42
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.42
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.42
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.42
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.42
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.42
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.42
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.42
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.41
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.41
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.41
2div_A	99	TRNA selenocysteine associated protein; structural	99.41
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.4
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.4
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.4
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.4
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.4
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.4
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.4
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.4
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.39
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.39
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.39
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.39
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.39
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.39
1x5p_A	97	Negative elongation factor E; structure genomics,	99.39
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.39
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.38
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.38
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.38
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.37
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.37
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.37
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.37
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.37
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.36
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.36
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.36
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.36
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.36
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.36
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.36
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.36
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.35
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.35
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.35
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.35
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.35
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.35
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.35
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.35
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.35
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.35
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.35
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.34
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.34
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.34
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.34
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.34
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.34
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.34
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.34
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.34
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.33
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.33
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.33
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.33
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.33
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.32
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.32
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.32
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.32
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.31
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.31
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.31
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.31
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.3
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.3
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.3
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.3
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.3
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.3
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.3
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.29
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.29
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.29
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.29
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.29
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.29
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.28
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.28
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.28
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.28
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.28
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.28
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.27
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.27
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.26
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.26
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.26
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.25
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.25
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.25
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.25
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.24
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.89
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.23
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.22
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.22
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.22
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.21
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.21
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.21
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.21
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.2
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.2
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.19
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.18
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.17
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.16
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.16
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.15
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.15
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.12
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.11
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.09
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.08
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.07
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.07
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.06
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.04
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.04
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	99.03
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.02
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.0
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.99
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.94
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.92
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.91
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	98.84
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.79
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.3
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.71
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.41
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.31
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	97.05
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	96.82
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	96.36
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	95.09
2rhk_C	72	Cleavage and polyadenylation specificity factor su	95.07
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	94.8
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	94.62
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	94.42
2d9m_A	69	Zinc finger CCCH-type domain containing protein 7A	94.38
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	93.49
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	93.45
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	93.0
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	92.85
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	92.64
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	92.36
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	89.75
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	89.49
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	89.19
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	88.27
2rhk_C	72	Cleavage and polyadenylation specificity factor su	87.89
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	87.82
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	87.04
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	86.5
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	84.53
3h7h_B	106	Transcription elongation factor SPT5; helices surr	81.59

>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=99.86  E-value=9.6e-22  Score=134.49  Aligned_cols=77  Identities=26%  Similarity=0.490  Sum_probs=70.9

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCC---CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLG---DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~---~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      .+|+++.+||+++| ++||+|++|.|+++..   ++++|+|||+|.+.++|.+|++.|||++|+||+|.|+|+++++|..
T Consensus        23 ~~~~~~~~dl~~~f-~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~~~f~~  101 (105)
T 3v4m_A           23 EEYEEIVEDVRDEC-SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHR  101 (105)
T ss_dssp             HHHHHHHHHHHHHH-HTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHT
T ss_pred             HHHHHHHHHHHHHH-HccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEeCHHHHhh
Confidence            57899999999999 7999999999998753   3679999999999999999999999999999999999999998875


Q ss_pred             h
Q psy17806         80 A   80 (130)
Q Consensus        80 a   80 (130)
                      .
T Consensus       102 ~  102 (105)
T 3v4m_A          102 R  102 (105)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=99.84  E-value=5.6e-21  Score=130.35  Aligned_cols=72  Identities=85%  Similarity=1.415  Sum_probs=68.2

Q ss_pred             ChhhhHHHHHHHHHHh-hccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          1 MQEHYDNFFEDVFVEC-EDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         1 ~q~~~d~~~eDi~~e~-~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      |+++|++|++||+++| . +||+|.+|.|+.+..++++|++||+|.+.++|.+|++.|||++|+||+|.|+|+|
T Consensus        32 l~~~f~~~~edl~~~f~~-~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~~sp  104 (104)
T 1jmt_A           32 MQEHYDEFFEEVFTEMEE-KYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHH-HTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             HHHHHHHHHHHHHHHhhc-cCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEcC
Confidence            4678999999999999 6 9999999999998778899999999999999999999999999999999999986

>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=99.84  E-value=6.2e-21  Score=132.72  Aligned_cols=78  Identities=31%  Similarity=0.487  Sum_probs=71.0

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhh
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACC   82 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c   82 (130)
                      +.|++|.+||+++| ++||.|++|.|+++.   ++|++||+|.+.++|.+|++.|||++|+||+|+|+|+++++|....-
T Consensus        25 ~~~~el~edl~~~f-~kfG~V~~v~i~~~~---~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~v~~~~~~~y~~~fp  100 (114)
T 3s6e_A           25 GWDTEIKDDVIEEC-NKHGGVIHIYVDKNS---AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHNLFP  100 (114)
T ss_dssp             THHHHHHHHHHHHH-TTTTCCSEEEECTTC---TTCCEEEECSSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHHHCG
T ss_pred             hHHHHHHHHHHHHH-hccCCEEEEEEecCC---CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEEcHHHHHHhCc
Confidence            46999999999999 799999999998763   58999999999999999999999999999999999999999976654


Q ss_pred             cc
Q psy17806         83 RQ   84 (130)
Q Consensus        83 ~~   84 (130)
                      ..
T Consensus       101 ~a  102 (114)
T 3s6e_A          101 DS  102 (114)
T ss_dssp             GG
T ss_pred             cc
Confidence            43

>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=99.83  E-value=5.3e-21  Score=133.70  Aligned_cols=75  Identities=27%  Similarity=0.588  Sum_probs=68.4

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-----CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-----GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-----~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      .+++.+||+++| ++||+|.+|+|+.+.     +++++|+|||+|.+.++|.+|++.|||++|+||+|+|.|+++++|..
T Consensus        35 ~ddleedl~eef-~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~~~~~~f~~  113 (118)
T 3ue2_A           35 DDDLEGEVTEEC-GKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDN  113 (118)
T ss_dssp             CTTHHHHHHHHH-TTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHT
T ss_pred             HHHHHHHHHHHH-hccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcChHhccc
Confidence            467999999999 799999999999864     24678999999999999999999999999999999999999999875


Q ss_pred             h
Q psy17806         80 A   80 (130)
Q Consensus        80 a   80 (130)
                      .
T Consensus       114 ~  114 (118)
T 3ue2_A          114 S  114 (118)
T ss_dssp             T
T ss_pred             c
Confidence            3

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

Probab=99.81  E-value=4e-20  Score=126.49  Aligned_cols=76  Identities=33%  Similarity=0.509  Sum_probs=67.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      .+++.+||+++| ++||+|.+|.|+.+.  +++++|++||+|.+.++|.+|++.|||++|+||+|+|.|++.++|..+.
T Consensus        23 ~dd~~~dl~~~f-~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~a~~~~f~~~~  100 (105)
T 2pe8_A           23 DEDLEVETKEEC-EKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLD  100 (105)
T ss_dssp             ---CHHHHHHHG-GGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCHHHHHTTC
T ss_pred             hHHHHHHHHHHH-HhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcCHHHhhhhh
Confidence            356889999999 799999999999864  3678999999999999999999999999999999999999998887653

>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=99.74  E-value=2.4e-18  Score=129.50  Aligned_cols=75  Identities=27%  Similarity=0.583  Sum_probs=68.1

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCC-----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLG-----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~-----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      .+++.+||+++| ++||+|.+|.|+++..     ++++|++||+|.+.++|.+|++.||||+|+||+|.|.|+++++|+.
T Consensus       139 ~~e~~~dl~~e~-~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~~~~f~~  217 (222)
T 3dxb_A          139 DDDLEGEVTEEC-GKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDN  217 (222)
T ss_dssp             CTTHHHHHHHHH-TTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECCHHHHHT
T ss_pred             HHHHHHHHHHHH-HccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcCHHHhhh
Confidence            356789999999 7999999999997543     3899999999999999999999999999999999999999999875


Q ss_pred             h
Q psy17806         80 A   80 (130)
Q Consensus        80 a   80 (130)
                      .
T Consensus       218 ~  218 (222)
T 3dxb_A          218 S  218 (222)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=99.68  E-value=1.3e-16  Score=109.02  Aligned_cols=72  Identities=35%  Similarity=0.668  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCccch
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDFR   78 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~f~   78 (130)
                      +.|+++.+||+++| ++||.|.+|.|++.   +++|++||+|.+.++|.+|++.|||++|+||+|.|.++ +.++|.
T Consensus        34 ~~~~~~e~~l~~~f-~~~G~v~~v~i~~~---~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~~~~~~~  106 (112)
T 2dit_A           34 LVLNEIREDLRVEC-SKFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ  106 (112)
T ss_dssp             HHHHHHHHHHHHHG-GGTSCCSEEEEETT---CTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCCCSS
T ss_pred             HHHHHHHHHHHHHH-HccCCEeEEEEecC---CCCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCCCCCcc
Confidence            35788999999999 79999999988543   47999999999999999999999999999999999998 556664

>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=99.61  E-value=4.7e-15  Score=99.60  Aligned_cols=67  Identities=18%  Similarity=0.331  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||+|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++||+|.|.++.
T Consensus        30 ~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~Ak   97 (99)
T 4fxv_A           30 NMTQDELRSLF-SSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR   97 (99)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHH-HhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            33468999999 799999999999865 57899999999999999999999999999999999999984

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.59  E-value=7.7e-15  Score=100.47  Aligned_cols=70  Identities=21%  Similarity=0.235  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      +.-.++|++.| ++||.|.+|.|+.+. +++++|++||+|.+.++|.+|++.|||..++||+|.|++++...
T Consensus        17 ~~te~~L~~~F-~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~~~~   87 (110)
T 3s8s_A           17 NVRETFLKDMC-RKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKGQ   87 (110)
T ss_dssp             TCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSTTH
T ss_pred             CCCHHHHHHHH-HhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCc
Confidence            34468899999 799999999999875 47899999999999999999999999999999999999996543

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.59  E-value=1.7e-15  Score=101.45  Aligned_cols=68  Identities=10%  Similarity=0.130  Sum_probs=63.2

Q ss_pred             hhHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC-eeEEEEec
Q psy17806          4 HYDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG-RPVYAELS   72 (130)
Q Consensus         4 ~~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G-R~I~v~~~   72 (130)
                      .++...++|++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++| |+|.|.++
T Consensus        21 ~~~~~~~~L~~~F-~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a   90 (100)
T 3ns6_A           21 KVPVLKKALTSLF-SKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTM   90 (100)
T ss_dssp             GHHHHHHHHHHHH-HTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEES
T ss_pred             HHHHHHHHHHHHH-HhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEEC
Confidence            4578889999999 799999999999865 47899999999999999999999999999999 99999998

>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=99.56  E-value=1.8e-14  Score=98.65  Aligned_cols=66  Identities=18%  Similarity=0.280  Sum_probs=59.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.+|.|+.+. +.++|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus        17 ~te~~L~~~F-~~~G~v~~v~i~~d~-~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~   82 (115)
T 4f25_A           17 IDNKALYDTF-SAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS   82 (115)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEEET-TEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSC
T ss_pred             CCHHHHHHHH-hccCCEEEEEEeecC-CCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            3468999999 799999999999875 44799999999999999999999999999999999999854

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

Probab=99.55  E-value=8.7e-15  Score=98.66  Aligned_cols=71  Identities=11%  Similarity=0.193  Sum_probs=62.8

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCe-eEEEEec-cCccc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR-PVYAELS-PVTDF   77 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR-~I~v~~~-~~~~f   77 (130)
                      ++...++|++.| ++||.|.+|.|+ ..++.++|++||+|.+.++|.+|+..|||..++|| +|.|.++ +.++|
T Consensus        31 ~~~t~~~l~~~F-~~~G~v~~v~i~-~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~a~~~~k~  103 (105)
T 2nlw_A           31 LEKLKNVIHKIF-SKFGKITNDFYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNLFTDFDKY  103 (105)
T ss_dssp             TTHHHHHHHHHH-GGGSCEEEEECC-CBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEECSCCCCCC
T ss_pred             hHHHHHHHHHHH-hcCCCEEEEEee-CCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEEcchHhhh
Confidence            344789999999 799999999999 44578899999999999999999999999999999 9999998 44444

>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=99.55  E-value=5.2e-14  Score=90.04  Aligned_cols=67  Identities=15%  Similarity=0.190  Sum_probs=60.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|+.+ .++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        13 ~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   80 (83)
T 3md1_A           13 VDDETLRNAF-KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK   80 (83)
T ss_dssp             CCHHHHHHHH-TTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCc
Confidence            3468899999 79999999999976 4578899999999999999999999999999999999999843

>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=99.54  E-value=3.4e-14  Score=93.23  Aligned_cols=66  Identities=17%  Similarity=0.216  Sum_probs=61.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .-.+||++.| ++||.|.+|.|+.+..+.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        28 ~~~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           28 VREEILYELF-LQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            3468899999 79999999999988778889999999999999999999999999999999999874

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

Probab=99.54  E-value=5.8e-15  Score=94.87  Aligned_cols=63  Identities=11%  Similarity=0.189  Sum_probs=57.2

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCe-eEEE
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR-PVYA   69 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR-~I~v   69 (130)
                      ++...++|++.| ++||.|.++.|+. .+++++|++||+|.+.++|.+|++.|||..++|| +|.|
T Consensus        17 ~~~t~~~l~~~F-~~~G~i~~v~i~~-~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           17 LEKLKNVIHKIF-SKFGKITNDFYPE-EDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             HHHHHHHHHHHH-HTTCCEEEEECCC-BTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             HHHHHHHHHHHH-hhcCCeEEEEecC-CCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            455889999999 7999999999984 4578899999999999999999999999999999 8875

>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=99.53  E-value=6.2e-14  Score=90.44  Aligned_cols=66  Identities=20%  Similarity=0.441  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        18 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A           18 ITTAAIAAAF-APFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCHHHHHHHH-HhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            3468899999 799999999999874 67889999999999999999999999999999999999984

>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=99.53  E-value=6.2e-14  Score=93.95  Aligned_cols=66  Identities=23%  Similarity=0.325  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        41 ~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           41 VSDADIQELF-AEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            3468899999 79999999999988778899999999999999999999999999999999999874

>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=99.53  E-value=3.1e-14  Score=91.49  Aligned_cols=64  Identities=19%  Similarity=0.318  Sum_probs=58.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..+||++.| ++||.|.++.|+.+ .++..+|++||+|.+.++|.+|++.|||..++|++|.|+++
T Consensus        20 ~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A           20 DDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CHHHHHHHH-GGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CHHHHHHHH-hccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            458899999 79999999999876 45778999999999999999999999999999999999986

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.53  E-value=7.2e-14  Score=92.70  Aligned_cols=67  Identities=16%  Similarity=0.273  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        29 ~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   95 (100)
T 2do4_A           29 CTKEELEEIC-KAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISNS   95 (100)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCC
T ss_pred             CCHHHHHHHH-HhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            3468899999 799999999999887788999999999999999999999999999999999999843

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.51  E-value=9.9e-14  Score=90.82  Aligned_cols=65  Identities=20%  Similarity=0.278  Sum_probs=59.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|+..|||..++|++|.|.++.
T Consensus        28 t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (95)
T 2cqc_A           28 TERDLREVF-SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPS   93 (95)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCS
T ss_pred             CHHHHHHHH-HhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecC
Confidence            457899999 799999999999865 46889999999999999999999999999999999999874

>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=99.50  E-value=7.4e-14  Score=92.35  Aligned_cols=68  Identities=22%  Similarity=0.252  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++...
T Consensus        20 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   88 (99)
T 1whw_A           20 SSEEDLEKLF-SAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIK   88 (99)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCCC
T ss_pred             CCHHHHHHHH-HhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            3467899999 799999999999876 6788999999999999999999999999999999999998543

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.50  E-value=1.7e-13  Score=92.72  Aligned_cols=67  Identities=12%  Similarity=0.159  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        27 ~~~~~l~~~f-~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   93 (114)
T 2do0_A           27 VGWKKLKEVF-SMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDER   93 (114)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEccc
Confidence            3468899999 799999999999887788899999999999999999999999999999999999844

>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=99.50  E-value=1.2e-13  Score=91.07  Aligned_cols=69  Identities=23%  Similarity=0.342  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      .-.+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++....
T Consensus        14 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~   83 (96)
T 2x1f_A           14 QTEEQILDLC-SNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNSD   83 (96)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSS
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCCCC
Confidence            3468899999 799999999999874 47889999999999999999999999999999999999995543

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.50  E-value=9.7e-14  Score=92.54  Aligned_cols=66  Identities=26%  Similarity=0.365  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+ ++..+|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2d9p_A           27 IDDERLRKAF-SPFGTITSAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQR   92 (103)
T ss_dssp             CCHHHHHHTT-TTTSCEEEEEEEEC-SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSS
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEcC-CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEecc
Confidence            3468899999 79999999999988 778999999999999999999999999999999999999854

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.50  E-value=9.5e-14  Score=90.89  Aligned_cols=66  Identities=20%  Similarity=0.361  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|+++
T Consensus        27 ~~t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           27 SLTNNDLYRIF-SKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             TSCHHHHHHHT-TTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            34468899999 799999999999865 3678999999999999999999999999999999999986

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=1.3e-13  Score=91.93  Aligned_cols=67  Identities=18%  Similarity=0.245  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   94 (103)
T 2cq0_A           27 TRETDLQELF-RPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKP   94 (103)
T ss_dssp             CCHHHHHTTS-TTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCHHHHHHHH-HhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECCC
Confidence            3468899999 799999999999874 578999999999999999999999999999999999999854

>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=99.49  E-value=1.5e-13  Score=91.74  Aligned_cols=67  Identities=19%  Similarity=0.270  Sum_probs=61.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC---eeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG---RPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G---R~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||..+.|   ++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a~~   96 (105)
T 2dnh_A           27 QSEEDVLRLF-QPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFADT   96 (105)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEESCS
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEECcc
Confidence            3468899999 79999999999998778889999999999999999999999999988   9999999854

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.49  E-value=1.2e-13  Score=90.59  Aligned_cols=67  Identities=19%  Similarity=0.245  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        17 ~t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   84 (95)
T 2dnz_A           17 ITEDMLRGIF-EPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTE   84 (95)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESSC
T ss_pred             CCHHHHHHHH-HhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccc
Confidence            3468899999 799999999999875 477899999999999999999999999999999999999854

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.49  E-value=2.3e-13  Score=92.34  Aligned_cols=67  Identities=22%  Similarity=0.462  Sum_probs=61.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   94 (115)
T 2dgo_A           27 ITTEDIKAAF-APFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR   94 (115)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            3468899999 799999999999874 678899999999999999999999999999999999999844

>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=99.48  E-value=1.8e-13  Score=93.01  Aligned_cols=66  Identities=12%  Similarity=0.129  Sum_probs=60.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        38 t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~  104 (115)
T 2cpz_A           38 GDQDLLQMF-MPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS  104 (115)
T ss_dssp             CHHHHHHHH-GGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            458899999 799999999999875 578899999999999999999999999999999999999844

>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=99.48  E-value=1.5e-13  Score=93.40  Aligned_cols=66  Identities=24%  Similarity=0.371  Sum_probs=58.1

Q ss_pred             HHHHHH---HHhhccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVF---VECEDKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~---~e~~skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||+   +.| ++||+|.+|.|+.+..    ..++|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus        28 ~~~~l~~~~~~F-~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~  100 (111)
T 2cpi_A           28 ADPEVLKRPEYF-GKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLGTT  100 (111)
T ss_dssp             CCHHHHHSTTTT-TTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEESCCC
T ss_pred             CHHHHHHHHHHh-hccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEEeccc
Confidence            347788   888 7999999999997642    35679999999999999999999999999999999999844

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=8e-14  Score=91.57  Aligned_cols=67  Identities=13%  Similarity=0.252  Sum_probs=60.9

Q ss_pred             HHHHHHHHHhhccCCceEEE-EEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEM-NVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v-~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++ .|+.+ .++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        17 ~t~~~l~~~F-~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   85 (96)
T 1x5t_A           17 IDEKLLYDTF-SAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFK   85 (96)
T ss_dssp             CCHHHHHHHH-HTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCC
T ss_pred             CCHHHHHHHH-HhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEecc
Confidence            3468899999 799999999 99987 4678899999999999999999999999999999999999844

>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=99.48  E-value=9.9e-14  Score=95.30  Aligned_cols=71  Identities=21%  Similarity=0.303  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      +...+||++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||..++|++|.|.++.....
T Consensus        18 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~   88 (116)
T 2fy1_A           18 ETNEKMLKAVF-GKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKKPSF   88 (116)
T ss_dssp             TCCHHHHHHHH-HTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCCSSC
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCCCC
Confidence            34568899999 799999999999887788899999999999999999999999999999999999955443

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

Probab=99.48  E-value=8e-14  Score=98.09  Aligned_cols=68  Identities=22%  Similarity=0.347  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      +++.+.|++.| ++||.|.+|.|...  +.++|++||+|.+.++|.+|++.|||..+.||+|.|.|+....
T Consensus        44 ~~L~~~L~~~F-~~~G~I~~v~i~~~--~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~~~~  111 (127)
T 2a3j_A           44 EKLQALLYALA-SSQGDILDIVVDLS--DDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSETPQ  111 (127)
T ss_dssp             HHHHHHHHHHH-HHHSCEEEEEECCC--CSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECCCCC
T ss_pred             HHHHHHHHHHh-ccCCCeEEEEeccC--CCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEccCcc
Confidence            34556677888 79999999998753  5679999999999999999999999999999999999995543

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.47  E-value=1.7e-13  Score=90.84  Aligned_cols=65  Identities=20%  Similarity=0.335  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhhccCCceEE--------EEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEE--------MNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~--------v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...+||++.| ++||.|..        +.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++
T Consensus        25 ~t~~~l~~~F-~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           25 VTIESVADYF-KQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   98 (99)
T ss_dssp             CCHHHHHHHH-TTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             CCHHHHHHHH-HHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEec
Confidence            3468899999 79999999        9999874 5789999999999999999999999999999999999986

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=1.1e-13  Score=92.07  Aligned_cols=66  Identities=18%  Similarity=0.311  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        25 t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   91 (102)
T 2cqb_A           25 DDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   91 (102)
T ss_dssp             CHHHHHHHH-TTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CHHHHHHHh-hccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCCC
Confidence            468899999 799999999999763 577899999999999999999999999999999999999854

>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=99.47  E-value=1.2e-13  Score=92.17  Aligned_cols=67  Identities=15%  Similarity=0.168  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   94 (105)
T 1x5u_A           27 VSEPLLWELF-LQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   94 (105)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCC
Confidence            3468899999 799999999999875 578999999999999999999999999999999999999844

>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=99.47  E-value=3.4e-13  Score=89.86  Aligned_cols=66  Identities=18%  Similarity=0.232  Sum_probs=59.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+... ++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~f-~~~G~v~~v~i~~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   92 (103)
T 2cq3_A           27 FRDPDLRQMF-GQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   92 (103)
T ss_dssp             CCHHHHHHHG-GGTSCEEEEEEECCTTT-TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCC-CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccc
Confidence            3468899999 79999999999987543 799999999999999999999999999999999999844

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

Probab=99.47  E-value=6.2e-14  Score=93.95  Aligned_cols=67  Identities=9%  Similarity=0.275  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhhccCCc--eEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCC----EeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGE--IEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNR----WFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~--I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr----~f~GR~I~v~~~~   73 (130)
                      +...++|++.| ++||.  |.+|.|+++. ++.++|++||+|.+.++|.+|++.|||.    .++||+|.|+|+.
T Consensus        20 ~~tee~L~~~F-~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           20 HTVVDSIMTAL-SPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK   93 (95)
T ss_dssp             TCCHHHHHHHS-TTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEEEECC
T ss_pred             cCCHHHHHHHH-HhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEEEEcc
Confidence            44578999999 79995  6799999865 5789999999999999999999999997    5999999999974

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.47  E-value=5.5e-14  Score=92.01  Aligned_cols=68  Identities=19%  Similarity=0.165  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhhccCC--ceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYG--EIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG--~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||  .|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus        12 ~~t~~~l~~~F-~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~~   82 (90)
T 3p5t_L           12 WTTDEDLTEAV-HSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSNK   82 (90)
T ss_dssp             TCCHHHHHHHH-HTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC--
T ss_pred             CCCHHHHHHHH-HHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECCC
Confidence            34568899999 7999  99999999874 678999999999999999999999999999999999999843

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

Probab=99.47  E-value=7e-14  Score=93.54  Aligned_cols=64  Identities=20%  Similarity=0.189  Sum_probs=57.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      .-.++|++.| ++||+|.++++..     ++|++||+|.++++|.+|++.|||..++||+|.|.++.+++
T Consensus        19 ~te~~L~~lF-~q~G~V~~~~l~~-----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~e~~   82 (89)
T 2wbr_A           19 IDGPTLRTLC-MQHGPLVSFHPYL-----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPSENE   82 (89)
T ss_dssp             CCCHHHHHHH-HHHSCEEEEEEET-----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCCHHH
T ss_pred             CCHHHHHHHH-HhhCCEEEEEEcC-----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECCHHH
Confidence            3457899999 7999999999976     48999999999999999999999999999999999996544

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=2.4e-13  Score=90.91  Aligned_cols=66  Identities=21%  Similarity=0.351  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...++|++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|+..|||..++|++|.|.++.
T Consensus        35 ~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  101 (106)
T 1p27_B           35 ATEEDIHDKF-AEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCHHHHHHHH-hccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            3468899999 799999999999865 47889999999999999999999999999999999999983

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.46  E-value=1.9e-13  Score=91.38  Aligned_cols=68  Identities=19%  Similarity=0.292  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHh-CCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDL-NNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~l-nGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|..|.|+.+.  ++..+|++||+|.+.++|.+|+..| ||..++|++|.|.++...
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a~~~   97 (107)
T 2cph_A           27 ANQREIRELF-STFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSE   97 (107)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECCCC
T ss_pred             CCHHHHHHHH-HccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeCCCC
Confidence            3468899999 799999999999873  5788999999999999999999999 999999999999999543

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.46  E-value=1.9e-13  Score=94.21  Aligned_cols=66  Identities=21%  Similarity=0.296  Sum_probs=61.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.+|.|+.+.++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        48 t~~~l~~~F-~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  113 (124)
T 2kt5_A           48 SDADIQELF-AEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVAS  113 (124)
T ss_dssp             CHHHHHHHH-HTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEECC
T ss_pred             CHHHHHHHH-HhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCC
Confidence            468899999 799999999999877778899999999999999999999999999999999999854

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

Probab=99.46  E-value=3.4e-14  Score=93.82  Aligned_cols=67  Identities=16%  Similarity=0.185  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHhhccCC-ceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhC-CCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYG-EIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLN-NRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG-~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~ln-Gr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++|| .|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|+ |..++||+|.|+|+.
T Consensus        12 ~~te~~l~~~F-~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A           12 AATEDDIRGQL-QSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             SCCHHHHHHHH-HHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHH-HHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            34568999999 7999 89999999764 57889999999999999999999885 567999999999983

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.46  E-value=2.8e-13  Score=89.40  Aligned_cols=67  Identities=18%  Similarity=0.230  Sum_probs=59.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC----CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL----GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~----~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..|.|+.+.    ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        17 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   87 (98)
T 2cpf_A           17 TTEETLKGVF-SKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   87 (98)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEccC
Confidence            4468899999 799999999999753    237899999999999999999999999999999999999844

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.46  E-value=1.7e-13  Score=91.39  Aligned_cols=67  Identities=15%  Similarity=0.287  Sum_probs=60.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        25 ~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2dnm_A           25 TSPDSLRRVF-EKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVARY   92 (103)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECSS
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECCc
Confidence            3468899999 799999999999865 477899999999999999999999999999999999999854

>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=99.46  E-value=3.9e-13  Score=86.95  Aligned_cols=65  Identities=18%  Similarity=0.323  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|+ .|||..++|++|.|.++..
T Consensus        19 t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A           19 TAEELEAHF-HGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             CHHHHHHHH-GGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTT
T ss_pred             CHHHHHHHH-HhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccC
Confidence            468899999 799999999999874 6788999999999999999999 9999999999999999843

>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=99.45  E-value=2.5e-13  Score=89.97  Aligned_cols=63  Identities=14%  Similarity=0.210  Sum_probs=56.1

Q ss_pred             HHHHH----HHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVF----VECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~----~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .+||+    +.| ++||.|.+|.|+.+...  +|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus        23 ~~~l~~~l~~~F-~~~G~v~~v~i~~~~~~--rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   89 (96)
T 2dgx_A           23 RKELQQLLQEAF-ARHGKVKSVELSPHTDY--QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLATG   89 (96)
T ss_dssp             HHHHHHHHHHHH-HHHSCEEEEEECSCCST--TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             HHHHHHHHHHhc-cccCcEEEEEEEeCCCC--CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCC
Confidence            45555    889 79999999999987544  89999999999999999999999999999999999843

>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=99.45  E-value=2.6e-13  Score=92.10  Aligned_cols=66  Identities=23%  Similarity=0.262  Sum_probs=60.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..++|++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        39 te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~  105 (108)
T 2jrs_A           39 TEDMLRGIF-EPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTE  105 (108)
T ss_dssp             CHHHHHHHH-TTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSCS
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEccc
Confidence            468899999 799999999999763 578899999999999999999999999999999999999843

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.1e-13  Score=93.80  Aligned_cols=66  Identities=15%  Similarity=0.262  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...++|++.| ++||+|.+|.|+.+..+.++|++||+|.+.++|.+|+. |||..|+|++|.|.+..
T Consensus        22 ~~te~~L~~~F-~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           22 DATLDDIKEWL-EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   87 (103)
T ss_dssp             TCCHHHHHHHH-HTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHH
T ss_pred             CCCHHHHHHHH-hhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEch
Confidence            44568999999 79999999999987668899999999999999999999 99999999999999763

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.45  E-value=2.9e-13  Score=88.23  Aligned_cols=66  Identities=17%  Similarity=0.181  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..+.|..+ ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        20 ~t~~~l~~~f-~~~G~v~~~~i~~~-~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   85 (92)
T 2dgv_A           20 FTWKMLKDKF-NECGHVLYADIKME-NGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN   85 (92)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEES-SSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEcc-CCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            3468899999 79999999999985 567899999999999999999999999999999999999843

>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=99.45  E-value=3.8e-13  Score=90.59  Aligned_cols=66  Identities=15%  Similarity=0.206  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...++|++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.|.++.
T Consensus        38 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  104 (110)
T 1oo0_B           38 AQEDEIQEKF-CDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  104 (110)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEcc
Confidence            3467899999 799999999999764 57889999999999999999999999999999999999983

>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=99.45  E-value=2.1e-13  Score=87.88  Aligned_cols=67  Identities=18%  Similarity=0.287  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCC-C-CceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLG-D-HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~-~-~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|+.+.. + ..+|++||+|.+.++|.+|+..|||..++|++|.|+++..
T Consensus        16 ~t~~~l~~~F-~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   84 (88)
T 4a8x_A           16 VTKDHIMEIF-STYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAVLA   84 (88)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECC
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEECCC
Confidence            3468899999 7999999999997642 2 3789999999999999999999999999999999999843

>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=99.45  E-value=4e-13  Score=89.50  Aligned_cols=66  Identities=14%  Similarity=0.129  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+.. ..+|++||+|.+.++|.+|+..|||..+.|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2cqi_A           27 VTEVLILQLF-SQIGPCKSCKMITEHT-SNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   92 (103)
T ss_dssp             CCHHHHHHHH-HHHSCEEEEEEECCCC-SSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCEeEEEEEecCC-CCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCC
Confidence            3468899999 7999999999998753 3689999999999999999999999999999999999844

>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=99.45  E-value=1.9e-13  Score=90.99  Aligned_cols=69  Identities=17%  Similarity=0.233  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      ...+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++....
T Consensus        20 ~~~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   89 (104)
T 1p1t_A           20 ATEEQLKDIF-SEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASEK   89 (104)
T ss_dssp             SCHHHHHHHH-HTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCTT
T ss_pred             CCHHHHHHHH-HhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCCcc
Confidence            3468899999 799999999999764 57889999999999999999999999999999999999995543

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=1.5e-13  Score=91.30  Aligned_cols=68  Identities=22%  Similarity=0.324  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        23 ~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   91 (102)
T 1x5s_A           23 DTNEQSLEQVF-SKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   91 (102)
T ss_dssp             TCCHHHHHHHH-HHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            34568899999 799999999999864 467899999999999999999999999999999999999843

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

Probab=99.44  E-value=2e-13  Score=90.97  Aligned_cols=67  Identities=16%  Similarity=0.152  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhhcc-CCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCE-eCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDK-YGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW-FGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~sk-fG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~-f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++ ||.|.+|.|+.+.++.++|++||+|.+.++|.+|++.|||.. ++|++|.|.++..
T Consensus        21 ~t~~~l~~~F-~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a~~   89 (104)
T 2dhg_A           21 VDDGMLYEFF-VKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIP   89 (104)
T ss_dssp             CCHHHHHHHH-HHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBCCC
T ss_pred             CCHHHHHHHH-HHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEccC
Confidence            3468899999 79 999999999988778899999999999999999999999999 9999999999844

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.44  E-value=5.4e-13  Score=88.27  Aligned_cols=66  Identities=18%  Similarity=0.186  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++ |||..++|++|.|.++..
T Consensus        22 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a~~   88 (99)
T 2dgs_A           22 CGETELREYF-KKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRAEP   88 (99)
T ss_dssp             CCHHHHHHHH-SSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEECCC
Confidence            3468899999 799999999999864 46789999999999999999998 999999999999999844

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

Probab=99.43  E-value=3e-13  Score=92.18  Aligned_cols=65  Identities=14%  Similarity=0.134  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .-.+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|+++
T Consensus        52 ~t~~~l~~~F-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           52 FTDTDLASTF-LPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             CCHHHHHHHT-TTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            3468899999 799999999999764 5778999999999999999999999999999999999985

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.43  E-value=9.7e-13  Score=92.42  Aligned_cols=65  Identities=15%  Similarity=0.216  Sum_probs=59.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ..+||++.| ++||.|..+.++.+ .++.++|++||+|.+.++|.+|+..|||..++|++|.|.|+.
T Consensus       100 t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A          100 DDETLRNAF-KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA  165 (166)
T ss_dssp             CHHHHHHHH-TTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CHHHHHHHH-hccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEecC
Confidence            458999999 79999999999986 457889999999999999999999999999999999999974

>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=99.43  E-value=1.5e-13  Score=93.72  Aligned_cols=66  Identities=18%  Similarity=0.297  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      +...+||++.| ++||.|.+|.|+.     .+|++||+|.+.++|.+|++.|||..|+|++|.|+|++...|
T Consensus        21 ~~te~~L~~~F-~~~G~i~~v~i~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~   86 (111)
T 1whx_A           21 GTLAAEIQETF-SRFGSLGRVLLPE-----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVF   86 (111)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEECCS-----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTTT
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEeC-----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCCcc
Confidence            44568999999 7999999999975     468999999999999999999999999999999999977655

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.43  E-value=1.4e-13  Score=86.77  Aligned_cols=63  Identities=16%  Similarity=0.238  Sum_probs=57.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++ |||..++|++|.|.++
T Consensus        12 t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A           12 TVEDVKHYF-EQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CHHHHHHHH-HTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            468899999 799999999999875 57889999999999999999998 9999999999999864

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

Probab=99.43  E-value=3.7e-13  Score=93.63  Aligned_cols=65  Identities=18%  Similarity=0.302  Sum_probs=58.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...+||++.| ++||.|.+|.|+.+ .++..+|++||+|.+.++|.+|++.|||..++|++|.|.++
T Consensus        75 ~~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~A  140 (140)
T 2ku7_A           75 VDDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA  140 (140)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC-
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            3468899999 79999999999986 35788999999999999999999999999999999999874

>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=99.43  E-value=6.3e-13  Score=89.52  Aligned_cols=65  Identities=20%  Similarity=0.236  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..|.|..+  ...+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        34 ~t~~~l~~~F-~~~G~v~~~~i~~~--~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   98 (109)
T 1x4a_A           34 IRTKDIEDVF-YKYGAIRDIDLKNR--RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   98 (109)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEECCS--SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEEC--CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEccc
Confidence            3468899999 79999999999764  45789999999999999999999999999999999999844

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=7.8e-13  Score=89.56  Aligned_cols=66  Identities=11%  Similarity=0.222  Sum_probs=60.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe--------CCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF--------GGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f--------~GR~I~v~~~~   73 (130)
                      ...++|++.| ++||.|.++.|+.+.++.++|++||+|.+.++|.+|+..|||..+        .|++|.|.|+.
T Consensus        37 ~t~~~l~~~F-~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l~v~~a~  110 (114)
T 1x5o_A           37 MDEQELENML-KPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKFSG  110 (114)
T ss_dssp             CCHHHHHHTT-TTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCBEEEECC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCceeEEccC
Confidence            3468899999 799999999999887778999999999999999999999999999        68889999985

>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=99.42  E-value=4.5e-13  Score=93.87  Aligned_cols=67  Identities=21%  Similarity=0.310  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        58 ~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~~  125 (129)
T 2kxn_B           58 TTERDLREVF-SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSIT  125 (129)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCSS
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            3468899999 799999999999764 467899999999999999999999999999999999999844

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=3.1e-13  Score=91.66  Aligned_cols=66  Identities=18%  Similarity=0.225  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+.. .++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        41 ~te~~l~~~F-~~~G~i~~v~i~~~~~-~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  106 (109)
T 2err_A           41 FRDPDLRQMF-GQFGKILDVEIIFNER-GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA  106 (109)
T ss_dssp             CCHHHHHHHG-GGTCCCSCEEECCBTT-BCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEECCC-CCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            3468899999 7999999999998753 4789999999999999999999999999999999999843

>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=99.42  E-value=3.9e-13  Score=92.55  Aligned_cols=66  Identities=21%  Similarity=0.351  Sum_probs=60.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        34 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  100 (126)
T 3ex7_B           34 ATEEDIHDKF-AEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  100 (126)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEec
Confidence            3468899999 799999999999774 67889999999999999999999999999999999999983

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.42  E-value=1e-12  Score=85.66  Aligned_cols=66  Identities=17%  Similarity=0.280  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++| .|.+|.|+.+.++.++|++||+|.+.++|.+|++ |||..++||+|.|.++..
T Consensus        21 ~~t~~~l~~~F-~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~~   86 (91)
T 2dgw_A           21 NVTEKNVMEFL-APL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREKS   86 (91)
T ss_dssp             SCCHHHHHHHH-TTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEESS
T ss_pred             CCCHHHHHHHH-hhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECCc
Confidence            34468899999 799 9999999998778899999999999999999999 999999999999999854

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=5.3e-13  Score=90.30  Aligned_cols=67  Identities=13%  Similarity=0.192  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhccCCceE--------EEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIE--------EMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~--------~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.        .|.|+.+ .++.++|++||+|.+.++|.+|++.|||..+.|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  102 (113)
T 2cpe_A           27 VTLDDLADFF-KQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARK  102 (113)
T ss_dssp             CCHHHHHHHH-TTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSSC
T ss_pred             CCHHHHHHHH-HhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCCCEEEEEECCC
Confidence            3468899999 7999999        6999987 4678899999999999999999999999999999999999844

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.42  E-value=2.7e-13  Score=88.85  Aligned_cols=67  Identities=21%  Similarity=0.203  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|..+.++.+ .++..+|++||+|.+.++|.+|++.|||..++||+|.|.++.
T Consensus        26 ~~t~~~l~~~F-~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           26 TVSIDEILDFF-YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             TCCHHHHHHHT-TTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHH-HhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            34568999999 79999998877764 456789999999999999999999999999999999999874

>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=99.42  E-value=7.7e-13  Score=88.94  Aligned_cols=68  Identities=19%  Similarity=0.284  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhC------CCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLN------NRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~ln------Gr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|+..||      |..++|++|.|.++..
T Consensus        26 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~~a~~  100 (111)
T 1x4h_A           26 DSEEEALGEVL-QQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAVT  100 (111)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECCCC
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEEECCC
Confidence            34568899999 799999999999864 46789999999999999999999999      9999999999999844

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.41  E-value=6.2e-13  Score=92.98  Aligned_cols=69  Identities=17%  Similarity=0.210  Sum_probs=61.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      ...+||++.| ++||.|++|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++....
T Consensus        54 ~~~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  123 (139)
T 1u6f_A           54 VDEVQLRQLF-ERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASGH  123 (139)
T ss_dssp             CCHHHHHHHH-HHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSCCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCC
Confidence            3468899999 799999999999764 46789999999999999999999999999999999999995543

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.41  E-value=9.8e-13  Score=93.41  Aligned_cols=64  Identities=13%  Similarity=0.221  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..+||++.| ++||.|..+.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++
T Consensus       107 t~~~l~~~f-~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A          107 NDDQVKELL-TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CHHHHHHHH-HhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence            468999999 799999999999875 6789999999999999999999999999999999999986

>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=99.41  E-value=1.4e-12  Score=92.96  Aligned_cols=68  Identities=16%  Similarity=0.246  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.|+++..
T Consensus        50 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  118 (156)
T 1h2v_Z           50 YTTEEQIYELF-SKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG  118 (156)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            34568999999 799999999999875 477899999999999999999999999999999999999944

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.41  E-value=6.3e-13  Score=87.81  Aligned_cols=67  Identities=15%  Similarity=0.157  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhccCCceE-EEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCee----EEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIE-EMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRP----VYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~-~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~----I~v~~~~~   74 (130)
                      ...+||++.| ++||.|. ++.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++    |.|.++..
T Consensus        21 ~t~~~l~~~F-~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~a~~   93 (99)
T 2div_A           21 MDENFISRAF-ATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYATY   93 (99)
T ss_dssp             CCHHHHHHHH-HHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEETTC
T ss_pred             CCHHHHHHHH-HHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEeecCC
Confidence            3468899999 7999999 99999875 5788999999999999999999999999999999    99999844

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.40  E-value=2.1e-13  Score=93.89  Aligned_cols=76  Identities=14%  Similarity=0.125  Sum_probs=66.6

Q ss_pred             hHHHHHHHHHHhhccCCc---eEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          5 YDNFFEDVFVECEDKYGE---IEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~---I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      |+...+||++.| ++||.   |.+|.|+.+..++++|++||+|.+.++|.+|++ |||..++||+|.|.++....+..+.
T Consensus        27 ~~~te~~l~~~F-~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~~~~~~~~  104 (118)
T 2db1_A           27 WSCSIEDVQNFL-SDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKSHRTEMDWVL  104 (118)
T ss_dssp             TTCCHHHHHHHT-TTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEECHHHHHHHH
T ss_pred             CCCCHHHHHHHH-HHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEECCHHHHHHHH
Confidence            455678999999 79999   899999987778899999999999999999999 9999999999999999766655544


Q ss_pred             h
Q psy17806         82 C   82 (130)
Q Consensus        82 c   82 (130)
                      .
T Consensus       105 ~  105 (118)
T 2db1_A          105 K  105 (118)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.40  E-value=1.3e-12  Score=89.74  Aligned_cols=65  Identities=20%  Similarity=0.366  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.+|.|+.+ .++.++|++||+|.+.++|.+|+ .|||..++|++|.|.++.
T Consensus        48 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           48 STAQDLEAHF-SSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESS
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECC
Confidence            3468899999 79999999999986 46788999999999999999999 899999999999999984

>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=99.40  E-value=8.3e-13  Score=89.56  Aligned_cols=66  Identities=15%  Similarity=0.221  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|+ .|||..++|++|.|.++..
T Consensus        37 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  103 (114)
T 2cq4_A           37 IRPRDLEDFF-SAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA  103 (114)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCHHHHHHHH-HhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCC
Confidence            3468899999 799999999999765 3678999999999999999999 9999999999999999843

>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=99.40  E-value=1e-12  Score=87.77  Aligned_cols=65  Identities=15%  Similarity=0.182  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCC--CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLG--DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~--~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++|| |.+|.|+.+..  +..+|++||+|.+.++|.+|+ .|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~   93 (104)
T 1wi8_A           27 VTEESIKEFF-RGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             CCHHHHHHHT-TTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEccC
Confidence            3468899999 7999 99999998753  678999999999999999999 9999999999999999854

>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=99.40  E-value=4.8e-13  Score=89.42  Aligned_cols=67  Identities=19%  Similarity=0.226  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEe---CCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWF---GGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f---~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..+   .|++|.|.++..
T Consensus        25 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a~~   95 (106)
T 2dgp_A           25 LDEKDLKPLF-EEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPADS   95 (106)
T ss_dssp             CCHHHHHHHH-HHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEECCc
Confidence            3467899999 799999999999865 477899999999999999999999999988   999999999854

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.40  E-value=7.4e-13  Score=95.78  Aligned_cols=68  Identities=13%  Similarity=0.144  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHhhccCC--ceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYG--EIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG--~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||  .|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..++||+|.|.++..
T Consensus        66 ~~te~~L~~~F-~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a~~  136 (156)
T 3n9u_C           66 WTTDQQLIQVI-RSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATR  136 (156)
T ss_dssp             TCCHHHHHHHH-HHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEECCH
T ss_pred             CCCHHHHHHHH-HHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEcCC
Confidence            34568999999 7999  99999999874 678999999999999999999999999999999999999844

>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=99.40  E-value=4.3e-13  Score=88.17  Aligned_cols=64  Identities=14%  Similarity=0.309  Sum_probs=55.6

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      .+.|++.| ++||.|.+|.|+..  +.++|++||+|.+.++|.+|++.|||..++|++|.|.++...
T Consensus        26 ~~~l~~~f-~~~G~i~~v~i~~~--~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   89 (97)
T 1nu4_A           26 KKSLHAIF-SRFGQILDILVSRS--LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTD   89 (97)
T ss_dssp             HHHHHHHH-GGGSCEEEEECCHH--HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSSC
T ss_pred             HHHHHHHH-HhCCCEEEEEEEcC--CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEccCC
Confidence            33444899 79999999999852  466899999999999999999999999999999999998543

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=3.4e-13  Score=92.48  Aligned_cols=74  Identities=16%  Similarity=0.125  Sum_probs=65.8

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      |+...+||++.| ++| .|.+|.|+.+..++++|++||+|.+.++|.+|+ .|||..++||.|.|..+....|..+.
T Consensus        26 ~~~te~dl~~~F-~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~~~~~~~~   99 (109)
T 2dnn_A           26 FSAMENDVRDFF-HGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATERQWVAAG   99 (109)
T ss_dssp             SSCCHHHHHHHT-TTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCHHHHHHHH
T ss_pred             CCCCHHHHHHHh-ccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCccchhhcC
Confidence            455678999999 799 899999998777889999999999999999999 69999999999999998777776665

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=3.6e-13  Score=90.53  Aligned_cols=73  Identities=18%  Similarity=0.243  Sum_probs=64.1

Q ss_pred             hHHHHHHHHHHhhccCCceEE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~-v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      |+...+||++.| ++||.|.+ |.|+.+.++.++|++||+|.+.++|.+|+.. ||..++||+|.|..+....+..
T Consensus        25 ~~~te~~l~~~F-~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~~~~~~~~   98 (104)
T 1wg5_A           25 FGCSKEEIVQFF-SGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKSSRAEVRT   98 (104)
T ss_dssp             TTCCHHHHHHHT-TTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEECTTTSCC
T ss_pred             CCCCHHHHHHHH-HhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEECCHHHHHH
Confidence            445678999999 79999998 8898887788999999999999999999998 9999999999999986655543

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=3.3e-13  Score=93.82  Aligned_cols=67  Identities=13%  Similarity=0.218  Sum_probs=58.1

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe-----CCeeEEEEeccCccc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-----GGRPVYAELSPVTDF   77 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-----~GR~I~v~~~~~~~f   77 (130)
                      ++...++|++.| ++||.|.+|.|+.+     +|++||+|.+.++|.+|++.|||+.+     .|++|++.|+....|
T Consensus        37 ~~~te~~L~~~F-~~fG~v~~v~i~~~-----rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a~~~p~  108 (114)
T 2cq2_A           37 NGVSRNQLLPVL-EKCGLVDALLMPPN-----KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQW  108 (114)
T ss_dssp             GTCCHHHHHHHH-HHHSCEEEEECCTT-----CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEESCCCC
T ss_pred             CCCCHHHHHHHH-HhcCCeEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEecccCcc
Confidence            344568999999 79999999998752     79999999999999999999999998     799999999854333

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.39  E-value=4e-13  Score=88.60  Aligned_cols=67  Identities=22%  Similarity=0.234  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|..+.++.+ .++.++|++||+|.+.++|.+|++.|||..++||+|.|+++.
T Consensus        26 ~~t~~~l~~~F-~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   93 (98)
T 2cqp_A           26 TVSIDEILDFF-YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS   93 (98)
T ss_dssp             TCCHHHHHHHT-TTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHH-HHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcC
Confidence            34568899999 79999997776653 457789999999999999999999999999999999999974

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

Probab=99.39  E-value=2.1e-12  Score=86.07  Aligned_cols=66  Identities=14%  Similarity=0.308  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++|| |.+|.|+.+. ++..+|++||+|.+.++|.+|+ .|||..++|++|.|.++..
T Consensus        26 ~~t~~~l~~~F-~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~   92 (103)
T 2dng_A           26 NTVQGDIDAIF-KDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAEG   92 (103)
T ss_dssp             TCCHHHHHHHT-TTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECCC
T ss_pred             CCCHHHHHHHH-HhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEecC
Confidence            34468899999 7997 9999999875 4788999999999999999999 8999999999999999844

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=9.2e-13  Score=89.61  Aligned_cols=66  Identities=21%  Similarity=0.262  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. +++.+|++||+|.+.++|.+|++.||+ .++|++|.|.++..
T Consensus        29 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a~~   95 (116)
T 2cqd_A           29 TTDASLRKYF-EGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   95 (116)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CCHHHHHHHH-HhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEccc
Confidence            3468899999 799999999999874 578899999999999999999999999 89999999999843

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.39  E-value=7.1e-13  Score=94.36  Aligned_cols=68  Identities=16%  Similarity=0.348  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        81 ~~~~~~l~~~F-~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  149 (158)
T 2kn4_A           81 RTSPDTLRRVF-EKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARY  149 (158)
T ss_dssp             TCCHHHHHHHH-HHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECC
T ss_pred             CCCHHHHHHHH-HhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            34568999999 799999999999874 678999999999999999999999999999999999999854

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=1.7e-12  Score=85.81  Aligned_cols=63  Identities=13%  Similarity=0.175  Sum_probs=56.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.+|.|..     .+|++||+|.+.++|.+|+..|||..++|++|.|.++...
T Consensus        25 ~t~~~l~~~F-~~~G~i~~v~i~~-----~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~~   87 (97)
T 1x5p_A           25 MTPTLLRGAF-SPFGNIIDLSMDP-----PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   87 (97)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEET-----TTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSC
T ss_pred             CCHHHHHHHH-hhCCCEEEEEecC-----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCC
Confidence            3468899999 7999999999953     4799999999999999999999999999999999998543

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.39  E-value=2.6e-12  Score=82.94  Aligned_cols=64  Identities=17%  Similarity=0.245  Sum_probs=56.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...++|++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++ ++|..++|++|.|.++
T Consensus        23 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A           23 TSKKDLKDYF-TKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEEEC
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEEeC
Confidence            3468899999 799999999999874 57889999999999999999996 5888999999999864

>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=99.38  E-value=9.6e-13  Score=89.24  Aligned_cols=65  Identities=22%  Similarity=0.282  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+  +.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        20 ~t~~~l~~~F-~~~G~v~~v~i~~~--~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   84 (115)
T 3lqv_A           20 ITAEEMYDIF-GKYGPIRQIRVGNT--PETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNA   84 (115)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEECS--TTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCH
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEeeC--CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecC
Confidence            3467899999 79999999999975  34589999999999999999999999999999999999843

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.38  E-value=2.4e-12  Score=92.91  Aligned_cols=66  Identities=15%  Similarity=0.206  Sum_probs=60.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...++|+..| ++||.|..|.|+.+. ++.++|++||+|.+.++|.+|+..|||..+.|++|.|.++.
T Consensus        84 ~t~~~L~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  150 (165)
T 1rk8_A           84 AQEDEIQEKF-CDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  150 (165)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCHHHHHHHh-hcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            3468899999 799999999999874 67889999999999999999999999999999999999983

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.38  E-value=2.1e-12  Score=91.17  Aligned_cols=65  Identities=23%  Similarity=0.384  Sum_probs=59.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~   72 (130)
                      ...++|++.| ++||.|..+.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|  ++|.|.|+
T Consensus       101 ~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          101 ITDDQLDTIF-GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             CCHHHHHHHH-TSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCHHHHHHhh-hcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            3458899999 799999999999875 67889999999999999999999999999988  99999885

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.37  E-value=2.1e-12  Score=91.54  Aligned_cols=66  Identities=17%  Similarity=0.262  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC---CeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG---GRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~---GR~I~v~~~~   73 (130)
                      ...++|++.| ++||.|.++.|+.+..+.++|++||+|.+.++|.+|++.|||..+.   ||+|.|.|++
T Consensus       107 ~t~~~l~~~F-~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          107 CTENDIRVMF-SSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD  175 (175)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEECC
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEecC
Confidence            3468899999 7999999999999877889999999999999999999999998775   4999999873

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.37  E-value=8.7e-13  Score=89.75  Aligned_cols=63  Identities=19%  Similarity=0.256  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCE--eCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW--FGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~--f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.+++.     +|++||+|++.++|.+|++.|||..  +.||+|.|+|+..
T Consensus        32 ~~te~~L~~lF-~~fG~V~~v~i~~~-----kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~~   96 (100)
T 3r27_A           32 GVVEADLVEAL-QEFGPISYVVVMPK-----KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTS   96 (100)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSC
T ss_pred             CCCHHHHHHHH-hccCCEEEEEEEcC-----CCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEeccc
Confidence            44568999999 79999999999853     6999999999999999999999985  7899999999854

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.37  E-value=5.5e-13  Score=88.89  Aligned_cols=64  Identities=17%  Similarity=0.197  Sum_probs=58.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++|| |.+|.|+.+.  +++++|++||+|.+.++|.+|+ .|||..++|++|.|.++..
T Consensus        32 t~~~l~~~F-~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a~~   97 (100)
T 2j76_E           32 TEESIKEFF-RGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVADQ   97 (100)
T ss_dssp             SSSHHHHHS-CSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEECCC
T ss_pred             CHHHHHHHH-HhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEeccC
Confidence            347899999 7999 9999999875  5788999999999999999999 8999999999999999843

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.37  E-value=2.2e-12  Score=94.64  Aligned_cols=67  Identities=15%  Similarity=0.250  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..+.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus       137 ~t~~~l~~~f-~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~  204 (216)
T 2qfj_A          137 LSDDDIKSVF-EAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVT  204 (216)
T ss_dssp             CCHHHHHHHH-TTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSS
T ss_pred             CCHHHHHHHH-hccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecC
Confidence            3468999999 799999999999874 578899999999999999999999999999999999999843

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.37  E-value=2.5e-13  Score=88.33  Aligned_cols=67  Identities=16%  Similarity=0.229  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.+ |.+|+..|||..++|++|.|.++...
T Consensus        13 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~   80 (90)
T 2ki2_A           13 ATSEQVKELF-SQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPK   80 (90)
T ss_dssp             SSHHHHTTTH-HHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC---
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCC
Confidence            3467899999 799999999999865 4778999999999999 99999999999999999999998543

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=1.9e-12  Score=86.51  Aligned_cols=66  Identities=14%  Similarity=0.213  Sum_probs=59.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|+.. ||..++|++|.|.++..
T Consensus        28 ~t~~~l~~~F-~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a~~   94 (105)
T 2dh8_A           28 TTQETLRSYF-SQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPCTP   94 (105)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCSCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEccC
Confidence            4468899999 799999999999874 578899999999999999999999 99999999999999843

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.36  E-value=3.1e-13  Score=96.15  Aligned_cols=73  Identities=15%  Similarity=0.124  Sum_probs=64.6

Q ss_pred             hHHHHHHHHHHhhccCCc---eEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGE---IEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~---I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      |+...+||++.| ++||.   |.+|.|+.+..++++|++||+|.+.++|.+|++ |||..++||+|.|.++...+...
T Consensus        54 ~~~te~dL~~~F-~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a~~~e~~~  129 (136)
T 2hgl_A           54 WSCSVEDVQNFL-SDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKSHRTEMDW  129 (136)
T ss_dssp             TTCCHHHHHHHT-TTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEECCHHHHHH
T ss_pred             CCCCHHHHHHHH-HHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEECChHHHHH
Confidence            455678999999 79999   899999987778899999999999999999999 99999999999999986555443

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=1.7e-12  Score=83.35  Aligned_cols=60  Identities=22%  Similarity=0.285  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh-CCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL-NNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l-nGr~f~GR~I~v~~~   72 (130)
                      ...+||++.| ++||.|.++.++.+     +|++||+|.+.++|.+|++.| ||..++|++|.|+++
T Consensus        24 ~t~~~l~~~f-~~~G~i~~~~~~~~-----kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           24 ITETDLRNHF-YQFGEIRTITVVQR-----QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             SCHHHHHHHH-HTTSCEEEEEEEGG-----GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCHHHHHHHH-HhCCCEeEEEEECC-----CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            3468899999 79999999999973     799999999999999999999 999999999999986

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=9.2e-13  Score=90.31  Aligned_cols=64  Identities=20%  Similarity=0.329  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhC--CCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLN--NRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~ln--Gr~f~GR~I~v~~~~~~   75 (130)
                      +.-.+||++.| ++||+|.+|.|+.+     +|++||+|++.++|.+|++.|+  |..++||+|.|.++...
T Consensus        27 ~vte~dL~~lF-~~fG~V~~v~i~~~-----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~   92 (105)
T 1sjq_A           27 DVTEGEVISLG-LPFGKVTNLLMLKG-----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHK   92 (105)
T ss_dssp             TSCHHHHHHHH-HHHCCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSS
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEcC-----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCC
Confidence            34568999999 79999999999874     7999999999999999999986  47899999999998543

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.36  E-value=7e-13  Score=90.18  Aligned_cols=63  Identities=22%  Similarity=0.367  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCC--EeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR--WFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr--~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+     +|++||+|++.++|.+|++.|||.  .+.||+|+|.++..
T Consensus        27 ~~te~dL~~lF-~~fG~V~~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~   91 (102)
T 1x4d_A           27 KNLRYQLLQLV-EPFGVISNHLILNK-----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   91 (102)
T ss_dssp             SSHHHHHHTTT-GGGSCEEEEEECSS-----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             cCCHHHHHHHH-HhcCCEEEEEEEcC-----CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCC
Confidence            44578999999 79999999999864     589999999999999999999975  59999999999853

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.36  E-value=2.3e-12  Score=85.07  Aligned_cols=61  Identities=16%  Similarity=0.316  Sum_probs=55.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC--CeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG--GRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~--GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.+|.+..+     +|++||+|.+.++|.+|++.|||..++  |++|.|.++..
T Consensus        30 t~~~l~~~F-~~~G~v~~v~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~   92 (97)
T 1why_A           30 SLAALAREF-DRFGSIRTIDHVKG-----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKS   92 (97)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEECSS-----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCC
T ss_pred             CHHHHHHHH-HhcCCeeEEEEeCC-----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCC
Confidence            468899999 79999999999864     799999999999999999999999999  99999999843

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.36  E-value=6.4e-12  Score=88.24  Aligned_cols=66  Identities=21%  Similarity=0.288  Sum_probs=61.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.++.+. ++.++|++||+|.+.++|.+|++.|||..+.|++|.+.++..
T Consensus        15 ~~~~l~~~f-~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   81 (167)
T 1fxl_A           15 TQEEFRSLF-GSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (167)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCC
Confidence            468899999 799999999999876 678999999999999999999999999999999999999854

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.36  E-value=5.2e-12  Score=88.62  Aligned_cols=67  Identities=13%  Similarity=0.128  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|+.+..+.++|++||+|.+.++|.+|+..|||..+.|++|.+.++..
T Consensus        12 ~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~   78 (166)
T 3md3_A           12 ITEDILKQYF-QVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQ   78 (166)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCC
Confidence            3468899999 799999999999887778899999999999999999999999999999999999843

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=2.2e-12  Score=86.89  Aligned_cols=61  Identities=20%  Similarity=0.259  Sum_probs=56.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.+|.|+.+     +|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        38 t~~~l~~~F-~~~G~i~~v~i~~~-----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   98 (109)
T 1x4g_A           38 TDQLMRQTF-SPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   98 (109)
T ss_dssp             CHHHHHHHH-HHHSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CHHHHHHHH-HhcCCeEEEEEeCC-----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCC
Confidence            457899999 79999999999975     79999999999999999999999999999999999844

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.35  E-value=1.6e-12  Score=86.12  Aligned_cols=61  Identities=21%  Similarity=0.251  Sum_probs=56.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.+|.+..+     +|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        28 t~~~l~~~F-~~~G~i~~v~~~~~-----kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   88 (99)
T 2cpj_A           28 TEEEMRKLF-EKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACH   88 (99)
T ss_dssp             CHHHHHHHT-STTCCCSEEEEETT-----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSC
T ss_pred             CHHHHHHHH-hhcCCeEEEEEecC-----CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCC
Confidence            468899999 79999999999864     69999999999999999999999999999999999844

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=3.6e-12  Score=86.26  Aligned_cols=64  Identities=16%  Similarity=0.251  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh--CCCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL--NNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l--nGr~f~GR~I~v~~~~~~   75 (130)
                      +...+||++.| ++||.|.+|.|+.+     +|++||+|.+.++|.+|++.|  ++..+.||+|.|.|+...
T Consensus        26 ~~te~~L~~~F-~~fG~v~~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   91 (101)
T 2cq1_A           26 EVTETEVIALG-LPFGKVTNILMLKG-----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   91 (101)
T ss_dssp             TCCHHHHHHTT-TTTSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEECC-----CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCcc
Confidence            34568899999 79999999999864     799999999999999999987  577899999999998543

>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=99.35  E-value=4.3e-12  Score=84.38  Aligned_cols=58  Identities=22%  Similarity=0.324  Sum_probs=53.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.+||++.| ++||.|.++.|.       +|++||+|.+.++|.+|+..|||..++|++|.|+++.
T Consensus        36 t~~~L~~~F-~~~G~v~~v~i~-------~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   93 (97)
T 2xnq_A           36 SKEDLFRIF-SPYGHIMQINIK-------NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSS   93 (97)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEC-------SSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEe-------CCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            457899999 799999999994       6999999999999999999999999999999999974

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.35  E-value=3.7e-12  Score=97.86  Aligned_cols=71  Identities=11%  Similarity=0.071  Sum_probs=64.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      -.+||++.| ++||.|.++.|+.+.++.++|++||+|.+.++|.+|+..|||+.++|++|.|.|+....-+.
T Consensus       198 ~~~~l~~~f-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~~~  268 (284)
T 3smz_A          198 DVDALCRAL-SAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPPGR  268 (284)
T ss_dssp             CHHHHHHHT-CSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCSSSCHH
T ss_pred             CHHHHHHHh-hCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecCCCccc
Confidence            358999999 79999999999998788899999999999999999999999999999999999996654443

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=2.6e-13  Score=93.72  Aligned_cols=72  Identities=15%  Similarity=0.256  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHHhhccCCceEE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccch
Q psy17806          5 YDNFFEDVFVECEDKYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFR   78 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~-v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~   78 (130)
                      ++...+||++.| ++||.|.+ +.+..+.++.++|++||+|.+.++|.+|+. |||..++||+|.|.++....+.
T Consensus        35 ~~~te~~l~~~F-~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~~~~~  107 (124)
T 1wel_A           35 FEAENKHVIDFF-KKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITKKGML  107 (124)
T ss_dssp             TTCCHHHHHHHS-CSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECHHHHH
T ss_pred             CCCCHHHHHHHH-HhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECCHHHHH
Confidence            445578999999 79999998 555566678899999999999999999999 9999999999999999665543

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=3e-12  Score=84.93  Aligned_cols=64  Identities=30%  Similarity=0.290  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|   .|+.+.++..+|++||+|.+.++|.+|+..|||..+.|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   90 (101)
T 2fc9_A           27 ATEETLQEVF-EKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGP   90 (101)
T ss_dssp             CCHHHHHHHC-SSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSS
T ss_pred             CCHHHHHHHH-HhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCC
Confidence            4468899999 799988   566655678899999999999999999999999999999999999844

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.35  E-value=6.5e-12  Score=89.12  Aligned_cols=77  Identities=12%  Similarity=0.154  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeE-EEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEeccCcc----ch
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGN-VYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELSPVTD----FR   78 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~-vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~~~~~----f~   78 (130)
                      ..-.++|++.| ++||.|.+|+|...    .+|+ +||+|.+.++|.+|++.|||..+.|  ++|.++|+....    +.
T Consensus        39 ~vte~~L~~lF-s~yG~V~~V~i~~~----~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~~l~v~~n  113 (130)
T 3zzy_A           39 PVTLDVLHQIF-SKFGTVLKIITFTK----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYN  113 (130)
T ss_dssp             CCCHHHHHHHH-TTSSCEEEEEEEEE----TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCSSCCCCCC
T ss_pred             CCCHHHHHHHH-hCcCCEEEEEEEcC----CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCCceeEEec
Confidence            34467899999 89999999999864    2577 9999999999999999999999988  999999995543    33


Q ss_pred             hhhhccccc
Q psy17806         79 EACCRQYEM   87 (130)
Q Consensus        79 ~a~c~~~~~   87 (130)
                      ...++.|..
T Consensus       114 ~~~srDyt~  122 (130)
T 3zzy_A          114 NDKSRDYTR  122 (130)
T ss_dssp             SSSEEETTC
T ss_pred             CCCcccCCC
Confidence            334455543

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1.5e-12  Score=88.04  Aligned_cols=59  Identities=15%  Similarity=0.278  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHhhccC-CceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKY-GEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skf-G~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +++..+|++.| ++| |+|.+|.      +   |++||+|.+.++|.+|++.|||..+.||+|++.|++.
T Consensus        24 ~~lk~~L~~lF-~~yGG~Vl~Vt------g---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~~   83 (96)
T 2diu_A           24 KSVSNRLRRLS-DNCGGKVLSIT------G---CSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTPK   83 (96)
T ss_dssp             HHHHHHHHHHH-HTTTCCEEECC------T---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSCC
T ss_pred             HHHHHHHHHHH-HHcCCeeEEEe------c---CEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecCC
Confidence            46677899999 799 5999992      2   9999999999999999999999999999999999954

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

Probab=99.35  E-value=9.5e-13  Score=82.96  Aligned_cols=63  Identities=13%  Similarity=0.210  Sum_probs=57.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.+||++.| ++||.|.++.++.+. ++.++|++||+|.+.++|.+|++.|| ..++|++|.|.++
T Consensus        13 t~~~l~~~F-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A           13 TQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CSHHHHHHH-TTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            357899999 799999999999875 57889999999999999999999999 9999999999875

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.35  E-value=2.9e-12  Score=95.48  Aligned_cols=66  Identities=18%  Similarity=0.280  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|+++.|+.+. +..+|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus       115 ~t~~~l~~~F-~~~G~i~~~~i~~d~-~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~  180 (213)
T 4f02_A          115 IDNKALYDTF-SAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS  180 (213)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEEET-TEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cHHHHHHHHH-hhcCCeEEEEeeccC-CCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            3468999999 799999999999864 34799999999999999999999999999999999999854

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

Probab=99.34  E-value=8.6e-13  Score=87.58  Aligned_cols=64  Identities=25%  Similarity=0.319  Sum_probs=58.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.+|.|+.+    ++|++||+|.+.++|.+|++.|||..++|++|.|.++...
T Consensus        12 ~t~~~l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   75 (101)
T 2hvz_A           12 AGKGELERAF-SYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGM   75 (101)
T ss_dssp             CSHHHHHHHH-HHHCCCSEEEEESS----SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEeeC----CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCC
Confidence            3468899999 79999999999986    6899999999999999999999999999999999999543

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.34  E-value=4.3e-12  Score=91.92  Aligned_cols=67  Identities=13%  Similarity=0.215  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus       126 ~~~~~l~~~f-~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  193 (198)
T 2yh0_A          126 LNDDQVKELL-TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV  193 (198)
T ss_dssp             CCHHHHHHHH-HTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             CCHHHHHHHH-HHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            3468899999 799999999999875 678899999999999999999999999999999999999843

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

Probab=99.34  E-value=3.1e-12  Score=86.80  Aligned_cols=60  Identities=18%  Similarity=0.376  Sum_probs=55.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.+|.|.       +|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        43 ~t~~~L~~~F-~~~G~i~~v~i~-------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  102 (108)
T 2jvo_A           43 VQESELNEIF-GPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKL  102 (108)
T ss_dssp             CCHHHHHHHH-TTTSCCCEEEEE-------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEE-------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecC
Confidence            3468899999 799999999998       59999999999999999999999999999999999843

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=9.9e-13  Score=88.58  Aligned_cols=67  Identities=16%  Similarity=0.162  Sum_probs=59.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      |+...+||++.| ++||. ++|.|+.+.+++++|++||+|.+.++|.+|+ .+||..++||.|.|..+..
T Consensus        25 ~~~te~~l~~~F-~~~G~-~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~~~~   91 (102)
T 1wez_A           25 YRATENDIYNFF-SPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNST   91 (102)
T ss_dssp             TTCCHHHHHHSS-CSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEECC
T ss_pred             CCCCHHHHHHHH-HHcCc-eEEEEEECCCCCEeeEEEEEECCHHHHHHHH-HhCCCeECCcEEEEEECCC
Confidence            455678999999 79995 5999998877889999999999999999999 5899999999999998754

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.34  E-value=3.5e-12  Score=83.09  Aligned_cols=59  Identities=17%  Similarity=0.277  Sum_probs=54.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.++.|+       +|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        21 t~~~l~~~F-~~~G~i~~v~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A           21 TEQEIRSLF-EQYGKVLECDII-------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN   79 (90)
T ss_dssp             CHHHHHHHH-HTSSCEEEEEEE-------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSC
T ss_pred             CHHHHHHHH-HhCCCEEEEEEE-------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCC
Confidence            457899999 799999999998       48999999999999999999999999999999999844

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.34  E-value=4e-12  Score=85.76  Aligned_cols=62  Identities=21%  Similarity=0.299  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC-----eeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG-----RPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G-----R~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|..|.|+.+      |++||+|.+.++|.+|++.|||..++|     ++|.|.++..
T Consensus        26 ~~t~~~l~~~F-~~~G~i~~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~~   92 (108)
T 1x4c_A           26 SGSWQDLKDHM-REAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGP   92 (108)
T ss_dssp             SCCHHHHHHHH-GGGSCEEEEEEETT------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESSC
T ss_pred             CCCHHHHHHHH-HhcCCEeEEEEecC------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCCC
Confidence            34568999999 79999999999875      999999999999999999999999999     9999999844

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

Probab=99.34  E-value=1.8e-12  Score=95.43  Aligned_cols=68  Identities=21%  Similarity=0.277  Sum_probs=62.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|+.|.|+.+.++.++|++||+|.+.++|.+|++.|||..++|++|.|.++...
T Consensus       100 ~te~~L~~~F-~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~~~  167 (177)
T 2f3j_A          100 VSDADIQELF-AEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ  167 (177)
T ss_dssp             CCHHHHHHHH-HHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEESSG
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            3468899999 7999999999998777788999999999999999999999999999999999998553

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.34  E-value=2e-12  Score=87.88  Aligned_cols=65  Identities=14%  Similarity=0.221  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCC--EeCCeeEEEEeccCccc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR--WFGGRPVYAELSPVTDF   77 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr--~f~GR~I~v~~~~~~~f   77 (130)
                      ...+||++.| ++||.|.+|.|+..     +|++||+|.+.++|.+|++.|||.  .++||+|.|.|+.....
T Consensus        27 ~te~~L~~~F-~~fG~V~~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~~~   93 (104)
T 1wex_A           27 VVEADLVEAL-EKFGTICYVMMMPF-----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRI   93 (104)
T ss_dssp             CCHHHHHHHH-TTTSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSSC
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEECC-----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCccc
Confidence            3468899999 79999999999863     799999999999999999999775  49999999999965443

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=4.2e-13  Score=86.40  Aligned_cols=65  Identities=18%  Similarity=0.227  Sum_probs=57.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|+.|.+.+.
T Consensus        17 ~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A           17 TTDQDLVKLC-QPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCHHHHHTTS-TTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            3467899999 799999999999864 5778999999999999999999999999999999987654

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.33  E-value=5e-12  Score=88.81  Aligned_cols=64  Identities=19%  Similarity=0.271  Sum_probs=57.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCee--EEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRP--VYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~--I~v~~~   72 (130)
                      ..++|++.| ++||.|..+.++.+. ++.++|++||+|.+.++|.+|++.|||+.++|+.  |.+.|+
T Consensus       101 t~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          101 TQKELEQLF-SQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CHHHHHHHH-HhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            468899999 799999999999865 5778999999999999999999999999999975  888774

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=1.1e-12  Score=89.54  Aligned_cols=75  Identities=19%  Similarity=0.271  Sum_probs=65.0

Q ss_pred             hHHHHHHHHHHhhccCCce-EEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          5 YDNFFEDVFVECEDKYGEI-EEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I-~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      ++...+||++.| ++||.| .+|.|+.+.++.++|++||+|.+.++|.+|++. ||..++||+|.|.++.....+...
T Consensus        25 ~~~t~~~l~~~F-~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~~~~~~~~~  100 (114)
T 2cpy_A           25 FSITKMDVLQFL-EGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVTLEDMREIE  100 (114)
T ss_dssp             TTSCHHHHHHHT-TTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEECHHHHHHHH
T ss_pred             CcCCHHHHHHHH-HhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECCHHHHHHHH
Confidence            344568999999 799999 899999877788999999999999999999987 999999999999999665554443

>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=99.33  E-value=6.5e-12  Score=83.79  Aligned_cols=60  Identities=17%  Similarity=0.272  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.+|.|++       |++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        23 ~t~~~l~~~F-~~~G~i~~v~~~~-------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A           23 VTEEILEKAF-SQFGKLERVKKLK-------DYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCHHHHHHHH-HHHSCEEEEEECS-------SCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEC-------CEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCC
Confidence            3468899999 7999999999973       6999999999999999999999999999999999944

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.33  E-value=2e-12  Score=89.05  Aligned_cols=64  Identities=22%  Similarity=0.181  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhhccCC-ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYG-EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG-~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++|| .|..+.|...   .++|++||+|.+.++|.+|++.|||..++||+|.|+++.
T Consensus        39 ~~te~dL~~~F-~~~G~~v~~v~i~~~---~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~  103 (111)
T 2jvr_A           39 GCSWQDLKDLA-RENSLETTFSSVNTR---DFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDD  103 (111)
T ss_dssp             CCCHHHHHHHH-HHHTCCCSEEECSSC---SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESC
T ss_pred             CCCHHHHHHHH-HHhCCeeEEEEEEcC---CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            34568999999 7999 9999999742   468999999999999999999999999999999999983

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.32  E-value=3.5e-12  Score=82.98  Aligned_cols=64  Identities=16%  Similarity=0.281  Sum_probs=57.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      .-.+||++.| ++| .|.++.|.     .++|++||+|.+.++|.+|++.|||..++|++|.|++++...+
T Consensus        17 ~t~~~l~~~F-~~~-~v~~~~i~-----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~~~   80 (88)
T 1wg1_A           17 SNCQEVHDLL-KDY-DLKYCYVD-----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDAL   80 (88)
T ss_dssp             CCHHHHHHHT-CSS-CCCCEEEE-----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCCC
T ss_pred             CCHHHHHHHH-hhC-CeEEEEEe-----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCCce
Confidence            3468899999 799 99999995     4689999999999999999999999999999999999977654

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=1.9e-12  Score=90.50  Aligned_cols=66  Identities=20%  Similarity=0.344  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCC--CEeCCeeEEEEeccCccc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN--RWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnG--r~f~GR~I~v~~~~~~~f   77 (130)
                      +...+||++.| ++||.|.+|.|+.+     +|++||+|++.++|.+|++.|||  ..++||+|.|.|+.....
T Consensus        42 ~vte~dL~~lF-~~fG~V~~v~i~~~-----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k~~  109 (119)
T 2ad9_A           42 DVTEGEVISLG-LPFGKVTNLLMLKG-----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKEL  109 (119)
T ss_dssp             TCCHHHHHHHH-TTTSCCCEEEEEGG-----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSSSC
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCCCC
Confidence            44568999999 79999999999874     79999999999999999999984  689999999999955433

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=5.2e-12  Score=85.84  Aligned_cols=66  Identities=14%  Similarity=0.193  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...++|++.| ++||.|..|.|+.+. ++..+|++||+|.+.++|.+|+.. ||..++|++|.|.++..
T Consensus        39 ~te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~  105 (116)
T 1x4b_A           39 TTEESLRNYY-EQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVA  105 (116)
T ss_dssp             CCHHHHHHHH-TSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSS
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCC
Confidence            3468899999 799999999999874 477899999999999999999998 99999999999999843

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.32  E-value=1.4e-12  Score=91.91  Aligned_cols=68  Identities=16%  Similarity=0.348  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        58 ~~te~~L~~~F-~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~  126 (135)
T 2lea_A           58 RTSPDTLRRVF-EKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARY  126 (135)
T ss_dssp             SCHHHHHHHHH-GGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCC
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            34578999999 799999999999764 578899999999999999999999999999999999999844

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.31  E-value=2.8e-12  Score=85.07  Aligned_cols=61  Identities=21%  Similarity=0.257  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.++.+..     .+|++||+|.+.++|.+|+..|||..++|++|.|.++.
T Consensus        39 ~~~~~l~~~f-~~~G~i~~~~~~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           39 ATEADLIPLF-QNFGFILDFKHYP-----EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             CCHHHHHHHH-HTTSCCSEEEEET-----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             cCHHHHHHHH-HhCCCEEEEEEec-----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            3468899999 7999999999984     47999999999999999999999999999999999874

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=8.4e-12  Score=81.54  Aligned_cols=60  Identities=23%  Similarity=0.444  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|.+       |++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        22 ~t~~~l~~~F-~~~G~v~~v~~~~-------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   81 (92)
T 2dgt_A           22 CTNQELRAKF-EEYGPVIECDIVK-------DYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTS   81 (92)
T ss_dssp             CCHHHHHHHH-HTTSCCCEEEECS-------SEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEC-------CEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccC
Confidence            3468899999 7999999999984       5999999999999999999999999999999999843

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.31  E-value=7.3e-12  Score=92.10  Aligned_cols=66  Identities=11%  Similarity=0.110  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~~~~   75 (130)
                      +...++|++.| ++||+|++|.|...   ..+|++||+|.+.++|.+|++.|||+.+.|  ++|.|+|+...
T Consensus        57 ~vted~L~~~F-s~fG~V~~V~i~~k---~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A           57 PVTLDVLHQIF-SKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  124 (164)
T ss_dssp             CCCHHHHHHHH-HHHSCEEEEEEEES---SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSS
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEeC---CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCC
Confidence            34467899999 79999999999763   257999999999999999999999999955  99999999544

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=3.8e-12  Score=85.38  Aligned_cols=67  Identities=15%  Similarity=0.154  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhhccCCc-eEEEEEe-eCC-CCCceeEEEEEecCHHHHHHHHHHhC--CCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGE-IEEMNVC-DNL-GDHLVGNVYIKFRREEDAEKAVNDLN--NRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~-I~~v~v~-~~~-~~~~~G~vfV~F~~~e~A~~A~~~ln--Gr~f~GR~I~v~~~~~   74 (130)
                      ...++|++.| ++||. |.++.|+ .+. ++.++|++||+|.+.++|.+|++.||  +..++|++|.|.++..
T Consensus        20 ~t~~~l~~~f-~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~a~~   91 (109)
T 2dis_A           20 KKREEILEEI-AKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAEP   91 (109)
T ss_dssp             SCHHHHHHHH-HHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESCS
T ss_pred             CCHHHHHHHH-HHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEEcCC
Confidence            3468899999 79999 9999998 443 45789999999999999999999996  5899999999999943

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.30  E-value=2.6e-12  Score=98.04  Aligned_cols=68  Identities=18%  Similarity=0.149  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhhccCC--ceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYG--EIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG--~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||  .|++|.|+.+. ++.++|++||+|.+.++|.+|++.|||..|+||+|.|.++..
T Consensus        79 ~~te~~L~~~F-~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a~~  149 (229)
T 3q2s_C           79 WTTDEDLTEAV-HSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNK  149 (229)
T ss_dssp             TCCHHHHHHHH-HTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEECCH
T ss_pred             CCCHHHHHHHH-HHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEECCC
Confidence            44568999999 7999  99999999874 678999999999999999999999999999999999999854

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.30  E-value=6.9e-12  Score=81.65  Aligned_cols=60  Identities=22%  Similarity=0.364  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|+.       |++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        21 ~t~~~l~~~F-~~~G~v~~~~~~~-------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   80 (90)
T 2dnp_A           21 CTSQELRSLF-ERRGRVIECDVVK-------DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTK   80 (90)
T ss_dssp             CCHHHHHHHH-HHHSCEEEEEECS-------SCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             CCHHHHHHHH-HcCCCEEEEEEEC-------CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCC
Confidence            3468899999 7999999999984       5999999999999999999999999999999999844

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=2e-11  Score=81.10  Aligned_cols=65  Identities=20%  Similarity=0.264  Sum_probs=57.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..|.|+.+. ++.++|++||+|.+.++|.+|+.  ++..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a~~   92 (103)
T 2cqg_A           27 TTEQDLKEYF-STFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLPNS   92 (103)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECCCT
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEecCC
Confidence            3468899999 799999999999874 57899999999999999999998  57899999999999843

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.30  E-value=4.6e-12  Score=85.47  Aligned_cols=59  Identities=24%  Similarity=0.332  Sum_probs=54.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.+|.|       .+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        41 t~~~l~~~F-~~~G~v~~v~i-------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   99 (110)
T 1wf1_A           41 KKSDVETIF-SKYGRVAGCSV-------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE   99 (110)
T ss_dssp             CHHHHHHHH-GGGSCCSEEEE-------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCC
T ss_pred             CHHHHHHHH-HhCCCeEEEEE-------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            468899999 79999999999       369999999999999999999999999999999999843

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.30  E-value=7.2e-12  Score=103.82  Aligned_cols=68  Identities=19%  Similarity=0.328  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...++|...| ++||.|+.|.|+.+. ++.++|++||+|.+.++|.+|+..|||.+|+|++|.|.++..
T Consensus       113 ~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~  181 (437)
T 3pgw_S          113 DTTESKLRREF-EVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERG  181 (437)
T ss_pred             CCCHHHHHHHH-HHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            34568899999 799999999999764 678899999999999999999999999999999999999954

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

Probab=99.30  E-value=3.7e-12  Score=84.11  Aligned_cols=60  Identities=22%  Similarity=0.275  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|+       +|++||+|.+.++|.+|+..|||..+.|++|.|+++..
T Consensus        23 ~t~~~l~~~F-~~~G~v~~v~i~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   82 (96)
T 2kvi_A           23 VSKEDLFRIF-SPYGHIMQINIK-------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSS   82 (96)
T ss_dssp             CCHHHHHHHH-TTTCCCCEEEEE-------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEEC
T ss_pred             CCHHHHHHHH-HhcCCEEEEEEe-------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCc
Confidence            3468899999 799999999995       58999999999999999999999999999999999844

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.30  E-value=4.2e-12  Score=89.98  Aligned_cols=62  Identities=27%  Similarity=0.340  Sum_probs=56.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.+|.|+.+    ++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        86 t~~~l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  147 (150)
T 2i2y_A           86 NKTELERAF-GYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNG  147 (150)
T ss_dssp             SCHHHHHHH-HHHSCEEEEEECSS----SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCC
T ss_pred             CHHHHHHHH-HhhCCEEEEEEeeC----CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCC
Confidence            357899999 79999999999976    479999999999999999999999999999999999843

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.29  E-value=3.8e-12  Score=83.58  Aligned_cols=62  Identities=23%  Similarity=0.241  Sum_probs=54.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|..+    ..++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        29 t~~~l~~~F-~~~g~v~~~----~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   90 (96)
T 1fjc_A           29 TEDELKEVF-EDALEIRLV----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE   90 (96)
T ss_dssp             CHHHHHHHH-CSEEEECCE----EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSS
T ss_pred             CHHHHHHHH-hhCCcEEEe----CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCC
Confidence            468899999 799999777    23467899999999999999999999999999999999999843

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.29  E-value=8.7e-12  Score=84.51  Aligned_cols=66  Identities=12%  Similarity=0.188  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|+..+ |..++|++|.|.++.
T Consensus        36 ~~te~~L~~~F-~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a~  102 (109)
T 2rs2_A           36 QTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVAF  102 (109)
T ss_dssp             TCCHHHHHHHH-TTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHH-HccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEcc
Confidence            33468899999 799999999999875 4788999999999999999999987 599999999999984

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.29  E-value=9.7e-12  Score=87.73  Aligned_cols=66  Identities=14%  Similarity=0.225  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.+..+. ++.++|++||+|.+.++|.+|++.|||..++|++|.+.++..
T Consensus        16 ~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   82 (168)
T 1b7f_A           16 TDRELYALF-RAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   82 (168)
T ss_dssp             CHHHHHHHH-HTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CHHHHHHHH-HhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecCC
Confidence            468899999 799999999999764 577899999999999999999999999999999999999854

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

Probab=99.29  E-value=9.1e-12  Score=81.72  Aligned_cols=65  Identities=17%  Similarity=0.181  Sum_probs=56.2

Q ss_pred             HHHHHHHHHhhccCCceEEE-EEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEM-NVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v-~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.++ .|+.+.   ..|.+||+|.+.++|.+|++.|||..++|++|.|.++...
T Consensus        27 ~t~~~l~~~F-~~~G~v~~~~~i~~~~---~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           27 LQWEVLDSLL-VQYGVVESCEQVNTDS---ETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             SCHHHHHHHH-HHHSCEEEEEEECCSS---SSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCCC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEeecCC---CCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCcc
Confidence            3468899999 799999999 577653   2456999999999999999999999999999999999654

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=1.5e-11  Score=81.38  Aligned_cols=60  Identities=23%  Similarity=0.365  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhhccC--CceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKY--GEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skf--G~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++|  |.|.++.++       +|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~g~g~v~~~~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   88 (99)
T 2cpd_A           27 TSEEMIEKEF-NNIKPGAVERVKKI-------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKP   88 (99)
T ss_dssp             CCHHHHHHHH-HTTSTTCEEEEEEC-------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCC
T ss_pred             CCHHHHHHHH-HhcCCcceEEEEEe-------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCC
Confidence            3468899999 799  999999876       48999999999999999999999999999999999844

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.29  E-value=1.3e-11  Score=86.76  Aligned_cols=64  Identities=17%  Similarity=0.217  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeE-EEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGN-VYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~-vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~~~~   75 (130)
                      ..-.++|++.| ++||.|.+|+|...     .|+ +||+|.+.++|.+|++.|||..+.|  ++|.|+|+...
T Consensus        36 ~vt~~~L~~~F-s~yG~V~~v~i~~~-----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~  102 (124)
T 2e5i_A           36 PITVDVLYTVC-NPVGKVQRIVIFKR-----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPT  102 (124)
T ss_dssp             CCCHHHHHHHH-TTTSCEEEEEEEES-----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCS
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCC
Confidence            34467899999 79999999999763     286 9999999999999999999999987  69999999543

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.28  E-value=5.1e-12  Score=89.28  Aligned_cols=66  Identities=8%  Similarity=0.055  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++ |||..++|++|.|.++..
T Consensus        99 ~t~~~l~~~F-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~p  165 (167)
T 2cjk_A           99 VRPKEFEEFF-SQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAEP  165 (167)
T ss_dssp             CCHHHHHHHH-HTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECCC
T ss_pred             CCHHHHHHHH-HhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecCC
Confidence            3468899999 799999999999864 57889999999999999999998 999999999999999843

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.28  E-value=8.9e-13  Score=88.97  Aligned_cols=74  Identities=19%  Similarity=0.159  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHhhccCCc---eEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          6 DNFFEDVFVECEDKYGE---IEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~---I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      +...+||++.| ++||.   |.+|.|+.+..+.++|++||+|.+.++|.+|+. |||..++||+|.|.++...+...+.
T Consensus        22 ~~te~~l~~~F-~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a~~~~~~~~~   98 (107)
T 2lmi_A           22 SCTMEDVLNFF-SDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEINNEDVDALM   98 (107)
T ss_dssp             SCCSHHHHHHT-TTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEECCHHHHHHHH
T ss_pred             CCCHHHHHHHH-HhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEECCHHHHHHHH
Confidence            34468899999 79998   999999987768899999999999999999999 9999999999999998665554443

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

Probab=99.28  E-value=3.5e-12  Score=84.29  Aligned_cols=64  Identities=14%  Similarity=0.200  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|. +.+..   +..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        30 ~~t~~~l~~~F-~~~G~v~-~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   93 (97)
T 2e5j_A           30 DARVSDLKRAL-RELGSVP-LRLTW---QGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQ   93 (97)
T ss_dssp             TCCHHHHHHHH-HHTTCCC-SEEEE---ETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCC
T ss_pred             cCcHHHHHHHH-HhcCCEE-EEEEc---CCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            33468899999 7999997 56654   35689999999999999999999999999999999999843

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

Probab=99.28  E-value=1.3e-12  Score=91.13  Aligned_cols=67  Identities=12%  Similarity=0.209  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHhhccCCceEE--EEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCC----EeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEE--MNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNR----WFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~--v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr----~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|..  |.|+.+. ++.++|++||+|.+. +|.+|+..|||.    .++||+|.|.++..
T Consensus        34 ~~te~~L~~~F-~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V~~a~~  107 (131)
T 2m2b_A           34 HSTMDSILGAL-APYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINVEFAKG  107 (131)
T ss_dssp             TCCSHHHHHHH-GGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCCEECCC
T ss_pred             CCCHHHHHHHH-HHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEEEECCC
Confidence            33468899999 79999976  9999876 688999999999999 999999999999    99999999999844

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.28  E-value=1e-12  Score=91.97  Aligned_cols=76  Identities=17%  Similarity=0.204  Sum_probs=66.0

Q ss_pred             hHHHHHHHHHHhhccCCce----EEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806          5 YDNFFEDVFVECEDKYGEI----EEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I----~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      |+...+||++.| ++||.|    .+|.|+.+.+++++|++||+|.+.++|.+|++. ||..++||.|.|..+....+..+
T Consensus        33 ~~~te~dl~~~F-~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a~~~e~~~~  110 (123)
T 2dha_A           33 FTATAEEVVAFF-GQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRSTAAEVQQV  110 (123)
T ss_dssp             TTCCHHHHHHHH-HTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEECHHHHHHH
T ss_pred             CCCCHHHHHHHH-HhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEECCHHHHHHH
Confidence            556679999999 799986    699999887788999999999999999999996 99999999999998876666655


Q ss_pred             hh
Q psy17806         81 CC   82 (130)
Q Consensus        81 ~c   82 (130)
                      ..
T Consensus       111 ~~  112 (123)
T 2dha_A          111 LN  112 (123)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.28  E-value=9.8e-12  Score=93.11  Aligned_cols=61  Identities=20%  Similarity=0.331  Sum_probs=56.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||.|.+|+|+.+    .+|++||+|.+.++|.+|++.|||..+.||+|.|.++.
T Consensus        18 ~~~~L~~~F-~~~G~v~~v~i~~~----~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~   78 (205)
T 3tyt_A           18 NCDRVFNVF-CLYGNVEKVKFMKS----KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSK   78 (205)
T ss_dssp             CHHHHHHHH-TTTSCEEEEEECTT----STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CHHHHHHHH-HhcCCeEEEEEecC----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence            457899999 79999999999875    27999999999999999999999999999999999984

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.27  E-value=1.2e-11  Score=95.31  Aligned_cols=65  Identities=18%  Similarity=0.295  Sum_probs=59.2

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCC--CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLG--DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~--~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.++|++.| ++||.|..|.|+.+..  +.++|++||+|.+.++|.+|+ .|||+.++|++|.|.|+..
T Consensus       224 t~~~l~~~F-~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~~a~~  290 (292)
T 2ghp_A          224 DENLLRESF-EGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSLADK  290 (292)
T ss_dssp             CHHHHHHHH-GGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEEECCC
T ss_pred             CHHHHHHHH-hccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEEEEecC
Confidence            458899999 7999999999998765  788999999999999999999 9999999999999999843

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.27  E-value=3.3e-12  Score=88.37  Aligned_cols=61  Identities=26%  Similarity=0.408  Sum_probs=53.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCC--CEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN--RWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnG--r~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||+|.+|.|.+     .+|++||+|.+.++|.+|++.|||  ..++||+|.|.++..
T Consensus        39 te~~L~~lF-~~fG~V~~v~i~~-----~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~  101 (112)
T 1x4f_A           39 SDSAVLKLA-EPYGKIKNYILMR-----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK  101 (112)
T ss_dssp             CSHHHHTTT-TTTSCCSEEEEET-----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CHHHHHHHH-HhcCCEEEEEEec-----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcc
Confidence            457899999 7999999999975     379999999999999999999865  569999999999843

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.26  E-value=9.3e-12  Score=82.64  Aligned_cols=64  Identities=16%  Similarity=0.234  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +.-.+||++.| ++||.|.++.|+.+.++..+|++||+|.+.++|.+|+.  ||..++|++|.|.++
T Consensus        20 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a   83 (102)
T 2xs2_A           20 RMDETEIRSFF-ARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPA   83 (102)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEE
T ss_pred             CCCHHHHHHHH-HhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEEC
Confidence            33468899999 79999999999988778899999999999999999999  999999999999887

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.26  E-value=2.4e-12  Score=80.86  Aligned_cols=63  Identities=17%  Similarity=0.226  Sum_probs=56.2

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.+||++.| ++||.|.++.++.+. ++.++|++||+|.+.++|.+|++. +|..++|++|.+.++
T Consensus        12 t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A           12 PEEKIREYF-GGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CHHHHHHHH-HHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTT-SSCCBTTBCCCEEEC
T ss_pred             CHHHHHHHH-HhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEC
Confidence            468899999 799999999999764 477899999999999999999985 999999999998864

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.26  E-value=3.6e-11  Score=89.51  Aligned_cols=68  Identities=25%  Similarity=0.428  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.-.++|++.| ++||.|++|.|+.+. ++.++|++||+|.+.++|.+|++.|||..+.|++|.+.++..
T Consensus        26 ~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~   94 (213)
T 4f02_A           26 DVTEAMLYEKF-SPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   94 (213)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCCHHHHHHHH-HhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccccc
Confidence            34468999999 799999999999865 578999999999999999999999999999999999998754

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.25  E-value=1.4e-11  Score=83.35  Aligned_cols=60  Identities=18%  Similarity=0.207  Sum_probs=53.2

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|.+|.|+.    .++|++||+|.+.++|.+|++.++|  +.|++|.|.++..
T Consensus        30 te~~L~~~F-~~~G~V~~v~i~~----~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~   89 (100)
T 2d9o_A           30 SKDVLLRLL-QKYGEVLNLVLSS----KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEG   89 (100)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEEES----SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEcc----CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccC
Confidence            468899999 7999999999983    5689999999999999999999766  6899999999844

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.25  E-value=7.9e-12  Score=84.55  Aligned_cols=64  Identities=17%  Similarity=0.198  Sum_probs=55.7

Q ss_pred             HHHHHHHHHhhccCCce----EEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEI----EEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I----~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|    ..+.+.   ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        37 ~t~~~l~~~f-~~~G~v~~~~~~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~  104 (115)
T 2cpx_A           37 VTERDLVSLF-ARFQEKKGPPIQFRMM---TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN  104 (115)
T ss_dssp             CCHHHHHHHT-HHHHHSSSSCCEEEEE---CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             CCHHHHHHHH-HHhCCccceEEEEEcC---CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEccC
Confidence            3468899999 799999    455554   467899999999999999999999999999999999999854

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.25  E-value=3.6e-11  Score=86.88  Aligned_cols=67  Identities=15%  Similarity=0.220  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|..|.|+.+. ++.++|++||+|.+.++|.+|+.. +|..++|++|.|.++..
T Consensus       115 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~  182 (196)
T 1l3k_A          115 DTEEHHLRDYF-EQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALS  182 (196)
T ss_dssp             TCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC-
T ss_pred             CCCHHHHHHHH-hcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCC
Confidence            34468899999 799999999999875 578899999999999999999986 89999999999999844

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.25  E-value=2e-11  Score=87.06  Aligned_cols=62  Identities=23%  Similarity=0.241  Sum_probs=55.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..+||++.| ++||.|..+    ..++.++|++||+|.+.++|.+|++.|||..++||+|.|.|+..
T Consensus       112 t~~~l~~~F-~~~g~v~~~----~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~  173 (175)
T 1fje_B          112 TEDELKEVF-EDALEIRLV----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE  173 (175)
T ss_dssp             CHHHHHHHC-TTCSEEEEE----CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECSS
T ss_pred             CHHHHHHHH-HhcCeEEEe----cCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecCC
Confidence            468999999 799999877    44467899999999999999999999999999999999999843

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.24  E-value=1.5e-12  Score=93.00  Aligned_cols=70  Identities=14%  Similarity=0.142  Sum_probs=62.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      |+...+||++.| ++|| |++|.|+.+..++++|++||+|.+.++|.+|+ .|||..++||+|.|..+.....
T Consensus        56 ~~~te~dL~~~F-~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~~~  125 (139)
T 2hgn_A           56 YKATENDIYNFF-SPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTGA  125 (139)
T ss_dssp             TTCCHHHHHHHH-CSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCSCC
T ss_pred             CCCCHHHHHHHH-HhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCCCC
Confidence            456679999999 7999 77999998777889999999999999999999 8999999999999998865443

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

Probab=98.89  E-value=6.9e-13  Score=90.36  Aligned_cols=68  Identities=19%  Similarity=0.322  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHhhccCCceEE--------EEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEE--------MNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~--------v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.-.+||++.| ++||.|..        |.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        18 ~~t~~~l~~~F-~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   94 (116)
T 2lcw_A           18 NVTIESVADYF-KQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATR   94 (116)
Confidence            44568899999 79999999        8888763 467899999999999999999999999999999999999844

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.23  E-value=1.6e-11  Score=94.99  Aligned_cols=63  Identities=14%  Similarity=0.264  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe------------CCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF------------GGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f------------~GR~I~v~~~~   73 (130)
                      +...++|++.| ++||+|++|.|+.     .+|++||+|.+.++|+.|+.+|||..+            +|++|.|.++.
T Consensus       154 ~~tEe~L~~~F-~~fG~I~~v~v~~-----~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~  227 (240)
T 3u1l_A          154 AQIESRIRFVF-SRLGDIDRIRYVE-----SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWAN  227 (240)
T ss_dssp             HHHHHHHHHHH-HTTSCEEEEEEEG-----GGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC
T ss_pred             cCcHHHHHHHH-HccCCEEEEEEEC-----CCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCCCEEEEEEcc
Confidence            34789999999 7999999999986     379999999999999999999999999            89999999995


Q ss_pred             C
Q psy17806         74 V   74 (130)
Q Consensus        74 ~   74 (130)
                      .
T Consensus       228 ~  228 (240)
T 3u1l_A          228 E  228 (240)
T ss_dssp             -
T ss_pred             C
Confidence            4

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.22  E-value=2.3e-11  Score=85.50  Aligned_cols=66  Identities=17%  Similarity=0.274  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHhhccCCceEEE--------EEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEM--------NVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v--------~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...++|+..| ++||.|..+        .+..  ++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        56 ~~te~~L~~~F-~~~G~i~~~~~~~~~di~~~~--~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~  129 (143)
T 3egn_A           56 HVQEKDLKYIF-GRYVDFSSETQRIMFDIRLMK--EGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFARS  129 (143)
T ss_dssp             TCCHHHHHHHH-GGGCCTTCHHHHHHCEEEEEE--ETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEEECCC
T ss_pred             CCCHHHHHHHH-HHhCCcccccccceeeEEecc--CCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCC
Confidence            34468899999 799998763        3333  467899999999999999999999999999999999999843

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.22  E-value=1.1e-10  Score=89.46  Aligned_cols=95  Identities=12%  Similarity=0.149  Sum_probs=74.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhhhcccc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREACCRQYE   86 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~c~~~~   86 (130)
                      ..+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.+.++......        
T Consensus       108 t~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~~--------  178 (284)
T 3smz_A          108 TQQQFEELV-RPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLT--------  178 (284)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGCC--------
T ss_pred             CHHHHHHHH-HhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCCC--------
Confidence            468899999 799999999999764 5789999999999999999999999999999999999998543221        


Q ss_pred             cCCCCCCCCcceeeecCCCHHH-----HHHHHhh
Q psy17806         87 MGECTRSGFCNFMHLKPISREL-----RRYLYSR  115 (130)
Q Consensus        87 ~~~c~rg~~Cn~lh~~~~~~~l-----~~~l~~~  115 (130)
                          +.....+-++|.++|.++     ..++|..
T Consensus       179 ----~~~~~~~~l~v~nlp~~~~~~~~l~~~f~~  208 (284)
T 3smz_A          179 ----PALLHSRCLCVDRLPPGFNDVDALCRALSA  208 (284)
T ss_dssp             ----TTTTSCSEEEEECCCTTCCCHHHHHHHTCS
T ss_pred             ----cccCCccEEEEecCCcccCCHHHHHHHhhC
Confidence                111234446787766553     4555653

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.22  E-value=3.7e-11  Score=89.33  Aligned_cols=65  Identities=15%  Similarity=0.265  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +...++|++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|+..++. .|+||+|.|.+.
T Consensus       120 ~~t~~~L~~~F-~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~-~~~Gr~l~V~~~  184 (193)
T 2voo_A          120 DATLDDIKEWL-EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQ-KYKETDLLILFK  184 (193)
T ss_dssp             TCCHHHHHHHH-TTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTC-EETTEECEEEET
T ss_pred             cCCHHHHHHHH-hcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCC-eECCEEEEEEEh
Confidence            34568899999 799999999999987788999999999999999999987765 899999999975

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.21  E-value=1.3e-12  Score=86.71  Aligned_cols=66  Identities=20%  Similarity=0.143  Sum_probs=55.5

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|....+....++.++|++||+|.+.++|.+|++ |||..++|++|.|.++..
T Consensus        29 ~t~~~l~~~F-~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~   94 (101)
T 1fj7_A           29 KSVAELKVAI-SELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   94 (101)
T ss_dssp             SCHHHHHHHH-HHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSC
T ss_pred             CCHHHHHHHH-HHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCC
Confidence            3468899999 79999988333333346789999999999999999999 999999999999999844

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=1.6e-11  Score=80.17  Aligned_cols=61  Identities=11%  Similarity=0.093  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhhccCCc-eEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCC-CEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGE-IEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNN-RWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~-I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnG-r~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||. |..+.+.      .+|++||+|.+.++|.+|++.||| ..++|++|.|.++..
T Consensus        20 ~t~~~l~~~F-~~~G~vv~~~~~~------~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~   82 (93)
T 2cqh_A           20 VTADDLRQLF-GDRKLPLAGQVLL------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVS   82 (93)
T ss_dssp             CCHHHHHHHH-HHTTCCCSSCEEE------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HHcCCceEEEEEc------CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccC
Confidence            3468899999 79999 6666663      369999999999999999999999 999999999999844

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.21  E-value=2.7e-11  Score=82.81  Aligned_cols=59  Identities=22%  Similarity=0.284  Sum_probs=51.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .-.+||++.| ++||+|..|.|+.+      |++||+|.+.++|.+|++.|||..++|++|.+.+.
T Consensus        28 ~t~~~l~~~F-~~~G~v~~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i   86 (115)
T 3beg_B           28 GSWQDLKDHM-REAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   86 (115)
T ss_dssp             CCTTHHHHHH-GGGSCEEEEEECTT------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEecC------CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEE
Confidence            3457899999 79999999999875      99999999999999999999999999999544443

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=6.5e-11  Score=78.39  Aligned_cols=64  Identities=17%  Similarity=0.165  Sum_probs=54.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++|+   .+.++.+ .++..+|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        27 ~t~~~l~~~F-~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   91 (102)
T 2fc8_A           27 TTEETLKESF-DGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKP   91 (102)
T ss_dssp             CCHHHHHHTS-TTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cCHHHHHHHh-cCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecC
Confidence            3467899888 6775   5566654 3578899999999999999999999999999999999999844

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.20  E-value=5e-12  Score=88.96  Aligned_cols=69  Identities=19%  Similarity=0.244  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHHhhccCCceE--EEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          5 YDNFFEDVFVECEDKYGEIE--EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~--~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      |+...+||++.| ++| .|+  +|.|+.+..++++|++||+|.+.++|.+|++ ++|..++||+|.|..+....
T Consensus        52 ~~~te~dL~~~F-~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~a~~~e  122 (126)
T 2hgm_A           52 FGCTKEEIVQFF-SGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFKSSQEE  122 (126)
T ss_dssp             TTCCHHHHHHHT-TTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEEECHHH
T ss_pred             CCCCHHHHHHHH-hcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECCHHH
Confidence            556678999999 799 677  9999987778899999999999999999998 58899999999998875443

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.20  E-value=4.6e-11  Score=87.53  Aligned_cols=68  Identities=15%  Similarity=0.222  Sum_probs=58.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      ...+||++.| ++||.|.+|.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|++|.|.+....
T Consensus        40 ~t~~~l~~~f-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~~  108 (216)
T 2qfj_A           40 LGEDTIRQAF-APFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNI  108 (216)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSCC
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCCc
Confidence            3468899999 799999999999765 5678999999999999999999999999999999999887543

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.19  E-value=7.7e-11  Score=90.33  Aligned_cols=60  Identities=15%  Similarity=0.357  Sum_probs=54.7

Q ss_pred             HHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806         12 VFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus        12 i~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      |.+.| ++||.|.+|.|..  ++..+|++||+|.+.++|.+|++.|||..+.|++|.|.++..
T Consensus        30 L~~~F-~~~G~i~~v~~~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   89 (282)
T 3pgw_A           30 LYAIF-SQFGQILDILVSR--SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT   89 (282)
T ss_pred             HHHHH-hccCCeEEEEEcC--CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEecc
Confidence            55888 7999999999987  356899999999999999999999999999999999999844

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

Probab=99.18  E-value=6.2e-11  Score=77.74  Aligned_cols=64  Identities=9%  Similarity=0.051  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +...+||++.| ++||.|.+| +....++.   ++||+|.+.++|.+|+. |||..++|++|.|.++...
T Consensus        19 ~~t~~~l~~~F-~~~G~v~~v-~~~~~~g~---~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~   82 (94)
T 2e5g_A           19 GVDSAQLSEYF-LAFGPVASV-VMDKDKGV---FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQK   82 (94)
T ss_dssp             TCCHHHHHHHG-GGTSCEEEE-EECSSSCC---EEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCS
T ss_pred             CCCHHHHHHHH-HhcCCeEEE-EEcCCCCc---EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcC
Confidence            34568999999 799999998 33332222   99999999999999999 9999999999999987543

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.17  E-value=1.2e-10  Score=78.07  Aligned_cols=59  Identities=15%  Similarity=0.390  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ++++.+|.+.| ++||.|..++|+.+       .+||+|.+.++|.+|++ |||..++||.|+|.+..
T Consensus        26 ~~l~~~L~~~F-~~~G~Vi~vr~~~d-------~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt   84 (91)
T 2dnr_A           26 DALIDELLQQF-ASFGEVILIRFVED-------KMWVTFLEGSSALNVLS-LNGKELLNRTITIALKS   84 (91)
T ss_dssp             HHHHHHHHHHH-HTTCCEEEEEECSS-------SEEEEESSHHHHHHGGG-GTTCEETTEEEEEEECC
T ss_pred             HHHHHHHHHHH-HhCCCeEEEEEecC-------CEEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCC
Confidence            57889999999 79999999999985       37999999999999998 99999999999999974

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.16  E-value=7e-11  Score=75.85  Aligned_cols=58  Identities=12%  Similarity=0.236  Sum_probs=52.3

Q ss_pred             HHHHHHHHHhhccC----C-------ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          7 NFFEDVFVECEDKY----G-------EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         7 ~~~eDi~~e~~skf----G-------~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      .-.+||++.| ++|    |       .|.++.+..+     +|++||+|.+.++|.+|+ .|||..++||+|.|+.
T Consensus        18 ~t~~~l~~~F-~~~~~~~g~~~~~~~~v~~~~~~~~-----kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           18 ITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQD-----KNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             CCHHHHHHHH-HHHHHHTTCCSSSSCSEEEEEECSS-----SSEEEEEESSHHHHHHHG-GGTTCEETTEECEEEC
T ss_pred             CCHHHHHHHH-HHHhhhcccccCCCCcceEEEecCC-----CcEEEEEcCCHHHHHHHH-hcCCCEECCeEEEEeC
Confidence            3468899999 799    8       9999999864     799999999999999999 9999999999999873

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.16  E-value=9.6e-11  Score=89.81  Aligned_cols=62  Identities=10%  Similarity=0.092  Sum_probs=56.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC-CeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG-GRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~-GR~I~v~~~~   73 (130)
                      ...++|++.| ++||.|.+|.|..+.    +|++||+|.+.++|.+|++.|||..++ |++|.|+|+.
T Consensus       219 ~~~~~l~~~F-~~~G~i~~v~~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          219 TNELMLSMLF-NQFPGFKEVRLVPGR----HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             CCHHHHHHHH-HhcCCeEEEEEecCC----CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            3568999999 799999999999653    599999999999999999999999999 9999999973

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.15  E-value=1.8e-10  Score=83.13  Aligned_cols=67  Identities=15%  Similarity=0.223  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++. +|..++|++|.+.++..
T Consensus        24 ~~te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~~~   91 (196)
T 1l3k_A           24 ETTDESLRSHF-EQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVS   91 (196)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEECCC
T ss_pred             CCCHHHHHHHH-HhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecccC
Confidence            34568999999 799999999999875 477899999999999999999986 99999999999999844

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.15  E-value=1.3e-10  Score=82.23  Aligned_cols=66  Identities=21%  Similarity=0.248  Sum_probs=57.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCC---CceeEEEEEecCHHHHHHHHHHhCCCEeC---CeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGD---HLVGNVYIKFRREEDAEKAVNDLNNRWFG---GRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~---~~~G~vfV~F~~~e~A~~A~~~lnGr~f~---GR~I~v~~~~   73 (130)
                      .-.+||++.| ++||.|.+|.|+.+...   .++|++||+|.+.++|.+|++.|||..+.   ++++.+.+..
T Consensus        15 ~te~~l~~~F-~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~~   86 (175)
T 3nmr_A           15 WSEKDLRELF-EQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPAD   86 (175)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECG
T ss_pred             CCHHHHHHHH-HhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEcccc
Confidence            3468899999 79999999999986543   78999999999999999999999998775   6788887764

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.12  E-value=1.3e-10  Score=82.89  Aligned_cols=71  Identities=18%  Similarity=0.110  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecC----HHH----HHHHHH--HhCCCEeCCeeEEEEecc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRR----EED----AEKAVN--DLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~----~e~----A~~A~~--~lnGr~f~GR~I~v~~~~   73 (130)
                      |..-.++|++.| ++||+|.++.+..+. ++.++|++||+|.+    +++    |.+|+.  .|||..++||+|.|.+-+
T Consensus        16 ~~tte~~Lk~~F-s~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           16 TNIQDISIKNYF-KKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             CCCCHHHHHHHH-HTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEEECC
T ss_pred             CCCCHHHHHHHH-HhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEEECc
Confidence            344567899999 799999999999865 68999999999996    433    889988  899999999999999875


Q ss_pred             Ccc
Q psy17806         74 VTD   76 (130)
Q Consensus        74 ~~~   76 (130)
                      ...
T Consensus        95 ~g~   97 (136)
T 2j8a_A           95 HSI   97 (136)
T ss_dssp             TTH
T ss_pred             ccH
Confidence            543

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.11  E-value=2.4e-10  Score=87.53  Aligned_cols=68  Identities=19%  Similarity=0.215  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh-CCCEeC---CeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL-NNRWFG---GRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l-nGr~f~---GR~I~v~~~~~~   75 (130)
                      ...++|++.| ++||.|.+|.|+.+.++.++|++||+|.+.++|.+|+..| +|.++.   ||+|.|.++...
T Consensus       108 ~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          108 VSNELLEQAF-SQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCCE
T ss_pred             CCHHHHHHHH-HhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecccc
Confidence            3468899999 7999999999998877889999999999999999999999 566665   999999998543

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.09  E-value=1e-10  Score=85.19  Aligned_cols=62  Identities=21%  Similarity=0.194  Sum_probs=56.0

Q ss_pred             HHHHHHHHhhccCC-ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC-CeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYG-EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG-GRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG-~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~-GR~I~v~~~~~   74 (130)
                      ..++|++.| ++|| .|..+.|..+.    +|++||+|.+.++|.+|+..|||..++ |++|.|.|+..
T Consensus       133 ~~~~l~~~f-~~~G~~v~~v~i~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~  196 (198)
T 1qm9_A          133 SEEDLKVLF-SSNGGVVKGFKFFQKD----RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  196 (198)
T ss_dssp             CHHHHHHHH-HHTTSCCCEEEESSTT----SSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECC
T ss_pred             CHHHHHHHH-HHcCCCceEEEEEeCC----CcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeecc
Confidence            468999999 7999 99999996542    699999999999999999999999999 99999999843

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

Probab=99.08  E-value=2e-10  Score=78.11  Aligned_cols=77  Identities=12%  Similarity=0.178  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-C---CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhhh
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-G---DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREAC   81 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~---~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a~   81 (130)
                      +...+||++.| ++||.|. +.++.+. +   +.++|++||+|.+.++|.+|++.|++  ++|+.+.+...+...-+...
T Consensus        19 ~~te~~L~~~F-~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~--~~G~~~~~~~~~~~~~~~~~   94 (114)
T 2dnl_A           19 DIDEDEITASF-RRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE--EDGKLYLCVSSPTIKDKPVQ   94 (114)
T ss_dssp             TCCHHHHHHHT-TTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE--ETTEEEEEECCSSSCSEEEE
T ss_pred             CCCHHHHHHHH-HhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh--cCCcEEEeccCCCcCCCeee
Confidence            44568999999 7999999 7777543 2   57899999999999999999999954  78888888776554444333


Q ss_pred             hcccc
Q psy17806         82 CRQYE   86 (130)
Q Consensus        82 c~~~~   86 (130)
                      -+.|.
T Consensus        95 v~p~~   99 (114)
T 2dnl_A           95 IRPWN   99 (114)
T ss_dssp             EECCC
T ss_pred             ccCCc
Confidence            34443

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.07  E-value=1.6e-10  Score=86.84  Aligned_cols=62  Identities=21%  Similarity=0.368  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.++|++.| ++||.|.+|.|..+.    +|++||+|.+.++|.+|++.|||..+.|++|.|.++..
T Consensus        48 te~~L~~~F-~~~G~i~~v~i~~~~----~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~  109 (229)
T 2adc_A           48 TPQSLFILF-GVYGDVQRVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH  109 (229)
T ss_dssp             CHHHHHHHH-HHHTCEEEEEECCTT----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSC
T ss_pred             CHHHHHHHH-HhCCCeEEEEEEECC----CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecC
Confidence            458899999 799999999999864    79999999999999999999999999999999999843

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.07  E-value=2.4e-10  Score=87.98  Aligned_cols=67  Identities=15%  Similarity=0.048  Sum_probs=55.8

Q ss_pred             HHHHHHHHHhhccCC-ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYG-EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG-~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...++|++.| ++|| .|.+|.|+.+..+.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus       129 ~t~~~l~~~f-~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  196 (292)
T 2ghp_A          129 YTQRNIRDLL-QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP  196 (292)
T ss_dssp             CCHHHHHHHH-HHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCC
Confidence            3468899999 7999 99999999876677899999999999999999999999999999999999854

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.06  E-value=1.3e-10  Score=84.65  Aligned_cols=62  Identities=21%  Similarity=0.368  Sum_probs=56.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.++|++.| ++||.|.+|.|+.+.    +|++||+|.+.++|.+|+..|||..+.|++|.+.++..
T Consensus        17 ~~~~l~~~F-~~~G~i~~v~i~~~~----~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~   78 (198)
T 1qm9_A           17 TPQSLFILF-GVYGDVQRVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH   78 (198)
T ss_dssp             CHHHHHHHH-HTTCCCSEEECSTTC----SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecC
Confidence            358899999 799999999999863    79999999999999999999999999999999999843

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.04  E-value=4.2e-10  Score=84.55  Aligned_cols=62  Identities=21%  Similarity=0.194  Sum_probs=55.7

Q ss_pred             HHHHHHHHhhccCC-ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeC-CeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYG-EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFG-GRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG-~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~-GR~I~v~~~~~   74 (130)
                      ..++|++.| ++|| .|..|.|...    .+|++||+|.+.++|.+|++.|||..++ |++|.|.|+..
T Consensus       164 t~~~l~~~f-~~~G~~i~~v~i~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~  227 (229)
T 2adc_A          164 SEEDLKVLF-SSNGGVVKGFKFFQK----DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  227 (229)
T ss_dssp             CHHHHHHHH-HTTSCCEEEEEECSS----STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CHHHHHHHH-HHcCCCeeEEEEEEC----CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecC
Confidence            468999999 7999 9999999643    2699999999999999999999999999 99999999843

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.04  E-value=4.2e-10  Score=73.69  Aligned_cols=61  Identities=16%  Similarity=0.166  Sum_probs=50.7

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe--CCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF--GGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f--~GR~I~v~~~~~   74 (130)
                      ++.-.+||++.| ++||.|.++.|+.+    ++|++||+|.+.++|.    .|+|..+  .|++|.+.++..
T Consensus        21 ~~~te~~L~~~F-~~~G~i~~v~i~~~----srGfaFV~F~~~~~A~----~~~~~~~~~~g~~v~v~~a~~   83 (89)
T 3d2w_A           21 EDMTAEELQQFF-CQYGEVVDVFIPKP----FRAFAFVTFADDKVAQ----SLCGEDLIIKGISVHISNAEP   83 (89)
T ss_dssp             TTCCHHHHHHHH-TTTSCEEEEECCSS----CCSEEEEEESCHHHHH----HHTTCEEEETTEEEEEEECC-
T ss_pred             CCCCHHHHHHHH-hccCCEEEEEEeeC----CCCEEEEEECCHHHHH----HHcCCCcccCCEEEEEEEcCC
Confidence            344568999999 79999999999974    6899999999999988    3677765  599999998843

>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=99.03  E-value=3.8e-10  Score=76.08  Aligned_cols=58  Identities=14%  Similarity=0.277  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ++++.+|.+.| +.||.|..+++..+       .+||+|.+.++|.+|++ |||..++||.|+|.+-
T Consensus        35 ~~l~~~L~~~F-~~~G~Vilvr~v~d-------~~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~~k   92 (95)
T 1ufw_A           35 EDLRTELMQTL-GSYGTIVLVRINQG-------QMLVTFADSHSALSVLD-VDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHH-HHHSCCSEEEEETT-------EEEEECSCSHHHHHHHH-GGGSEETTEEEEEECC
T ss_pred             HHHHHHHHHHH-HHCCCEEEEEEecC-------cEEEEEcChHHHHHHHh-cCCeeeCCeEEEEecc
Confidence            46789999999 79999999999985       39999999999999998 9999999999999874

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.02  E-value=1.3e-09  Score=88.20  Aligned_cols=99  Identities=13%  Similarity=0.172  Sum_probs=73.8

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe---CCe--eEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF---GGR--PVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f---~GR--~I~v~~~~~~~f~~   79 (130)
                      |+.-++||++.| ++||+|.+|.++.     .+|++||+|.+.++|++|++.|||..+   .|+  +|++.|+....+  
T Consensus        30 ~~~te~~L~~~F-~~~G~V~~v~~~~-----~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~~~~~~~--  101 (345)
T 3tht_A           30 NGVSRNQLLPVL-EKCGLVDALLMPP-----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQW--  101 (345)
T ss_dssp             GTCCHHHHHHHH-HTTSCEEEEECCT-----TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEECSSEEE--
T ss_pred             CCCCHHHHHHHH-HhcCCeEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEEeecccc--
Confidence            455679999999 7999999998865     379999999999999999999999988   345  788888843322  


Q ss_pred             hhhcccccCCCCCCCCcceeeecCCCHHHHHHHHhhcc
Q psy17806         80 ACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRRK  117 (130)
Q Consensus        80 a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l~~~~~  117 (130)
                         ..+....-+.|   =+++-.-++.+-.+.|.....
T Consensus       102 ---~~~~~~~lp~G---l~~~p~fis~~Ee~~Ll~~i~  133 (345)
T 3tht_A          102 ---KELRPQALPPG---LMVVEEIISSEEEKMLLESVD  133 (345)
T ss_dssp             ---EEEECCSCCTT---EEEETTCSCHHHHHHHHTTCC
T ss_pred             ---cccccccCCCc---eEEEcCcCCHHHHHHHHHhcc
Confidence               22223345544   333445588888888876544

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.00  E-value=7.1e-10  Score=78.10  Aligned_cols=66  Identities=12%  Similarity=0.276  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...++|++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.  +..++|++|.+.++..
T Consensus        14 ~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~   80 (167)
T 2cjk_A           14 DTTEDNLREYF-GKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIP   80 (167)
T ss_dssp             TCCHHHHHHHH-TTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCC
T ss_pred             CCCHHHHHHHH-HhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccc
Confidence            34468899999 799999999999874 578899999999999999999984  6799999999888743

>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=98.99  E-value=9.5e-10  Score=84.19  Aligned_cols=62  Identities=24%  Similarity=0.314  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|.+|.|..+     +|++||+|.+.++|.+|+..|||..+.|++|.|.++.
T Consensus        33 ~~te~~l~~~F-~~~G~i~~v~i~~~-----kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~   94 (261)
T 3sde_A           33 DITEEDFKRLF-ERYGEPSEVFINRD-----RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT   94 (261)
T ss_dssp             TCCHHHHHHHT-GGGCCCSEEEEETT-----TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHH-HhcCCEEEEEEeCC-----CcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc
Confidence            34468999999 79999999999764     6999999999999999999999999999999999884

>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=98.94  E-value=1.5e-09  Score=81.12  Aligned_cols=64  Identities=19%  Similarity=0.237  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhhccCCce--EEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCe----eEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEI--EEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR----PVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I--~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR----~I~v~~~   72 (130)
                      ...+||++.| ++||.|  .+++|..+. +..+|++||+|.+.++|.+|+..|||..++|+    |+++.|+
T Consensus       135 ~t~~~L~~~F-~~~G~v~~~~v~~~~~~-~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          135 VTEENFFEIC-DELGVKRPTSVKVFSGK-SERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             CCHHHHHHHH-HHHTCCCCSEEEECSCC-SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             CCHHHHHHHH-HhcCCcceEEEEEEcCC-CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence            3468999999 799999  899998765 34469999999999999999999999999997    6666553

>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=98.92  E-value=1.8e-10  Score=82.09  Aligned_cols=66  Identities=20%  Similarity=0.152  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ...+||++.| ++||.|..+.|....++.++|++||+|.+.++|.+|+ .|||..+.|++|.+.++..
T Consensus        25 ~t~~~l~~~f-~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~~   90 (175)
T 1fje_B           25 KSVAELKVAI-SELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKG   90 (175)
T ss_dssp             SCHHHHHHHH-HHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCC
T ss_pred             CCHHHHHHHH-HHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCCC
Confidence            3467899999 6999887744444444678899999999999999999 5999999999999999854

>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=98.91  E-value=2.4e-09  Score=75.69  Aligned_cols=60  Identities=12%  Similarity=0.224  Sum_probs=52.2

Q ss_pred             HHHHHHHHHhhccC----C-------ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKY----G-------EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skf----G-------~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .-.+||++.| ++|    |       .|.++.+..+     +|++||+|.+.++|.+|+ .|||..+.|++|.+.+..
T Consensus        16 ~t~~~l~~~F-~~~g~~~g~~~~~~~~v~~~~~~~~-----~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~~~   86 (172)
T 2g4b_A           16 ITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQD-----KNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPH   86 (172)
T ss_dssp             CCHHHHHHHH-HHHHHHTTCCSSSSCSEEEEEEETT-----TTEEEEEESSHHHHHHHG-GGTTCEETTEECEEECCS
T ss_pred             cCHHHHHHHH-HHHhhhcccccCCCCceeeeEecCC-----CCEEEEEeCCHHHHHHHH-HhCCcEecCceeeecCCc
Confidence            3468899999 799    6       7888877653     799999999999999999 899999999999999763

>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=98.84  E-value=1.8e-09  Score=69.73  Aligned_cols=59  Identities=12%  Similarity=0.152  Sum_probs=49.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe--CCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF--GGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f--~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.+|.|+.+    ++|++||+|.+.++|++    |+|..+  .|++|.+.++..
T Consensus        17 ~te~~l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~----~~~~~~~~~g~~l~v~~a~~   77 (88)
T 1wf0_A           17 MTEDELREFF-SQYGDVMDVFIPKP----FRAFAFVTFADDQIAQS----LCGEDLIIKGISVHISNAEP   77 (88)
T ss_dssp             SCHHHHHHHS-TTTSCCCEEECCSS----CCSCCEEECSCHHHHHH----TTTCEEEETTEEEEEECCCC
T ss_pred             CCHHHHHHHH-HHcCCeeEEEEecC----CCCEEEEEECCHHHHHH----HhcCCceeCCEEEEEEecCC
Confidence            3468899999 79999999999875    58999999999999975    455544  999999998844

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.79  E-value=7.8e-09  Score=74.57  Aligned_cols=61  Identities=11%  Similarity=0.171  Sum_probs=51.6

Q ss_pred             HHHHHHHHHhhccC----C-------ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKY----G-------EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skf----G-------~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++|    |       .|.++.+..     .+|++||+|.+.++|.+|+ .|||..+.|++|.+.++..
T Consensus        16 ~te~~l~~~F-~~~g~i~g~~~~~~~~v~~~~~~~-----~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~v~~~~~   87 (198)
T 2yh0_A           16 ITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQ-----DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPHD   87 (198)
T ss_dssp             CCHHHHHHHH-HHHHHHHTCCSSSSCSEEEEEEET-----TTTEEEEEESCSHHHHHHG-GGTTEEETTEEEEEECCCC
T ss_pred             CCHHHHHHHH-HHHHhhcccccCCCCceEEeEecC-----CCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEEEeCCCC
Confidence            3468899999 799    4       666666643     4799999999999999999 8999999999999998743

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

Probab=98.30  E-value=1.9e-06  Score=60.15  Aligned_cols=59  Identities=22%  Similarity=0.234  Sum_probs=52.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecC-HHHHHHHHHHhC--CCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRR-EEDAEKAVNDLN--NRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~-~e~A~~A~~~ln--Gr~f~GR~I~v~~~   72 (130)
                      ..+||++.| ++||+|..|.+..+..     .+||+|.+ +++|.+|++.||  |..+.|..++++..
T Consensus        32 sredLke~F-~~~G~V~~Vd~~~g~~-----tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL   93 (121)
T 1owx_A           32 CREDLHILF-SNHGEIKWIDFVRGAK-----EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   93 (121)
T ss_dssp             CHHHHHHHT-CSSCCEEEEECCTTCS-----EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             CHHHHHHHH-HhcCCEEEEEEecCCC-----EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEEC
Confidence            468999999 7999999999987532     59999999 899999999995  78899999999887

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.71  E-value=6.7e-05  Score=51.84  Aligned_cols=56  Identities=18%  Similarity=0.195  Sum_probs=48.4

Q ss_pred             HHHHHhhccC-----CceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806         11 DVFVECEDKY-----GEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus        11 Di~~e~~skf-----G~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -|+..+ ..|     |.|.+|.+..+.     |=|.|+|.+...|.+|.-+|||..|+||+|.|.-.
T Consensus        37 rIr~lv-e~~~~i~~g~i~KI~L~pDH-----~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gTv   97 (117)
T 2l9w_A           37 LICQFL-QEEIHINEKDIRKILLVSDF-----NGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGTI   97 (117)
T ss_dssp             HHHHHH-HHHTCCCTTTCSEEEEETTT-----TEEEEECSCHHHHHHHHHHHSSEEETTEEEEEECH
T ss_pred             HHHHHH-hhhhccCccceeEEEEecCC-----CceEEEEccchhhHHHHhhcCCeeecCeEEEecCH
Confidence            356666 478     999999998763     67889999999999999999999999999999754

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=97.41  E-value=0.0005  Score=47.78  Aligned_cols=58  Identities=17%  Similarity=0.265  Sum_probs=46.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC-eeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG-RPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G-R~I~v~~~   72 (130)
                      ....|..+| ++||.|++...+.+     ...++|+|.+..+|++|+. .||..++| -.|-|..+
T Consensus        36 ~~~~VL~~F-~~~G~Iv~~~~~~~-----~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           36 SASYILLQF-AQYGNILKHVMSNT-----GNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GHHHHHHHH-HTTSCEEEEEECSS-----SSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEEC
T ss_pred             HHHHHHHHH-HhhCcEEEeccCCC-----CCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEEEEEC
Confidence            356788999 79999999998433     3589999999999999998 69999986 55555543

>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=97.31  E-value=0.0006  Score=46.35  Aligned_cols=62  Identities=15%  Similarity=0.087  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ++.+.++..| ..|+++......+.     -..+-|.|.++++|.+|-..|+|..|.|+.+.+.|...
T Consensus        22 ~lk~~~e~Lf-~~~~~~~tF~~lkS-----FRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq~   83 (104)
T 1wey_A           22 ETRAKFESLF-RTYDKDTTFQYFKS-----FKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             THHHHHHHHH-HTTCSSCEEEEETT-----TTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             HHHHHHHHHH-HhhCcCcceeecCc-----ceEEEEEeCChHHHHHHHHHhccceecCceeEEEecCC
Confidence            4557788888 69999988776653     34889999999999999999999999999999999863

>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=97.05  E-value=0.0014  Score=45.60  Aligned_cols=81  Identities=10%  Similarity=-0.022  Sum_probs=52.5

Q ss_pred             CCceeEEEEEecCHHHHHHHHHHh-CCCEeCCeeEEEEeccCccchhhhhc-ccccCCCCCCCCcceeeecCC----CHH
Q psy17806         34 DHLVGNVYIKFRREEDAEKAVNDL-NNRWFGGRPVYAELSPVTDFREACCR-QYEMGECTRSGFCNFMHLKPI----SRE  107 (130)
Q Consensus        34 ~~~~G~vfV~F~~~e~A~~A~~~l-nGr~f~GR~I~v~~~~~~~f~~a~c~-~~~~~~c~rg~~Cn~lh~~~~----~~~  107 (130)
                      ..++|.++|+|.+.++|.+|++.| ||..++| +|.+.++.........-. ......-.......-++|.++    +++
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~t~~   88 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKT   88 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSSCCCCSCSSSSTTSCEEEEESCCSCCSCH
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHH
Confidence            467999999999999999999999 9999999 999998754322111100 000111111223445577654    455


Q ss_pred             HHHHHHhh
Q psy17806        108 LRRYLYSR  115 (130)
Q Consensus       108 l~~~l~~~  115 (130)
                      -.+++|..
T Consensus        89 ~l~~~F~~   96 (150)
T 2i2y_A           89 ELERAFGY   96 (150)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            56677764

>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=96.82  E-value=0.0039  Score=43.40  Aligned_cols=36  Identities=19%  Similarity=0.110  Sum_probs=29.4

Q ss_pred             EEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCE
Q psy17806         25 EMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW   61 (130)
Q Consensus        25 ~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~   61 (130)
                      ++.|..+.. .++|++||+|.+.++|.+|++.+++..
T Consensus         2 ~~kl~ln~~-~~~G~~fV~f~~~~~A~~al~~~~~~~   37 (158)
T 2kn4_A            2 QYKLILNGK-TLKGETTTEAVDAATAEKVFKQYANDN   37 (158)
T ss_dssp             EEEEEEECS-SCEEEEEEECSSHHHHHHHHHHHHHHH
T ss_pred             cEEEEecCc-cccchhHHHHHHHHhHHHHHHhhcccC
Confidence            455666543 689999999999999999999998753

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=96.36  E-value=0.0036  Score=44.17  Aligned_cols=64  Identities=17%  Similarity=0.105  Sum_probs=48.1

Q ss_pred             HHHHHHHHhhccCCceEE-EEEeeCCC------------C--CceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEE-MNVCDNLG------------D--HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~-v~v~~~~~------------~--~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...-|..+| ++||.|.+ +.+.++..            +  .....+.|+|.+..+|.+|+. -||+.|+|-.|-|..+
T Consensus        19 ~~~~VI~~F-s~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG~ii~G~mIGV~Py   96 (132)
T 3p3d_A           19 MANQVIAYF-QEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENGAVFNGVLLGVIPY   96 (132)
T ss_dssp             GHHHHHHHH-GGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             HHHHHHHHH-HhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCCeEeCcEEEEEEEC
Confidence            445688999 79999977 32222100            0  124589999999999999997 8999999998888877


Q ss_pred             c
Q psy17806         73 P   73 (130)
Q Consensus        73 ~   73 (130)
                      .
T Consensus        97 ~   97 (132)
T 3p3d_A           97 T   97 (132)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.09  E-value=0.0078  Score=38.23  Aligned_cols=30  Identities=20%  Similarity=0.628  Sum_probs=23.5

Q ss_pred             ccchhhhhcccccCCCCCCCCcceeeecCC
Q psy17806         75 TDFREACCRQYEMGECTRSGFCNFMHLKPI  104 (130)
Q Consensus        75 ~~f~~a~c~~~~~~~c~rg~~Cn~lh~~~~  104 (130)
                      ...+..+|+-|..|.|.+|+.|.|+|...+
T Consensus         6 ~~~k~~~C~~fl~G~C~~G~~C~fsH~~~~   35 (77)
T 2d9n_A            6 SGEKTVVCKHWLRGLCKKGDQCEFLHEYDM   35 (77)
T ss_dssp             SCCTTSBCHHHHTTCCSCTTSSSSBCSCCT
T ss_pred             CCCcceeCHhHccCcCCCCCCCCCcccccc
Confidence            445667888888888888888888887654

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=95.07  E-value=0.0056  Score=38.59  Aligned_cols=32  Identities=19%  Similarity=0.594  Sum_probs=25.4

Q ss_pred             cCccchhhhhcccccCCCCCCCCcceeeecCC
Q psy17806         73 PVTDFREACCRQYEMGECTRSGFCNFMHLKPI  104 (130)
Q Consensus        73 ~~~~f~~a~c~~~~~~~c~rg~~Cn~lh~~~~  104 (130)
                      +.......+|+-|..|.|.+|+.|.|.|...+
T Consensus        10 ~~~~~k~~vCk~fl~G~C~~G~~C~fsH~~~~   41 (72)
T 2rhk_C           10 HMSGEKTVVCKHWLRGLCKKGDQCEFLHEYDM   41 (72)
T ss_dssp             SSSCCCCSBCHHHHTTCCCCGGGSSSBCSCCT
T ss_pred             cCCCCcCeeCHHHhcCCCCCCCCCCCcccccc
Confidence            34456677899999999999999999998654

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=94.80  E-value=0.0056  Score=38.26  Aligned_cols=25  Identities=36%  Similarity=0.838  Sum_probs=20.9

Q ss_pred             hhhhcccccCCCCCCC-CcceeeecC
Q psy17806         79 EACCRQYEMGECTRSG-FCNFMHLKP  103 (130)
Q Consensus        79 ~a~c~~~~~~~c~rg~-~Cn~lh~~~  103 (130)
                      .++|+.|..|.|.||+ .|.|.|...
T Consensus         6 ~~vC~~f~~G~C~rg~~~C~f~H~~~   31 (70)
T 3d2q_A            6 LEVCREYQRGNCNRGENDCRFAHPAD   31 (70)
T ss_dssp             EEBCHHHHTTCCSSCTTTCSSBCCCT
T ss_pred             chhCHHHhcCCCCCCCCCCCCccCcc
Confidence            4579999999999998 599999653

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=94.62  E-value=0.012  Score=38.23  Aligned_cols=26  Identities=31%  Similarity=0.802  Sum_probs=18.3

Q ss_pred             hhhhhcccccCCCCCCC-CcceeeecC
Q psy17806         78 REACCRQYEMGECTRSG-FCNFMHLKP  103 (130)
Q Consensus        78 ~~a~c~~~~~~~c~rg~-~Cn~lh~~~  103 (130)
                      +..+|+.|..|.|.||+ .|.|+|...
T Consensus         8 ~~~VCr~FlrG~C~r~d~~C~f~H~~~   34 (83)
T 3d2n_A            8 TLEVCREFQRGTCSRPDTECKFAHPSK   34 (83)
T ss_dssp             EEEBCTTGGGTCCCSCTTTCSSBCCCT
T ss_pred             cchhcHHHhcCCCCCCCCCCCCcCCCc
Confidence            44567777777777775 777777754

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=94.42  E-value=0.018  Score=35.94  Aligned_cols=31  Identities=26%  Similarity=0.643  Sum_probs=26.8

Q ss_pred             cCccchhhhhcccc-cCCCCCCCCcceeeecC
Q psy17806         73 PVTDFREACCRQYE-MGECTRSGFCNFMHLKP  103 (130)
Q Consensus        73 ~~~~f~~a~c~~~~-~~~c~rg~~Cn~lh~~~  103 (130)
                      +...|....|+.|. .|.|..|..|.|+|...
T Consensus         6 ~~~~~kt~~C~~f~~~G~C~~G~~C~f~H~~~   37 (77)
T 1m9o_A            6 TSSRYKTELCRTYSESGRCRYGAKCQFAHGLG   37 (77)
T ss_dssp             CSSCCCSCCCSGGGGTSCCTTTTTCSSCSSSC
T ss_pred             CCCCccchhCHHhhhCCCcCCCCCccCCCCCh
Confidence            55678889999995 88999999999999865

>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.38  E-value=0.0097  Score=37.50  Aligned_cols=33  Identities=33%  Similarity=0.732  Sum_probs=26.3

Q ss_pred             cCccchhhhhcccccCCCCCCCCcceeeecCCCHHHHH
Q psy17806         73 PVTDFREACCRQYEMGECTRSGFCNFMHLKPISRELRR  110 (130)
Q Consensus        73 ~~~~f~~a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~  110 (130)
                      |..+|  ..|..|..|.|+.|+.|.|.|=.   ++|..
T Consensus        16 P~~k~--~LC~~~~~G~C~~G~~C~FAHG~---~ELr~   48 (69)
T 2d9m_A           16 PTGYF--SICDRYMNGTCPEGNSCKFAHGN---AELHE   48 (69)
T ss_dssp             CCSCC--SBCHHHHHSCCSSCSSCSSBSSH---HHHHH
T ss_pred             CCCCc--ccCcccCcCCCCCCCccCCcCCH---HHHhh
Confidence            44456  78999999999999999999964   45554

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=93.49  E-value=0.017  Score=37.97  Aligned_cols=27  Identities=37%  Similarity=0.776  Sum_probs=20.4

Q ss_pred             hhhhhcccccCCCCCCC-CcceeeecCC
Q psy17806         78 REACCRQYEMGECTRSG-FCNFMHLKPI  104 (130)
Q Consensus        78 ~~a~c~~~~~~~c~rg~-~Cn~lh~~~~  104 (130)
                      +..+|+.|..|.|.||+ .|.|+|....
T Consensus        16 ~~~VCrdFlrG~C~r~d~~CrfsH~~~~   43 (89)
T 2rpp_A           16 TLEVCRQFQRGTCSRSDEECKFAHPPKS   43 (89)
T ss_dssp             EECBCHHHHHTCCCCCTTTSSSBCCCSS
T ss_pred             hhhhchHHhcCCCCCCCCCCCCcCCCcc
Confidence            35578888888888887 8888887553

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=93.45  E-value=0.019  Score=35.73  Aligned_cols=27  Identities=30%  Similarity=0.725  Sum_probs=23.4

Q ss_pred             ccchhhhhcccccCCCCCCCCcceeeec
Q psy17806         75 TDFREACCRQYEMGECTRSGFCNFMHLK  102 (130)
Q Consensus        75 ~~f~~a~c~~~~~~~c~rg~~Cn~lh~~  102 (130)
                      ...+..+|..|..|.|.+| .|.|+|..
T Consensus        38 ~~~~~~vC~~flkG~C~r~-~C~y~H~~   64 (70)
T 3d2q_A           38 NDNTVTVCMDYIKGRCSRE-KCKYFHPP   64 (70)
T ss_dssp             TTTEEEBCHHHHTTCCCCT-TCCSBCCC
T ss_pred             cCCcceeccccCcCCCCCC-CcCeeCCH
Confidence            4566789999999999998 99999974

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=93.00  E-value=0.044  Score=36.47  Aligned_cols=38  Identities=24%  Similarity=0.561  Sum_probs=28.1

Q ss_pred             ccchhhhhcccccCCCCCCCCcceeeecCCCHHHHHHHHhhc
Q psy17806         75 TDFREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLYSRR  116 (130)
Q Consensus        75 ~~f~~a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l~~~~  116 (130)
                      ...+..+|..|..|.|.+| .|.|+|+   +.+|...+-..|
T Consensus        52 ~~~~~~vC~~flkG~C~r~-~C~y~H~---~~~l~~~~~~~~   89 (98)
T 2e5s_A           52 SDNTVTVCMDYIKGRCMRE-KCKYFHP---PAHLQAKIKAAQ   89 (98)
T ss_dssp             TTCEEEBCHHHHHTCCCCT-TCCSBCC---CHHHHHHHHHHH
T ss_pred             cCCccccchhhccCCCCCC-CcCccCC---hHHHHHHHHHHH
Confidence            3467778999999999997 8999996   446666554433

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=92.85  E-value=0.037  Score=36.77  Aligned_cols=24  Identities=29%  Similarity=0.605  Sum_probs=17.1

Q ss_pred             hhhcccc-cCCCCCCCCcceeeecC
Q psy17806         80 ACCRQYE-MGECTRSGFCNFMHLKP  103 (130)
Q Consensus        80 a~c~~~~-~~~c~rg~~Cn~lh~~~  103 (130)
                      ..|.-|. .|.|..|..|.|+|...
T Consensus        37 ~~C~~f~~~G~C~~G~~C~f~H~~~   61 (98)
T 2cqe_A           37 FPCKLYHTTGNCINGDDCMFSHDPL   61 (98)
T ss_dssp             SBCSHHHHTSCCSSCTTCSSBCCCC
T ss_pred             CcCcCcccCCcCCCCCCCcccCCCC
Confidence            4566673 67888888888888743

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.64  E-value=0.0089  Score=39.91  Aligned_cols=27  Identities=30%  Similarity=0.756  Sum_probs=23.4

Q ss_pred             hhhhhcccccCCCCCCC-CcceeeecCC
Q psy17806         78 REACCRQYEMGECTRSG-FCNFMHLKPI  104 (130)
Q Consensus        78 ~~a~c~~~~~~~c~rg~-~Cn~lh~~~~  104 (130)
                      +..+|+.|..|.|.||+ .|.|.|....
T Consensus        19 k~~VCr~FlrG~C~rgd~~C~FsH~~~~   46 (98)
T 2e5s_A           19 KLEVCREFQRGNCARGETDCRFAHPADS   46 (98)
T ss_dssp             EEEBCSHHHHTCCSSHHHHCSSBCCSSC
T ss_pred             hhhhhHHHhcCcCCCCCCCCCCcCCchh
Confidence            45689999999999998 7999999754

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=92.36  E-value=1.5  Score=28.57  Aligned_cols=65  Identities=20%  Similarity=0.285  Sum_probs=46.4

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCC---CCCceeEEEEEecCHHHHHHHHHHhCCCEe-CC----eeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNL---GDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GG----RPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~---~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~G----R~I~v~~~~~   74 (130)
                      +++..+.+ +.+.++.-...+...   ..+.-..+||.|.+.+++..-.+.++|..| |.    -+-.|+|+|-
T Consensus        15 eeeF~~~l-~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~kg~~~~a~VE~AP~   87 (91)
T 1uw4_A           15 KEQLQEHL-QPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAIVEFAPF   87 (91)
T ss_dssp             HHHHHHHH-CSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECEEEECSS
T ss_pred             HHHHHHHh-cCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcCCCCEeeeEEEEcCC
Confidence            35566666 677777666655432   235568999999999999999999999988 22    2445677653

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=89.75  E-value=0.2  Score=33.11  Aligned_cols=26  Identities=31%  Similarity=0.682  Sum_probs=23.4

Q ss_pred             chhhhhcccccCCCCCCCCcceeeec
Q psy17806         77 FREACCRQYEMGECTRSGFCNFMHLK  102 (130)
Q Consensus        77 f~~a~c~~~~~~~c~rg~~Cn~lh~~  102 (130)
                      +....|+-|..|.|.+|+.|.|+|..
T Consensus        11 ~k~~lC~~f~~G~C~~G~~C~f~H~~   36 (98)
T 2cqe_A           11 KKRELCKFYITGFCARAENCPYMHGD   36 (98)
T ss_dssp             CCCSBCTTTTTTCCSCSTTCSSBSSS
T ss_pred             CCCccCcccccCcCCCCCCCCCCCCC
Confidence            56778999999999999999999983

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=89.49  E-value=0.13  Score=33.16  Aligned_cols=32  Identities=28%  Similarity=0.571  Sum_probs=25.2

Q ss_pred             chhhhhcccccCCCCCCCCcceeeecCCCHHHHHHH
Q psy17806         77 FREACCRQYEMGECTRSGFCNFMHLKPISRELRRYL  112 (130)
Q Consensus        77 f~~a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l  112 (130)
                      -...+|..|..|.|.|+ .|.|+|+   +.+|...+
T Consensus        41 ~~~~vC~dflkG~C~r~-~C~y~H~---~~~l~~~~   72 (83)
T 3d2n_A           41 GRVIACFDSLKGRCSRE-NCKYLHP---PPHLKTQL   72 (83)
T ss_dssp             TEEECCHHHHTTCCCCS-SCSSCCC---CHHHHHHH
T ss_pred             CceeehhHhhhccccCC-CcceeCC---hHHHHHHH
Confidence            45678999999999997 8999997   44555544

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=89.19  E-value=0.81  Score=30.57  Aligned_cols=41  Identities=20%  Similarity=0.371  Sum_probs=33.6

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhC
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLN   58 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~ln   58 (130)
                      .||.+.| +.||.|.=-+|-+       --+||.|.+++.|..|++.++
T Consensus        30 ~DI~~lF-s~fggv~I~WidD-------TsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           30 SDLYQLF-SAFGNIQISWIDD-------TSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             HHHHHHH-TTTCSCCCEEEET-------TEEEEECSCHHHHHHHHHHHH
T ss_pred             HHHHHHh-hccCCEEEEEEcC-------CeEEEEecCHHHHHHHHHhcc
Confidence            6899999 7999765555543       479999999999999999874

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=88.27  E-value=0.69  Score=30.99  Aligned_cols=41  Identities=20%  Similarity=0.367  Sum_probs=32.8

Q ss_pred             HHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhC
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLN   58 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~ln   58 (130)
                      .||...| +.||.|.=-+|-+       .-+||.|.+++.|..|++.++
T Consensus        20 ~Di~~lF-s~fggv~I~WidD-------TsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A           20 SDLYQLF-SAFGNIQISWIDD-------TSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             HHHHHHT-TTSEEEEEEEEET-------TEEEEEEEEECHHHHHHHHHT
T ss_pred             HHHHHHH-hccCCEEEEEEcC-------CeEEEEecCHHHHHHHHHhcc
Confidence            6899999 7999554444432       479999999999999999875

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=87.89  E-value=0.086  Score=32.98  Aligned_cols=47  Identities=28%  Similarity=0.448  Sum_probs=31.8

Q ss_pred             HhCCCEeCCeeEEEEec-cCccchhhhhccccc-CCCCCCCCcceeeecCCC
Q psy17806         56 DLNNRWFGGRPVYAELS-PVTDFREACCRQYEM-GECTRSGFCNFMHLKPIS  105 (130)
Q Consensus        56 ~lnGr~f~GR~I~v~~~-~~~~f~~a~c~~~~~-~~c~rg~~Cn~lh~~~~~  105 (130)
                      -|.|.--.|-.  +.|+ +.+.-+...|.-|.. |.|.+ +.|.|+|+.+.+
T Consensus        22 fl~G~C~~G~~--C~fsH~~~~~~~~~C~~f~~~G~C~~-~~C~y~H~~p~~   70 (72)
T 2rhk_C           22 WLRGLCKKGDQ--CEFLHEYDMTKMSECYFYSKFGECSN-KECPFLHIDPES   70 (72)
T ss_dssp             HHTTCCCCGGG--SSSBCSCCTTSCCBCHHHHHHSCCSB-TTCCSBCCCCC-
T ss_pred             HhcCCCCCCCC--CCCccccccccCCcccccCCCCCCCC-CCeeccCCCccc
Confidence            34444444433  5555 323345668999999 99999 999999998754

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=87.82  E-value=0.1  Score=32.43  Aligned_cols=27  Identities=22%  Similarity=0.797  Sum_probs=0.0

Q ss_pred             cchhhhhcccc-cCCCCCCCCcceeeec
Q psy17806         76 DFREACCRQYE-MGECTRSGFCNFMHLK  102 (130)
Q Consensus        76 ~f~~a~c~~~~-~~~c~rg~~Cn~lh~~  102 (130)
                      .+....|..|. .|.|+.|..|.|+|..
T Consensus        47 ~~k~~~C~~f~~~G~C~~G~~C~f~H~~   74 (77)
T 1m9o_A           47 KYKTELCHKFKLQGRCPYGSRCHFIHNP   74 (77)
T ss_dssp             ----------------------------
T ss_pred             cccCCcccchhhCcCCCCcCcCCCCCCC
Confidence            35567898776 7799999999999975

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=87.04  E-value=0.14  Score=39.13  Aligned_cols=29  Identities=21%  Similarity=0.572  Sum_probs=25.8

Q ss_pred             hhcccccCCCCCCCCcceeeecCCCHHHH
Q psy17806         81 CCRQYEMGECTRSGFCNFMHLKPISRELR  109 (130)
Q Consensus        81 ~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~  109 (130)
                      +|--|-.|.|.+|..|.|+|-++.+.++.
T Consensus        72 ~C~ffakG~C~~G~~C~y~H~lPt~~d~~  100 (240)
T 3u1l_A           72 FCLFFAKGMCCLGPKCEYLHHIPDEEDIG  100 (240)
T ss_dssp             BCHHHHTTCCSCGGGCSSBBSCCCHHHHH
T ss_pred             EcCccccCCCCCCCCCCccCCCCCccchh
Confidence            78888899999999999999988877775

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=86.50  E-value=0.24  Score=32.36  Aligned_cols=33  Identities=27%  Similarity=0.534  Sum_probs=26.2

Q ss_pred             chhhhhcccccCCCCCCCCcceeeecCCCHHHHHHHH
Q psy17806         77 FREACCRQYEMGECTRSGFCNFMHLKPISRELRRYLY  113 (130)
Q Consensus        77 f~~a~c~~~~~~~c~rg~~Cn~lh~~~~~~~l~~~l~  113 (130)
                      -+...|..|..|.|.|+ .|.|+|+   +.+|...|.
T Consensus        49 ~~~~vC~dflkG~C~r~-~Cky~H~---~~hl~~~~~   81 (89)
T 2rpp_A           49 GRVIACFDSLKGRCSRE-NCKYLHP---PTHLKTQLE   81 (89)
T ss_dssp             TBEEBCHHHHHTCCCCT-TCCSBCC---CHHHHHHHH
T ss_pred             CceeeehhhhhCcCCCC-CcceecC---HHHHHHHHH
Confidence            35778999999999996 8999997   456666543

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=84.53  E-value=0.22  Score=31.34  Aligned_cols=26  Identities=35%  Similarity=0.838  Sum_probs=22.3

Q ss_pred             hhhhhccccc-CCCCCCCCcceeeecCC
Q psy17806         78 REACCRQYEM-GECTRSGFCNFMHLKPI  104 (130)
Q Consensus        78 ~~a~c~~~~~-~~c~rg~~Cn~lh~~~~  104 (130)
                      +..+|.-|.. |.|. |+.|.|+|+...
T Consensus        37 ~~~~C~~f~~~G~C~-~~~C~f~H~~~~   63 (77)
T 2d9n_A           37 KMPECYFYSKFGECS-NKECPFLHIDPE   63 (77)
T ss_dssp             TSCBCHHHHHTCCCC-CSSCSSBCCCTT
T ss_pred             cCCCCcccCCCCccC-CCCeeccCCCcc
Confidence            4567999998 9999 899999999764

>3h7h_B Transcription elongation factor SPT5; helices surrounding beta sheet, activator, ME binding, nucleus, repressor, transcription regulation; 1.55A {Homo sapiens}

Probab=81.59  E-value=1.2  Score=29.75  Aligned_cols=36  Identities=17%  Similarity=0.416  Sum_probs=29.3

Q ss_pred             ceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCE
Q psy17806         22 EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRW   61 (130)
Q Consensus        22 ~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~   61 (130)
                      .|.++.++.    +++|++||+=.+..+...|++.+.+-+
T Consensus        40 ~I~Si~~~~----~lkGyIyVEA~~~~~V~~ai~gi~~v~   75 (106)
T 3h7h_B           40 QIKSVVAPE----HVKGYIYVEAYKQTHVKQAIEGVGNLR   75 (106)
T ss_dssp             CCCEEEECT----TCCSEEEEEESSHHHHHHHHTTCGGGG
T ss_pred             ceEEEEecC----CCceEEEEEeCCHHHHHHHHhccccee
Confidence            488888775    479999999999999999988776543

---

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	130
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:) 2e-18
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-14
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	3e-11
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	4e-07
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-06
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	7e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	3e-05
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-05
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	2e-04
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	3e-04
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	4e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	5e-04
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	6e-04
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	7e-04
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	8e-04
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	8e-04
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	0.001
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.001
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	0.001
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.001
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	0.001
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	0.002
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	0.002
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.002
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	0.002
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	0.002
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	0.002
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	0.003
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	0.004

>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 = 72.4 bits (177), Expect = 2e-18
 Identities = 61/73 (83%), Positives = 68/73 (93%)

Query: 1   MQEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           MQEHYD FFE+VF E E+KYGE+EEMNVCDNLGDHLVGNVY+KFRREEDAEKAV DLNNR
Sbjct: 32  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 91

Query: 61  WFGGRPVYAELSP 73
           WF G+P++AELSP
Sbjct: 92  WFNGQPIHAELSP 104

>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 = 62.7 bits (152), Expect = 1e-14
 Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 2/79 (2%)

Query: 3   EHYDNFFEDVFVECEDKYG--EIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR 60
           E Y+   EDV  EC        IE     D +     G ++++F    D +KA+  L  R
Sbjct: 22  EEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR 81

Query: 61  WFGGRPVYAELSPVTDFRE 79
            F  R V  +      +  
Sbjct: 82  KFANRVVVTKYCDPDSYHR 100

>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 = 53.8 bits (129), Expect = 3e-11
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 1/74 (1%)

Query: 6  DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGR 65
               ++  +   +  +  ++        H  G   + FR  E+A+  +  L+ RWFGGR
Sbjct: 26 PLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGR 85

Query: 66 PVYAELS-PVTDFR 78
           + A+     TD++
Sbjct: 86 QITAQAWDGTTDYQ 99

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.6 bits (100), Expect = 4e-07
 Identities = 14/55 (25%), Positives = 26/55 (47%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
          ++G +++  V  +     +G   + F R+ DA KA+   N     GRP+  +L  
Sbjct: 23 EFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT 77

>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 = 39.9 bits (93), Expect = 4e-06
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHL-VGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          E +  E     G I  + VC ++     +G  Y+ F++  DAE+A++ +N     G+PV 
Sbjct: 14 EAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVR 73

Query: 69 AELS 72
             S
Sbjct: 74 IMWS 77

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (93), Expect = 7e-06
 Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 7/54 (12%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          KYG+I   +V         G  ++++  E +A  AV   + R   G+ +   L+
Sbjct: 39 KYGKIVGCSVHK-------GFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLA 85

>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 = 38.5 bits (89), Expect = 3e-05
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 2/63 (3%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
           +   +   KYG I ++ V +       G  Y+ +    DA+ A + L+      R +  
Sbjct: 21 AEEMYDIFGKYGPIRQIRVGNT--PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVV 78

Query: 70 ELS 72
             
Sbjct: 79 LYY 81

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 3e-05
 Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 10 EDVFVECEDKYGEIEEM-NVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          + V       +G+I ++    D   +   G  +++F   EDA  A++++N     GR + 
Sbjct: 19 DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIR 78

Query: 69 AELS 72
            L+
Sbjct: 79 VNLA 82

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (82), Expect = 2e-04
 Identities = 13/63 (20%), Positives = 26/63 (41%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          E +     +    +    V D       G  + +++ +E A  A+ +LN R F GR +  
Sbjct: 23 EQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRV 82

Query: 70 ELS 72
          + +
Sbjct: 83 DNA 85

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 35.4 bits (81), Expect = 3e-04
 Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 1/55 (1%)

Query: 19 KYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
            G I     + D    +  G  ++ F  E D+++A+  LN      + +    +
Sbjct: 25 AIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYA 79

>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 = 34.7 bits (79), Expect = 4e-04
 Identities = 11/59 (18%), Positives = 19/59 (32%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
           D+           +   V D       G  ++ F   +DA++A    N     GR + 
Sbjct: 24 RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIR 82

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.6 bits (79), Expect = 5e-04
 Identities = 7/33 (21%), Positives = 14/33 (42%)

Query: 41 YIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
          +I+      AE A  +L+N    G+ +    + 
Sbjct: 48 FIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC 80

>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 = 34.6 bits (79), Expect = 6e-04
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNV----YIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          K G I+   +        V       ++++++ E A+KA+  L      G  +   +S
Sbjct: 21 KVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS 78

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.5 bits (79), Expect = 7e-04
 Identities = 14/76 (18%), Positives = 28/76 (36%), Gaps = 4/76 (5%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          E ++          + +   D +     G  ++++    DAE A+  +N      R +  
Sbjct: 22 EQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRT 81

Query: 70 ELSPVTDFREACCRQY 85
          +      F+E   RQY
Sbjct: 82 DWDA--GFKEG--RQY 93

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 34.2 bits (78), Expect = 8e-04
 Identities = 12/47 (25%), Positives = 18/47 (38%)

Query: 26 MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
               +      G  YI+F+ E DAEK + +       GR V    +
Sbjct: 42 EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT 88

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

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]

 Score = 34.3 bits (78), Expect = 8e-04
 Identities = 7/63 (11%), Positives = 20/63 (31%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          +D+          +      D   +      ++ +     A+ A+  +N    G + +  
Sbjct: 33 QDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKV 92

Query: 70 ELS 72
          +L 
Sbjct: 93 QLK 95

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 0.001
 Identities = 10/63 (15%), Positives = 23/63 (36%), Gaps = 1/63 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          E + ++   + G  +   +            +++F    DA  A+  +N R   G+ V  
Sbjct: 22 EVLILQLFSQIGPCKSCKMITE-HTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKV 80

Query: 70 ELS 72
            +
Sbjct: 81 NWA 83

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (76), Expect = 0.001
 Identities = 10/58 (17%), Positives = 20/58 (34%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPV 67
          +D+   C+     +    + D   +   G  ++ F     A+KAV  L       +  
Sbjct: 13 QDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMA 70

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (76), Expect = 0.001
 Identities = 9/60 (15%), Positives = 25/60 (41%)

Query: 14 VECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP 73
            C++ +  +++ ++     D      ++     E A+ A+   +   F G+ +  +L P
Sbjct: 17 SNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP 76

>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 = 33.5 bits (76), Expect = 0.001
 Identities = 8/63 (12%), Positives = 20/63 (31%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          + V               V D+      G  + ++      ++A+  LN    G + +  
Sbjct: 16 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 75

Query: 70 ELS 72
          + +
Sbjct: 76 QRA 78

>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 = 33.5 bits (76), Expect = 0.001
 Identities = 14/62 (22%), Positives = 23/62 (37%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          +++             + +  N      G   + F   ++A  AV DLN+R  G R V  
Sbjct: 24 DEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL 83

Query: 70 EL 71
           L
Sbjct: 84 VL 85

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 33.2 bits (75), Expect = 0.002
 Identities = 8/63 (12%), Positives = 19/63 (30%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          +++  +  D           D       G   +++   + A  A   LN     G+ +  
Sbjct: 22 DEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 81

Query: 70 ELS 72
          +  
Sbjct: 82 DWC 84

>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 = 33.1 bits (75), Expect = 0.002
 Identities = 6/35 (17%), Positives = 15/35 (42%)

Query: 38 GNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
          G  ++ F+    A  A+  +    F  +P+  + +
Sbjct: 47 GQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA 81

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.1 bits (75), Expect = 0.002
 Identities = 9/34 (26%), Positives = 17/34 (50%)

Query: 39 NVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS 72
            ++ F   E A KA  +++ + F GR ++   S
Sbjct: 52 FAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS 85

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.8 bits (74), Expect = 0.002
 Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 1/64 (1%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGD-HLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY 68
          ++ F       GEIE   +  +      +G  ++ +   +DAEKA+N LN      + + 
Sbjct: 16 QEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIK 75

Query: 69 AELS 72
             +
Sbjct: 76 VSYA 79

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 33.7 bits (76), Expect = 0.002
 Identities = 12/63 (19%), Positives = 22/63 (34%)

Query: 10  EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
             +    E          VCD       G  ++KF+    A++A+  LN      + +  
Sbjct: 57  VQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKV 116

Query: 70  ELS 72
            L+
Sbjct: 117 ALA 119

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.2 bits (75), Expect = 0.002
 Identities = 7/63 (11%), Positives = 19/63 (30%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
          E         +G++    +  +      G  + +    E  E  +   N ++    P  +
Sbjct: 32 EQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVS 91

Query: 70 ELS 72
            +
Sbjct: 92 APT 94

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (74), Expect = 0.003
 Identities = 11/63 (17%), Positives = 20/63 (31%)

Query: 10 EDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA 69
           D+                 D       G  +I F R EDA +A+  ++   +    +  
Sbjct: 23 TDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNV 82

Query: 70 ELS 72
          E +
Sbjct: 83 EWA 85

>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 = 32.2 bits (73), Expect = 0.004
 Identities = 13/48 (27%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 19 KYGEIEEMNVCDNLGDHLVGNV-YIKFRREEDAEKAVNDLNNRWFGGR 65
          KYG I + N+  +        V ++++ + E+A++A++ LNN    G 
Sbjct: 29 KYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGG 76

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	130
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	99.84
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.84
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.8
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.64
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.61
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.6
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.59
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.59
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.58
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.57
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.55
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.54
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.54
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.54
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.54
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.54
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.54
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.53
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.52
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.52
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.52
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.51
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.51
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.5
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.49
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.49
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.49
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.48
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.48
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.48
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.48
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.48
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.48
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.47
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.46
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.45
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.45
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.45
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.45
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.45
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.44
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.44
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.44
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.44
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.43
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.43
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.43
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.42
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.41
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.41
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.41
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.39
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.38
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.38
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.38
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.37
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.36
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.35
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.34
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.34
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.34
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.33
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.32
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.32
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.32
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.31
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.31
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.3
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.3
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.3
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.3
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.29
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.29
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.27
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.26
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.25
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.24
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.21
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.21
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.18
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.14
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.13
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.1
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.09
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.0
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.8
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.61
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.98
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.57
d1m9oa_	40	Tristetraproline (ttp, tis11, nup475) {Mouse (Mus	96.75
d2cqea2	29	Zinc finger CCCH domain-containing protein C19orf7	96.47
d1rgoa1	36	Butyrate response factor 2 (Tis11D) {Human (Homo s	96.47
d1rgoa2	34	Butyrate response factor 2 (Tis11D) {Human (Homo s	96.0
d2cqea1	56	Zinc finger CCCH domain-containing protein C19orf7	92.58
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	90.21

>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=99.84  E-value=2.3e-21  Score=131.10  Aligned_cols=72  Identities=83%  Similarity=1.407  Sum_probs=66.9

Q ss_pred             hhhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          2 QEHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         2 q~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ++.|+++.||+..+++++||+|++|.|+++.+++++|++||+|.+.++|.+|+..|||++|+||+|.|+|+|
T Consensus        33 ~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~sP  104 (104)
T d1jmta_          33 QEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             hhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEECC
Confidence            567888988877777679999999999998889999999999999999999999999999999999999987

>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=99.84  E-value=2.8e-21  Score=130.34  Aligned_cols=77  Identities=26%  Similarity=0.490  Sum_probs=70.2

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCC---CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLG---DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~---~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      ++|+++.+||+++| ++||.|++|.|+++..   .+..|+|||+|.+.++|.+|++.|||++|+||+|.|.|+++++|..
T Consensus        22 ~~~~~i~edi~~e~-~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~~y~~  100 (104)
T d1o0pa_          22 EEYEEIVEDVRDEC-SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHR  100 (104)
T ss_dssp             HHHHHHHHHHHHHH-TTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHHHHHH
T ss_pred             hhHHHHHHHHHHHh-cccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEEcCHHHhhh
Confidence            57999999999999 7999999999997542   4567999999999999999999999999999999999999988865


Q ss_pred             h
Q psy17806         80 A   80 (130)
Q Consensus        80 a   80 (130)
                      .
T Consensus       101 ~  101 (104)
T d1o0pa_         101 R  101 (104)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.80  E-value=6.1e-20  Score=122.83  Aligned_cols=72  Identities=35%  Similarity=0.668  Sum_probs=65.6

Q ss_pred             hhhHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec-cCccch
Q psy17806          3 EHYDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS-PVTDFR   78 (130)
Q Consensus         3 ~~~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~-~~~~f~   78 (130)
                      +.|.+|.+||+++| ++||.|.+|.++.+   +++|+|||+|.++++|.+|++.|||++|+||+|+|+|+ +.++|+
T Consensus        27 ~~~~~i~edv~~~~-~~~G~V~~v~~~~~---~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v~~~~g~~~~~   99 (99)
T d2dita1          27 LVLNEIREDLRVEC-SKFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ   99 (99)
T ss_dssp             HHHHHHHHHHHHHG-GGTSCCSEEEEETT---CTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCCCSS
T ss_pred             HHHHHHHHHHHHHh-cCcccEEEEeccCC---CCccEEEEEECCHHHHHHHHHHhCCcEECCEEEEEEEeCCcCCCC
Confidence            34789999999999 79999999999875   46799999999999999999999999999999999998 777773

>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=99.64  E-value=3.4e-16  Score=99.68  Aligned_cols=67  Identities=22%  Similarity=0.320  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|.++.|+.+.+++++|++||+|.+.++|.+|++.|||..++||+|.|++++
T Consensus        11 ~~~~~~l~~~F-~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_          11 GVSDADIQELF-AEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             TCCHHHHHHHH-HHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCHHHHHHHH-HHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            34568999999 79999999999988888899999999999999999999999999999999999874

>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=99.61  E-value=1.4e-15  Score=97.07  Aligned_cols=67  Identities=24%  Similarity=0.411  Sum_probs=60.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||+|.+|+|+.+. ++.++|++||+|.++++|..|++.|||.+++||+|.|.|+..
T Consensus        12 ~te~~l~~~F-~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~~   79 (80)
T d1cvja1          12 VTEAMLYEKF-SPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   79 (80)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCC
T ss_pred             CCHHHHHHHH-HHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            3468999999 799999999999865 578899999999999999999999999999999999999843

>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=99.60  E-value=4.5e-15  Score=94.53  Aligned_cols=66  Identities=21%  Similarity=0.288  Sum_probs=60.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.|+.+. .+..+|++||+|.+.++|.+|++.|||..++|++|.|+++.+
T Consensus        15 te~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1          15 TQEEFRSLF-GSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CHHHHHHHH-HHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            358899999 799999999999754 568899999999999999999999999999999999999843

>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=99.59  E-value=1.8e-15  Score=96.51  Aligned_cols=65  Identities=14%  Similarity=0.238  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        15 t~~~l~~~F-~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1          15 TDRELYALF-RAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CHHHHHHHH-HTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CHHHHHHHH-HHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            458899999 799999999999754 57889999999999999999999999999999999999984

>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=99.59  E-value=4.7e-15  Score=96.23  Aligned_cols=64  Identities=16%  Similarity=0.234  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++||+|.|+|+
T Consensus        20 t~~~l~~~F-~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_          20 QEDEIQEKF-CDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CHHHHHHHH-HHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            458999999 799999999999864 5789999999999999999999999999999999999997

>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=99.58  E-value=4.4e-15  Score=96.64  Aligned_cols=65  Identities=18%  Similarity=0.259  Sum_probs=59.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|+|+.
T Consensus        21 t~~~l~~~f-~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1          21 RETDLQELF-RPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             CHHHHHTTS-TTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CHHHHHHHH-HHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            357899999 799999999999864 57899999999999999999999999999999999999983

>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=99.57  E-value=8.3e-15  Score=96.03  Aligned_cols=67  Identities=16%  Similarity=0.264  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.++|++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|..|++.|||..++||+|.|+|++.
T Consensus        19 ~te~~l~~~F-~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~~   86 (93)
T d1h2vz_          19 TTEEQIYELF-SKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG   86 (93)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             CCHHHHHHHH-HHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            3468999999 799999999999865 577899999999999999999999999999999999999853

>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=99.55  E-value=6.1e-15  Score=95.78  Aligned_cols=66  Identities=18%  Similarity=0.311  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|+..|||..++|++|.|.++..
T Consensus        18 te~~l~~~F-~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p   84 (89)
T d2cqba1          18 DDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   84 (89)
T ss_dssp             CHHHHHHHH-TTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CHHHHHHHH-hhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            367999999 799999999999765 478899999999999999999999999999999999999843

>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=99.54  E-value=1.3e-14  Score=93.18  Aligned_cols=66  Identities=18%  Similarity=0.262  Sum_probs=58.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .-.+||++.| ++||.|.++.|+.+..    ..++|++||+|.+.++|.+|++.|||..++||+|.|.++.
T Consensus        10 ~t~~~l~~~F-~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1          10 TTEETLKGVF-SKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CCHHHHHHHH-HHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            3468999999 7999999999997532    2468999999999999999999999999999999999974

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=7.7e-15  Score=94.72  Aligned_cols=65  Identities=14%  Similarity=0.253  Sum_probs=60.2

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .+||++.| ++||+|.++.|+.+. ++.++|++||+|.++++|..|++.|||..++|++|.|.++..
T Consensus        15 e~~l~~~F-~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~   80 (85)
T d2u2fa_          15 DDQVKELL-TSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV   80 (85)
T ss_dssp             SHHHHHHH-TSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCC
T ss_pred             HHHHHHHH-HhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            47999999 799999999999865 478899999999999999999999999999999999999854

>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=99.54  E-value=1.1e-14  Score=98.03  Aligned_cols=66  Identities=20%  Similarity=0.251  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...++|++.| ++||.|++|.+..+  +..+|++||+|.+.++|..|++.|||..|+||+|.|.++..
T Consensus        18 ~~te~~l~~~F-~~~G~v~~i~~~~~--~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1          18 KITAEEMYDIF-GKYGPIRQIRVGNT--PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEEEECS--TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCCHHHHHHHH-hhcCCeEeeccccc--CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            44568999999 79999999999875  45689999999999999999999999999999999999843

>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=99.54  E-value=1.8e-14  Score=92.20  Aligned_cols=62  Identities=21%  Similarity=0.312  Sum_probs=56.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEE
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYA   69 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v   69 (130)
                      .-.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++||+|.|
T Consensus        21 ~te~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          21 TTERDLREVF-SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCHHHHHHHH-HHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            3468999999 799999999999865 4788999999999999999999999999999999986

>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=99.54  E-value=1e-14  Score=95.83  Aligned_cols=68  Identities=19%  Similarity=0.292  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHh-CCCEeCCeeEEEEeccCc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDL-NNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~l-nGr~f~GR~I~v~~~~~~   75 (130)
                      .-.+||++.| ++||.|.+|.|+.+.  ++..+|++||+|.+.++|.+|++.| ||..++||+|.|+|+...
T Consensus        20 ~~e~~l~~~F-~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A~~~   90 (94)
T d2cpha1          20 ANQREIRELF-STFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSE   90 (94)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECCCC
T ss_pred             CCHHHHHHHH-HHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEcCCC
Confidence            3468899999 799999999998753  4778999999999999999999998 899999999999999553

>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=99.54  E-value=1.7e-14  Score=93.01  Aligned_cols=64  Identities=20%  Similarity=0.316  Sum_probs=57.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~   72 (130)
                      -.+||++.| ++||+|.++.|+.+. ++..+|++||+|.+.++|.+|++.|||..++|  ++|.|.|+
T Consensus        19 te~~L~~~F-~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2          19 TQKELEQLF-SQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CHHHHHHHH-HHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            468999999 799999999999864 57899999999999999999999999999998  56999875

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.2e-14  Score=95.33  Aligned_cols=66  Identities=15%  Similarity=0.181  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        22 t~~~l~~~F-~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1          22 SEPLLWELF-LQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             CHHHHHHHH-HTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CHHHHHHHH-HHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            458999999 799999999999764 578999999999999999999999999999999999999844

>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=99.52  E-value=2.6e-14  Score=91.86  Aligned_cols=65  Identities=23%  Similarity=0.384  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~   72 (130)
                      .-.++|++.| ++||+|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..+.|  ++|.|.|+
T Consensus        18 ~te~~l~~~F-~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2          18 ITDDQLDTIF-GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             CCHHHHHHHH-TSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCHHHHHHHH-HhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            3468899999 799999999999864 57899999999999999999999999999977  99999875

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.52  E-value=1.9e-14  Score=94.98  Aligned_cols=68  Identities=22%  Similarity=0.251  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.-.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++.|||..|+||+|+|.++..
T Consensus        19 ~~t~~~l~~~F-~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~   87 (99)
T d1whwa_          19 TSSEEDLEKLF-SAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTI   87 (99)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCC
T ss_pred             cCCHHHHHHHH-HhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            34468999999 799999999999764 578899999999999999999999999999999999999854

>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=99.52  E-value=2.9e-14  Score=94.87  Aligned_cols=67  Identities=12%  Similarity=0.112  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.++.+..+. ++.++|++||+|.+.++|..|++.|||..++|++|.|+++..
T Consensus        30 ~te~~l~~~F-~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~   97 (102)
T d2cpza1          30 FGDQDLLQMF-MPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS   97 (102)
T ss_dssp             CCHHHHHHHH-GGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCHHHHHHHH-HhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            3468999999 799999999999764 578899999999999999999999999999999999999843

>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=99.51  E-value=1.5e-14  Score=92.04  Aligned_cols=65  Identities=15%  Similarity=0.052  Sum_probs=54.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.+||++.| ++||.|..+.+..+ ..+.++|++||+|.+.++|.+|++.|||..++|++|.|.++.
T Consensus        14 t~~~l~~~f-~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1          14 TQRNIRDLL-QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             CHHHHHHHH-HHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CHHHHHHHH-HHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            458999999 79999988877643 457789999999999999999999999999999999999984

>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=99.51  E-value=2.4e-14  Score=93.18  Aligned_cols=61  Identities=25%  Similarity=0.358  Sum_probs=52.8

Q ss_pred             HHHH---HHHhhccCCceEEEEEeeCCC----CCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEE
Q psy17806          9 FEDV---FVECEDKYGEIEEMNVCDNLG----DHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAE   70 (130)
Q Consensus         9 ~eDi---~~e~~skfG~I~~v~v~~~~~----~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~   70 (130)
                      .+||   ++.| ++||+|.+|.|+.+..    ....|++||+|.+.++|.+|++.|||..++||+|.|+
T Consensus        22 ~~~l~~~~e~F-~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          22 DPEVLKRPEYF-GKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             CHHHHHSTTTT-TTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             HHHHHHHHHHh-cccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            4677   5567 8999999999997642    2356999999999999999999999999999999985

>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=99.50  E-value=3.6e-14  Score=91.58  Aligned_cols=62  Identities=19%  Similarity=0.355  Sum_probs=53.7

Q ss_pred             HHHHHHhhccCCceEEEEEeeC--CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806         10 EDVFVECEDKYGEIEEMNVCDN--LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus        10 eDi~~e~~skfG~I~~v~v~~~--~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ++|++.| ++||.|+++.|+.+  .++..+|++||+|.+.++|.+|++ |||..++||+|.|.++.
T Consensus        20 d~l~~~F-~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a~   83 (86)
T d2ghpa3          20 NLLRESF-EGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLAD   83 (86)
T ss_dssp             HHHHHHH-GGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEECC
T ss_pred             HHHHHHH-HhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEcC
Confidence            3488888 79999999999864  357889999999999999999995 99999999999999984

>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=99.49  E-value=8.7e-14  Score=90.94  Aligned_cols=65  Identities=18%  Similarity=0.244  Sum_probs=58.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||+|.+|.|+.+.. .++|++||+|.+.++|.+|++.|||..++|++|.|+++..
T Consensus        24 t~~~L~~~F-~~~G~v~~v~~~~~~~-~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~   88 (93)
T d2cq3a1          24 RDPDLRQMF-GQFGKILDVEIIFNER-GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   88 (93)
T ss_dssp             CHHHHHHHG-GGTSCEEEEEEECCTT-TTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CHHHHHHHH-hhcceeeecccccccc-CCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCc
Confidence            358999999 7999999999998753 3689999999999999999999999999999999999843

>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=99.49  E-value=4.1e-14  Score=93.72  Aligned_cols=58  Identities=26%  Similarity=0.366  Sum_probs=53.7

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .+||++.| ++||+|.++.|.       +|++||+|.+.++|.+|++.|||..|.|++|.|+++..
T Consensus        30 ~~~L~~~F-~~~G~i~~~~i~-------rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   87 (98)
T d1wf2a_          30 KSDVEAIF-SKYGKIVGCSVH-------KGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAE   87 (98)
T ss_dssp             HHHHHHSS-TTSSCEEEEEEE-------TEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTS
T ss_pred             HHHHHHHH-hhcCCEEEEEEe-------CCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            46899999 799999999994       59999999999999999999999999999999999854

>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=99.49  E-value=2.6e-14  Score=94.94  Aligned_cols=66  Identities=18%  Similarity=0.243  Sum_probs=60.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||..++|++|.|.++..
T Consensus        21 te~~l~~~f-~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~   87 (104)
T d1p1ta_          21 TEEQLKDIF-SEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             CHHHHHHHH-HTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             CHHHHHHhh-hccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            468999999 799999999998754 578899999999999999999999999999999999999854

>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=99.48  E-value=2.2e-14  Score=93.40  Aligned_cols=66  Identities=15%  Similarity=0.338  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ++|.+.+...| ++||+|.+|.+...  ++.+|++||+|.+.++|.+|++.|||..++|++|++.|+..
T Consensus        18 ~dl~~~l~~~f-~~~G~i~~i~~~~~--~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak~   83 (91)
T d1nu4a_          18 DELKKSLHAIF-SRFGQILDILVSRS--LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT   83 (91)
T ss_dssp             HHHHHHHHHHH-GGGSCEEEEECCHH--HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSS
T ss_pred             HHHHHHHHHHh-cccccccceEEeee--ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            46677777788 79999999998763  45789999999999999999999999999999999999843

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=3.4e-14  Score=90.75  Aligned_cols=67  Identities=13%  Similarity=0.261  Sum_probs=58.2

Q ss_pred             HHHHHHHHHhhccCCceEEE-EEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEM-NVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v-~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.++ .|+.+. ++.++|++||+|.+.++|.+|++.|||..++||+|.|.++..
T Consensus        10 ~te~~l~~~F-~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~   78 (83)
T d1x5ta1          10 IDEKLLYDTF-SAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFK   78 (83)
T ss_dssp             CCHHHHHHHH-HTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCC
T ss_pred             CcHHHHHHHH-HHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecC
Confidence            3468999999 799999765 666654 567899999999999999999999999999999999999843

>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=99.48  E-value=3.1e-14  Score=90.56  Aligned_cols=61  Identities=13%  Similarity=0.200  Sum_probs=55.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      ..++|++.| ++||.|.++.+..+     +|++||+|.+.++|..|+..|||..++|++|.|.|+..
T Consensus        16 te~~L~~~F-~~~G~I~~v~~~~~-----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   76 (79)
T d2bz2a1          16 TPTLLRGAF-SPFGNIIDLSMDPP-----RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   76 (79)
T ss_dssp             CHHHHHHHH-STTCCCSCEEEETT-----TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCS
T ss_pred             CHHHHHHHH-hccCccceeeeccC-----CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            468899999 79999999999864     58999999999999999999999999999999999843

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.48  E-value=3.5e-14  Score=98.70  Aligned_cols=68  Identities=18%  Similarity=0.217  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.-.+||++.| ++||.|.+|.|+.+. ++.++|++||+|.+.++|.+|++.|||.+|+||+|.|.++..
T Consensus        53 ~~te~~l~~~F-~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~  121 (139)
T d1u6fa1          53 TVDEVQLRQLF-ERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAAS  121 (139)
T ss_dssp             TCCHHHHHHHH-HHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSC
T ss_pred             CCCHHHHHHHH-HhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            33468999999 799999999999754 467899999999999999999999999999999999999843

>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=99.48  E-value=7.7e-14  Score=90.60  Aligned_cols=64  Identities=14%  Similarity=0.145  Sum_probs=57.8

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||+|.+|.|+.+.. ..+|++||+|.+.++|..|++.|||..+.|++|.|.|+.
T Consensus        21 te~~l~~~F-~~~G~i~~v~i~~d~~-~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1          21 TEVLILQLF-SQIGPCKSCKMITEHT-SNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             CHHHHHHHH-HHHSCEEEEEEECCCC-SSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CHHHHHHHH-HhcCCceeeeeecccC-ccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            358899999 7999999999998753 348999999999999999999999999999999999983

>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=99.48  E-value=2.9e-14  Score=92.49  Aligned_cols=65  Identities=18%  Similarity=0.298  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.|+.+. +.++|++||+|.+.++|.+|++.|||..++|++|.|+++..
T Consensus        21 t~~~l~~~F-~~~G~v~~~~i~~~~-~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~   85 (89)
T d1cvja2          21 DNKALYDTF-SAFGNILSCKVVCDE-NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS   85 (89)
T ss_dssp             CHHHHHHHH-HTTSCEEEEEECCBT-TBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCC
T ss_pred             CHHHHHHHH-HhcCCceEEEEEeec-CCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            357899999 799999999999865 34689999999999999999999999999999999999843

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=3.8e-14  Score=91.80  Aligned_cols=66  Identities=21%  Similarity=0.305  Sum_probs=59.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeC-CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDN-LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~-~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|..+.+..+ .++.++|++||+|.++++|..|++.|||..|+|++|.|+++..
T Consensus        18 t~~~l~~~F-~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~   84 (90)
T d1x5sa1          18 NEQSLEQVF-SKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   84 (90)
T ss_dssp             CHHHHHHHH-HHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CHHHHHHhh-hccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            457999999 79999999998864 4578899999999999999999999999999999999999844

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=5.4e-14  Score=93.66  Aligned_cols=66  Identities=15%  Similarity=0.210  Sum_probs=59.4

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ++.-.++|++.| +.||+|.+|.|+.+. +++++|++||+|.+.++|.+|+. |||..|+|++|.|.++
T Consensus        28 ~~~te~~l~~~F-~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a   94 (101)
T d2cq4a1          28 ARIRPRDLEDFF-SAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQAS   94 (101)
T ss_dssp             TTCCHHHHHHHH-TTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEH
T ss_pred             CCCCHHHHHHHH-cCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEEC
Confidence            344568999999 799999999999865 57899999999999999999995 9999999999999987

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=3.9e-14  Score=90.03  Aligned_cols=63  Identities=13%  Similarity=0.212  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ..++|++.| ++||+|.++.|+.+. ++.++|++||+|.++++|.+|++ +||..++||+|.|..+
T Consensus        13 te~~l~~~F-~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_          13 TQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CSHHHHHHH-TTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CHHHHHHHH-HHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            457899999 799999999999865 47899999999999999999997 7999999999999764

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=5e-14  Score=93.43  Aligned_cols=65  Identities=9%  Similarity=0.169  Sum_probs=59.3

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      .-.+||++.| ++||.|..+.+..+.+++++|++||+|.+.++|.+|++.|||..+.||++.+..+
T Consensus        30 ~te~~L~~~F-~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          30 MDEQELENML-KPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             CCHHHHHHTT-TTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CCHHHHHHHH-hhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            3468899999 7999999999998877889999999999999999999999999999999888655

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=2.8e-13  Score=87.08  Aligned_cols=65  Identities=15%  Similarity=0.240  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +.-.+||++.| ++||+|.++.|+.+. ++.++|++||+|.+.++|.+|++ ++|..++||+|.|..+
T Consensus        17 ~~te~~l~~~F-~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~A   82 (84)
T d1l3ka1          17 ETTDESLRSHF-EQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRA   82 (84)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEEC
T ss_pred             CCCHHHHHHHH-HhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEee
Confidence            34468999999 799999999999875 47899999999999999999997 6999999999999764

>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=99.45  E-value=5.5e-14  Score=93.66  Aligned_cols=60  Identities=22%  Similarity=0.403  Sum_probs=55.9

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .++|++.| ++||.|.+|.|..+.    +|++||+|.+.++|.+|++.|||..+.|++|.+.|+.
T Consensus        17 e~~L~~~F-~~fG~I~~v~i~~~~----kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1          17 PQSLFILF-GVYGDVQRVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             HHHHHHHH-HHHTCEEEEEECCTT----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             HHHHHHHH-hhccccceEEEEecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            57899999 799999999998763    6999999999999999999999999999999999984

>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=99.45  E-value=6.7e-14  Score=93.36  Aligned_cols=65  Identities=18%  Similarity=0.301  Sum_probs=57.8

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDF   77 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f   77 (130)
                      .-.+||++.| ++||+|..|.|..     .+|++||+|.+.++|.+|++.|||..|.||+|.|++++...+
T Consensus        22 ~t~~~L~~~F-~~fG~I~~v~l~~-----~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~~   86 (111)
T d1whxa_          22 TLAAEIQETF-SRFGSLGRVLLPE-----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVF   86 (111)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEECCS-----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTTT
T ss_pred             CCHHHHHhhh-hccCCccEEEeec-----cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCcc
Confidence            3458899999 7999999999864     379999999999999999999999999999999999876544

>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=99.44  E-value=1.1e-13  Score=91.15  Aligned_cols=60  Identities=20%  Similarity=0.273  Sum_probs=55.6

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||.|.+|.|+.+     +|++||+|.+.++|.+|+..|||..++|++|.|.|+.
T Consensus        31 te~~L~~~F-~~fG~i~~v~i~~~-----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak   90 (96)
T d1x4ga1          31 TDQLMRQTF-SPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   90 (96)
T ss_dssp             CHHHHHHHH-HHHSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CHHHHHHHH-HHhCCceEEEEEec-----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            358899999 79999999999875     7999999999999999999999999999999999973

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=3.1e-13  Score=87.10  Aligned_cols=65  Identities=15%  Similarity=0.270  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +...+||++.| ++||.|.+|.|+.+.++.++|++||+|.++++|.+|++ ++|..|.|++|.+.+.
T Consensus        17 ~~te~~l~~~F-~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2          17 DATLDDIKEWL-EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   81 (85)
T ss_dssp             TCCHHHHHHHH-TTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEG
T ss_pred             CCCHHHHHHHH-HHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEc
Confidence            34468999999 79999999999998888899999999999999999995 7999999999999875

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=8.8e-14  Score=89.89  Aligned_cols=61  Identities=21%  Similarity=0.251  Sum_probs=56.3

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||+|.+|.+..+     +|++||+|.+.++|.+|++.|||..++|++|.|++++.
T Consensus        21 ~~~~l~~~F-~~~G~i~~i~~~~~-----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~   81 (86)
T d2cpja1          21 TEEEMRKLF-EKYGKAGEVFIHKD-----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACH   81 (86)
T ss_dssp             CHHHHHHHT-STTCCCSEEEEETT-----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSC
T ss_pred             CHHHHHHHH-HHhCCceEeeeecc-----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            458999999 79999999999865     68999999999999999999999999999999999854

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=1e-13  Score=87.36  Aligned_cols=64  Identities=16%  Similarity=0.251  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      +.-.+||++.| ++||+|.++.|+.+. ++.++|++||+|.++++|.+|++ +++..++||+|.|..
T Consensus        10 ~~te~~l~~~F-~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_          10 DTTKKDLKDYF-SKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKR   74 (75)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECC
T ss_pred             cCCHHHHHHHH-HhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeE
Confidence            34468999999 799999999999864 57889999999999999999997 799999999998853

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.8e-13  Score=91.04  Aligned_cols=66  Identities=21%  Similarity=0.262  Sum_probs=58.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|++.+|+ .++||+|.|.++..
T Consensus        22 ~te~~l~~~F-~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          22 TTDASLRKYF-EGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   88 (103)
T ss_dssp             CCHHHHHHHH-HTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CcHHHHHHHH-hhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcCC
Confidence            3468999999 799999999999865 478899999999999999999999987 79999999998743

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=3.4e-13  Score=87.98  Aligned_cols=66  Identities=20%  Similarity=0.251  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +...+||++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|++.+  ..++||+|.|.++..
T Consensus        19 ~~te~~l~~~F-~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~--~~l~Gr~i~v~~a~~   85 (90)
T d2cqga1          19 KTTEQDLKEYF-STFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR--HMIDGRWCDCKLPNS   85 (90)
T ss_dssp             SCCHHHHHHHH-GGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSC--EEETTEEEEEECCCT
T ss_pred             CCCHHHHHHHH-HhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcC--CccCCEEeEEEeCCC
Confidence            34568999999 799999999999865 5889999999999999999999854  489999999998843

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=1e-13  Score=86.53  Aligned_cols=65  Identities=15%  Similarity=0.244  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +...+||++.| ++||.|..+.++.+. ++..+|++||+|.+.++|.+|++ |||..++||+|.|..+
T Consensus        10 ~~te~~l~~~F-~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~A   75 (75)
T d2msta_          10 NTTVEDVKHYF-EQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             SCCHHHHHHHH-HTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEEC
T ss_pred             CCCHHHHHHHH-HHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEEC
Confidence            34568999999 799999999998765 47889999999999999999996 9999999999999764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=1.1e-13  Score=88.84  Aligned_cols=67  Identities=24%  Similarity=0.286  Sum_probs=59.4

Q ss_pred             hHHHHHHHHHHhhccCCceEE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          5 YDNFFEDVFVECEDKYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~-v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      |+.-.+||++.| +.||.|.. +.+..+.++.++|++||+|.+.++|.+|++.|||..++||+|.+.+.
T Consensus        19 ~~~~~~di~~~F-~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1          19 FTVSIDEILDFF-YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             TTCCHHHHHHHT-TTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCHHHHHHHH-hhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            445578999999 79999976 56777777889999999999999999999999999999999999863

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=7.6e-13  Score=83.45  Aligned_cols=65  Identities=15%  Similarity=0.231  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +.-.+||++.| ++||.|..+.++.+. ++.++|++||+|.++++|.+|++ |||..++||+|.|..+
T Consensus        13 ~~te~~l~~~F-~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2          13 DTEEHHLRDYF-EQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             TCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             cCCHHHHHHHH-HHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            44568999999 799999999999865 57789999999999998888885 8999999999999754

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=4.3e-13  Score=87.80  Aligned_cols=65  Identities=20%  Similarity=0.236  Sum_probs=58.0

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|..+.+..+  ...+|++||+|.+.++|.+|++.|||..|.|++|.|+|+..
T Consensus        26 ~t~~~l~~~F-~~~G~v~~~~~~~~--~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          26 IRTKDIEDVF-YKYGAIRDIDLKNR--RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             CCHHHHHHHH-GGGSCEEEEEECCS--SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCHHHHHHHH-hcCCceEEEEeccc--ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            3468999999 79999999998765  34689999999999999999999999999999999999743

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=3.4e-13  Score=90.09  Aligned_cols=66  Identities=14%  Similarity=0.202  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +.-.+||++.| ++||.|.++.|+.+. ++.++|++||+|.+.++|.+|++ |||..++|++|.|.++.
T Consensus        31 ~~te~~L~~~F-~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          31 ETTEESLRNYY-EQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             CCCHHHHHHHH-TSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECCS
T ss_pred             cCCHHHHHHHH-HhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEECc
Confidence            44568999999 799999999999865 46789999999999999999985 89999999999999873

>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=99.39  E-value=9.1e-13  Score=88.04  Aligned_cols=66  Identities=11%  Similarity=0.147  Sum_probs=58.2

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe--CCeeEEEEeccC
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF--GGRPVYAELSPV   74 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f--~GR~I~v~~~~~   74 (130)
                      |+...+||++.| ++||.|.++.|..+   ..+|++||+|.+.++|.+|+..|||..+  .|+.|.+.|+..
T Consensus        17 ~~vte~~L~~~F-~~~G~i~~~~i~~~---~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~   84 (108)
T d2adba1          17 YPVTLDVLHQIF-SKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL   84 (108)
T ss_dssp             STTHHHHHHHHH-TTTSCEEEEEEEEE---TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSS
T ss_pred             CCCCHHHHHHHH-ccCCcEEEEEEEee---CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCC
Confidence            455678999999 79999999999874   3489999999999999999999999988  688999999844

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.38  E-value=1.3e-12  Score=82.35  Aligned_cols=64  Identities=19%  Similarity=0.208  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +.-.++|++.| +.||.|.+|.++.+.. ...|++||+|.++++|.+|+ .|||..|+|++|.|+.+
T Consensus        11 ~~t~~~l~~~F-~~~G~I~~v~~~~~~~-~~~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2          11 SYNQNKVYKYF-KHCGPIIHVDVADSLK-KNFRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTT-SSSEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEEC
T ss_pred             CCCHHHHHHHH-hcCCceEEEEEEeecc-ccceEEEEEEcchHHhHHHH-HhcCcEECCEEEEEEEC
Confidence            34468999999 7999999999998764 34689999999999999998 59999999999999864

>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=99.38  E-value=3.4e-13  Score=90.29  Aligned_cols=64  Identities=14%  Similarity=0.064  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      |++.++|+..| ++||.|.++.+.+     ++|++||+|.+.++|.+|++.|||..|+|++|.|.|+...
T Consensus        21 d~~k~~l~~lF-~~~G~i~~~~~~k-----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~~~   84 (104)
T d1weya_          21 SETRAKFESLF-RTYDKDTTFQYFK-----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQTL   84 (104)
T ss_dssp             TTHHHHHHHHH-HTTCSSCEEEEET-----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCCS
T ss_pred             HHHHHHHHHHh-cccccceEEEEec-----CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeecccC
Confidence            34567788889 7999999999985     3689999999999999999999999999999999998443

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=1.4e-13  Score=85.66  Aligned_cols=61  Identities=20%  Similarity=0.263  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEE
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVY   68 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~   68 (130)
                      .-.++|++.| ++||.|..+.+..+. ++.++|++||+|.+.++|.+|++.|||..|+||+|.
T Consensus        10 ~te~~l~~~F-~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1          10 TTDQDLVKLC-QPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             CCHHHHHTTS-TTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CCHHHHHHHH-hhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            3467899999 799999999998764 577899999999999999999999999999999873

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.2e-12  Score=83.96  Aligned_cols=59  Identities=22%  Similarity=0.242  Sum_probs=54.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.+||++.| ++||.|..+.+...     +|++||+|.+.++|..|+..|||..++|++|.|.|+
T Consensus        21 te~~l~~~F-~~~g~i~~~~~~~~-----rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~a   79 (86)
T d2cpda1          21 SEEMIEKEF-NNIKPGAVERVKKI-----RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   79 (86)
T ss_dssp             CHHHHHHHH-HTTSTTCEEEEEEC-----SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             CHHHHHHhh-cccceeeeEEEccc-----cEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            457999999 79999998888653     799999999999999999999999999999999998

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.36  E-value=1.5e-12  Score=82.02  Aligned_cols=64  Identities=20%  Similarity=0.293  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCcc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTD   76 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~   76 (130)
                      +...+||++.| ++|| +..+.+..     .+|++||+|.+.++|.+|+..|||..+.||+|.|++++.+.
T Consensus         9 ~~t~~~l~~~F-~~~g-~~~~~~~~-----~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d~   72 (75)
T d1wi6a1           9 DVTNQEVHDLL-SDYE-LKYCFVDK-----YKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTDA   72 (75)
T ss_dssp             TCCHHHHHHHT-TTSC-EEEEEEET-----TTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCSTT
T ss_pred             cCCHHHHHHHH-hccc-ccceeecc-----cceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCCC
Confidence            34568999999 7999 55555543     47999999999999999999999999999999999997643

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.35  E-value=1.7e-12  Score=84.61  Aligned_cols=67  Identities=19%  Similarity=0.289  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhC------CCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLN------NRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~ln------Gr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||+|.++.+..+. .+.++|++||+|.+.++|.+|++.||      |..++||+|.|+++.
T Consensus        19 ~~te~~l~~~f-~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~~a~   92 (98)
T d1x4ha1          19 DSEEEALGEVL-QQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAV   92 (98)
T ss_dssp             TCCHHHHHHHH-HTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECCC
T ss_pred             cCCHHHHHHHH-hccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEEECC
Confidence            34568999999 799999999998765 46789999999999999999999987      678999999999984

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.34  E-value=5.9e-14  Score=91.71  Aligned_cols=66  Identities=20%  Similarity=0.171  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +.-.+||++.| ++||.|.++.|..+.++.++|++||+|.+.++|.+|++ |||..++||+|.|+++.
T Consensus        24 ~~te~~l~~~F-~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          24 NKSVAELKVAI-SELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             TSCHHHHHHHH-HHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECCC
T ss_pred             cchHHHHHHHH-hcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEecC
Confidence            34568999999 79999999998876667889999999999999999996 99999999999999874

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.5e-12  Score=85.40  Aligned_cols=67  Identities=13%  Similarity=0.206  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhhccCCceEE--------EEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEE--------MNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~--------v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +.-.+||++.| ++||.|..        +.+..+. +++.+|++||+|.+.++|.+|++.|||..|+||+|.|.++.
T Consensus        19 ~~te~~l~~~F-~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~a~   94 (101)
T d2cpea1          19 SVTLDDLADFF-KQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR   94 (101)
T ss_dssp             TCCHHHHHHHH-TTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSS
T ss_pred             cCCHHHHHHHH-HHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            34468999999 79999853        4444432 36789999999999999999999999999999999999984

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=3.5e-13  Score=85.22  Aligned_cols=65  Identities=18%  Similarity=0.233  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      +...++|++.| ++||+|.+|.|+.+. ++.++|++||+|.+.++|.+|++ +++..++|+.|.|..+
T Consensus        10 ~~te~~l~~~F-~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1          10 DTPEEKIREYF-GGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             SCCHHHHHHHH-HHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEECC
T ss_pred             CCCHHHHHHHH-HHhCCcccccccccccccccccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEEEC
Confidence            34568999999 799999999999875 57899999999999999999996 5888999999988753

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=4.6e-13  Score=86.42  Aligned_cols=58  Identities=22%  Similarity=0.297  Sum_probs=53.4

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .+||++.| ++||.|.++.|..+      |++||+|.+.++|.+|++.|||..|.|+.|.+.++.
T Consensus        14 ~~~l~~~F-~~~G~v~~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~   71 (87)
T d3begb1          14 WQDLKDHM-REAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   71 (87)
T ss_dssp             TTHHHHHH-GGGSCEEEEEECTT------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             HHHHHHHH-hhhccccccccccc------ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEe
Confidence            47899999 79999999998763      899999999999999999999999999999998873

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=4.5e-13  Score=85.27  Aligned_cols=61  Identities=13%  Similarity=0.095  Sum_probs=53.9

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCC-EeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNR-WFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr-~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|.++.+...     +|++||+|.+.++|.+|++.|||+ .++|++|.|+++..
T Consensus        14 te~~L~~~F-~~~G~i~~~~~~~~-----rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~   75 (80)
T d2cqha1          14 TADDLRQLF-GDRKLPLAGQVLLK-----SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVS   75 (80)
T ss_dssp             CHHHHHHHH-HHTTCCCSSCEEEE-----TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCC
T ss_pred             CHHHHHHHH-HHhCcEEEeEEecc-----cceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCC
Confidence            458999999 79999988777653     699999999999999999999998 49999999999844

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.32  E-value=2.2e-12  Score=82.38  Aligned_cols=61  Identities=10%  Similarity=0.092  Sum_probs=54.1

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe-CCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~GR~I~v~~~~   73 (130)
                      -.++|+..| ++||.|.++.+..+.    +|++||+|.+.++|..|++.|||..+ +|++|.++|+-
T Consensus        21 t~~~l~~~f-~~~G~i~~v~~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1          21 NEMMLSMLF-NQFPGFKEVRLVPNR----HDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CHHHHHHHH-TTSTTEEEEEECTTT----CSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CHHHHHhhh-ccCccEEEeeeeccc----ceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            357899999 799999999998642    68999999999999999999999888 57999999973

>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=99.32  E-value=1.9e-12  Score=83.38  Aligned_cols=63  Identities=19%  Similarity=0.063  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe-CCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~GR~I~v~~~~   73 (130)
                      .-.++|++.| ++||.|..+.+..+   +.+|++||+|.+.++|.+|+..|||..+ +|++|.++|+.
T Consensus        22 ~te~~l~~~F-~~~G~v~~~~~~~~---~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2          22 VSEEDLKVLF-SSNGGVVKGFKFFQ---KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             CCHHHHHHHH-HTTSCCEEEEEECS---SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCHHHHHHHh-hccCCEEEEEEeee---cccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            3468899999 79999998877653   3478999999999999999999999987 69999999984

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=1.1e-12  Score=87.03  Aligned_cols=73  Identities=16%  Similarity=0.175  Sum_probs=61.5

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEE-eeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNV-CDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFRE   79 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v-~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~   79 (130)
                      |+...+||++.| +.+|.|....+ ..+.++..+|++||+|.++++|.+|++ +||..|+||.|.|..+.......
T Consensus        25 ~~~te~dI~~~F-~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~~~~~~~~   98 (104)
T d1wg5a_          25 FGCSKEEIVQFF-SGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKSSRAEVRT   98 (104)
T ss_dssp             TTCCHHHHHHHT-TTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEECTTTSCC
T ss_pred             CCCCHHHHHHHH-HhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEECCHHHhcc
Confidence            556679999999 79999987544 456667899999999999999998885 99999999999999987665543

>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=99.31  E-value=2.2e-13  Score=89.75  Aligned_cols=66  Identities=17%  Similarity=0.177  Sum_probs=59.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|..+.+..+. ++.++|++||+|.+.++|.+|++.|||..+.|++|.|+|+..
T Consensus        31 t~~~l~~~f-~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak~   97 (102)
T d2cpxa1          31 TERDLVSLF-ARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN   97 (102)
T ss_dssp             CHHHHHHHT-HHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             CHHHHHHHH-hhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCCC
Confidence            357899999 799999999888643 467899999999999999999999999999999999999844

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=2.1e-12  Score=83.56  Aligned_cols=63  Identities=17%  Similarity=0.288  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      +...+||++.| ++|| +..+.+.     ..+|++||+|.+.++|.+|++.|||..+.||+|.|++++..
T Consensus        16 ~~t~~~l~~lF-~~~G-~~~~~~~-----~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~   78 (88)
T d1wg1a_          16 DSNCQEVHDLL-KDYD-LKYCYVD-----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             SCCHHHHHHHT-CSSC-CCCEEEE-----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             ccChHHHHHHH-HhcC-ceeeeee-----ccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            34568999999 7999 3334443     34799999999999999999999999999999999999654

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=9.7e-13  Score=87.18  Aligned_cols=68  Identities=16%  Similarity=0.153  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCc
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVT   75 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~   75 (130)
                      |+...+||++.| +.|| |..|.++.+..+..+|++||+|.+.++|++|++ |||..++||.|.|.++...
T Consensus        25 ~~~te~dl~~~F-~~~~-~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~~~   92 (102)
T d1weza_          25 YRATENDIYNFF-SPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNSTA   92 (102)
T ss_dssp             TTCCHHHHHHSS-CSCC-CSEEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECCC
T ss_pred             CcCCHHHHHHHH-hccC-cceeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcCCC
Confidence            566789999999 7998 557888887778899999999999999999985 9999999999999998554

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=7.4e-13  Score=87.61  Aligned_cols=72  Identities=21%  Similarity=0.337  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHHhhccCCceEE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccch
Q psy17806          5 YDNFFEDVFVECEDKYGEIEE-MNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFR   78 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~-v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~   78 (130)
                      |+...+||++.| +.||.|.. +.+..+.++.++|++||+|.+.++|.+|++ |||..|+||+|.|..+......
T Consensus        18 ~~~t~~~l~~~F-~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~~~~~~~   90 (103)
T d2cpya1          18 FSITKMDVLQFL-EGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVVTLEDMR   90 (103)
T ss_dssp             TTSCHHHHHHHT-TTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEECHHHHH
T ss_pred             CCCCHHHHhhhh-cccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEECCHHHhh
Confidence            455678999999 79999986 666677778899999999999999999996 9999999999999987554433

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.30  E-value=2.6e-12  Score=84.07  Aligned_cols=62  Identities=23%  Similarity=0.241  Sum_probs=54.7

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      -.+||++.| ++||.|..+..    .+..+|++||+|.+.++|.+|++.|||..++||+|.|.|+..
T Consensus        29 te~~l~~~F-~~~g~v~~~~~----~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~   90 (96)
T d1fjca_          29 TEDELKEVF-EDALEIRLVSQ----DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE   90 (96)
T ss_dssp             CHHHHHHHH-CSEEEECCEEE----TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSS
T ss_pred             CHHHHHHHH-Hhcccceeeee----cCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            358999999 79999876653    246789999999999999999999999999999999999854

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.29  E-value=4.1e-12  Score=82.43  Aligned_cols=61  Identities=23%  Similarity=0.376  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh--CCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL--NNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l--nGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.++.+..+     ++++||+|++.++|..|++.|  ++..++||+|.++|+.
T Consensus        21 ~t~~eL~~lF-~~fG~I~~i~i~~~-----k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~   83 (89)
T d1x4da1          21 NLRYQLLQLV-EPFGVISNHLILNK-----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   83 (89)
T ss_dssp             SHHHHHHTTT-GGGSCEEEEEECSS-----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             CCHHHHHHHH-HhhCCeEEEEeecc-----ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECC
Confidence            3578999999 79999999999864     579999999999999999966  6789999999999984

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.29  E-value=2.5e-12  Score=84.89  Aligned_cols=61  Identities=20%  Similarity=0.237  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||+|+.+.|..      +|++||+|.+.++|.+|++.|||..|+|+.|.|.+..+
T Consensus        27 ~~~~~L~~~F-~~~G~v~~~~i~~------~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~   87 (98)
T d1wg4a_          27 GSWQDLKDHM-REAGDVCYADVQK------DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRV   87 (98)
T ss_dssp             CCHHHHHHHH-TTSSCEEEEEEET------TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEE
T ss_pred             CCHHHHHHHH-Hhhcccccccccc------cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEec
Confidence            3468999999 7999999999875      48999999999999999999999999999999999844

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=7.4e-12  Score=82.68  Aligned_cols=66  Identities=17%  Similarity=0.193  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccC
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~   74 (130)
                      +.-.+||++.| ++|| |.++.++.+.  ++..+|++||+|.+.++|++|+ .|||..++||+|.|.++..
T Consensus        26 ~~te~~l~~~f-~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a~~   93 (104)
T d1wi8a_          26 DVTEESIKEFF-RGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             SCCHHHHHHHT-TTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECCC
T ss_pred             cCCHHHHHHHH-HHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEECCC
Confidence            33468999999 7999 7788777643  4678999999999999998666 6999999999999999844

>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=99.26  E-value=7.3e-12  Score=82.11  Aligned_cols=59  Identities=19%  Similarity=0.384  Sum_probs=53.7

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCC--eeEEEEecc
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG--RPVYAELSP   73 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G--R~I~v~~~~   73 (130)
                      .++|++.| ++||.|..+.+..+     +|++||+|.+.++|.+|++.|||..++|  ++|+++|+.
T Consensus        31 ~~~l~~~f-~~~G~i~~~~~~~~-----~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          31 LAALAREF-DRFGSIRTIDHVKG-----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             HHHHHHHH-HTTSCEEEEEECSS-----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             HHHHHHHH-HhhcccceEeeecc-----ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            57899999 79999999999764     6899999999999999999999999987  589999984

>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=99.25  E-value=1.5e-11  Score=79.03  Aligned_cols=62  Identities=16%  Similarity=0.244  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHh--CCCEeCCeeEEEEeccC
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDL--NNRWFGGRPVYAELSPV   74 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~l--nGr~f~GR~I~v~~~~~   74 (130)
                      .-.+||++.| ++||.|.++.+..+     +|++||+|.+.++|.+|++.|  ++..+.||+|.+.|+..
T Consensus        20 ~t~~~L~~~f-~~~G~i~~v~~~~~-----~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~   83 (88)
T d2cq1a1          20 VTETEVIALG-LPFGKVTNILMLKG-----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNH   83 (88)
T ss_dssp             CCHHHHHHTT-TTTSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSC
T ss_pred             CCHHHHHHHH-hccccccccccccc-----ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCC
Confidence            3468899999 79999999999864     589999999999999999966  57799999999999853

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=4.7e-12  Score=83.61  Aligned_cols=60  Identities=27%  Similarity=0.390  Sum_probs=54.1

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHH--HhCCCEeCCeeEEEEeccC
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVN--DLNNRWFGGRPVYAELSPV   74 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~--~lnGr~f~GR~I~v~~~~~   74 (130)
                      .+||++.| ++||.|.++.+..+     +|++||+|.+.++|..|++  .+|+..++||+|.|.|+..
T Consensus        33 e~~l~~~F-~~fG~V~~v~~~~~-----k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~   94 (99)
T d1x4fa1          33 DSAVLKLA-EPYGKIKNYILMRM-----KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK   94 (99)
T ss_dssp             SHHHHTTT-TTTSCCSEEEEETT-----TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             HHHHHhhh-ccccceeEEEEeec-----CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCC
Confidence            47899999 79999999999864     5899999999999999998  5789899999999999854

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=1e-11  Score=81.07  Aligned_cols=65  Identities=15%  Similarity=0.173  Sum_probs=56.2

Q ss_pred             HHHHHHHHhhccCCc-eEEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHHhCCCE--eCCeeEEEEecc
Q psy17806          8 FFEDVFVECEDKYGE-IEEMNVCDNL--GDHLVGNVYIKFRREEDAEKAVNDLNNRW--FGGRPVYAELSP   73 (130)
Q Consensus         8 ~~eDi~~e~~skfG~-I~~v~v~~~~--~~~~~G~vfV~F~~~e~A~~A~~~lnGr~--f~GR~I~v~~~~   73 (130)
                      -.++|++.| ++||+ |.++.|+.+.  .+.++|++||+|.+.++|..|++.|++..  ++|++|.|+|+.
T Consensus        14 te~~l~~~f-~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A~   83 (96)
T d2disa1          14 KREEILEEI-AKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE   83 (96)
T ss_dssp             CHHHHHHHH-HHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESC
T ss_pred             CHHHHHHHH-HHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEcC
Confidence            357899999 79996 9999998754  46789999999999999999999997654  479999999983

>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=99.21  E-value=2.7e-11  Score=80.22  Aligned_cols=62  Identities=15%  Similarity=0.223  Sum_probs=54.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhC--CCEeCCeeEEEEeccCc
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLN--NRWFGGRPVYAELSPVT   75 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~ln--Gr~f~GR~I~v~~~~~~   75 (130)
                      -.+||+..| ++||.|.++.+.+.     +|++||+|.+.++|..|+..|+  +-.++|++|.+.|+...
T Consensus        28 te~~l~~~F-~~fG~I~~~~~~~~-----k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~   91 (104)
T d1wexa_          28 VEADLVEAL-EKFGTICYVMMMPF-----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSK   91 (104)
T ss_dssp             CHHHHHHHH-TTTSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSS
T ss_pred             CHHHHHHhh-hhcccceEEEEEec-----ceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCC
Confidence            357899999 79999999999754     6899999999999999999884  55789999999998543

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.18  E-value=3.3e-12  Score=85.93  Aligned_cols=74  Identities=16%  Similarity=0.246  Sum_probs=61.8

Q ss_pred             hHHHHHHHHHHhhccCCceEEE-EEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEeccCccchhh
Q psy17806          5 YDNFFEDVFVECEDKYGEIEEM-NVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSPVTDFREA   80 (130)
Q Consensus         5 ~d~~~eDi~~e~~skfG~I~~v-~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~~~~f~~a   80 (130)
                      |+...+||++.| +.||.|..+ .+..+.++..+|++||+|.+.++|.+|++ |||..++||.|.|..+....+.++
T Consensus        28 ~~~t~~di~~~F-~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~~~~~~~~~  102 (112)
T d1wela1          28 FEAENKHVIDFF-KKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITKKGMLEK  102 (112)
T ss_dssp             TTCCHHHHHHHS-CSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECHHHHHHH
T ss_pred             CcCcHHHHhhHH-hhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEcChHHHHHH
Confidence            556678999999 799999764 44556678899999999999999998886 999999999999998866655443

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.14  E-value=4.2e-11  Score=76.69  Aligned_cols=57  Identities=18%  Similarity=0.298  Sum_probs=48.6

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCee-EEEEec
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRP-VYAELS   72 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~-I~v~~~   72 (130)
                      .+++.+.| ++||+|.++.+..+     +|++||+|.++++|.+|++ |||..++|+. |.|...
T Consensus        17 ~~~il~~F-~~~G~I~~~~~~~~-----~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~   74 (81)
T d1wwha1          17 ASYILLQF-AQYGNILKHVMSNT-----GNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPC   74 (81)
T ss_dssp             HHHHHHHH-HTTSCEEEEEECSS-----SSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEEC
T ss_pred             HHHHHHHH-HhhhhhheEEecCC-----CCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeC
Confidence            46777889 79999999998654     6999999999999999996 9999999985 456554

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=1.7e-11  Score=79.02  Aligned_cols=60  Identities=10%  Similarity=0.156  Sum_probs=52.9

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      ...+||++.| ++||.|.+|.+..+    .+|++||+|.+.++|.+|+.  ++..++|++|.|.++.
T Consensus        17 ~te~~L~~~F-~~~G~v~~v~~~~~----~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_          17 MTEDELREFF-SQYGDVMDVFIPKP----FRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAE   76 (88)
T ss_dssp             SCHHHHHHHS-TTTSCCCEEECCSS----CCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCC
T ss_pred             CCHHHHHHHH-HHcCCceEEEEeec----cCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCC
Confidence            4468999999 79999999988653    47999999999999999985  8899999999999983

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.10  E-value=1.8e-10  Score=81.54  Aligned_cols=63  Identities=14%  Similarity=0.211  Sum_probs=57.0

Q ss_pred             HHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          8 FFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         8 ~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      -.++|++.| +.||.|..+.|+.+. ++.++|++||+|.+.++|.+|++ ++|..++|++|.|.++
T Consensus       110 te~~L~~~f-~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_         110 EEHHLRDYF-EQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA  173 (183)
T ss_dssp             CHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEEC
T ss_pred             CHHHHhhhh-ccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEec
Confidence            457899999 799999999999864 47899999999999999999997 7999999999999987

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.09  E-value=8.1e-11  Score=77.93  Aligned_cols=54  Identities=15%  Similarity=0.215  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEe-CCe
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWF-GGR   65 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f-~GR   65 (130)
                      +...++|++.| ++||.|.+|.+..+     +|++||+|.+.++|.+|++.|||+.+ ++.
T Consensus        31 ~vte~~L~~~F-~~~G~i~~i~~~~~-----k~~aFV~f~~~e~A~~A~~~lng~~i~~~~   85 (101)
T d2cq2a1          31 GVSRNQLLPVL-EKCGLVDALLMPPN-----KPYSFARYRTTEESKRAYVTLNGKEVVDDL   85 (101)
T ss_dssp             TCCHHHHHHHH-HHHSCEEEEECCTT-----CSCEEEEESSHHHHHHHHHHTTTCEEECTT
T ss_pred             CCCHHHHHHHH-HhhCcccEEeeccC-----ccEEEEEECCHHHHHHHHHHhCCCCCCCCC
Confidence            44568999999 79999999998764     68999999999999999999999876 544

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=2.1e-10  Score=77.07  Aligned_cols=60  Identities=20%  Similarity=0.197  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCH-HHHHHHHHHhCCCEeCCeeEEEEec
Q psy17806          7 NFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRRE-EDAEKAVNDLNNRWFGGRPVYAELS   72 (130)
Q Consensus         7 ~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~-e~A~~A~~~lnGr~f~GR~I~v~~~   72 (130)
                      ...+||++.| ++||+|..|.|+.+     +|++||+|.+. ++|..|+..|||..+.++.+.+.+.
T Consensus        23 ~tee~Lk~~F-~~fG~V~~v~i~~~-----kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~   83 (113)
T d1owxa_          23 TCREDLHILF-SNHGEIKWIDFVRG-----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   83 (113)
T ss_dssp             CCHHHHHHHT-CSSCCEEEEECCTT-----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             CCHHHHHHHH-HhcCChheEEEecC-----CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEe
Confidence            3568999999 79999999999864     79999999996 7899999999999999888887775

>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=98.80  E-value=1.3e-11  Score=79.62  Aligned_cols=64  Identities=9%  Similarity=0.112  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeC------CCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDN------LGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~------~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      +...+||++.| ++||.|.++.+...      ....++|++||+|.+.++|.+|+. |||..+.||+|.|..
T Consensus        12 ~~te~~l~~~F-~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~r   81 (90)
T d1u2fa_          12 GITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRR   81 (90)
T ss_dssp             TCCTTHHHHHH-HHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCBC
T ss_pred             ccchHHHHHHH-HhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEECC
Confidence            44468999999 79999988776532      234678999999999999999985 999999999999863

>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=98.61  E-value=1.4e-07  Score=66.16  Aligned_cols=66  Identities=15%  Similarity=0.227  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNL-GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~-~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      +...+||++.| ++||.|+++.++.+. ++.++|++||+|.+.++|.+|+. +++..++++.+.+....
T Consensus        17 ~~te~~L~~~F-~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~~~~~~~   83 (183)
T d1u1qa_          17 ETTDESLRSHF-EQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (183)
T ss_dssp             TCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             CCCHHHHHHHH-HHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHH-hcCCcccccchhhhhhh
Confidence            33468999999 799999999999764 57889999999999999999987 56666888888877653

>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=97.98  E-value=7.8e-06  Score=52.95  Aligned_cols=57  Identities=16%  Similarity=0.316  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEe
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAEL   71 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~   71 (130)
                      |.+..+|.++| +.||+|.-|+++.       +..+|+|.+-++|.+|++ |+|..+.|+.|.+..
T Consensus        35 e~l~~~Llq~l-~~~GeViLvRFv~-------d~mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          35 EDLRTELMQTL-GSYGTIVLVRINQ-------GQMLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHH-HHHSCCSEEEEET-------TEEEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             HHHHHHHHHHH-hhCCeEEEEEEeC-------CeEEEEECCcHHHHHHhc-cCCeEEcceEEEEec
Confidence            55789999999 7999999999987       589999999999999987 999999999999875

>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=97.57  E-value=0.00025  Score=43.65  Aligned_cols=65  Identities=15%  Similarity=0.266  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhccCCceEEEEEeeCCCCCceeEEEEEecCHHHHHHHHHHhCCCEeCCeeEEEEecc
Q psy17806          6 DNFFEDVFVECEDKYGEIEEMNVCDNLGDHLVGNVYIKFRREEDAEKAVNDLNNRWFGGRPVYAELSP   73 (130)
Q Consensus         6 d~~~eDi~~e~~skfG~I~~v~v~~~~~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~GR~I~v~~~~   73 (130)
                      .++.+-|...| +++|.|.++.|.....+.+  .+-|.-.+.++|.-|+..|+-+.++++.|.|.|+.
T Consensus         7 kelqq~L~~~f-~~h~~V~sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1           7 KELQQLLQEAF-ARHGKVKSVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHH-HHHSCEEEEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHHH-HhheeEEEEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            46677788888 7999999999976433222  56788999999999999999999999999999874

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.75  E-value=0.00026  Score=38.79  Aligned_cols=30  Identities=27%  Similarity=0.676  Sum_probs=25.9

Q ss_pred             cCccchhhhhccccc-CCCCCCCCcceeeec
Q psy17806         73 PVTDFREACCRQYEM-GECTRSGFCNFMHLK  102 (130)
Q Consensus        73 ~~~~f~~a~c~~~~~-~~c~rg~~Cn~lh~~  102 (130)
                      ....|+...|+.|.. |.|+.|+.|.|.|-.
T Consensus         3 ~~~~yKT~lC~~~~~~g~C~~G~~C~FAHg~   33 (40)
T d1m9oa_           3 TSSRYKTELCRTYSESGRCRYGAKCQFAHGL   33 (40)
T ss_dssp             CSSCCCSCCCSGGGGTSCCTTTTTCSSCSSS
T ss_pred             CCCccccccChhhhcCCcCCCCCCCCCCCCH
Confidence            457899999999875 799999999999953

>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.00045  Score=34.81  Aligned_cols=23  Identities=35%  Similarity=0.772  Sum_probs=20.5

Q ss_pred             hhhhcccccCCCCCCCCcceeee
Q psy17806         79 EACCRQYEMGECTRSGFCNFMHL  101 (130)
Q Consensus        79 ~a~c~~~~~~~c~rg~~Cn~lh~  101 (130)
                      ...|.=|.+|-|.||.+|-|||-
T Consensus         6 kelCKfYvqGyCtrgenC~ymH~   28 (29)
T d2cqea2           6 RELCKFYITGFCARAENCPYMHG   28 (29)
T ss_dssp             CSBCTTTTTTCCSCSTTCSSBSS
T ss_pred             hhhhhhheeeeecCCcCcccccC
Confidence            45689999999999999999994

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.00018  Score=38.66  Aligned_cols=28  Identities=32%  Similarity=0.727  Sum_probs=24.3

Q ss_pred             ccchhhhhcccc-cCCCCCCCCcceeeec
Q psy17806         75 TDFREACCRQYE-MGECTRSGFCNFMHLK  102 (130)
Q Consensus        75 ~~f~~a~c~~~~-~~~c~rg~~Cn~lh~~  102 (130)
                      ++|+...|+.|. .|.|+.|..|.|.|-.
T Consensus         2 ~kyKT~lC~~~~~~g~C~~G~~C~FAHg~   30 (36)
T d1rgoa1           2 TRYKTELCRPFEESGTCKYGEKCQFAHGF   30 (36)
T ss_dssp             TTTTSSBCHHHHHHSCCTTGGGCSSBSSG
T ss_pred             CCcchhhCcchhcCCcCCCCCcCCCcCCH
Confidence            568899999987 5799999999999964

>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.00  E-value=0.00042  Score=36.66  Aligned_cols=27  Identities=26%  Similarity=0.749  Sum_probs=23.7

Q ss_pred             cchhhhhccccc-CCCCCCCCcceeeec
Q psy17806         76 DFREACCRQYEM-GECTRSGFCNFMHLK  102 (130)
Q Consensus        76 ~f~~a~c~~~~~-~~c~rg~~Cn~lh~~  102 (130)
                      +|+...|+.|.. |.|+.|..|+|.|-.
T Consensus         5 kyKT~lC~~f~~~g~C~yG~~C~FaHg~   32 (34)
T d1rgoa2           5 KYKTELCRTFHTIGFCPYGPRCHFIHNA   32 (34)
T ss_dssp             TTTCSBCHHHHHHSCCTTGGGCSSBCCS
T ss_pred             CccchhccccCCCCcCCCCCcccCcCCC
Confidence            588999999975 799999999999954

>d2cqea1 g.66.1.1 (A:458-513) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.58  E-value=0.034  Score=32.00  Aligned_cols=33  Identities=30%  Similarity=0.686  Sum_probs=26.8

Q ss_pred             hcccccC-CCCCCCCcceeeecCCCHHHHHHHHhh
Q psy17806         82 CRQYEMG-ECTRSGFCNFMHLKPISRELRRYLYSR  115 (130)
Q Consensus        82 c~~~~~~-~c~rg~~Cn~lh~~~~~~~l~~~l~~~  115 (130)
                      |.-|..| +|-.|+.|.|.| -+++++.+.-|..-
T Consensus         3 CK~yHtg~kCy~gd~C~FSH-~pLt~~t~~lL~K~   36 (56)
T d2cqea1           3 CKLYHTTGNCINGDDCMFSH-DPLTEETRELLDKM   36 (56)
T ss_dssp             CSHHHHTSCCSSCTTCSSBC-CCCCHHHHHHHHHH
T ss_pred             cceeecCCcccCCCcccccC-CccCHHHHHHHHHH
Confidence            6666655 999999999999 58888888777664

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.21  E-value=1.2  Score=27.44  Aligned_cols=66  Identities=20%  Similarity=0.257  Sum_probs=48.6

Q ss_pred             HHHHHHHhhccCCceEEEEEeeCC---CCCceeEEEEEecCHHHHHHHHHHhCCCEeCC-----eeEEEEeccCc
Q psy17806          9 FEDVFVECEDKYGEIEEMNVCDNL---GDHLVGNVYIKFRREEDAEKAVNDLNNRWFGG-----RPVYAELSPVT   75 (130)
Q Consensus         9 ~eDi~~e~~skfG~I~~v~v~~~~---~~~~~G~vfV~F~~~e~A~~A~~~lnGr~f~G-----R~I~v~~~~~~   75 (130)
                      +++..+.+ +..|++.-..-+...   ..+.-..+||.|.+.++...-.+.++|..|-.     .+-.|+|+|-.
T Consensus        15 e~~F~~~l-~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~~g~~~~a~VE~AP~q   88 (91)
T d1uw4a_          15 KEQLQEHL-QPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAIVEFAPFQ   88 (91)
T ss_dssp             HHHHHHHH-CSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECEEEECSSC
T ss_pred             HHHHHHHh-CCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcCCCCEeeeEEEEcCcc
Confidence            34556667 688888877766532   23456799999999999999999999999822     25567777643