Psyllid ID: psy2204

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-
Protein Sequence
AGVNNEVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQVPGLTQVGQAGPATECPVPVA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccHHHHHHHccccccccccccccccEEEEccccccccHHHHHHHHHHHHHHccccccccccEEEEEEcccccEEEEEEccHHHHHHHHHccccEEccccEEEccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHccccccccEEEEEEEccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHccccccccccccccccccccccccccccHccHHHEEEEEccccccccHHHHHHHHHHHHHHccccccccccEEEEEEEccccEEEEEEccHHHHHHHHHcccEEEcccEEEEEcccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccccEEEEEEEccccccccccccccEEEccccccccccccccccccccc
Coil and Loop (DISEMBL)
agvnnevlntgaagqipanviipETTVAAAAAAAVPVVGSTITRQARRLYvgnipfgvtEDEMMEFFNQQMHLSGLaqaagnpvlACQINLDKnfaflefrsidETTQAMAfdginfkgqslkirrphdyqptpgvtdnaavavpagvistvvpdsphkifigglpnylnedqaiaglngmqlgdKKLIVQRASvgaknasgqqapvqiqvpgltqvgqagpatecpvpva
Flexible Loop (DISEMBL)
agvnnevlntgaagqipaNVIIPETTVAAAAAAAVPVVGstitrqarrlYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRASVGAKnasgqqapvqIQVPGLTQVGqagpatecpvpva
Low Complexity Region (SEG)
AGVNNEVLNTGAAGQIPANVIIPETTvaaaaaaavpvvGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQVPGLTQVGQAGPATECPVPVA
Disordered region (IsUnstruct)
*********TGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQR***************************************
Disordered Region (DISOPRED)
************************************************LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR********************************HKIFIGGLPNYLNEDQ*********LGD*KLI******************************************
Disordered Region (DISEMBL)
AGVNNEVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRAS**********APVQIQVPGLTQVG*************
Disordered Region (DISPRO)
******VLNTGAAGQIPANVII**********AAVP***STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVT*NAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQI*VPGLTQ***************
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
AGVNNEVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQVPGLTQVGQAGPATECPVPVA
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	231	2.2.26 [Sep-21-2011]
Q24562	416	Splicing factor U2AF 50 k	yes	N/A	0.900	0.5	0.662	1e-86
P26369	475	Splicing factor U2AF 65 k	yes	N/A	0.922	0.448	0.601	2e-77
P26368	475	Splicing factor U2AF 65 k	yes	N/A	0.922	0.448	0.601	2e-77
P90978	496	Splicing factor U2AF 65 k	yes	N/A	0.887	0.413	0.494	2e-58
P90727	488	Splicing factor U2AF 65 k	N/A	N/A	0.887	0.420	0.482	2e-56
Q2R0Q1	574	Splicing factor U2af larg	yes	N/A	0.718	0.289	0.342	1e-23
Q2QZL4	548	Splicing factor U2af larg	no	N/A	0.701	0.295	0.344	2e-23
Q9ZR40	573	Splicing factor U2af larg	N/A	N/A	0.861	0.347	0.318	2e-23
Q9ZR39	555	Splicing factor U2af larg	N/A	N/A	0.857	0.356	0.305	2e-23
Q2QKB3	591	Splicing factor U2af larg	N/A	N/A	0.696	0.272	0.354	7e-23

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

 Score =  319 bits (818), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 173/261 (66%), Positives = 188/261 (72%), Gaps = 53/261 (20%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           A+GQIPA+V+ P+T        AVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 64  ASGQIPASVV-PDT-----PQTAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 117

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HL GLAQAAG+PVLACQINLDKNFAFLEFRSIDETTQAMAFDGIN KGQSLKIRRPHDYQ
Sbjct: 118 HLVGLAQAAGSPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINLKGQSLKIRRPHDYQ 177

Query: 132 PTPGVTDNAAV---AVPAGVISTVVPDSPHKIFIGGLPNYLNE----------------- 171
           P PG+TD  A+    V +GVISTVVPDSPHKIFIGGLPNYLN+                 
Sbjct: 178 PMPGITDTPAIKPAVVSSGVISTVVPDSPHKIFIGGLPNYLNDDQVKELLLSFGKLRAFN 237

Query: 172 ------------------------DQAIAGLNGMQLGDKKLIVQRASVGAK---NASGQQ 204
                                   DQ+IAGLNGMQLGDKKLIVQRASVGAK   NA+   
Sbjct: 238 LVKDAATGLSKGYAFCEYVDLSITDQSIAGLNGMQLGDKKLIVQRASVGAKNAQNAANTT 297

Query: 205 APVQIQVPGLTQVGQAGPATE 225
             V +QVPGL+ V  +GP TE
Sbjct: 298 QSVMLQVPGLSNVVTSGPPTE 318

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

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

 Score =  288 bits (737), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 160/266 (60%), Positives = 179/266 (67%), Gaps = 53/266 (19%)

Query: 12  AAGQIPANVIIPETTV--AAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
           AAGQIPA  ++P  T    A     VPVVGS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct: 112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query: 70  QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
           QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct: 172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query: 130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE------------------ 171
           YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+                  
Sbjct: 232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL 290

Query: 172 -----------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASG------ 202
                                  DQAIAGLNGMQLGDKKL+VQRASVGAKNA+       
Sbjct: 291 VKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSLPST 350

Query: 203 -QQAPVQIQVPGL--TQVGQAGPATE 225
             Q PV +QVPGL  +QV   G  TE
Sbjct: 351 INQTPVTLQVPGLMSSQVQMGGHPTE 376

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

Mus musculus (taxid: 10090)

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

 Score =  288 bits (737), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 160/266 (60%), Positives = 179/266 (67%), Gaps = 53/266 (19%)

Query: 12  AAGQIPANVIIPETTV--AAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
           AAGQIPA  ++P  T    A     VPVVGS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct: 112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query: 70  QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
           QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct: 172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query: 130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE------------------ 171
           YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+                  
Sbjct: 232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL 290

Query: 172 -----------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASG------ 202
                                  DQAIAGLNGMQLGDKKL+VQRASVGAKNA+       
Sbjct: 291 VKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSPPST 350

Query: 203 -QQAPVQIQVPGL--TQVGQAGPATE 225
             Q PV +QVPGL  +QV   G  TE
Sbjct: 351 INQTPVTLQVPGLMSSQVQMGGHPTE 376

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

Homo sapiens (taxid: 9606)

>sp|P90978|U2AF2_CAEEL Splicing factor U2AF 65 kDa subunit OS=Caenorhabditis elegans GN=uaf-1 PE=2 SV=2

 Score =  225 bits (573), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 129/261 (49%), Positives = 152/261 (58%), Gaps = 56/261 (21%)

Query: 6   EVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMME 65
           E  N  AAGQ+P            +  +AVPVVG ++T Q+RRLYVGNIPFG  E+ M++
Sbjct: 153 EYKNMQAAGQVPR----------GSVQSAVPVVGPSVTCQSRRLYVGNIPFGCNEEAMLD 202

Query: 66  FFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR 125
           FFNQQMHL GLAQA GNP+L CQINLDKNFAF+EFRSIDETT  MAFDGINF GQ LK+R
Sbjct: 203 FFNQQMHLCGLAQAPGNPILLCQINLDKNFAFIEFRSIDETTAGMAFDGINFMGQQLKVR 262

Query: 126 RPHDYQPTPGVTD-NAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE------------- 171
           RP DYQP+    D N+ + V     ST+V DS +KIFIGGLPNYL E             
Sbjct: 263 RPRDYQPSQNTFDMNSRMPV-----STIVVDSANKIFIGGLPNYLTEDQVKELLCSFGPL 317

Query: 172 ---------------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQ 204
                                      DQAIAGLNGMQLGDK+L+VQ A    +  +   
Sbjct: 318 KAFSLNVDSQGNSKGYAFAEYLDPTLTDQAIAGLNGMQLGDKQLVVQLACANQQRHNTNL 377

Query: 205 APVQIQVPGLTQVGQAGPATE 225
                 + G+     AG ATE
Sbjct: 378 PNSASAIAGIDLSQGAGRATE 398

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

Caenorhabditis elegans (taxid: 6239)

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

 Score =  218 bits (556), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 126/261 (48%), Positives = 149/261 (57%), Gaps = 56/261 (21%)

Query: 6   EVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMME 65
           E  N  A+G +P            +  +AVPVVG ++T Q+RRLYVGNIPFG  E+ M++
Sbjct: 144 EYKNMQASGAVPR----------GSVQSAVPVVGPSVTCQSRRLYVGNIPFGCNEEAMLD 193

Query: 66  FFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR 125
           FFNQQMHL  LAQA GNP+L CQINLDKNFAF+EFRSIDETT  MAFDGINF GQ LK+R
Sbjct: 194 FFNQQMHLCNLAQAPGNPILLCQINLDKNFAFIEFRSIDETTAGMAFDGINFMGQQLKVR 253

Query: 126 RPHDYQPTPGVTD-NAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE------------- 171
           RP DYQP+    D NA + V     S++V DS +KIFIGGLPNYL E             
Sbjct: 254 RPRDYQPSQNTFDMNARMPV-----SSIVVDSANKIFIGGLPNYLTEDQVKELLCSFGPL 308

Query: 172 ---------------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQ 204
                                      DQAIAGLNGMQLGDK+L+VQ A       +   
Sbjct: 309 KAFSLNVDSQGNSKGYAFAEYLDPTLTDQAIAGLNGMQLGDKQLVVQLACANQTRHNTHL 368

Query: 205 APVQIQVPGLTQVGQAGPATE 225
                 + G+     AG ATE
Sbjct: 369 PNSASAIAGIDLSQGAGRATE 389

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

Caenorhabditis briggsae (taxid: 6238)

>sp|Q2R0Q1|U2A2A_ORYSJ Splicing factor U2af large subunit A OS=Oryza sativa subsp. japonica GN=U2AF65A PE=2 SV=2

 Score =  110 bits (274), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 76/222 (34%), Positives = 104/222 (46%), Gaps = 56/222 (25%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMH-LSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           TR ARR+YVG +P    E  +  +FNQ M  + G     G+ VL   IN DK FAF+E R
Sbjct: 234 TRHARRVYVGGLPPTANEHTVAVYFNQVMAAVGGNTAGPGDAVLNVYINHDKKFAFVEMR 293

Query: 102 SIDETTQAMAFDGINFKGQSLKIRRPHDY-----------QPTPGVTDNAAVAVPAGVIS 150
           S++E + AMA DGI F+G  +K+RRP DY           QP P + + AAV +  G   
Sbjct: 294 SVEEASNAMALDGIMFEGAPVKVRRPTDYNPSLAAALGPSQPNPNL-NLAAVGLTPGSAG 352

Query: 151 TVVPDSPHKIFIGGLPNYLNE--------------------------------------- 171
            +  + P +IF+GGLP Y  E                                       
Sbjct: 353 GL--EGPDRIFVGGLPYYFTEAQVRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLN 410

Query: 172 --DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQV 211
             D A A LNG+++GDK L V+RA+ GA     +Q  + + V
Sbjct: 411 VTDIACAALNGIKMGDKTLTVRRANQGASQPRPEQESMLLHV 452

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 75/218 (34%), Positives = 103/218 (47%), Gaps = 56/218 (25%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMH-LSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           TR ARR+YVG +P    E  +  +FNQ M  + G     G+ VL   IN DK FAF+E R
Sbjct: 210 TRHARRVYVGGLPPTANEQSVAIYFNQVMAAIGGNTAGPGDAVLNVYINHDKKFAFVEMR 269

Query: 102 SIDETTQAMAFDGINFKGQSLKIRRPHDY-----------QPTPGVTDNAAVAVPAGVIS 150
           S++E + AMA DGI F+G  +K+RRP DY           QP+P + + AAV +  G   
Sbjct: 270 SVEEASNAMALDGILFEGAPVKVRRPTDYNPSLAAALGPSQPSPNL-NLAAVGLTPGSAG 328

Query: 151 TVVPDSPHKIFIGGLPNYLNE--------------------------------------- 171
            +  + P +IF+GGLP Y  E                                       
Sbjct: 329 GL--EGPDRIFVGGLPYYFTEAQVRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDLN 386

Query: 172 --DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPV 207
             D A A LNG+++GDK L V+RA+ GA     +Q  +
Sbjct: 387 VTDIACAALNGIKMGDKTLTVRRANQGAAQPRPEQESI 424

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 84/264 (31%), Positives = 117/264 (44%), Gaps = 65/264 (24%)

Query: 10  TGAAGQIPA-NVIIPET-----TVAAAAAAAVPVV-----GSTITRQARRLYVGNIPFGV 58
           T AAGQ+P  N  IP        +A+    A+PV+         TR ARR+YVG +P   
Sbjct: 191 TAAAGQVPGTNPPIPGMFPNMFPLASGQFGALPVMPIQAMTQQATRHARRVYVGGLPAHA 250

Query: 59  TEDEMMEFFNQQMH-LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINF 117
            E  +  FF+  M  + G     G+ V+   IN +K FAF+E RS++E + AMA DGI F
Sbjct: 251 NEQSVATFFSHVMSAIGGNTAGPGDAVVNVYINYEKKFAFVEMRSVEEASNAMALDGIIF 310

Query: 118 KGQSLKIRRPHDYQPTPGVT----------DNAAVAVPAGVISTVVPDSPHKIFIGGLPN 167
           +G   K+RRP DY P+   T          + AAV +  G    +  + P +IF+GGLP 
Sbjct: 311 EGAPCKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGLSPGSAGGL--EGPDRIFVGGLPY 368

Query: 168 YLNE-----------------------------------------DQAIAGLNGMQLGDK 186
           Y  E                                         D A A LNG+++GDK
Sbjct: 369 YFTEAQIRELLESFGPLRGFDLVKDRETGNSKGYAFCVYQDVSVTDIACAALNGIKMGDK 428

Query: 187 KLIVQRASVGAKNASGQQAPVQIQ 210
            L V+RA+ G      +Q  V + 
Sbjct: 429 TLTVRRANQGTTQPKPEQESVLLH 452

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

Nicotiana plumbaginifolia (taxid: 4092)

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

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 81/265 (30%), Positives = 118/265 (44%), Gaps = 67/265 (25%)

Query: 10  TGAAGQIPA---------NVIIPETTVAAAAAAAVPVVGST--ITRQARRLYVGNIPFGV 58
           T AAGQ+P          + + P  +    A   +PV   T   TR ARR+YVG +P   
Sbjct: 173 TDAAGQVPGTNPAIPGLFSNMFPLASSQFGALPMMPVQAMTQQATRHARRVYVGGLPPTA 232

Query: 59  TEDEMMEFFNQQMH-LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINF 117
            E  +  FF+  M+ + G     G+ V+   IN +K FAF+E RS++E + AMA DG+ F
Sbjct: 233 NEQSVATFFSHVMYAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVEEASNAMALDGVIF 292

Query: 118 KGQSLKIRRPHDY-----------QPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLP 166
           +G  +K+RRP DY           QP+P +   A  + P    S+   + P +IF+GGLP
Sbjct: 293 EGGPVKVRRPSDYNPSLAATLGPSQPSPNLNLAAVGSTPG---SSGGLEGPDRIFVGGLP 349

Query: 167 NYLNEDQ-----------------------------------------AIAGLNGMQLGD 185
            Y  E Q                                         A A LNG+++GD
Sbjct: 350 YYFTESQIRELLESFGQLRGFDLVKDRETGNSKGYAFCVYQDVSVTDIACAALNGIKMGD 409

Query: 186 KKLIVQRASVGAKNASGQQAPVQIQ 210
           K L V+RA+ G    + +Q  V + 
Sbjct: 410 KTLTVRRANQGTTQPNPEQESVLLH 434

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

Nicotiana plumbaginifolia (taxid: 4092)

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

 Score =  107 bits (267), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 79/223 (35%), Positives = 106/223 (47%), Gaps = 62/223 (27%)

Query: 35  VPVVGSTI------TRQARRLYVGNIPFGVTEDEMMEFFNQQMH-LSGLAQAAGNPVLAC 87
           VP +G  +      TR ARR+YVG +P    E  +  FFNQ M  + G   A G+ V+  
Sbjct: 254 VPALGQPLAMTQQATRHARRVYVGGLPPIANEQTVAVFFNQVMAAIGGNTFALGHAVVNV 313

Query: 88  QINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDY-----------QPTPGV 136
            IN DK FAF+E RS++E + AMA DGI F+G  +K+RRP DY           QP P +
Sbjct: 314 YINHDKKFAFVEMRSVEEASNAMALDGIMFEGAPVKVRRPTDYNPSQAAALGPSQPNPNL 373

Query: 137 TDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE------------------------- 171
            + AAV +  G    +  + P +IF+GGLP Y  E                         
Sbjct: 374 -NLAAVGLTPGAGGGL--EGPDRIFVGGLPYYFTEAQVRELLETFGPLRGFDIVKDKETG 430

Query: 172 ----------------DQAIAGLNGMQLGDKKLIVQRASVGAK 198
                           D A A LNG+QLGD+ L V+RA+ GA+
Sbjct: 431 NSKGYAFCLYKDGTVTDIACAALNGIQLGDRTLTVRRANQGAE 473

Necessary for the splicing of pre-mRNA.

Triticum aestivum (taxid: 4565)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	231
242019185	445	Splicing factor U2AF 50 kDa subunit, put	0.900	0.467	0.746	2e-96
347968827	446	AGAP002908-PA [Anopheles gambiae str. PE	0.900	0.466	0.718	1e-92
332375140	374	unknown [Dendroctonus ponderosae]	0.891	0.550	0.717	3e-92
157132061	418	splicing factor u2af large subunit [Aede	0.900	0.497	0.710	6e-91
270011684	432	hypothetical protein TcasGA2_TC005736 [T	0.891	0.476	0.713	7e-91
91088649	450	PREDICTED: similar to U2 small nuclear r	0.891	0.457	0.713	9e-91
307176032	432	Splicing factor U2AF 50 kDa subunit [Cam	0.878	0.469	0.710	3e-90
383854116	432	PREDICTED: splicing factor U2AF 50 kDa s	0.878	0.469	0.710	3e-90
340715832	432	PREDICTED: splicing factor U2AF 50 kDa s	0.878	0.469	0.710	3e-90
66520699	432	PREDICTED: splicing factor U2AF 50 kDa s	0.878	0.469	0.707	1e-89

>gi|242019185|ref|XP_002430045.1| Splicing factor U2AF 50 kDa subunit, putative [Pediculus humanus corporis] gi|212515110|gb|EEB17307.1| Splicing factor U2AF 50 kDa subunit, putative [Pediculus humanus corporis]

 Score =  357 bits (917), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 191/256 (74%), Positives = 197/256 (76%), Gaps = 48/256 (18%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPANV      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 98  AAGQIPANV------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 151

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 152 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 211

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+++N +V VPAGVISTVVPDSPHKIFIGGLPNYLNE                    
Sbjct: 212 PMPGMSENPSVNVPAGVISTVVPDSPHKIFIGGLPNYLNEDQLKELLMSFGQLRAFNLVM 271

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKN-ASGQQAPVQI 209
                                DQAIAGLNGMQLGDKKLIVQRASVGAKN A GQQAPVQI
Sbjct: 272 DSTTGLSKGYAFCLFVDINVTDQAIAGLNGMQLGDKKLIVQRASVGAKNTALGQQAPVQI 331

Query: 210 QVPGLTQVGQAGPATE 225
           QVPGLT VG +GP TE
Sbjct: 332 QVPGLTSVGMSGPPTE 347

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347968827|ref|XP_311994.4| AGAP002908-PA [Anopheles gambiae str. PEST] gi|333467820|gb|EAA08228.4| AGAP002908-PA [Anopheles gambiae str. PEST]

 Score =  345 bits (884), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 186/259 (71%), Positives = 195/259 (75%), Gaps = 51/259 (19%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 96  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 149

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFD INFKGQSLKIRRPHDYQ
Sbjct: 150 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDSINFKGQSLKIRRPHDYQ 209

Query: 132 PTPGVTDNAAVAVP---AGVISTVVPDSPHKIFIGGLPNYLNE----------------- 171
           P PG+TD+AAV VP   +GVISTVVPDSPHKIFIGGLPNYLNE                 
Sbjct: 210 PMPGMTDSAAVNVPEKFSGVISTVVPDSPHKIFIGGLPNYLNEDQVKELLLSFGQLKAFN 269

Query: 172 ------------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQ-QAP 206
                                   DQAIAGLNGMQLGDKKLIVQRASVGAKN++    AP
Sbjct: 270 LVKDAATGLGKGYAFAEYVEYTVTDQAIAGLNGMQLGDKKLIVQRASVGAKNSNAAVVAP 329

Query: 207 VQIQVPGLTQVGQAGPATE 225
           VQIQVPGL+ VG +GP TE
Sbjct: 330 VQIQVPGLSLVGSSGPPTE 348

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332375140|gb|AEE62711.1| unknown [Dendroctonus ponderosae]

 Score =  343 bits (880), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 183/255 (71%), Positives = 195/255 (76%), Gaps = 49/255 (19%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTEDEMME+FNQQM
Sbjct: 89  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEYFNQQM 142

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 143 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 202

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+++N +++VPAGVISTVVPDSPHKIFIGGLPNYLNE                    
Sbjct: 203 PMPGMSEN-SISVPAGVISTVVPDSPHKIFIGGLPNYLNEDQVKELLMSFGQLRAFNLVK 261

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQ 210
                                DQAIAGLNGMQLGDK+LIVQRASVGAKNA+   A VQIQ
Sbjct: 262 DTAFGLSKGYAFAEYIDISMTDQAIAGLNGMQLGDKRLIVQRASVGAKNATVLPA-VQIQ 320

Query: 211 VPGLTQVGQAGPATE 225
           VPGL+ VG +GP TE
Sbjct: 321 VPGLSLVGASGPPTE 335

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157132061|ref|XP_001662443.1| splicing factor u2af large subunit [Aedes aegypti] gi|108881728|gb|EAT45953.1| AAEL002818-PA [Aedes aegypti]

 Score =  339 bits (869), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 184/259 (71%), Positives = 192/259 (74%), Gaps = 51/259 (19%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 68  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 121

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 122 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 181

Query: 132 PTPGVTDNAAVAVP---AGVISTVVPDSPHKIFIGGLPNYLNE----------------- 171
           P PG+TD+AAV+VP   +GVISTVVPDSPHKIFIGGLPNYLNE                 
Sbjct: 182 PMPGMTDSAAVSVPEKFSGVISTVVPDSPHKIFIGGLPNYLNEDQVKELLLSFGQLKAFN 241

Query: 172 ------------------------DQAIAGLNGMQLGDKKLIVQRASVG-AKNASGQQAP 206
                                   DQAIAGLNGMQLGDKKLIVQRASVG         AP
Sbjct: 242 LVKDAATGLSKGYAFAEYVEYTITDQAIAGLNGMQLGDKKLIVQRASVGAKNANVAAVAP 301

Query: 207 VQIQVPGLTQVGQAGPATE 225
           VQIQVPGL+ VG +GP TE
Sbjct: 302 VQIQVPGLSLVGSSGPPTE 320

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270011684|gb|EFA08132.1| hypothetical protein TcasGA2_TC005736 [Tribolium castaneum]

 Score =  338 bits (868), Expect = 7e-91,   Method: Compositional matrix adjust.
 Identities = 182/255 (71%), Positives = 194/255 (76%), Gaps = 49/255 (19%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 88  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 141

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 142 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 201

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+ + ++++VPAGVISTVVPDSPHKIFIGGLPNYLNE                    
Sbjct: 202 PMPGMAE-SSISVPAGVISTVVPDSPHKIFIGGLPNYLNEDQVKELLMSFGQLRAFNLVK 260

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQ 210
                                DQAIAGLNGMQLGDK+LIVQRASVGAKNA+   A VQIQ
Sbjct: 261 DTAFGLSKGYAFAEYIDITMTDQAIAGLNGMQLGDKRLIVQRASVGAKNATVIPA-VQIQ 319

Query: 211 VPGLTQVGQAGPATE 225
           VPGL+ VG +GP TE
Sbjct: 320 VPGLSLVGASGPPTE 334

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91088649|ref|XP_974465.1| PREDICTED: similar to U2 small nuclear ribonucleoprotein auxiliary factor 2 [Tribolium castaneum]

 Score =  338 bits (868), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 182/255 (71%), Positives = 194/255 (76%), Gaps = 49/255 (19%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 106 AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 159

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 160 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 219

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+ + ++++VPAGVISTVVPDSPHKIFIGGLPNYLNE                    
Sbjct: 220 PMPGMAE-SSISVPAGVISTVVPDSPHKIFIGGLPNYLNEDQVKELLMSFGQLRAFNLVK 278

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPVQIQ 210
                                DQAIAGLNGMQLGDK+LIVQRASVGAKNA+   A VQIQ
Sbjct: 279 DTAFGLSKGYAFAEYIDITMTDQAIAGLNGMQLGDKRLIVQRASVGAKNATVIPA-VQIQ 337

Query: 211 VPGLTQVGQAGPATE 225
           VPGL+ VG +GP TE
Sbjct: 338 VPGLSLVGASGPPTE 352

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307176032|gb|EFN65791.1| Splicing factor U2AF 50 kDa subunit [Camponotus floridanus]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 182/256 (71%), Positives = 189/256 (73%), Gaps = 53/256 (20%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 90  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 143

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 144 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 203

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+TDN ++ VP       VPDSPHKIFIGGLPNYLNE                    
Sbjct: 204 PMPGMTDNPSMNVPG-----TVPDSPHKIFIGGLPNYLNEDQVKELLMSFGQLRAFNLVK 258

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNAS-GQQAPVQI 209
                                DQAIAGLNGMQLGDKKLIVQRASVGAKN   G QAPVQI
Sbjct: 259 DSATGLSKGYAFCEYVDVSMTDQAIAGLNGMQLGDKKLIVQRASVGAKNPMIGAQAPVQI 318

Query: 210 QVPGLTQVGQAGPATE 225
           QVPGL+ VG +GPATE
Sbjct: 319 QVPGLSMVGTSGPATE 334

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383854116|ref|XP_003702568.1| PREDICTED: splicing factor U2AF 50 kDa subunit-like [Megachile rotundata]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 182/256 (71%), Positives = 189/256 (73%), Gaps = 53/256 (20%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 90  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 143

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 144 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 203

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+TDN ++ VP       VPDSPHKIFIGGLPNYLNE                    
Sbjct: 204 PMPGMTDNPSMNVPG-----TVPDSPHKIFIGGLPNYLNEEQVKELLMSFGQLRAFNLVK 258

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNAS-GQQAPVQI 209
                                DQAIAGLNGMQLGDKKLIVQRASVGAKN   G QAPVQI
Sbjct: 259 DSATGLSKGYAFCEYVDVSMTDQAIAGLNGMQLGDKKLIVQRASVGAKNPMIGAQAPVQI 318

Query: 210 QVPGLTQVGQAGPATE 225
           QVPGL+ VG +GPATE
Sbjct: 319 QVPGLSMVGTSGPATE 334

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340715832|ref|XP_003396412.1| PREDICTED: splicing factor U2AF 50 kDa subunit-like [Bombus terrestris] gi|350417884|ref|XP_003491627.1| PREDICTED: splicing factor U2AF 50 kDa subunit-like isoform 1 [Bombus impatiens]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 182/256 (71%), Positives = 189/256 (73%), Gaps = 53/256 (20%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 90  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 143

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ
Sbjct: 144 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 203

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+TDN ++ VP       VPDSPHKIFIGGLPNYLNE                    
Sbjct: 204 PMPGMTDNPSMNVPG-----TVPDSPHKIFIGGLPNYLNEEQVKELLMSFGQLRAFNLVK 258

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNAS-GQQAPVQI 209
                                DQAIAGLNGMQLGDKKLIVQRASVGAKN   G QAPVQI
Sbjct: 259 DSATGLSKGYAFCEYVDVSMTDQAIAGLNGMQLGDKKLIVQRASVGAKNPMIGAQAPVQI 318

Query: 210 QVPGLTQVGQAGPATE 225
           QVPGL+ VG +GPATE
Sbjct: 319 QVPGLSMVGTSGPATE 334

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66520699|ref|XP_623055.1| PREDICTED: splicing factor U2AF 50 kDa subunit [Apis mellifera]

 Score =  335 bits (858), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 181/256 (70%), Positives = 188/256 (73%), Gaps = 53/256 (20%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
           AAGQIPAN+      VA    AAVPVVGSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct: 90  AAGQIPANI------VADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 143

Query: 72  HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
           HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFD INFKGQSLKIRRPHDYQ
Sbjct: 144 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDSINFKGQSLKIRRPHDYQ 203

Query: 132 PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNE-------------------- 171
           P PG+TDN ++ VP       VPDSPHKIFIGGLPNYLNE                    
Sbjct: 204 PMPGMTDNPSMNVPG-----TVPDSPHKIFIGGLPNYLNEEQVKELLMSFGQLRAFNLVK 258

Query: 172 ---------------------DQAIAGLNGMQLGDKKLIVQRASVGAKNAS-GQQAPVQI 209
                                DQAIAGLNGMQLGDKKLIVQRASVGAKN   G QAPVQI
Sbjct: 259 DSATGLSKGYAFCEYVDVSMTDQAIAGLNGMQLGDKKLIVQRASVGAKNPMIGAQAPVQI 318

Query: 210 QVPGLTQVGQAGPATE 225
           QVPGL+ VG +GPATE
Sbjct: 319 QVPGLSMVGTSGPATE 334

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

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	231
FB|FBgn0005411	416	U2af50 "U2 small nuclear ribop	0.675	0.375	0.793	8.3e-81
UNIPROTKB|E2R0G3	471	U2AF2 "Uncharacterized protein	0.696	0.341	0.707	4.7e-74
UNIPROTKB|Q24JZ8	475	U2AF2 "Uncharacterized protein	0.696	0.338	0.707	3.2e-73
UNIPROTKB|P26368	475	U2AF2 "Splicing factor U2AF 65	0.696	0.338	0.707	3.2e-73
MGI|MGI:98886	475	U2af2 "U2 small nuclear ribonu	0.696	0.338	0.707	3.2e-73
RGD|1597319	475	LOC690372 "similar to U2 (RNU2	0.696	0.338	0.707	3.2e-73
ZFIN|ZDB-GENE-050706-131	470	u2af2a "U2 small nuclear RNA a	0.701	0.344	0.690	1.8e-72
ZFIN|ZDB-GENE-040426-1881	475	u2af2b "U2 small nuclear RNA a	0.696	0.338	0.701	3.7e-72
UNIPROTKB|K7ENG2	307	U2AF2 "Splicing factor U2AF 65	0.476	0.358	0.792	1.4e-60
WB|WBGene00006697	496	uaf-1 [Caenorhabditis elegans	0.666	0.310	0.595	2.6e-55

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

 Score = 653 (234.9 bits), Expect = 8.3e-81, Sum P(2) = 8.3e-81
 Identities = 131/165 (79%), Positives = 141/165 (85%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXXXGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQM 71
             A+GQIPA+V+ P+T             GSTITRQARRLYVGNIPFGVTE+EMMEFFNQQM
Sbjct:    64 ASGQIPASVV-PDTPQTAVPVV-----GSTITRQARRLYVGNIPFGVTEEEMMEFFNQQM 117

Query:    72 HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQ 131
             HL GLAQAAG+PVLACQINLDKNFAFLEFRSIDETTQAMAFDGIN KGQSLKIRRPHDYQ
Sbjct:   118 HLVGLAQAAGSPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINLKGQSLKIRRPHDYQ 177

Query:   132 PTPGVTDNAAV---AVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             P PG+TD  A+    V +GVISTVVPDSPHKIFIGGLPNYLN+DQ
Sbjct:   178 PMPGITDTPAIKPAVVSSGVISTVVPDSPHKIFIGGLPNYLNDDQ 222

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

GO:0005686 "U2 snRNP" evidence=TAS

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

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

GO:0000245 "spliceosomal complex assembly" evidence=NAS

GO:0046982 "protein heterodimerization activity" evidence=NAS

GO:0005634 "nucleus" evidence=IC;NAS

GO:0003729 "mRNA binding" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0051168 "nuclear export" evidence=IMP

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

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0071011 "precatalytic spliceosome" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008380 "RNA splicing" evidence=IMP

GO:0003723 "RNA binding" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

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

 Score = 591 (213.1 bits), Expect = 4.7e-74, Sum P(2) = 4.7e-74
 Identities = 116/164 (70%), Positives = 131/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 274

GO:0006397 "mRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 591 (213.1 bits), Expect = 3.2e-73, Sum P(2) = 3.2e-73
 Identities = 116/164 (70%), Positives = 131/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 274

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

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

GO:0019899 "enzyme binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 591 (213.1 bits), Expect = 3.2e-73, Sum P(2) = 3.2e-73
 Identities = 116/164 (70%), Positives = 131/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 274

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0019899 "enzyme binding" evidence=IPI

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

GO:0006397 "mRNA processing" evidence=TAS

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

GO:0005681 "spliceosomal complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

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

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

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

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

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

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

 Score = 591 (213.1 bits), Expect = 3.2e-73, Sum P(2) = 3.2e-73
 Identities = 116/164 (70%), Positives = 131/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 274

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IDA

GO:0016607 "nuclear speck" evidence=TAS

GO:0019899 "enzyme binding" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

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

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

 Score = 591 (213.1 bits), Expect = 3.2e-73, Sum P(2) = 3.2e-73
 Identities = 116/164 (70%), Positives = 131/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   112 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNA 171

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   172 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 231

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   232 YQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 274

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

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

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

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

 Score = 586 (211.3 bits), Expect = 1.8e-72, Sum P(2) = 1.8e-72
 Identities = 116/168 (69%), Positives = 131/168 (77%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   105 AAGQIPATALLPTMTPEGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEESMMDFFNA 164

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSLKIRRPHD
Sbjct:   165 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHD 224

Query:   130 YQPTPGVTDNAAVAVPA----GVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP     GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   225 YQPLPGMSENPSVYVPGSLPVGVVSTVVPDSAHKLFIGGLPNYLNDDQ 272

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

 Score = 584 (210.6 bits), Expect = 3.7e-72, Sum P(2) = 3.7e-72
 Identities = 115/164 (70%), Positives = 130/164 (79%)

Query:    12 AAGQIPANVIIPETTXXXXXXXXXXX--XGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
             AAGQIPA  ++P  T              GS +TRQARRLYVGNIPFG+TE+ MM+FFN 
Sbjct:   115 AAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEESMMDFFNA 174

Query:    70 QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHD 129
             QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+ QSLKIRRPHD
Sbjct:   175 QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQAQSLKIRRPHD 234

Query:   130 YQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             YQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:   235 YQPLPGMSENPSVYVP-GVVSTVVPDSIHKLFIGGLPNYLNDDQ 277

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

UNIPROTKB|K7ENG2 U2AF2 "Splicing factor U2AF 65 kDa subunit" [Homo sapiens (taxid:9606)]

 Score = 463 (168.0 bits), Expect = 1.4e-60, Sum P(2) = 1.4e-60
 Identities = 88/111 (79%), Positives = 98/111 (88%)

Query:    63 MMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL 122
             MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DETTQAMAFDGI F+GQSL
Sbjct:     1 MMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSL 60

Query:   123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             KIRRPHDYQP PG+++N +V VP GV+STVVPDS HK+FIGGLPNYLN+DQ
Sbjct:    61 KIRRPHDYQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQ 110

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

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

 Score = 485 (175.8 bits), Expect = 2.6e-55, Sum P(2) = 2.6e-55
 Identities = 100/168 (59%), Positives = 117/168 (69%)

Query:     6 EVLNTGAAGQIPANVIIPETTXXXXXXXXXXXXGSTITRQARRLYVGNIPFGVTEDEMME 65
             E  N  AAGQ+P   +                 G ++T Q+RRLYVGNIPFG  E+ M++
Sbjct:   153 EYKNMQAAGQVPRGSV----------QSAVPVVGPSVTCQSRRLYVGNIPFGCNEEAMLD 202

Query:    66 FFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR 125
             FFNQQMHL GLAQA GNP+L CQINLDKNFAF+EFRSIDETT  MAFDGINF GQ LK+R
Sbjct:   203 FFNQQMHLCGLAQAPGNPILLCQINLDKNFAFIEFRSIDETTAGMAFDGINFMGQQLKVR 262

Query:   126 RPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ 173
             RP DYQP+    D  +  +P   +ST+V DS +KIFIGGLPNYL EDQ
Sbjct:   263 RPRDYQPSQNTFDMNS-RMP---VSTIVVDSANKIFIGGLPNYLTEDQ 306

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

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

GO:0040007 "growth" evidence=IMP

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

GO:0040020 "regulation of meiosis" evidence=IMP

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

GO:0007281 "germ cell development" evidence=IMP

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

GO:0009790 "embryo development" evidence=IMP

GO:0005681 "spliceosomal complex" evidence=ISS

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

GO:0048589 "developmental growth" evidence=IMP

GO:0010172 "embryonic body morphogenesis" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

---

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)
P26369	U2AF2_MOUSE	No assigned EC number	0.6015	0.9220	0.4484	yes	N/A
P26368	U2AF2_HUMAN	No assigned EC number	0.6015	0.9220	0.4484	yes	N/A
Q24562	U2AF2_DROME	No assigned EC number	0.6628	0.9004	0.5	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	231
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	6e-71
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	3e-51
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	9e-14
smart00360	73	smart00360, RRM, RNA recognition motif	1e-11
cd12332	71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	2e-11
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-10
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	1e-09
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-09
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	3e-09
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	4e-08
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	6e-08
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	3e-07
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	5e-07
cd12588	71	cd12588, RRM1_p54nrb, RNA recognition motif 1 in v	9e-07
cd12226	78	cd12226, RRM_NOL8, RNA recognition motif in nucleo	1e-06
cd12336	75	cd12336, RRM_RBM7_like, RNA recognition motif in R	1e-06
cd12404	77	cd12404, RRM2_NCL, RNA recognition motif 2 in vert	2e-06
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	2e-06
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	4e-06
cd12240	78	cd12240, RRM_NCBP2, RNA recognition motif found in	6e-06
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	1e-05
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	1e-05
cd12272	72	cd12272, RRM2_PHIP1, RNA recognition motif 2 in Ar	2e-05
cd12260	85	cd12260, RRM2_SREK1, RNA recognition motif 2 in sp	3e-05
cd12586	71	cd12586, RRM1_PSP1, RNA recognition motif 1 in ver	4e-05
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	9e-05
cd12550	76	cd12550, RRM_II_PABPN1, RNA recognition motif in t	9e-05
cd12409	84	cd12409, RRM1_RRT5, RNA recognition motif 1 in yea	9e-05
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	1e-04
cd12587	71	cd12587, RRM1_PSF, RNA recognition motif 1 in vert	2e-04
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	3e-04
cd12418	75	cd12418, RRM_Aly_REF_like, RNA recognition motif i	4e-04
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	6e-04
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	8e-04
cd12592	75	cd12592, RRM_RBM7, RNA recognition motif in verteb	9e-04
cd12671	75	cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif i	0.001
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	0.001
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	0.001
cd12564	76	cd12564, RRM1_RBM19, RNA recognition motif 1 in RN	0.001
cd12551	77	cd12551, RRM_II_PABPN1L, RNA recognition motif in	0.001
cd12520	74	cd12520, RRM1_MRN1, RNA recognition motif 1 of RNA	0.001
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	0.002
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	0.002
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	0.003
cd12251	72	cd12251, RRM3_hnRNPR_like, RNA recognition motif 3	0.003
cd12401	76	cd12401, RRM_eIF4H, RNA recognition motif in eukar	0.003
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	0.003
cd12397	73	cd12397, RRM2_Nop13p_fungi, RNA recognition motif	0.003
cd12245	79	cd12245, RRM_scw1_like, RNA recognition motif in y	0.003

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

 Score =  224 bits (572), Expect = 6e-71
 Identities = 98/271 (36%), Positives = 117/271 (43%), Gaps = 62/271 (22%)

Query: 8   LNTGAAGQIPANVIIPETTVA--------AAAAAAVPVVGSTITRQARRLYVGNIPFGVT 59
                   +P     P  T                V       TRQARRLYVG IP    
Sbjct: 129 AKASQVFSVPGTAPRPAMTDPEKLLAEGSIITPLPVLPYQQQATRQARRLYVGGIPPEFV 188

Query: 60  EDEMMEFFNQQMHLSGLAQA-AGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFK 118
           E+ +++FFN  M  +G  +A  G  V +  IN +KNFAFLEFR+++E T AMA D I + 
Sbjct: 189 EEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDSIIYS 248

Query: 119 GQSLKIRRPHDYQPTPGVT--------DNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLN 170
              LKIRRPHDY P P +T        D+ A  V   V ST V DS  +I+IG LP YL 
Sbjct: 249 NVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLG 308

Query: 171 EDQ-----------------------------------------AIAGLNGMQLGDKKLI 189
           EDQ                                         AIA LNG   GD KL 
Sbjct: 309 EDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLH 368

Query: 190 VQRASVGAKNA----SGQQAPVQIQVPGLTQ 216
           VQRA VGA  A    S   APV +    L+Q
Sbjct: 369 VQRACVGANQATIDTSNGMAPVTLLAKALSQ 399

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

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

 Score =  160 bits (407), Expect = 3e-51
 Identities = 55/82 (67%), Positives = 69/82 (84%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGN+P G+TE+E+++FFNQ M  +GL QA GNPVL+ QIN +KNFAF+EFR+++E
Sbjct: 1   ARRLYVGNLPPGITEEELVDFFNQAMLAAGLNQAPGNPVLSVQINPEKNFAFVEFRTVEE 60

Query: 106 TTQAMAFDGINFKGQSLKIRRP 127
            T A+A DGI FKGQ LKIRRP
Sbjct: 61  ATAALALDGIIFKGQPLKIRRP 82

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

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

 Score = 63.8 bits (156), Expect = 9e-14
 Identities = 33/77 (42%), Positives = 35/77 (45%), Gaps = 41/77 (53%)

Query: 158 HKIFIGGLPNYLNEDQ-----------------------------------------AIA 176
           +KIFIGGLPNYL+EDQ                                         AIA
Sbjct: 1   NKIFIGGLPNYLSEDQVKELLESFGKLKAFNLVKDSATGLSKGYAFCEYLDPSVTDQAIA 60

Query: 177 GLNGMQLGDKKLIVQRA 193
           GLNGMQLGDKKL VQRA
Sbjct: 61  GLNGMQLGDKKLTVQRA 77

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

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

 Score = 58.0 bits (141), Expect = 1e-11
 Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 18/84 (21%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            L+VGN+P   TE+E+ E F++              V + ++  D      K FAF+EF 
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKF-----------GKVESVRLVRDKETGKSKGFAFVEFE 49

Query: 102 SIDETTQAM-AFDGINFKGQSLKI 124
           S ++  +A+ A +G    G+ LK+
Sbjct: 50  SEEDAEKALEALNGKELDGRPLKV 73

Length = 73

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

 Score = 57.7 bits (140), Expect = 2e-11
 Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 18/82 (21%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           RL+VGN+P  +TE+E  E F             G  V    +N +K F F+    +D  T
Sbjct: 3   RLFVGNLPNDITEEEFKELF----------SKYGE-VSEVFLNKEKGFGFIR---LDTRT 48

Query: 108 QAM----AFDGINFKGQSLKIR 125
            A       DGI  KG+ L++R
Sbjct: 49  NAEKAKAELDGIMRKGRQLRVR 70

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

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

 Score = 55.4 bits (134), Expect = 1e-10
 Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 17/83 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSI 103
           L+VGN+P   TE+++ E F++              + + +I  D     K FAF+EF S 
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFG-----------EIESVRIVRDKDGKSKGFAFVEFESP 49

Query: 104 DETTQAM-AFDGINFKGQSLKIR 125
           ++  +A+ A +G    G+ LK+ 
Sbjct: 50  EDAEKALEALNGKELDGRKLKVS 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|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]

 Score = 57.3 bits (137), Expect = 1e-09
 Identities = 30/137 (21%), Positives = 61/137 (44%), Gaps = 21/137 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEF 100
             L+VGN+P+ VTE+++ E F +             PV   ++  D      + FAF+EF
Sbjct: 116 NTLFVGNLPYDVTEEDLRELFKKF-----------GPVKRVRLVRDRETGKSRGFAFVEF 164

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIRR-PHDYQPTPGVTDNAAVAVPAGVISTVVPDSPH 158
            S +   +A+   +G   +G+ L++++     QP   +++N   +    +          
Sbjct: 165 ESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGKALLLEK 224

Query: 159 --KIFIGGLPNYLNEDQ 173
              +++G LP    E++
Sbjct: 225 SDNLYVGNLPLKTAEEE 241

Length = 306

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

 Score = 52.2 bits (126), Expect = 2e-09
 Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 16/80 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK----NFAFLEFRSID 104
           LYV N+P  VTE+++ EFF+               V   ++  +K     FAF+EF S +
Sbjct: 1   LYVRNLPPSVTEEDLREFFSP-----------YGKVEGVRLVRNKDRPRGFAFVEFASPE 49

Query: 105 ETTQAMA-FDGINFKGQSLK 123
           +   A+   +G+   G++L+
Sbjct: 50  DAEAALKKLNGLVLDGRTLR 69

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

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

 Score = 51.4 bits (124), Expect = 3e-09
 Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 17/81 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSI 103
           L+VGN+P   TE+++ + F++             P+ + +I  D     K FAF+EF   
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKF-----------GPIESIRIVRDETGRSKGFAFVEFEDE 49

Query: 104 DETTQAM-AFDGINFKGQSLK 123
           ++  +A+ A +G    G+ L+
Sbjct: 50  EDAEKALEALNGKELGGRELR 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|240800 cd12354, RRM3_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1

 Score = 48.4 bits (116), Expect = 4e-08
 Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 12/76 (15%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           +YVGN+P G+TE+E+   F+               +   ++  DK +AF+ F + +    
Sbjct: 3   VYVGNLPHGLTEEELQRTFSP-----------FGAIEEVRVFKDKGYAFVRFDTHEAAAT 51

Query: 109 AM-AFDGINFKGQSLK 123
           A+ A +G +  GQ++K
Sbjct: 52  AIVAVNGTSINGQTVK 67

This subfamily corresponds to the RRM3 of TIA-1, TIAR, and PUB1. Nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR) are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. They share high sequence similarity and 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. This subfamily also includes a yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1, termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein, which has been identified as both a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP). It may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. PUB1 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 RRMs, and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 73

>gnl|CDD|240844 cd12398, RRM_CSTF2_RNA15_like, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), yeast ortholog mRNA 3'-end-processing protein RNA15 and similar proteins

 Score = 48.4 bits (116), Expect = 6e-08
 Identities = 23/82 (28%), Positives = 43/82 (52%), Gaps = 18/82 (21%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSI 103
           +VGNIP+  TE++++E F++           G PV++ ++  D      K + F EF  I
Sbjct: 2   FVGNIPYDATEEQLIEIFSE----------VG-PVVSFRLVTDRDTGKPKGYGFCEFEDI 50

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
           +    A+   +G  F G++L++
Sbjct: 51  ETAASAIRNLNGYEFNGRALRV 72

This subfamily corresponds to the RRM domain of CSTF2, its tau variant and eukaryotic homologs. CSTF2, also termed cleavage stimulation factor 64 kDa subunit (CstF64), is the vertebrate conterpart of yeast mRNA 3'-end-processing protein RNA15. It is expressed in all somatic tissues and is one of three cleavage stimulatory factor (CstF) subunits required for polyadenylation. CstF64 contains an N-terminal RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a CstF77-binding domain, a repeated MEARA helical region and a conserved C-terminal domain reported to bind the transcription factor PC-4. During polyadenylation, CstF interacts with the pre-mRNA through the RRM of CstF64 at U- or GU-rich sequences within 10 to 30 nucleotides downstream of the cleavage site. CSTF2T, also termed tauCstF64, is a paralog of the X-linked cleavage stimulation factor CstF64 protein that supports polyadenylation in most somatic cells. It is expressed during meiosis and subsequent haploid differentiation in a more limited set of tissues and cell types, largely in meiotic and postmeiotic male germ cells, and to a lesser extent in brain. The loss of CSTF2T will cause male infertility, as it is necessary for spermatogenesis and fertilization. Moreover, CSTF2T is required for expression of genes involved in morphological differentiation of spermatids, as well as for genes having products that function during interaction of motile spermatozoa with eggs. It promotes germ cell-specific patterns of polyadenylation by using its RRM to bind to different sequence elements downstream of polyadenylation sites than does CstF64. The family also includes yeast ortholog mRNA 3'-end-processing protein RNA15 and similar proteins. RNA15 is a core subunit of cleavage factor IA (CFIA), an essential transcriptional 3'-end processing factor from Saccharomyces cerevisiae. RNA recognition by CFIA is mediated by an N-terminal RRM, which is contained in the RNA15 subunit of the complex. The RRM of RNA15 has a strong preference for GU-rich RNAs, mediated by a binding pocket that is entirely conserved in both yeast and vertebrate RNA15 orthologs. Length = 75

>gnl|CDD|240845 cd12399, RRM_HP0827_like, RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins

 Score = 46.5 bits (111), Expect = 3e-07
 Identities = 23/85 (27%), Positives = 42/85 (49%), Gaps = 18/85 (21%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            LYVGN+P+ VTE+++ + F Q           G  V + ++  D+       F F+E  
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQ----------FG-EVTSARVITDRETGRSRGFGFVEME 49

Query: 102 SIDETTQAM-AFDGINFKGQSLKIR 125
           + +E   A+   +G +F G++L + 
Sbjct: 50  TAEEANAAIEKLNGTDFGGRTLTVN 74

This subfamily corresponds to the RRM of H. pylori HP0827, a putative ssDNA-binding protein 12rnp2 precursor, containing one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The ssDNA binding may be important in activation of HP0827. . Length = 78

>gnl|CDD|240752 cd12306, RRM_II_PABPs, RNA recognition motif in type II polyadenylate-binding proteins

 Score = 45.7 bits (109), Expect = 5e-07
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 17/81 (20%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRSI 103
           +VGN+ +G T +E+ E F          ++ G  +    I  DK       FA++EF   
Sbjct: 3   FVGNVDYGTTPEELQEHF----------KSCGT-INRITILCDKFTGQPKGFAYIEFLDK 51

Query: 104 DETTQAMAFDGINFKGQSLKI 124
                A+  +   F+G+ +K+
Sbjct: 52  SSVENALLLNESEFRGRQIKV 72

This subfamily corresponds to the RRM of type II polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 2 (PABP-2 or PABPN1), embryonic polyadenylate-binding protein 2 (ePABP-2 or PABPN1L) and similar proteins. PABPs are 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. ePABP-2 is predominantly located in the cytoplasm and PABP-2 is located in the nucleus. In contrast to the type I PABPs containing four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), the type II PABPs contains a single highly-conserved RRM. This subfamily also includes Saccharomyces cerevisiae RBP29 (SGN1, YIR001C) gene encoding cytoplasmic mRNA-binding protein Rbp29 that binds preferentially to poly(A). Although not essential for cell viability, Rbp29 plays a role in modulating the expression of cytoplasmic mRNA. Like other type II PABPs, Rbp29 contains one RRM only. . Length = 73

>gnl|CDD|241032 cd12588, RRM1_p54nrb, RNA recognition motif 1 in vertebrate 54 kDa nuclear RNA- and DNA-binding protein (p54nrb)

 Score = 44.9 bits (106), Expect = 9e-07
 Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 14/80 (17%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAF--LEFRSIDE 105
           RL+VGN+P  +TE+EM + F +      +            I+ DK F F  LE R++ E
Sbjct: 3   RLFVGNLPPDITEEEMRKLFEKYGKAGEIF-----------IHKDKGFGFIRLETRTLAE 51

Query: 106 TTQAMAFDGINFKGQSLKIR 125
             +A   D +  +G+ L++R
Sbjct: 52  IAKA-ELDNMPLRGKQLRVR 70

This subgroup corresponds to the RRM1 of p54nrb, also termed non-POU domain-containing octamer-binding protein (NonO), or 55 kDa nuclear protein (NMT55), or DNA-binding p52/p100 complex 52 kDa subunit. p54nrb is a multifunctional protein involved in numerous nuclear processes including transcriptional regulation, splicing, DNA unwinding, nuclear retention of hyperedited double-stranded RNA, viral RNA processing, control of cell proliferation, and circadian rhythm maintenance. It is ubiquitously expressed and highly conserved in vertebrates. p54nrb binds both, single- and double-stranded RNA and DNA, and also possesses inherent carbonic anhydrase activity. It forms a heterodimer with paraspeckle component 1 (PSPC1 or PSP1), localizing to paraspeckles in an RNA-dependent manneras well as with polypyrimidine tract-binding protein-associated-splicing factor (PSF). p54nrb contains two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at the N-terminus. . Length = 71

>gnl|CDD|240672 cd12226, RRM_NOL8, RNA recognition motif in nucleolar protein 8 (NOL8) and similar proteins

 Score = 44.9 bits (107), Expect = 1e-06
 Identities = 20/86 (23%), Positives = 36/86 (41%), Gaps = 21/86 (24%)

Query: 48  RLYVGNIPFGVTEDEMMEFF-------NQQMHLSGLAQAAGNPVLACQINLDKNFAFLEF 100
           RL+VG +   VTE ++ E F       + ++     A              D+ FA+++ 
Sbjct: 1   RLFVGGLSPSVTESDLEERFSRFGTVSDVEIIKKKDA------------GPDRGFAYIDL 48

Query: 101 RSIDET-TQAM-AFDGINFKGQSLKI 124
           R+ +    +     +G  +KG  LKI
Sbjct: 49  RTSEAQLKKCKSTLNGTKWKGSVLKI 74

This model corresponds to the RRM of NOL8 (also termed Nop132) encoded by a novel NOL8 gene that is up-regulated in the majority of diffuse-type, but not intestinal-type, gastric cancers. Thus, NOL8 may be a good molecular target for treatment of diffuse-type gastric cancer. Also, NOL8 is a phosphorylated protein that contains an N-terminal RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), suggesting NOL8 is likely to function as a novel RNA-binding protein. It may be involved in regulation of gene expression at the post-transcriptional level or in ribosome biogenesis in cancer cells. Length = 78

>gnl|CDD|240782 cd12336, RRM_RBM7_like, RNA recognition motif in RNA-binding protein 7 (RBM7) and similar proteins

 Score = 44.6 bits (106), Expect = 1e-06
 Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 13/83 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLA---QAAGNPVLACQINLDKNFAFLEFRSI 103
           R L+VGN+   VTE+ + E F Q   L G+       G P         K+FAF+ F+  
Sbjct: 2   RTLFVGNLDARVTEEILYELFLQAGPLEGVKIPKDPNGKP---------KSFAFVTFKHE 52

Query: 104 DETTQAMA-FDGINFKGQSLKIR 125
                A+   +GI   G+ L+I+
Sbjct: 53  VSVPYAIQLLNGIRLFGRELRIK 75

This subfamily corresponds to the RRM of RBM7, RBM11 and their eukaryotic homologous. RBM7 is an ubiquitously expressed pre-mRNA splicing factor that enhances messenger RNA (mRNA) splicing in a cell-specific manner or in a certain developmental process, such as spermatogenesis. It interacts with splicing factors SAP145 (the spliceosomal splicing factor 3b subunit 2) and SRp20, and may play a more specific role in meiosis entry and progression. Together with additional testis-specific RNA-binding proteins, RBM7 may regulate the splicing of specific pre-mRNA species that are important in the meiotic cell cycle. RBM11 is a novel tissue-specific splicing regulator that is selectively expressed in brain, cerebellum and testis, and to a lower extent in kidney. It is localized in the nucleoplasm and enriched in SRSF2-containing splicing speckles. It may play a role in the modulation of alternative splicing during neuron and germ cell differentiation. Both, RBM7 and RBM11, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. The RRM is responsible for RNA binding, whereas the C-terminal region permits nuclear localization and homodimerization. . Length = 75

>gnl|CDD|240850 cd12404, RRM2_NCL, RNA recognition motif 2 in vertebrate nucleolin

 Score = 44.1 bits (104), Expect = 2e-06
 Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 10/82 (12%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R AR L+V N+P+ +T DE+ E F   + +   +   G+          K  A++EF++ 
Sbjct: 1   RDARTLFVKNLPYNITVDELKEVFEDAVDIRLPSGKDGS---------SKGIAYIEFKTE 51

Query: 104 DETTQAMA-FDGINFKGQSLKI 124
            E  +A+    G    G+S+ +
Sbjct: 52  AEAEKALEEKQGAEVDGRSIVV 73

This subfamily corresponds to the RRM2 of ubiquitously expressed protein nucleolin, also termed protein C23, a multifunctional major nucleolar phosphoprotein that has been implicated in various metabolic processes, such as ribosome biogenesis, cytokinesis, nucleogenesis, cell proliferation and growth, cytoplasmic-nucleolar transport of ribosomal components, transcriptional repression, replication, signal transduction, inducing chromatin decondensation, etc. Nucleolin exhibits intrinsic self-cleaving, DNA helicase, RNA helicase and DNA-dependent ATPase activities. It can be phosphorylated by many protein kinases, such as the major mitotic kinase Cdc2, casein kinase 2 (CK2), and protein kinase C-zeta. Nucleolin shares similar domain architecture with gar2 from Schizosaccharomyces pombe and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of nucleolin is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of nucleolin contains four closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which suggests that nucleolin is potentially able to interact with multiple RNA targets. The C-terminal RGG (or GAR) domain of nucleolin is rich in glycine, arginine and phenylalanine residues, and contains high levels of NG,NG-dimethylarginines.RRM2, together with RRM1, binds specifically to RNA stem-loops containing the sequence (U/G)CCCG(A/G) in the loop. . Length = 77

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 17/83 (20%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFN-----QQMHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           R ++VG I   ++ED++ EFF+      ++ L G  Q                FAF+EF 
Sbjct: 1   RTIHVGGIDGSLSEDDLKEFFSNCGEVTRVRLCGDRQH------------SARFAFVEFA 48

Query: 102 SIDETTQAMAFDGINFKGQSLKI 124
             +    A+   G    G  L++
Sbjct: 49  DAESALSALNLSGTLLGGHPLRV 71

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

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

 Score = 43.3 bits (103), Expect = 4e-06
 Identities = 23/82 (28%), Positives = 38/82 (46%), Gaps = 19/82 (23%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSI 103
           +VGN+PF + E+E+ + F                V A +I       + K F ++ F++ 
Sbjct: 3   FVGNLPFDIEEEELRKHFEDCG-----------DVEAVRIVRDRKTGIGKGFGYVLFKTK 51

Query: 104 DETTQAMAFDGINFKGQSLKIR 125
           D    A+  +GI  KG+  KIR
Sbjct: 52  DSVALALKLNGIKLKGR--KIR 71

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

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

 Score = 42.5 bits (101), Expect = 6e-06
 Identities = 17/83 (20%), Positives = 38/83 (45%), Gaps = 18/83 (21%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRS 102
           LYVGN+ F  TE+++ E F++              +    + LD+       F F+E+ +
Sbjct: 1   LYVGNLSFYTTEEQIYELFSR-----------CGDIKRIIMGLDRFTKTPCGFCFVEYYT 49

Query: 103 IDETTQAMAF-DGINFKGQSLKI 124
            ++   A+ + +G     + +++
Sbjct: 50  REDAENAVKYLNGTKLDDRIIRV 72

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

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

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 16/83 (19%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQ-----QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           RL+V N+PF  TE+E+ E F       ++HL  L +              K FAF+ F  
Sbjct: 1   RLFVRNLPFTTTEEELRELFEAFGEISEVHLP-LDKETKRS---------KGFAFVSFMF 50

Query: 103 IDETTQAM-AFDGINFKGQSLKI 124
            +   +A    DG  F+G+ L +
Sbjct: 51  PEHAVKAYSELDGSIFQGRLLHV 73

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

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

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 28/117 (23%), Positives = 45/117 (38%), Gaps = 22/117 (18%)

Query: 24  ETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNP 83
           E   AA AA   P           +LYVGN+ F +TE E+ + F                
Sbjct: 168 EKNRAAKAATHQPGDI----PNFLKLYVGNLHFNITEQELRQIFE-----------PFGD 212

Query: 84  VLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPT 133
           +   Q++ D      K F F++F   +E  +A+   +G    G+ +K+    D    
Sbjct: 213 IEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYL 269

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|240718 cd12272, RRM2_PHIP1, RNA recognition motif 2 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 18/83 (21%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            +Y+GN+ + +TED++ EFF             G  + + ++  DK       F  ++F 
Sbjct: 1   TVYIGNLAWDITEDDVREFF------------KGCEITSVRLATDKETGEFKGFGHVDFA 48

Query: 102 SIDETTQAMAFDGINFKGQSLKI 124
             +    A+  DG    G+ ++I
Sbjct: 49  DEESLDAALKLDGTVLCGRPIRI 71

The CD corresponds to the RRM2 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

>gnl|CDD|240706 cd12260, RRM2_SREK1, RNA recognition motif 2 in splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 7/78 (8%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R +YVGN+    T D+++EFF+Q   +    + AG+            +AF+EF      
Sbjct: 5   RTIYVGNLDPTTTADQLLEFFSQAGEVK-YVRMAGDE------TQPTRYAFVEFAEQTSV 57

Query: 107 TQAMAFDGINFKGQSLKI 124
             A+  +G  F G+ LK+
Sbjct: 58  INALKLNGAMFGGRPLKV 75

This subfamily corresponds to the RRM2 of SREK1, also termed serine/arginine-rich-splicing regulatory protein 86-kDa (SRrp86), or splicing factor arginine/serine-rich 12 (SFRS12), or splicing regulatory protein 508 amino acid (SRrp508). SREK1 belongs to a family of proteins containing regions rich in serine-arginine dipeptides (SR proteins family), which is involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. It is a unique SR family member and it may play a crucial role in determining tissue specific patterns of alternative splicing. SREK1 can alter splice site selection by both positively and negatively modulating the activity of other SR proteins. For instance, SREK1 can activate SRp20 and repress SC35 in a dose-dependent manner both in vitro and in vivo. In addition, SREK1 contains two (some contain only one) RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and two serine-arginine (SR)-rich domains (SR domains) separated by an unusual glutamic acid-lysine (EK) rich region. The RRM and SR domains are highly conserved among other members of the SR superfamily. However, the EK domain is unique to SREK1. It plays a modulatory role controlling SR domain function by involvement in the inhibition of both constitutive and alternative splicing and in the selection of splice-site. . Length = 85

>gnl|CDD|241030 cd12586, RRM1_PSP1, RNA recognition motif 1 in vertebrate paraspeckle protein 1 (PSP1)

 Score = 40.3 bits (94), Expect = 4e-05
 Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 14/80 (17%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAF--LEFRSIDE 105
           RL+VGN+P  +TE++  + F +           G P     IN D+ F F  LE R++ E
Sbjct: 3   RLFVGNLPTDITEEDFKKLFEKY----------GEPS-EVFINRDRGFGFIRLESRTLAE 51

Query: 106 TTQAMAFDGINFKGQSLKIR 125
             +A   DG   K + L+IR
Sbjct: 52  IAKA-ELDGTILKNRPLRIR 70

This subgroup corresponds to the RRM1 of PSPC1, also termed paraspeckle component 1 (PSPC1), a novel nucleolar factor that accumulates within a new nucleoplasmic compartment, termed paraspeckles, and diffusely distributes in the nucleoplasm. It is ubiquitously expressed and highly conserved in vertebrates. Its cellular function remains unknown currently, however, PSPC1 forms a novel heterodimer with the nuclear protein p54nrb, also known as non-POU domain-containing octamer-binding protein (NonO), which localizes to paraspeckles in an RNA-dependent manner. PSPC1 contains two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at the N-terminus. . Length = 71

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

 Score = 39.2 bits (92), Expect = 9e-05
 Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 15/80 (18%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---FAFLEFRSIDE 105
           LYVGN+   VTED + E F+Q             P+ +C++  +     +AF+E+     
Sbjct: 1   LYVGNLDRTVTEDLLAELFSQ-----------IGPIKSCKLIREHGNDPYAFVEYYDHRS 49

Query: 106 TTQA-MAFDGINFKGQSLKI 124
              A    +G    GQ +K+
Sbjct: 50  AAAALQTMNGRLILGQEIKV 69

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

>gnl|CDD|240994 cd12550, RRM_II_PABPN1, RNA recognition motif in type II polyadenylate-binding protein 2 (PABP-2) and similar proteins

 Score = 39.4 bits (92), Expect = 9e-05
 Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 13/80 (16%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLA----QAAGNPVLACQINLDKNFAFLEFRSID 104
           +YVGN+ +G T +E+   F+    ++ +     + +G+P         K FA++EF   +
Sbjct: 2   VYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHP---------KGFAYIEFSDKE 52

Query: 105 ETTQAMAFDGINFKGQSLKI 124
               A+A D   F+G+ +K+
Sbjct: 53  SVRTALALDESLFRGRQIKV 72

This subgroup corresponds to the RRM of PABP-2, also termed poly(A)-binding protein 2, or nuclear poly(A)-binding protein 1 (PABPN1), or poly(A)-binding protein II (PABII), which is a ubiquitously expressed type II nuclear poly(A)-binding protein that directs the elongation of mRNA poly(A) tails during pre-mRNA processing. Although PABP-2 binds poly(A) with high affinity and specificity as type I poly(A)-binding proteins, it contains only one highly conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is responsible for the poly(A) binding. In addition, PABP-2 possesses an acidic N-terminal domain that is essential for the stimulation of PAP, and an arginine-rich C-terminal domain. . Length = 76

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

 Score = 39.7 bits (93), Expect = 9e-05
 Identities = 17/81 (20%), Positives = 38/81 (46%), Gaps = 5/81 (6%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNF--AFLEFRSIDE 105
           R+Y+ N+ +  +E+++ EF      +S L  +    V   +    +    A+ EF S ++
Sbjct: 1   RVYISNLSYSSSEEDLEEFLKDFEPVSVLIPS--QTVRGFRSRRVRPLGIAYAEFSSPEQ 58

Query: 106 TTQAM-AFDGINFKGQSLKIR 125
             + +   +G  FK + L ++
Sbjct: 59  AEKVVKDLNGKVFKNRKLFVK 79

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

>gnl|CDD|240730 cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 18/83 (21%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRS 102
           LYVGN+ F +TED++   F                +   Q+  D      K + F++F  
Sbjct: 1   LYVGNLHFNITEDDLRGIFE-----------PFGEIEFVQLQRDPETGRSKGYGFIQFAD 49

Query: 103 IDETTQAMA-FDGINFKGQSLKI 124
            ++  +A+   +G    G+ +K+
Sbjct: 50  AEDAKKALEQLNGFELAGRPIKV 72

This subfamily corresponds to the RRM2 of RBM39 (also termed HCC1), a 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. Although the cellular function of RBM23 remains unclear, it shows high sequence homology to RBM39 and contains two RRMs. It may possibly function as a pre-mRNA splicing factor. . Length = 73

>gnl|CDD|241031 cd12587, RRM1_PSF, RNA recognition motif 1 in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 14/80 (17%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAF--LEFRSIDE 105
           RL+VGN+P  +TEDE  + F +           G P     IN  K F F  LE R++ E
Sbjct: 3   RLFVGNLPADITEDEFKKLFAKY----------GEPG-EVFINKGKGFGFIKLESRALAE 51

Query: 106 TTQAMAFDGINFKGQSLKIR 125
             +A   D    +G+ L++R
Sbjct: 52  IAKA-ELDDTPMRGRQLRVR 70

This subgroup corresponds to the RRM1 of PSF, also termed proline- and glutamine-rich splicing factor, or 100 kDa DNA-pairing protein (POMp100), or 100 kDa subunit of DNA-binding p52/p100 complex, a multifunctional protein that mediates diverse activities in the cell. It is ubiquitously expressed and highly conserved in vertebrates. PSF binds not only RNA but also both single-stranded DNA (ssDNA) and double-stranded DNA (dsDNA) and facilitates the renaturation of complementary ssDNAs. Besides, it promotes the formation of D-loops in superhelical duplex DNA, and is involved in cell proliferation. PSF can also interact with multiple factors. It is an RNA-binding component of spliceosomes and binds to insulin-like growth factor response element (IGFRE). PSF functions as a transcriptional repressor interacting with Sin3A and mediating silencing through the recruitment of histone deacetylases (HDACs) to the DNA binding domain (DBD) of nuclear hormone receptors. Additionally, PSF is an essential pre-mRNA splicing factor and is dissociated from PTB and binds to U1-70K and serine-arginine (SR) proteins during apoptosis. PSF forms a heterodimer with the nuclear protein p54nrb, also known as non-POU domain-containing octamer-binding protein (NonO). The PSF/p54nrb complex displays a variety of functions, such as DNA recombination and RNA synthesis, processing, and transport. PSF contains two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for interactions with RNA and for the localization of the protein in speckles. It also contains an N-terminal region rich in proline, glycine, and glutamine residues, which may play a role in interactions recruiting other molecules. . Length = 71

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

 Score = 38.1 bits (89), Expect = 3e-04
 Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 16/82 (19%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRS 102
            L+VGN+ +   +D++ EFF          +  G  V+  +I  D     K F  +EF +
Sbjct: 1   TLFVGNLSWSAEQDDLEEFF----------KECG-EVVDVRIAQDDDGRSKGFGHVEFAT 49

Query: 103 IDETTQAMAFDGINFKGQSLKI 124
            +   +A+   G    G+ +++
Sbjct: 50  EEGAQKALEKSGEELLGREIRV 71

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

>gnl|CDD|240864 cd12418, RRM_Aly_REF_like, RNA recognition motif in the Aly/REF family

 Score = 37.6 bits (88), Expect = 4e-04
 Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 17/83 (20%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRS 102
           RL V N+ + VTE+++ E F                V   +IN D++      A + F  
Sbjct: 2   RLRVSNLHYDVTEEDLEELF-----------GRVGEVKKVKINYDRSGRSEGTADVVFEK 50

Query: 103 IDETTQAMA-FDGINFKGQSLKI 124
            ++  +A+  F+G+   GQ +++
Sbjct: 51  REDAERAIKQFNGVLLDGQPMQV 73

This subfamily corresponds to the RRM of Aly/REF family which includes THO complex subunit 4 (THOC4, also termed Aly/REF), S6K1 Aly/REF-like target (SKAR, also termed PDIP3 or PDIP46) and similar proteins. THOC4 is an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus, and was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid, and might be a novel transcription cofactor for erythroid-specific genes. SKAR shows high sequence homology with THOC4 and possesses one RRM as well. SKAR is widely expressed and localizes to the nucleus. It may be a critical player in the function of S6K1 in cell and organism growth control by binding the activated, hyperphosphorylated form of S6K1 but not S6K2. Furthermore, SKAR functions as a protein partner of the p50 subunit of DNA polymerase delta. In addition, SKAR may have particular importance in pancreatic beta cell size determination and insulin secretion. . Length = 75

>gnl|CDD|240858 cd12412, RRM_DAZL_BOULE, RNA recognition motif in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE

 Score = 37.3 bits (87), Expect = 6e-04
 Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 16/84 (19%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRS 102
           R++VG IP   TE+E+ +FF++              V   +I  D     K + F+ F +
Sbjct: 4   RIFVGGIPPDTTEEELRDFFSRFGS-----------VKDVKIITDRAGVSKGYGFVTFET 52

Query: 103 IDETTQAMAFDGINFKGQSLKIRR 126
            ++  + +A   +NF+G+ L I  
Sbjct: 53  QEDAEKILAMGNLNFRGKKLNIGP 76

This subfamily corresponds to the RRM domain of two Deleted in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE. BOULE is the founder member of the family and DAZL arose from BOULE in an ancestor of vertebrates. The DAZ gene subsequently originated from a duplication transposition of the DAZL gene. Invertebrates contain a single DAZ homolog, BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. The family members encode closely related RNA-binding proteins that are required for fertility in numerous organisms. These proteins contain an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a varying number of copies of a DAZ motif, believed to mediate protein-protein interactions. DAZL and BOULE contain a single copy of the DAZ motif, while DAZ proteins can contain 8-24 copies of this repeat. Although their specific biochemical functions remain to be investigated, DAZL proteins may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 80

>gnl|CDD|240838 cd12392, RRM2_SART3, RNA recognition motif 2 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 37.0 bits (86), Expect = 8e-04
 Identities = 18/81 (22%), Positives = 39/81 (48%), Gaps = 13/81 (16%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQA---AGNPVLACQINLDKNFAFLEFRSID 104
           +L+V  +PF VT++E+ + F +   +  +      +G P         K  A++E+ +  
Sbjct: 4   KLFVSGLPFSVTKEELEKLFKKHGVVKSVRLVTNRSGKP---------KGLAYVEYENES 54

Query: 105 ETTQA-MAFDGINFKGQSLKI 124
             +QA +  DG   K +++ +
Sbjct: 55  SASQAVLKMDGTEIKEKTISV 75

This subfamily corresponds to the RRM2 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), is an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|241036 cd12592, RRM_RBM7, RNA recognition motif in vertebrate RNA-binding protein 7 (RBM7)

 Score = 36.8 bits (85), Expect = 9e-04
 Identities = 29/85 (34%), Positives = 41/85 (48%), Gaps = 17/85 (20%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFR 101
           R L+VGN+   VTE+ + E F Q          AG PV+  +I  DK+     FAF+ F+
Sbjct: 2   RTLFVGNLDPKVTEELIFELFLQ----------AG-PVIKVKIPKDKDGKPKQFAFVNFK 50

Query: 102 SIDETTQAMA-FDGINFKGQSLKIR 125
                  AM   +GI   G+ L I+
Sbjct: 51  HEVSVPYAMNLLNGIKLYGRPLNIQ 75

This subfamily corresponds to the RRM of RBM7, a ubiquitously expressed pre-mRNA splicing factor that enhances messenger RNA (mRNA) splicing in a cell-specific manner or in a certain developmental process, such as spermatogenesis. RBM7 interacts with splicing factors SAP145 (the spliceosomal splicing factor 3b subunit 2) and SRp20. It may play a more specific role in meiosis entry and progression. Together with additional testis-specific RNA-binding proteins, RBM7 may regulate the splicing of specific pre-mRNA species that are important in the meiotic cell cycle. RBM7 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. . Length = 75

>gnl|CDD|241115 cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 20/83 (24%), Positives = 41/83 (49%), Gaps = 18/83 (21%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRS 102
           ++VGNIP+  TE+++ + F++           G PV++ ++  D      K + F E++ 
Sbjct: 1   VFVGNIPYEATEEQLKDIFSE----------VG-PVVSFRLVYDRETGKPKGYGFCEYKD 49

Query: 103 IDETTQAMA-FDGINFKGQSLKI 124
            +    AM   +G    G+ L++
Sbjct: 50  QETALSAMRNLNGYELNGRQLRV 72

This subgroup corresponds to the RRM domain of CSTF2, its tau variant and eukaryotic homologs. CSTF2, also termed cleavage stimulation factor 64 kDa subunit (CstF64), is the vertebrate conterpart of yeast mRNA 3'-end-processing protein RNA15. It is expressed in all somatic tissues and is one of three cleavage stimulatory factor (CstF) subunits required for polyadenylation. CstF64 contains an N-terminal RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a CstF77-binding domain, a repeated MEARA helical region and a conserved C-terminal domain reported to bind the transcription factor PC-4. During polyadenylation, CstF interacts with the pre-mRNA through the RRM of CstF64 at U- or GU-rich sequences within 10 to 30 nucleotides downstream of the cleavage site. CSTF2T, also termed tauCstF64, is a paralog of the X-linked cleavage stimulation factor CstF64 protein that supports polyadenylation in most somatic cells. It is expressed during meiosis and subsequent haploid differentiation in a more limited set of tissues and cell types, largely in meiotic and postmeiotic male germ cells, and to a lesser extent in brain. The loss of CSTF2T will cause male infertility, as it is necessary for spermatogenesis and fertilization. Moreover, CSTF2T is required for expression of genes involved in morphological differentiation of spermatids, as well as for genes having products that function during interaction of motile spermatozoa with eggs. It promotes germ cell-specific patterns of polyadenylation by using its RRM to bind to different sequence elements downstream of polyadenylation sites than does CstF64. . Length = 75

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

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 23/92 (25%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
           R +++ N+PF  TE+E+ E F+Q           G  V   +I  DK        AF++F
Sbjct: 1   RTVFIRNLPFDATEEELKELFSQ----------FG-EVKYARIVKDKLTGHSKGTAFVKF 49

Query: 101 RSID------ETTQAMAFDGINFKGQSLKIRR 126
           ++ +      E        G++  G+ L +  
Sbjct: 50  KTKESAQKCLEAADNAEDSGLSLDGRRLIVTL 81

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

>gnl|CDD|240848 cd12402, RRM_eIF4B, RNA recognition motif in eukaryotic translation initiation factor 4B (eIF-4B) and similar proteins

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 9/77 (11%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSG--LAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           Y+GN+P+ VTE+++ EFF + +++S   L +  G+P         + F + EF   D   
Sbjct: 5   YLGNLPYDVTEEDIKEFF-RGLNVSSVRLPREPGDPGRL------RGFGYAEFEDRDSLL 57

Query: 108 QAMAFDGINFKGQSLKI 124
           QA++ +  + K + +++
Sbjct: 58  QALSLNDESLKNRRIRV 74

This subfamily corresponds to the RRM of eIF-4B, a multi-domain RNA-binding protein that has been primarily implicated in promoting the binding of 40S ribosomal subunits to mRNA during translation initiation. It contains two RNA-binding domains; the N-terminal well-conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), binds the 18S rRNA of the 40S ribosomal subunit and the C-terminal basic domain (BD), including two arginine-rich motifs (ARMs), binds mRNA during initiation, and is primarily responsible for the stimulation of the helicase activity of eIF-4A. eIF-4B also contains a DRYG domain (a region rich in Asp, Arg, Tyr, and Gly amino acids) in the middle, which is responsible for both, self-association of eIF-4B and binding to the p170 subunit of eIF3. Additional research indicates that eIF-4B can interact with the poly(A) binding protein (PABP) in mammalian cells, which can stimulate both, the eIF-4B-mediated activation of the helicase activity of eIF-4A and binding of poly(A) by PABP. eIF-4B has also been shown to interact specifically with the internal ribosome entry sites (IRES) of several picornaviruses which facilitate cap-independent translation initiation. . Length = 77

>gnl|CDD|241008 cd12564, RRM1_RBM19, RNA recognition motif 1 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 16/70 (22%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRS 102
           RL V N+P G+ ED++ + F            A   +   Q+   K+     F F+ +++
Sbjct: 2   RLIVKNLPKGIKEDKLRKLF-----------EAFGTITDVQLKYTKDGKFRKFGFVGYKT 50

Query: 103 IDETTQAMAF 112
            +E  +A+  
Sbjct: 51  EEEAQKALKH 60

This subgroup corresponds to the RRM1 of RBM19, also termed RNA-binding domain-1 (RBD-1), a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

>gnl|CDD|240995 cd12551, RRM_II_PABPN1L, RNA recognition motif in vertebrate type II embryonic polyadenylate-binding protein 2 (ePABP-2)

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 21/80 (26%), Positives = 43/80 (53%), Gaps = 13/80 (16%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLA----QAAGNPVLACQINLDKNFAFLEFRSID 104
           +YVGN+ +G T +E+   F+    ++ +     + +G+P         K +A++EF + D
Sbjct: 2   VYVGNVDYGSTAEELEAHFSGCGPINRVTILCDKFSGHP---------KGYAYIEFATRD 52

Query: 105 ETTQAMAFDGINFKGQSLKI 124
               A+A D  +F+G+ +K+
Sbjct: 53  SVEAAVALDESSFRGRVIKV 72

This subgroup corresponds to the RRM of ePABP-2, also termed embryonic poly(A)-binding protein 2, or poly(A)-binding protein nuclear-like 1 (PABPN1L). ePABP-2 is a novel embryonic-specific cytoplasmic type II poly(A)-binding protein that is expressed during the early stages of vertebrate development and in adult ovarian tissue. It may play an important role in the poly(A) metabolism of stored mRNAs during early vertebrate development. ePABP-2 shows significant sequence similarity to the ubiquitously expressed nuclear polyadenylate-binding protein 2 (PABP-2 or PABPN1). Like PABP-2, ePABP-2 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is responsible for the poly(A) binding. In addition, it possesses an acidic N-terminal domain predicted to form a coiled-coil and an arginine-rich C-terminal domain. . Length = 77

>gnl|CDD|240964 cd12520, RRM1_MRN1, RNA recognition motif 1 of RNA-binding protein MRN1 and similar proteins

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 21/84 (25%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R +Y+GN+P   T  E+            L+     P+   +I  +KN AF+ F  +D +
Sbjct: 2   RTVYLGNLPPNTTVKEL------------LSHVRSGPIENVRILPEKNCAFISF--LDPS 47

Query: 107 TQAMAF------DGINFKGQSLKI 124
             A AF        ++ KG  LKI
Sbjct: 48  A-ATAFHSDAILKRLSIKGVELKI 70

This subgroup corresponds to the RRM1 of MRN1, also termed multicopy suppressor of RSC-NHP6 synthetic lethality protein 1, or post-transcriptional regulator of 69 kDa,which is a RNA-binding protein found in yeast. Although its specific biological role remains unclear, MRN1 might be involved in translational regulation. Members in this family contain four copies of conserved RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 74

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

 Score = 38.3 bits (89), Expect = 0.002
 Identities = 29/136 (21%), Positives = 55/136 (40%), Gaps = 26/136 (19%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           R  R ++V  +     E ++ EFF++           G  V   Q   D+N       A+
Sbjct: 87  RDDRTVFVLQLALKARERDLYEFFSK----------VG-KVRDVQCIKDRNSRRSKGVAY 135

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSP 157
           +EF  ++   +A+A  G    G+ + +      Q +    + AA A  A      +P + 
Sbjct: 136 VEFYDVESVIKALALTGQMLLGRPIIV------QSSQAEKNRAAKA--ATHQPGDIP-NF 186

Query: 158 HKIFIGGLPNYLNEDQ 173
            K+++G L   + E +
Sbjct: 187 LKLYVGNLHFNITEQE 202

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|240717 cd12271, RRM1_PHIP1, RNA recognition motif 1 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 17/83 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL---DKNF---AFLEFRS 102
           +YVG IP+  TEDE+  +F             G  +    +        F   AF+ F++
Sbjct: 1   VYVGGIPYYSTEDEIRSYF----------SYCG-EIEELDLMTFPDTGRFRGIAFITFKT 49

Query: 103 IDETTQAMAFDGINFKGQSLKIR 125
            +   +A+A DG +  G+ LK+ 
Sbjct: 50  EEAAKRALALDGEDMGGRFLKVE 72

This subfamily corresponds to the RRM1 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

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

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 18/83 (21%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRS 102
           L+V N+P+  T++++ EFF++           G P+  C +  DK       F ++ F  
Sbjct: 2   LFVRNLPYDTTDEQLEEFFSE----------VG-PIKRCFVVKDKGSKKCRGFGYVTFAL 50

Query: 103 IDETTQAMA-FDGINFKGQSLKI 124
            ++  +A+       F G+ + +
Sbjct: 51  EEDAKRALEEKKKTKFGGRKIHV 73

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|240697 cd12251, RRM3_hnRNPR_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein R (hnRNP R) and similar proteins

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 14/77 (18%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           LYV N+P   TE+++ E F++   +              ++   K++AF+ F   D+  +
Sbjct: 4   LYVRNLPLSTTEEQLRELFSEYGEVE-------------RVKKIKDYAFVHFEERDDAVK 50

Query: 109 AM-AFDGINFKGQSLKI 124
           AM   +G   +G  +++
Sbjct: 51  AMEEMNGKELEGSPIEV 67

This subfamily corresponds to the RRM3 in hnRNP R, hnRNP Q, and APOBEC-1 complementation factor (ACF). hnRNP R is a ubiquitously expressed nuclear RNA-binding protein that specifically bind mRNAs with a preference for poly(U) stretches and has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. hnRNP Q is also a ubiquitously expressed nuclear RNA-binding protein. It has been identified as a component of the spliceosome complex, as well as a component of the apobec-1 editosome, and has been implicated in the regulation of specific mRNA transport. ACF is an RNA-binding subunit of a core complex that interacts with apoB mRNA to facilitate C to U RNA editing. It may also act as an apoB mRNA recognition factor and chaperone and play a key role in cell growth and differentiation. This family also includes two functionally unknown RNA-binding proteins, RBM46 and RBM47. All members contain three conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Length = 72

>gnl|CDD|240847 cd12401, RRM_eIF4H, RNA recognition motif in eukaryotic translation initiation factor 4H (eIF-4H) and similar proteins

 Score = 35.4 bits (82), Expect = 0.003
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 18/81 (22%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSI 103
           +VGN+PF   + ++   F     LS         V + ++  D      K F ++EF  +
Sbjct: 5   FVGNLPFNTVQGDLDAIFK---DLS---------VKSVRLVRDKETDKFKGFCYVEFEDV 52

Query: 104 DETTQAMAFDGINFKGQSLKI 124
           +   +A+ +DG  F  +SL++
Sbjct: 53  ESLKEALEYDGALFDDRSLRV 73

This subfamily corresponds to the RRM of eIF-4H, also termed Williams-Beuren syndrome chromosomal region 1 protein, which, together with elf-4B/eIF-4G, serves as the accessory protein of RNA helicase eIF-4A. eIF-4H contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It stimulates protein synthesis by enhancing the helicase activity of eIF-4A in the initiation step of mRNA translation. . Length = 76

>gnl|CDD|240776 cd12330, RRM2_Hrp1p, RNA recognition motif 2 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins

 Score = 35.4 bits (82), Expect = 0.003
 Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 17/85 (20%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
           +++VG +P  VTE+E  E+F+Q              V+  Q+  D +      F F+ F 
Sbjct: 1   KIFVGGLPPDVTEEEFKEYFSQF-----------GKVVDAQLMQDHDTGRSRGFGFVTFD 49

Query: 102 SIDETTQAMAFDGINFKGQSLKIRR 126
           S     +  +   +   G+ ++++R
Sbjct: 50  SESAVERVFSAGMLELGGKQVEVKR 74

This subfamily corresponds to the RRM1 of Hrp1p and similar proteins. Hrp1p or Nab4p, also termed cleavage factor IB (CFIB), is a sequence-specific trans-acting factor that is essential for mRNA 3'-end formation in yeast Saccharomyces cerevisiae. It can be UV cross-linked to RNA and specifically recognizes the (UA)6 RNA element required for both, the cleavage and poly(A) addition steps. Moreover, Hrp1p can shuttle between the nucleus and the cytoplasm, and play an additional role in the export of mRNAs to the cytoplasm. Hrp1p also interacts with Rna15p and Rna14p, two components of CF1A. In addition, Hrp1p functions as a factor directly involved in modulating the activity of the nonsense-mediated mRNA decay (NMD) pathway; it binds specifically to a downstream sequence element (DSE)-containing RNA and interacts with Upf1p, a component of the surveillance complex, further triggering the NMD pathway. Hrp1p contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an arginine-glycine-rich region harboring repeats of the sequence RGGF/Y. . Length = 75

>gnl|CDD|240843 cd12397, RRM2_Nop13p_fungi, RNA recognition motif 2 in yeast nucleolar protein 13 (Nop13p) and similar proteins

 Score = 35.1 bits (81), Expect = 0.003
 Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 5/70 (7%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           L+VGN+ F  TEDE+   F +   +  +          C     K FAF++F  I+  T 
Sbjct: 1   LFVGNLSFETTEDELRAHFGRVGRIRRVRMMTFEDSGKC-----KGFAFVDFEEIEFATN 55

Query: 109 AMAFDGINFK 118
           A+    +N +
Sbjct: 56  ALKGKHLNGR 65

This subfamily corresponds to the RRM2 of Nop13p encoded by YNL175c from Saccharomyces cerevisiae. It shares high sequence similarity with nucleolar protein 12 (Nop12p). Both Nop12p and Nop13p are not essential for growth. However, unlike Nop12p that is localized to the nucleolus, Nop13p localizes primarily to the nucleolus but is also present in the nucleoplasm to a lesser extent. Nop13p contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240691 cd12245, RRM_scw1_like, RNA recognition motif in yeast cell wall integrity protein scw1 and similar proteins

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 23/70 (32%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQ-------MHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           L+V N+    TE+E+ + F++Q       MH  G     G PV            F+EF 
Sbjct: 5   LFVANLGPNTTEEELRQLFSRQPGFRRLKMHNKG-----GGPV-----------CFVEFE 48

Query: 102 SIDETTQAMA 111
            +   TQA+ 
Sbjct: 49  DVSFATQALN 58

This subfamily corresponds to the RRM of the family including yeast cell wall integrity protein scw1, yeast Whi3 protein, yeast Whi4 protein and similar proteins. The strong cell wall protein 1, scw1, is a nonessential cytoplasmic RNA-binding protein that regulates septation and cell-wall structure in fission yeast. It may function as an inhibitor of septum formation, such that its loss of function allows weak SIN signaling to promote septum formation. It's RRM domain shows high homology to two budding yeast proteins, Whi3 and Whi4. Whi3 is a dose-dependent modulator of cell size and has been implicated in cell cycle control in the yeast Saccharomyces cerevisiae. It functions as a negative regulator of ceroid-lipofuscinosis, neuronal 3 (Cln3), a G1 cyclin that promotes transcription of many genes to trigger the G1/S transition in budding yeast. It specifically binds the CLN3 mRNA and localizes it into discrete cytoplasmic loci that may locally restrict Cln3 synthesis to modulate cell cycle progression. Moreover, Whi3 plays a key role in cell fate determination in budding yeast. The RRM domain is essential for Whi3 function. Whi4 is a partially redundant homolog of Whi3, also containing one RRM. Some uncharacterized family members of this subfamily contain two RRMs; their RRM1 shows high sequence homology to the RRM of RNA-binding protein with multiple splicing (RBP-MS)-like proteins. Length = 79

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	231
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.92
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.88
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.88
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.86
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.85
KOG0148|consensus	321		99.84
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.81
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.81
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.8
KOG0117|consensus	506		99.8
KOG0109|consensus	346		99.8
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.79
KOG0131|consensus	203		99.78
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.76
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.76
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.73
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.73
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.71
KOG0120|consensus	500		99.71
KOG0145|consensus	360		99.71
KOG0144|consensus	510		99.69
KOG0127|consensus	678		99.68
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.66
PLN03120	260	nucleic acid binding protein; Provisional	99.62
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.6
KOG0127|consensus	678		99.59
KOG0105|consensus	241		99.59
KOG0125|consensus	376		99.57
KOG0121|consensus	153		99.56
KOG0124|consensus	544		99.56
KOG0110|consensus	725		99.55
KOG0145|consensus	360		99.54
PLN03121	243	nucleic acid binding protein; Provisional	99.53
KOG0107|consensus	195		99.51
KOG0148|consensus	321		99.5
KOG0149|consensus	247		99.49
KOG0117|consensus	506		99.49
PLN03213	759	repressor of silencing 3; Provisional	99.49
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.49
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.46
KOG4205|consensus	311		99.45
KOG4206|consensus	221		99.44
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.44
smart00362	72	RRM_2 RNA recognition motif.	99.43
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.41
KOG0123|consensus	369		99.41
KOG0114|consensus	124		99.41
KOG0113|consensus	335		99.39
KOG0123|consensus	369		99.38
KOG0111|consensus	298		99.35
KOG0147|consensus	549		99.35
KOG0122|consensus	270		99.34
KOG4207|consensus	256		99.34
KOG0108|consensus	435		99.33
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.31
KOG0147|consensus	549		99.31
KOG0126|consensus	219		99.29
smart00360	71	RRM RNA recognition motif.	99.26
KOG4212|consensus	608		99.24
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.23
KOG0153|consensus	377		99.2
KOG0146|consensus	371		99.2
KOG0144|consensus	510		99.18
KOG0106|consensus	216		99.17
KOG0130|consensus	170		99.13
KOG0132|consensus	894		99.1
KOG4211|consensus	510		99.09
smart00361	70	RRM_1 RNA recognition motif.	99.06
KOG0109|consensus	346		99.01
KOG1190|consensus	492		98.96
KOG4661|consensus	940		98.95
KOG1457|consensus	284		98.95
KOG0129|consensus	520		98.91
KOG1548|consensus	382		98.9
KOG0415|consensus	479		98.89
KOG4212|consensus	608		98.87
KOG0131|consensus	203		98.86
KOG0146|consensus	371		98.77
KOG4205|consensus	311		98.77
KOG0124|consensus	544		98.76
KOG0110|consensus	725		98.68
KOG4208|consensus	214		98.68
KOG4209|consensus	231		98.65
KOG0116|consensus	419		98.62
KOG4454|consensus	267		98.6
KOG4660|consensus	549		98.58
KOG0226|consensus	290		98.56
KOG0151|consensus	877		98.56
KOG0533|consensus	243		98.52
KOG0120|consensus	500		98.49
KOG2193|consensus	584		98.31
KOG1190|consensus	492		98.23
KOG1457|consensus	284		98.21
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.19
KOG1456|consensus	494		98.11
KOG0112|consensus	975		97.99
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	97.95
KOG0106|consensus	216		97.84
KOG4206|consensus	221		97.67
KOG0128|consensus	881		97.64
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.62
KOG4211|consensus	510		97.61
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.6
KOG1365|consensus	508		97.59
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.58
KOG1456|consensus	494		97.56
KOG0105|consensus	241		97.52
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.47
KOG1995|consensus	351		97.45
KOG1548|consensus	382		97.3
KOG4307|consensus	944		97.28
KOG4210|consensus	285		97.26
KOG1855|consensus	484		97.25
KOG0125|consensus	376		97.13
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.1
KOG4210|consensus	285		97.09
KOG1365|consensus	508		97.08
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	97.08
KOG0121|consensus	153		97.06
PLN03213	759	repressor of silencing 3; Provisional	97.04
KOG2416|consensus	718		97.03
KOG3152|consensus	278		97.02
KOG0129|consensus	520		96.84
KOG4849|consensus	498		96.82
KOG0108|consensus	435		96.77
KOG0111|consensus	298		96.72
KOG0107|consensus	195		96.63
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.56
KOG4676|consensus	479		96.54
PLN03120	260	nucleic acid binding protein; Provisional	96.51
KOG2202|consensus	260		96.47
KOG0114|consensus	124		96.32
KOG2314|consensus	698		96.16
KOG0226|consensus	290		96.13
KOG0112|consensus	975		96.09
KOG0126|consensus	219		96.03
COG0724	306	RNA-binding proteins (RRM domain) [General functio	95.92
KOG2253|consensus	668		95.87
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	95.72
KOG0128|consensus	881		95.72
smart00362	72	RRM_2 RNA recognition motif.	95.5
KOG4285|consensus	350		95.06
KOG1996|consensus	378		95.01
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	94.93
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	94.7
KOG0130|consensus	170		94.35
KOG4307|consensus	944		94.33
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	94.22
KOG2135|consensus	526		93.76
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	93.72
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	93.55
KOG0122|consensus	270		93.46
KOG4676|consensus	479		93.2
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	93.1
PLN03121	243	nucleic acid binding protein; Provisional	92.5
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	92.18
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	92.16
KOG2068|consensus	327		91.93
KOG4207|consensus	256		91.93
KOG0149|consensus	247		91.92
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	91.78
KOG2318|consensus	650		91.75
KOG0132|consensus	894		91.6
KOG0113|consensus	335		91.51
KOG2591|consensus	684		91.33
KOG4574|consensus	1007		91.12
KOG0151|consensus	877		90.77
KOG0115|consensus	275		90.61
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	89.58
smart00360	71	RRM RNA recognition motif.	89.28
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	86.51
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	86.38
KOG0533|consensus	243		84.79
KOG0153|consensus	377		83.55
smart00361	70	RRM_1 RNA recognition motif.	81.96
KOG4410|consensus	396		81.92
KOG0804|consensus	493		80.97
KOG4660|consensus	549		80.85

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

Probab=99.92  E-value=1.2e-23  Score=193.85  Aligned_cols=162  Identities=52%  Similarity=0.765  Sum_probs=126.6

Q ss_pred             CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhcccc-CCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCC
Q psy2204          37 VVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQA-AGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGI  115 (231)
Q Consensus        37 ~~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~-~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~  115 (231)
                      .+.+...+..|+|||||||+++|+++|+++|+.++........ ++..|.++.+.+++|||||+|.+.++|..||+|||.
T Consensus       166 ~~~~~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~l~g~  245 (509)
T TIGR01642       166 PYQQQATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDSI  245 (509)
T ss_pred             ccCccCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhcCCCe
Confidence            3567788899999999999999999999999998755443221 244788899999999999999999999999999999


Q ss_pred             eecCceEEEeCCCCCCCCCCCCCCCcccCCC--------CcccCcCCCCCCcEEEcCCCCCCCHH---------------
Q psy2204         116 NFKGQSLKIRRPHDYQPTPGVTDNAAVAVPA--------GVISTVVPDSPHKIFIGGLPNYLNED---------------  172 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~ifV~nLp~~~tee---------------  172 (231)
                      .|.|+.|+|.++..+.+.+............        ........+..++|||+|||+.+|++               
T Consensus       246 ~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~  325 (509)
T TIGR01642       246 IYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAF  325 (509)
T ss_pred             EeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEE
Confidence            9999999999888776433221111000000        00112234566899999999999998               


Q ss_pred             --------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 --------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 --------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                                .||..|||+.|+|+.|+|++|..+..
T Consensus       326 ~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~  377 (509)
T TIGR01642       326 NLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGAN  377 (509)
T ss_pred             EEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCC
Confidence                                      89999999999999999999976544

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.88  E-value=2.3e-22  Score=176.59  Aligned_cols=125  Identities=23%  Similarity=0.438  Sum_probs=104.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|+.||           .|+++++      .++||||||+|.++++|.+|| +||+
T Consensus       103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G-----------~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG  171 (346)
T TIGR01659       103 TNNSGTNLIVNYLPQDMTDRELYALFRTIG-----------PINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNG  171 (346)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCC
Confidence            344678999999999999999999999999           5555554      445799999999999999999 9999


Q ss_pred             CeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------
Q psy2204         115 INFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------  172 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------  172 (231)
                      ..+.+++|+|.++++...                     ....++|||+|||.++|++                      
T Consensus       172 ~~l~gr~i~V~~a~p~~~---------------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~  230 (346)
T TIGR01659       172 ITVRNKRLKVSYARPGGE---------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKL  230 (346)
T ss_pred             CccCCceeeeeccccccc---------------------ccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCC
Confidence            999999999998753211                     0123689999999999998                      


Q ss_pred             -------------------HHHHHhCCCeeCC--eEEEEEEeecCcc
Q psy2204         173 -------------------QAIAGLNGMQLGD--KKLIVQRASVGAK  198 (231)
Q Consensus       173 -------------------~Ai~~lnG~~i~g--r~l~V~~a~~~~~  198 (231)
                                         +||+.||++.+.+  +.|+|++|....+
T Consensus       231 tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~  277 (346)
T TIGR01659       231 TGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHGK  277 (346)
T ss_pred             CCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcccc
Confidence                               9999999999876  7999999986544

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).

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

Probab=99.88  E-value=7.5e-22  Score=182.60  Aligned_cols=133  Identities=25%  Similarity=0.452  Sum_probs=107.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ....++||||||++++++++|+++|++||           .|.++++      .++||||||+|.+.++|.+|| .|||.
T Consensus       104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG-----------~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~  172 (612)
T TIGR01645       104 LAIMCRVYVGSISFELREDTIRRAFDPFG-----------PIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQ  172 (612)
T ss_pred             hcCCCEEEEcCCCCCCCHHHHHHHHHccC-----------CEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCe
Confidence            34567999999999999999999999999           5555554      456899999999999999999 99999


Q ss_pred             eecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-----------------------
Q psy2204         116 NFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-----------------------  172 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-----------------------  172 (231)
                      .+.||.|+|.++...........         .. .......++|||+|||.+++++                       
T Consensus       173 ~i~GR~IkV~rp~~~p~a~~~~~---------~~-~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~t  242 (612)
T TIGR01645       173 MLGGRNIKVGRPSNMPQAQPIID---------MV-QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG  242 (612)
T ss_pred             EEecceeeecccccccccccccc---------cc-cccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCC
Confidence            99999999997654321110000         00 0011234789999999999998                       


Q ss_pred             ------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                        +||..|||++|+|+.|+|.++...
T Consensus       243 gksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~p  284 (612)
T TIGR01645       243 RGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP  284 (612)
T ss_pred             CCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCC
Confidence                              999999999999999999999854

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.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.86  E-value=7e-21  Score=167.74  Aligned_cols=121  Identities=17%  Similarity=0.411  Sum_probs=102.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      +..+|||+|||+++|+++|+++|+.||           +|.++++.      +++|||||+|.+.++|.+|| .|||..+
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G-----------~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l   70 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIG-----------EIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRL   70 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccC-----------CEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEE
Confidence            457999999999999999999999999           66666664      35699999999999999999 9999999


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                      .|+.|+|.+.++....                     ....+|||+|||..++++                         
T Consensus        71 ~g~~i~v~~a~~~~~~---------------------~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~  129 (352)
T TIGR01661        71 QNKTIKVSYARPSSDS---------------------IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGL  129 (352)
T ss_pred             CCeeEEEEeecccccc---------------------cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCC
Confidence            9999999977543211                     123589999999999997                         


Q ss_pred             ----------------HHHHHhCCCeeCC--eEEEEEEeecCc
Q psy2204         173 ----------------QAIAGLNGMQLGD--KKLIVQRASVGA  197 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~g--r~l~V~~a~~~~  197 (231)
                                      +|++.|||..+.|  +.|+|+++....
T Consensus       130 ~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~  172 (352)
T TIGR01661       130 SKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPS  172 (352)
T ss_pred             cCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCC
Confidence                            8999999999987  778999987554

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

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

Probab=99.85  E-value=1.8e-20  Score=170.81  Aligned_cols=134  Identities=20%  Similarity=0.336  Sum_probs=106.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng  114 (231)
                      ..++..++|||+|||+++++++|+++|++||           .|.++++.      +++|||||+|.+.++|.+||.|+|
T Consensus        84 ~~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G-----------~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g  152 (457)
T TIGR01622        84 EAERDDRTVFVLQLALKARERDLYEFFSKVG-----------KVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTG  152 (457)
T ss_pred             ccccCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCC
Confidence            3456789999999999999999999999999           56666554      458999999999999999999999


Q ss_pred             CeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------
Q psy2204         115 INFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------  172 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------  172 (231)
                      ..|.|++|.|...............       . . .......++|||+|||+.+|++                      
T Consensus       153 ~~~~g~~i~v~~~~~~~~~~~~~~~-------~-~-~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~  223 (457)
T TIGR01622       153 QMLLGRPIIVQSSQAEKNRAAKAAT-------H-Q-PGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPE  223 (457)
T ss_pred             CEECCeeeEEeecchhhhhhhhccc-------c-c-CCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC
Confidence            9999999999865432211110000       0 0 0001225899999999999998                      


Q ss_pred             -------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         173 -------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       173 -------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                                         .|+..|||..|.|+.|+|.++.
T Consensus       224 ~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       224 TGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             CCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence                               8999999999999999999976

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.

>KOG0148|consensus

Probab=99.84  E-value=5e-20  Score=151.69  Aligned_cols=141  Identities=13%  Similarity=0.279  Sum_probs=115.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      -.-+|||.|..+++.++|++.|.+||.|+...     .|+|..+.++|||+||.|.+.++|++|| .|||..|.+|.|+-
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~ak-----virD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRT  136 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAK-----VIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRT  136 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccce-----EeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeec
Confidence            45799999999999999999999999888764     6788899999999999999999999999 99999999999999


Q ss_pred             eCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------------
Q psy2204         125 RRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------------  172 (231)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------------  172 (231)
                      .|+..+....+..     ......+-+....+.++||||||+..+||+                                
T Consensus       137 NWATRKp~e~n~~-----~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkE  211 (321)
T KOG0148|consen  137 NWATRKPSEMNGK-----PLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKE  211 (321)
T ss_pred             cccccCccccCCC-----CccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchh
Confidence            9887543111110     011122222233456899999999999998                                


Q ss_pred             ---HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ---QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ---~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                         .||..|||.+|+|..++|.|-+.+
T Consensus       212 aAahAIv~mNntei~G~~VkCsWGKe~  238 (321)
T KOG0148|consen  212 AAAHAIVQMNNTEIGGQLVRCSWGKEG  238 (321)
T ss_pred             hHHHHHHHhcCceeCceEEEEeccccC
Confidence               999999999999999999997644

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.81  E-value=7.9e-19  Score=154.69  Aligned_cols=73  Identities=23%  Similarity=0.509  Sum_probs=62.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..++|||+|||+++++++|+++|+.||           .|..+++      ..++|||||+|.+.++|.+|| .|||..+
T Consensus        88 ~~~~l~v~~l~~~~~~~~l~~~f~~~G-----------~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~  156 (352)
T TIGR01661        88 KGANLYVSGLPKTMTQHELESIFSPFG-----------QIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTP  156 (352)
T ss_pred             ccceEEECCccccCCHHHHHHHHhccC-----------CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCcc
Confidence            456899999999999999999999999           4544444      345799999999999999999 9999999


Q ss_pred             cC--ceEEEeCCC
Q psy2204         118 KG--QSLKIRRPH  128 (231)
Q Consensus       118 ~g--r~i~V~~~~  128 (231)
                      .|  ++|.|.++.
T Consensus       157 ~g~~~~i~v~~a~  169 (352)
T TIGR01661       157 SGCTEPITVKFAN  169 (352)
T ss_pred             CCCceeEEEEECC
Confidence            87  567777654

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

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

Probab=99.81  E-value=1.7e-18  Score=159.01  Aligned_cols=145  Identities=17%  Similarity=0.226  Sum_probs=108.7

Q ss_pred             CCCCCCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          41 TITRQARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .....+++|||+||++ .+|+++|+++|+.||           .|.++++.++ +|||||+|.+.++|.+|| .|||..|
T Consensus       270 ~~~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG-----------~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l  338 (481)
T TIGR01649       270 AGGGPGSVLMVSGLHQEKVNCDRLFNLFCVYG-----------NVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKL  338 (481)
T ss_pred             CCCCCCCEEEEeCCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEE
Confidence            3445778999999998 699999999999999           8888888766 699999999999999999 9999999


Q ss_pred             cCceEEEeCCCCCCCCCCC----CCC----------CcccCCCC--cccCcCCCCCCcEEEcCCCCCCCHH---------
Q psy2204         118 KGQSLKIRRPHDYQPTPGV----TDN----------AAVAVPAG--VISTVVPDSPHKIFIGGLPNYLNED---------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~----~~~----------~~~~~~~~--~~~~~~~~~~~~ifV~nLp~~~tee---------  172 (231)
                      .|++|+|.+++........    ...          ...+....  ..........++|||+|||.++|++         
T Consensus       339 ~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~  418 (481)
T TIGR01649       339 FGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAEN  418 (481)
T ss_pred             CCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhc
Confidence            9999999976543211000    000          00000000  0000111234689999999999998         


Q ss_pred             --------------------------------HHHHHhCCCeeCCeE------EEEEEeecC
Q psy2204         173 --------------------------------QAIAGLNGMQLGDKK------LIVQRASVG  196 (231)
Q Consensus       173 --------------------------------~Ai~~lnG~~i~gr~------l~V~~a~~~  196 (231)
                                                      +|+..|||+.|.++.      |+|.+++++
T Consensus       419 G~~~i~~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~~~lkv~fs~~~  480 (481)
T TIGR01649       419 GVHKVKKFKFFPKDNERSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAPYHLKVSFSTSR  480 (481)
T ss_pred             CCccceEEEEecCCCCcceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCccceEEEEeccCC
Confidence                                            899999999999885      999998753

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).

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

Probab=99.80  E-value=9.2e-19  Score=160.71  Aligned_cols=131  Identities=19%  Similarity=0.215  Sum_probs=105.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-H--hCCCeecCce
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-A--FDGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~--lng~~l~gr~  121 (231)
                      ++|+|||+|||+++++++|+++|+.||           .|.++.+.++|+||||+|++.++|.+|+ .  +++..+.|++
T Consensus         1 ps~vv~V~nLp~~~te~~L~~~f~~fG-----------~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~   69 (481)
T TIGR01649         1 PSPVVHVRNLPQDVVEADLVEALIPFG-----------PVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQP   69 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcC-----------CeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeE
Confidence            478999999999999999999999999           8999999999999999999999999999 4  5889999999


Q ss_pred             EEEeCCCCCC-CCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------------
Q psy2204         122 LKIRRPHDYQ-PTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------------  172 (231)
Q Consensus       122 i~V~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------------  172 (231)
                      |+|.++.... ......         . ..........+|||+||++.+|++                            
T Consensus        70 l~v~~s~~~~~~~~~~~---------~-~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afV  139 (481)
T TIGR01649        70 AFFNYSTSQEIKRDGNS---------D-FDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALV  139 (481)
T ss_pred             EEEEecCCcccccCCCC---------c-ccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEE
Confidence            9999876432 111100         0 000001122479999999999999                            


Q ss_pred             ---------HHHHHhCCCeeCC--eEEEEEEeecC
Q psy2204         173 ---------QAIAGLNGMQLGD--KKLIVQRASVG  196 (231)
Q Consensus       173 ---------~Ai~~lnG~~i~g--r~l~V~~a~~~  196 (231)
                               +|++.|||..|.|  +.|+|.|++..
T Consensus       140 ef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~  174 (481)
T TIGR01649       140 EFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPT  174 (481)
T ss_pred             EECCHHHHHHHHHHhcCCcccCCceEEEEEEecCC
Confidence                     9999999999965  58999998753

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).

>KOG0117|consensus

Probab=99.80  E-value=1.3e-18  Score=151.75  Aligned_cols=71  Identities=24%  Similarity=0.538  Sum_probs=64.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .....||||.||.++.|++|..+|++.|           +|.+++++++      ||||||+|.+.++|.+|| .||+.+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG-----------~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~E  149 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIG-----------KIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYE  149 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhcc-----------ceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcc
Confidence            4567999999999999999999999999           7777777665      899999999999999999 999999


Q ss_pred             ec-CceEEEe
Q psy2204         117 FK-GQSLKIR  125 (231)
Q Consensus       117 l~-gr~i~V~  125 (231)
                      |. |+.|.|.
T Consensus       150 ir~GK~igvc  159 (506)
T KOG0117|consen  150 IRPGKLLGVC  159 (506)
T ss_pred             ccCCCEeEEE
Confidence            95 8888876

>KOG0109|consensus

Probab=99.80  E-value=2.8e-19  Score=148.63  Aligned_cols=115  Identities=24%  Similarity=0.502  Sum_probs=103.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      .+|||||||.++++.+|+.+|++||           +|+.+++.  |+||||..++...++.|| .|+|..|+|..|+|+
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~yg-----------kVlECDIv--KNYgFVHiEdktaaedairNLhgYtLhg~nInVe   69 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYG-----------KVLECDIV--KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVE   69 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhC-----------ceEeeeee--cccceEEeecccccHHHHhhcccceecceEEEEE
Confidence            4799999999999999999999999           78888888  689999999999999999 899999999999999


Q ss_pred             CCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH---------------------------------
Q psy2204         126 RPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED---------------------------------  172 (231)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee---------------------------------  172 (231)
                      .++++.                       ....||+|+||.+.++.+                                 
T Consensus        70 aSksKs-----------------------k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~eda~  126 (346)
T KOG0109|consen   70 ASKSKS-----------------------KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAEDAV  126 (346)
T ss_pred             eccccC-----------------------CCccccccCCCCccccCHHHhhhhcccCCceeeeeecceeEEEEeeccchH
Confidence            877542                       124789999999988776                                 


Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      +||.+|||++|.|++++|+.++.+.
T Consensus       127 ~air~l~~~~~~gk~m~vq~stsrl  151 (346)
T KOG0109|consen  127 EAIRGLDNTEFQGKRMHVQLSTSRL  151 (346)
T ss_pred             HHHhcccccccccceeeeeeecccc
Confidence            9999999999999999999987553

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

Probab=99.79  E-value=1.8e-18  Score=161.61  Aligned_cols=119  Identities=24%  Similarity=0.417  Sum_probs=100.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      +|||||||+++||++|+++|++||           .|.+++++      +++|||||+|.+.++|.+|| .+|+..+.|+
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G-----------~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk   70 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFG-----------PVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGK   70 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            799999999999999999999999           66666664      44689999999999999999 9999999999


Q ss_pred             eEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------------
Q psy2204         121 SLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------------  172 (231)
Q Consensus       121 ~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------------  172 (231)
                      +|+|.+.......                   ......+|||+|||.+++++                            
T Consensus        71 ~i~i~~s~~~~~~-------------------~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~  131 (562)
T TIGR01628        71 PIRIMWSQRDPSL-------------------RRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGY  131 (562)
T ss_pred             eEEeecccccccc-------------------cccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccE
Confidence            9999986421100                   01123679999999999998                            


Q ss_pred             ------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                  +|++.|||..+.|+.|.|.+....
T Consensus       132 afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~  167 (562)
T TIGR01628       132 GFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKK  167 (562)
T ss_pred             EEEEECCHHHHHHHHHHhcccEecCceEEEeccccc
Confidence                        899999999999999999876543

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

>KOG0131|consensus

Probab=99.78  E-value=8.1e-19  Score=137.04  Aligned_cols=122  Identities=28%  Similarity=0.479  Sum_probs=105.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ....+||||||+..++++.|.++|-+.|           +|+++.+.++      +||||++|.++|+|+.|+ -||...
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqag-----------pVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~Vk   75 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAG-----------PVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVK   75 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcC-----------ceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHH
Confidence            4567999999999999999999999999           8888888765      699999999999999999 999999


Q ss_pred             ecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------------------------
Q psy2204         117 FKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------------------------  172 (231)
Q Consensus       117 l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------------------------  172 (231)
                      |.||+|+|..+......                    .+...+|||+||.+++++.                        
T Consensus        76 LYgrpIrv~kas~~~~n--------------------l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~t  135 (203)
T KOG0131|consen   76 LYGRPIRVNKASAHQKN--------------------LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDT  135 (203)
T ss_pred             hcCceeEEEeccccccc--------------------ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccC
Confidence            99999999977521111                    2233789999999988887                        


Q ss_pred             ------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                        .|+..|||..+..|+|+|..+...
T Consensus       136 g~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~  177 (203)
T KOG0131|consen  136 GNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKK  177 (203)
T ss_pred             CCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEec
Confidence                              899999999999999999988644

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

Probab=99.76  E-value=1.4e-18  Score=162.35  Aligned_cols=139  Identities=19%  Similarity=0.356  Sum_probs=106.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ...++|||+||++++|+++|+++|+.||           .|.++.+     .+.+|||||+|.+.++|.+|+ .+||..+
T Consensus       176 ~~~~~l~V~nl~~~~tee~L~~~F~~fG-----------~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i  244 (562)
T TIGR01628       176 KKFTNLYVKNLDPSVNEDKLRELFAKFG-----------EITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKI  244 (562)
T ss_pred             cCCCeEEEeCCCCcCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEe
Confidence            3456899999999999999999999999           4555544     345799999999999999999 9999999


Q ss_pred             c----CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH---------------------
Q psy2204         118 K----GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED---------------------  172 (231)
Q Consensus       118 ~----gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee---------------------  172 (231)
                      .    |+.|.|.+..............   ...............+|||+||+.++|++                     
T Consensus       245 ~~~~~g~~l~v~~a~~k~er~~~~~~~---~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~  321 (562)
T TIGR01628       245 GLAKEGKKLYVGRAQKRAEREAELRRK---FEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDE  321 (562)
T ss_pred             cccccceeeEeecccChhhhHHHHHhh---HHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECC
Confidence            9    9999998776443221100000   00000011112234689999999999998                     


Q ss_pred             -------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 -------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 -------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                         +|+.+|||+.++|+.|+|.+|...
T Consensus       322 ~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k  364 (562)
T TIGR01628       322 KGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRK  364 (562)
T ss_pred             CCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCc
Confidence                               899999999999999999999754

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

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

Probab=99.76  E-value=1.4e-17  Score=154.00  Aligned_cols=115  Identities=23%  Similarity=0.458  Sum_probs=94.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      ...+|||+|||++++|++|+++|++||           .|.++++     .++||||||+|.+.++|.+|| .||+..+.
T Consensus        57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G-----------~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~  125 (578)
T TIGR01648        57 RGCEVFVGKIPRDLYEDELVPLFEKAG-----------PIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIR  125 (578)
T ss_pred             CCCEEEeCCCCCCCCHHHHHHHHHhhC-----------CEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeec
Confidence            457999999999999999999999999           5555555     466899999999999999999 99999885


Q ss_pred             -CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         119 -GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       119 -gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                       |+.|.|..+.                           ..++|||+|||.+++++                         
T Consensus       126 ~Gr~l~V~~S~---------------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~k  178 (578)
T TIGR01648       126 PGRLLGVCISV---------------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADK  178 (578)
T ss_pred             CCccccccccc---------------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEecccccc
Confidence             7777665432                           13679999999888875                         


Q ss_pred             ------------------HHHHHhCC--CeeCCeEEEEEEeecCc
Q psy2204         173 ------------------QAIAGLNG--MQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 ------------------~Ai~~lnG--~~i~gr~l~V~~a~~~~  197 (231)
                                        .|+..|+.  ..+.|+.|+|+|+.+..
T Consensus       179 gKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~  223 (578)
T TIGR01648       179 KKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEE  223 (578)
T ss_pred             CccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccc
Confidence                              56666653  46789999999998654

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.

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

Probab=99.73  E-value=5.8e-17  Score=149.54  Aligned_cols=82  Identities=24%  Similarity=0.444  Sum_probs=67.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.     .+.+...++++|||||+|.+.++|..|| .|||..|.|+.
T Consensus       292 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~-----~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~  366 (509)
T TIGR01642       292 LDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFN-----LIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNK  366 (509)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE-----EEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            34568999999999999999999999999443331     1222233456899999999999999999 99999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |.|.++..
T Consensus       367 l~v~~a~~  374 (509)
T TIGR01642       367 LHVQRACV  374 (509)
T ss_pred             EEEEECcc
Confidence            99997753

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

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

Probab=99.73  E-value=5.1e-17  Score=150.26  Aligned_cols=130  Identities=22%  Similarity=0.315  Sum_probs=101.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeE-------ecCCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ-------INLDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~-------~~~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +...++|||+|||+++|+++|+++|++++..          ++++.       ..+++|||||+|.+.++|.+|+ .|+.
T Consensus       135 S~~~~rLFVgNLP~~~TeeeL~eeFskv~eg----------vv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~  204 (578)
T TIGR01648       135 SVDNCRLFVGGIPKNKKREEILEEFSKVTEG----------VVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMP  204 (578)
T ss_pred             cccCceeEeecCCcchhhHHHHHHhhcccCC----------ceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhc
Confidence            3456899999999999999999999998621          22221       2356899999999999999999 7753


Q ss_pred             --CeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------
Q psy2204         115 --INFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------  172 (231)
Q Consensus       115 --~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------  172 (231)
                        ..++|+.|.|.++.+.....                .......++|||+||+.++|++                    
T Consensus       205 gki~l~Gr~I~VdwA~p~~~~d----------------~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~  268 (578)
T TIGR01648       205 GRIQLWGHVIAVDWAEPEEEVD----------------EDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI  268 (578)
T ss_pred             cceEecCceEEEEeeccccccc----------------ccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee
Confidence              46889999999876432110                0011234789999999999998                    


Q ss_pred             ---------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 ---------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ---------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                     +|++.|||.+|.|+.|+|+||.+..+
T Consensus       269 rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~  309 (578)
T TIGR01648       269 RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDK  309 (578)
T ss_pred             cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence                           89999999999999999999986533

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.

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

Probab=99.71  E-value=3.9e-17  Score=126.75  Aligned_cols=87  Identities=15%  Similarity=0.428  Sum_probs=69.8

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .+....+++|||+||++++|+++|+++|++||.|..+.     .+.+....++||||||+|.+.++|++|| .||+..+.
T Consensus        28 ~~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~-----i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~  102 (144)
T PLN03134         28 GSLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAK-----VIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN  102 (144)
T ss_pred             ccccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEE-----EEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            34455678999999999999999999999999433321     1222223456899999999999999999 89999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|+|.+++...
T Consensus       103 Gr~l~V~~a~~~~  115 (144)
T PLN03134        103 GRHIRVNPANDRP  115 (144)
T ss_pred             CEEEEEEeCCcCC
Confidence            9999999876543

>KOG0120|consensus

Probab=99.71  E-value=4.9e-17  Score=146.37  Aligned_cols=220  Identities=57%  Similarity=0.857  Sum_probs=176.3

Q ss_pred             hhhccccCCCCCCcccCCccchhHhhhhcCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccC-CCCe
Q psy2204           6 EVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAA-GNPV   84 (231)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~-~~~i   84 (231)
                      +++++.+.||+|+..--+.... .-+..+.+..++.+..+.+.+||+++++.++++....+|..--....+.+-+ |..+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~  214 (500)
T KOG0120|consen  136 LYKNFNATGQVPGDLSNPKKSL-KLPQLPTPPMDSQATRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSF  214 (500)
T ss_pred             hhhhccccCCCCCCcccccccc-ccccCCCCccCcchhhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCce
Confidence            5677888888877744222111 1334555678889999999999999999999999999999876666665554 5789


Q ss_pred             eeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEeCCCCCCCCCCCCCCCcc--cCCCCcccCcCCCCCCcEEE
Q psy2204          85 LACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAV--AVPAGVISTVVPDSPHKIFI  162 (231)
Q Consensus        85 ~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ifV  162 (231)
                      +.+.+...++++|++|.+.+++..|+.+++..+.|+.+++..+..+...+.+......  ..........+.+.+++|||
T Consensus       215 ~s~~~n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v  294 (500)
T KOG0120|consen  215 VSVQLNLEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFV  294 (500)
T ss_pred             eeeeecccccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhh
Confidence            9999999999999999999999999999999999999999999998887766554322  22223455667788899999


Q ss_pred             cCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeecCccccc
Q psy2204         163 GGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAKNAS  201 (231)
Q Consensus       163 ~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~~~  201 (231)
                      ++||..+++.                                         .||..|||+.++++.|.|++|..+.+...
T Consensus       295 ~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~  374 (500)
T KOG0120|consen  295 GGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNAN  374 (500)
T ss_pred             ccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhcc
Confidence            9999999998                                         89999999999999999999998877766


Q ss_pred             CCCCccccccCCcccC--CCCCCCccc
Q psy2204         202 GQQAPVQIQVPGLTQV--GQAGPATEC  226 (231)
Q Consensus       202 ~~~~~~~~q~~~~~~~--~~~~~~~~~  226 (231)
                      ....-.+.+++++...  .+.|+||.+
T Consensus       375 ~~~~~~~~~~~~i~~~~~q~~g~~t~V  401 (500)
T KOG0120|consen  375 VNFNISQSQVPGIPLLMTQMAGIPTEV  401 (500)
T ss_pred             ccCCccccccccchhhhcccCCCcchh
Confidence            4444333478888776  888888875

>KOG0145|consensus

Probab=99.71  E-value=1.4e-16  Score=130.89  Aligned_cols=123  Identities=20%  Similarity=0.461  Sum_probs=103.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC------cEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK------NFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k------g~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ..+....|.|.-||.++|++||+.+|...|           +|+++++.++|      ||+||.|-+++||++|+ .|||
T Consensus        37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiG-----------eiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNG  105 (360)
T KOG0145|consen   37 TDESKTNLIVNYLPQNMTQDELRSLFGSIG-----------EIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNG  105 (360)
T ss_pred             cCcccceeeeeecccccCHHHHHHHhhccc-----------ceeeeeeeeccccccccccceeeecChHHHHHHHhhhcc
Confidence            344455699999999999999999999999           66666666654      99999999999999999 9999


Q ss_pred             CeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------
Q psy2204         115 INFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------  172 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------  172 (231)
                      ..|..+.|+|.++++....                    .. ...|||.+||..+|..                      
T Consensus       106 LrLQ~KTIKVSyARPSs~~--------------------Ik-~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqv  164 (360)
T KOG0145|consen  106 LRLQNKTIKVSYARPSSDS--------------------IK-DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQV  164 (360)
T ss_pred             eeeccceEEEEeccCChhh--------------------hc-ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcc
Confidence            9999999999988753311                    11 1469999999999986                      


Q ss_pred             -------------------HHHHHhCCCeeCC--eEEEEEEeecC
Q psy2204         173 -------------------QAIAGLNGMQLGD--KKLIVQRASVG  196 (231)
Q Consensus       173 -------------------~Ai~~lnG~~i~g--r~l~V~~a~~~  196 (231)
                                         +||..|||..-.|  ..|.|+||+..
T Consensus       165 tg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP  209 (360)
T KOG0145|consen  165 TGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP  209 (360)
T ss_pred             cceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence                               9999999998776  78999999855

>KOG0144|consensus

Probab=99.69  E-value=1.2e-16  Score=139.07  Aligned_cols=134  Identities=22%  Similarity=0.366  Sum_probs=105.0

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC-
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI-  115 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~-  115 (231)
                      ..+.++.+.-+||||.||..++|+||+++|++||.|.++.     .|+|..+..+||||||.|.+.++|.+|+ .|+.. 
T Consensus        26 ~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~ein-----l~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~k  100 (510)
T KOG0144|consen   26 HTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEIN-----LIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQK  100 (510)
T ss_pred             CCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEE-----eecccccCcccceEEEEeccHHHHHHHHHHhhccc
Confidence            3445556778999999999999999999999999777664     4555566666899999999999999999 77655 


Q ss_pred             eecC--ceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH---------------------
Q psy2204         116 NFKG--QSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED---------------------  172 (231)
Q Consensus       116 ~l~g--r~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee---------------------  172 (231)
                      .|.|  .+|.|+++....++                    ....+||||+-|+..+||+                     
T Consensus       101 tlpG~~~pvqvk~Ad~E~er--------------------~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~  160 (510)
T KOG0144|consen  101 TLPGMHHPVQVKYADGERER--------------------IVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP  160 (510)
T ss_pred             ccCCCCcceeecccchhhhc--------------------cccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc
Confidence            5555  45677766533222                    1124799999999999987                     


Q ss_pred             -------------------HHHHHhCCCe-eCC--eEEEEEEeecC
Q psy2204         173 -------------------QAIAGLNGMQ-LGD--KKLIVQRASVG  196 (231)
Q Consensus       173 -------------------~Ai~~lnG~~-i~g--r~l~V~~a~~~  196 (231)
                                         .||++|||.. +.|  ..|.|+||.+.
T Consensus       161 ~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtq  206 (510)
T KOG0144|consen  161 DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQ  206 (510)
T ss_pred             cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccC
Confidence                               8999999964 565  89999999754

>KOG0127|consensus

Probab=99.68  E-value=2.3e-16  Score=140.74  Aligned_cols=139  Identities=21%  Similarity=0.361  Sum_probs=105.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .||||++||+.++.++|.++|+.+|           +|..+.+.      .+|||+||.|.-.+|+.+|+ +.++..|.|
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vG-----------Pik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~G   74 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVG-----------PIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEG   74 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhccc-----------CcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccc
Confidence            6999999999999999999999999           56555443      44899999999999999999 999999999


Q ss_pred             ceEEEeCCCCCCCCCCCCCCC--cccCCCCc---ccCcCCCCCCcEEEcCCCCCCCHH----------------------
Q psy2204         120 QSLKIRRPHDYQPTPGVTDNA--AVAVPAGV---ISTVVPDSPHKIFIGGLPNYLNED----------------------  172 (231)
Q Consensus       120 r~i~V~~~~~~~~~~~~~~~~--~~~~~~~~---~~~~~~~~~~~ifV~nLp~~~tee----------------------  172 (231)
                      |.|.|..++.+..........  ...-+...   ..........+|.|+|||+.+.++                      
T Consensus        75 r~l~v~~A~~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d  154 (678)
T KOG0127|consen   75 RILNVDPAKKRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD  154 (678)
T ss_pred             eecccccccccccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC
Confidence            999999776543332111110  00000000   001112234689999999999988                      


Q ss_pred             ------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                        .|+..|||.+|.||+|-|.||...
T Consensus       155 gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~K  196 (678)
T KOG0127|consen  155 GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDK  196 (678)
T ss_pred             CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccc
Confidence                              999999999999999999999744

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

Probab=99.66  E-value=2.2e-15  Score=137.43  Aligned_cols=72  Identities=28%  Similarity=0.604  Sum_probs=65.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .++|||+|||+++|+++|+++|+.||           .|..+.+.      +.+|||||+|.+.++|.+|+ .|||..+.
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G-----------~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~  254 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFG-----------DIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELA  254 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEEC
Confidence            68999999999999999999999999           56666554      55799999999999999999 99999999


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      |+.|.|.++.
T Consensus       255 g~~i~v~~a~  264 (457)
T TIGR01622       255 GRPIKVGYAQ  264 (457)
T ss_pred             CEEEEEEEcc
Confidence            9999999854

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.

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.62  E-value=2.9e-15  Score=125.00  Aligned_cols=77  Identities=23%  Similarity=0.418  Sum_probs=69.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      .++|||+||++.+|+++|+++|+.||           .|.++++.++   +|||||+|++.++++.||.|||..|.||.|
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G-----------~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V   72 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSG-----------DIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQSV   72 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCceE
Confidence            57999999999999999999999999           7777777554   699999999999999999999999999999


Q ss_pred             EEeCCCCCCCC
Q psy2204         123 KIRRPHDYQPT  133 (231)
Q Consensus       123 ~V~~~~~~~~~  133 (231)
                      +|.....+...
T Consensus        73 ~Vt~a~~~~~p   83 (260)
T PLN03120         73 TITPAEDYQLP   83 (260)
T ss_pred             EEEeccCCCCC
Confidence            99988766543

>PF00076 RRM_1: RNA recognition motif

Probab=99.60  E-value=1.8e-15  Score=102.08  Aligned_cols=64  Identities=34%  Similarity=0.687  Sum_probs=57.7

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      |||+|||+++|+++|+++|++||           .+..+++..     .++||||+|.+.++|++|+ .+||..+.|++|
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g-----------~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~i   69 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFG-----------KIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKI   69 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTS-----------TEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhh-----------hcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCc
Confidence            79999999999999999999999           566655544     3799999999999999999 899999999988


Q ss_pred             E
Q psy2204         123 K  123 (231)
Q Consensus       123 ~  123 (231)
                      +
T Consensus        70 r   70 (70)
T PF00076_consen   70 R   70 (70)
T ss_dssp             E
T ss_pred             C
Confidence            5

(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 ....

>KOG0127|consensus

Probab=99.59  E-value=1.8e-14  Score=128.75  Aligned_cols=74  Identities=23%  Similarity=0.454  Sum_probs=66.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .-+|+|.||||.+.+.+|+.+|+.||           .|+.+.|.+.     .|||||.|....+|.+|| .+|+..|.|
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G-----------~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~g  185 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFG-----------KVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDG  185 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcc-----------eEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecC
Confidence            45899999999999999999999999           6777777644     499999999999999999 999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      |+|-|.|+-..
T Consensus       186 R~VAVDWAV~K  196 (678)
T KOG0127|consen  186 RPVAVDWAVDK  196 (678)
T ss_pred             ceeEEeeeccc
Confidence            99999987644

>KOG0105|consensus

Probab=99.59  E-value=1.6e-14  Score=113.48  Aligned_cols=119  Identities=23%  Similarity=0.390  Sum_probs=88.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .+.+++|||||||.++.+.+|.++|.+||           .|+.+.+...   ..||||+|++..+|+.|| .-+|..++
T Consensus         3 gr~~~~iyvGNLP~diRekeieDlFyKyg-----------~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdyd   71 (241)
T KOG0105|consen    3 GRNSRRIYVGNLPGDIREKEIEDLFYKYG-----------RIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYD   71 (241)
T ss_pred             CcccceEEecCCCcchhhccHHHHHhhhc-----------ceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccC
Confidence            46788999999999999999999999999           7888777543   479999999999999999 99999999


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccC-----CCCcccCcCCCCCCcEEEcCCCCCCCHH
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAV-----PAGVISTVVPDSPHKIFIGGLPNYLNED  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~ifV~nLp~~~tee  172 (231)
                      |..|+|.+++.............-.-     .-+........+..+|.|.+||.+-+|.
T Consensus        72 g~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQ  130 (241)
T KOG0105|consen   72 GCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQ  130 (241)
T ss_pred             cceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchH
Confidence            99999999886542211000000000     0001111123345689999999999998

>KOG0125|consensus

Probab=99.57  E-value=7.2e-15  Score=124.21  Aligned_cols=85  Identities=21%  Similarity=0.402  Sum_probs=73.3

Q ss_pred             CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----CCcEEEEEecCHHHHHHHH-H
Q psy2204          37 VVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----DKNFAFLEFRSIDETTQAM-A  111 (231)
Q Consensus        37 ~~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----~kg~aFV~F~~~~~a~~Al-~  111 (231)
                      ...++.....++|+|+||||...|.||+.+|++||           +|+||.|.-    +||||||+|++.+||++|- +
T Consensus        87 st~s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG-----------~VldVEIIfNERGSKGFGFVTmen~~dadRARa~  155 (376)
T KOG0125|consen   87 STNSSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFG-----------KVLDVEIIFNERGSKGFGFVTMENPADADRARAE  155 (376)
T ss_pred             CCcCCCCCCCceeEeecCCccccCccHHHHHHhhC-----------ceeeEEEEeccCCCCccceEEecChhhHHHHHHH
Confidence            33345555669999999999999999999999999           777777753    3899999999999999999 9


Q ss_pred             hCCCeecCceEEEeCCCCCCC
Q psy2204         112 FDGINFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       112 lng~~l~gr~i~V~~~~~~~~  132 (231)
                      |||+.+.||+|+|+.+..+..
T Consensus       156 LHgt~VEGRkIEVn~ATarV~  176 (376)
T KOG0125|consen  156 LHGTVVEGRKIEVNNATARVH  176 (376)
T ss_pred             hhcceeeceEEEEeccchhhc
Confidence            999999999999998776543

>KOG0121|consensus

Probab=99.56  E-value=7.5e-15  Score=108.78  Aligned_cols=79  Identities=25%  Similarity=0.495  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +.+.+.+||||||++.++|++|.++|+++|           .|..+-++.+      .|||||+|.+.++|..|+ -++|
T Consensus        32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG-----------~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryisg  100 (153)
T KOG0121|consen   32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCG-----------DIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISG  100 (153)
T ss_pred             HHhhcceEEEeeeeeeecHHHHHHHHHhcc-----------chheeEeccccCCcCccceEEEEEecchhHHHHHHHhcc
Confidence            456788999999999999999999999999           5666655544      499999999999999999 9999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      +.|+.|.|++.+...+.
T Consensus       101 trLddr~ir~D~D~GF~  117 (153)
T KOG0121|consen  101 TRLDDRPIRIDWDAGFV  117 (153)
T ss_pred             Ccccccceeeeccccch
Confidence            99999999999776554

>KOG0124|consensus

Probab=99.56  E-value=1.7e-15  Score=129.73  Aligned_cols=136  Identities=23%  Similarity=0.388  Sum_probs=106.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      ..+||||.|.+++.|+-||..|..||-|.++.     --.+--++++||||||+|+-.|.|.-|+ .|||..+.||.|+|
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSIn-----MSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKV  187 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSIN-----MSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKV  187 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceee-----cccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccc
Confidence            36899999999999999999999999444432     1222334678999999999999999999 99999999999999


Q ss_pred             eCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------------
Q psy2204         125 RRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------------  172 (231)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------------  172 (231)
                      .++.+.......-          ..-.......++|||..+..+++++                                
T Consensus       188 grPsNmpQAQpiI----------D~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfi  257 (544)
T KOG0124|consen  188 GRPSNMPQAQPII----------DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFI  257 (544)
T ss_pred             cCCCCCcccchHH----------HHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeE
Confidence            9876432111000          0001112345799999999999998                                


Q ss_pred             ---------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ---------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ---------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                               +||..||=+.++|..|||-++...
T Consensus       258 Ey~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP  290 (544)
T KOG0124|consen  258 EYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP  290 (544)
T ss_pred             EeccccchHHHhhhcchhhcccceEecccccCC
Confidence                     999999999999999999887543

>KOG0110|consensus

Probab=99.55  E-value=1.6e-14  Score=132.45  Aligned_cols=125  Identities=22%  Similarity=0.422  Sum_probs=100.1

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---------CcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---------KNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      |||.||++++|.++|.+.|...|           .|+++.|.+.         .|||||+|.+.++|..|+ .|+|+.|+
T Consensus       518 lfvkNlnf~Tt~e~l~~~F~k~G-----------~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvld  586 (725)
T KOG0110|consen  518 LFVKNLNFDTTLEDLEDLFSKQG-----------TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLD  586 (725)
T ss_pred             hhhhcCCcccchhHHHHHHHhcC-----------eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceec
Confidence            99999999999999999999999           5555555433         399999999999999999 99999999


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------  172 (231)
                      |+.|.|+.+...... .....           .......++|.|+|||+..+..                          
T Consensus       587 GH~l~lk~S~~k~~~-~~gK~-----------~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~  654 (725)
T KOG0110|consen  587 GHKLELKISENKPAS-TVGKK-----------KSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAH  654 (725)
T ss_pred             CceEEEEeccCcccc-ccccc-----------cccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhh
Confidence            999999987722111 00000           0001124799999999998877                          


Q ss_pred             ---------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ---------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ---------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                     .|+..|.++.+.||+|.++||...
T Consensus       655 rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d  693 (725)
T KOG0110|consen  655 RGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSD  693 (725)
T ss_pred             ccceeeeccCcHHHHHHHHhhcccceechhhheehhccc
Confidence                           889999999999999999999743

>KOG0145|consensus

Probab=99.54  E-value=1.5e-13  Score=113.12  Aligned_cols=149  Identities=22%  Similarity=0.303  Sum_probs=107.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .......|||++||..+|..||.++|+.||.|....     .+++-.++.+||.+||.|...++|+.|| .|||..-.|.
T Consensus       123 ~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSR-----iL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~  197 (360)
T KOG0145|consen  123 DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSR-----ILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGC  197 (360)
T ss_pred             hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhh-----hhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCC
Confidence            334556899999999999999999999999776542     3445555778999999999999999999 9999988774


Q ss_pred             --eEEEeCCCCCCCCCCC-----------------CCCCccc---------------CCC----------CcccCcCCCC
Q psy2204         121 --SLKIRRPHDYQPTPGV-----------------TDNAAVA---------------VPA----------GVISTVVPDS  156 (231)
Q Consensus       121 --~i~V~~~~~~~~~~~~-----------------~~~~~~~---------------~~~----------~~~~~~~~~~  156 (231)
                        +|.|+++..-......                 -.....+               ++.          +..-......
T Consensus       198 tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~  277 (360)
T KOG0145|consen  198 TEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGG  277 (360)
T ss_pred             CCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCC
Confidence              6888876532211110                 0000000               000          0001112233


Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ..+|||-||..+.+|.                                         .||..|||+.+++|.|.|+|.+.
T Consensus       278 g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn  357 (360)
T KOG0145|consen  278 GWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN  357 (360)
T ss_pred             eeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence            4699999999998877                                         89999999999999999999864

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.53  E-value=5.4e-14  Score=115.72  Aligned_cols=78  Identities=19%  Similarity=0.241  Sum_probs=69.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHHHhCCCeecCc
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAMAFDGINFKGQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al~lng~~l~gr  120 (231)
                      ....+|||+||++.+|+++|++||+.||           .|.++++.++   ++||||+|++.++++.|+.|||..|.++
T Consensus         3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G-----------~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~   71 (243)
T PLN03121          3 PGGYTAEVTNLSPKATEKDVYDFFSHCG-----------AIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQ   71 (243)
T ss_pred             CCceEEEEecCCCCCCHHHHHHHHHhcC-----------CeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCc
Confidence            4567999999999999999999999999           7778777665   5899999999999999999999999999


Q ss_pred             eEEEeCCCCCCC
Q psy2204         121 SLKIRRPHDYQP  132 (231)
Q Consensus       121 ~i~V~~~~~~~~  132 (231)
                      +|.|.....+..
T Consensus        72 ~I~It~~~~y~~   83 (243)
T PLN03121         72 RVCITRWGQYED   83 (243)
T ss_pred             eEEEEeCccccc
Confidence            999997766554

>KOG0107|consensus

Probab=99.51  E-value=4.1e-14  Score=110.19  Aligned_cols=73  Identities=23%  Similarity=0.454  Sum_probs=66.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ..+||||||+.++++.||...|..||           .+.+|.+.+. .|||||||++..||..|+ .|||+.|.|..|+
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG-----------~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~r   78 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYG-----------PLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIR   78 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcC-----------cceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEE
Confidence            57899999999999999999999999           7888877654 699999999999999999 9999999999999


Q ss_pred             EeCCCC
Q psy2204         124 IRRPHD  129 (231)
Q Consensus       124 V~~~~~  129 (231)
                      |...+.
T Consensus        79 VE~S~G   84 (195)
T KOG0107|consen   79 VELSTG   84 (195)
T ss_pred             EEeecC
Confidence            986653

>KOG0148|consensus

Probab=99.50  E-value=7.3e-14  Score=115.50  Aligned_cols=79  Identities=24%  Similarity=0.437  Sum_probs=74.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .++.+..+|||||++..+||++|++.|+.||           .|.+|++-+++||+||.|++.|+|.+|| .+|++++.|
T Consensus       159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG-----------~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G  227 (321)
T KOG0148|consen  159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFG-----------PIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGG  227 (321)
T ss_pred             cCCCCCceEEeCCcCccccHHHHHHhcccCC-----------cceEEEEecccceEEEEecchhhHHHHHHHhcCceeCc
Confidence            4566788999999999999999999999999           9999999999999999999999999999 999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      ..+++.|.++.
T Consensus       228 ~~VkCsWGKe~  238 (321)
T KOG0148|consen  228 QLVRCSWGKEG  238 (321)
T ss_pred             eEEEEeccccC
Confidence            99999988753

>KOG0149|consensus

Probab=99.49  E-value=3.2e-14  Score=115.52  Aligned_cols=76  Identities=14%  Similarity=0.303  Sum_probs=67.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEe
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR  125 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~  125 (231)
                      -.+||||+|+|.++.+.|+++|++||.|.+.+     .|.|..++|+||||||+|.+.++|.+|++--.-.++||+..++
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eav-----vitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcn   86 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAV-----VITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCN   86 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEE-----EEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccc
Confidence            36899999999999999999999999888776     5677788899999999999999999999666678999998887


Q ss_pred             C
Q psy2204         126 R  126 (231)
Q Consensus       126 ~  126 (231)
                      .
T Consensus        87 l   87 (247)
T KOG0149|consen   87 L   87 (247)
T ss_pred             h
Confidence            3

>KOG0117|consensus

Probab=99.49  E-value=4.8e-14  Score=123.46  Aligned_cols=108  Identities=17%  Similarity=0.297  Sum_probs=95.0

Q ss_pred             cccCCCCCCcccCCccchhHhhhhcCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe
Q psy2204          10 TGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI   89 (231)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~   89 (231)
                      |.....+|.+..++.+.++..||.+....+......-+-|||.||+.++|++.|+++|++||           .|..|+.
T Consensus       223 ~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G-----------~veRVkk  291 (506)
T KOG0117|consen  223 MARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFG-----------KVERVKK  291 (506)
T ss_pred             HHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhcc-----------ceEEeec
Confidence            33455589999999999999999998888877666778899999999999999999999999           6777666


Q ss_pred             cCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCCCCC
Q psy2204          90 NLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDY  130 (231)
Q Consensus        90 ~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~~~~  130 (231)
                      .  |.||||+|.+.++|.+|| .+||++|+|..|.|..+++.
T Consensus       292 ~--rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~  331 (506)
T KOG0117|consen  292 P--RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPV  331 (506)
T ss_pred             c--cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCCh
Confidence            6  459999999999999999 99999999999999877643

>PLN03213 repressor of silencing 3; Provisional

Probab=99.49  E-value=9.5e-14  Score=123.05  Aligned_cols=76  Identities=22%  Similarity=0.444  Sum_probs=66.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--CcEEEEEecCH--HHHHHHH-HhCCCe
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--KNFAFLEFRSI--DETTQAM-AFDGIN  116 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--kg~aFV~F~~~--~~a~~Al-~lng~~  116 (231)
                      ......+||||||++++++++|+..|..||           .|.++.+.+.  ||||||+|.+.  .++.+|| .|||..
T Consensus         6 s~~~gMRIYVGNLSydVTEDDLravFSeFG-----------sVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAE   74 (759)
T PLN03213          6 SGGGGVRLHVGGLGESVGRDDLLKIFSPMG-----------TVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCV   74 (759)
T ss_pred             cCCcceEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCe
Confidence            344567999999999999999999999999           5666555443  89999999987  7899999 999999


Q ss_pred             ecCceEEEeCCC
Q psy2204         117 FKGQSLKIRRPH  128 (231)
Q Consensus       117 l~gr~i~V~~~~  128 (231)
                      +.||.|+|..++
T Consensus        75 WKGR~LKVNKAK   86 (759)
T PLN03213         75 WKGGRLRLEKAK   86 (759)
T ss_pred             ecCceeEEeecc
Confidence            999999999666

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.49  E-value=5.6e-14  Score=95.33  Aligned_cols=64  Identities=30%  Similarity=0.656  Sum_probs=56.1

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      |||+|||+++++++|+++|+.||           .|..+++.++     +++|||+|.+.++|.+|+ .+++..++|+.|
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g-----------~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l   69 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFG-----------PVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL   69 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSS-----------BEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcC-----------CcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence            79999999999999999999999           6777777655     699999999999999999 888899999987


Q ss_pred             E
Q psy2204         123 K  123 (231)
Q Consensus       123 ~  123 (231)
                      +
T Consensus        70 ~   70 (70)
T PF14259_consen   70 R   70 (70)
T ss_dssp             E
T ss_pred             C
Confidence            5

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 ....

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

Probab=99.46  E-value=1.3e-13  Score=128.22  Aligned_cols=75  Identities=19%  Similarity=0.486  Sum_probs=66.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+||++++++++|+++|+.||           .|.++++.      ++||||||+|.+.++|.+|| .||+..
T Consensus       202 ~~~~rLfVgnLp~~vteedLk~lFs~FG-----------~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~e  270 (612)
T TIGR01645       202 KKFNRIYVASVHPDLSETDIKSVFEAFG-----------EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFD  270 (612)
T ss_pred             cccceEEeecCCCCCCHHHHHHHHhhcC-----------CeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCe
Confidence            3457999999999999999999999999           55555553      45899999999999999999 999999


Q ss_pred             ecCceEEEeCCCC
Q psy2204         117 FKGQSLKIRRPHD  129 (231)
Q Consensus       117 l~gr~i~V~~~~~  129 (231)
                      |.|+.|+|.++..
T Consensus       271 lgGr~LrV~kAi~  283 (612)
T TIGR01645       271 LGGQYLRVGKCVT  283 (612)
T ss_pred             eCCeEEEEEecCC
Confidence            9999999997764

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.

>KOG4205|consensus

Probab=99.45  E-value=1.6e-13  Score=118.16  Aligned_cols=129  Identities=22%  Similarity=0.391  Sum_probs=103.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      +..+||||+|+|+++++.|+++|.+||           .+.++.+++      .+||+||+|.+.+.+.++|...-+.|+
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~G-----------ev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~d   73 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFG-----------EVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLD   73 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccC-----------ceeeEEEeccCCCCCcccccceecCCCcchheeecccccccC
Confidence            778999999999999999999999999           555555544      479999999999999999988888999


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------  172 (231)
                      ||.|.+.++.++........               .....+|||++||.+++++                          
T Consensus        74 gr~ve~k~av~r~~~~~~~~---------------~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~  138 (311)
T KOG4205|consen   74 GRSVEPKRAVSREDQTKVGR---------------HLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRP  138 (311)
T ss_pred             CccccceeccCccccccccc---------------ccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccccccc
Confidence            99999987765543321111               1134799999999999998                          


Q ss_pred             --------------HHHHHhCCCeeCCeEEEEEEeecCccc
Q psy2204         173 --------------QAIAGLNGMQLGDKKLIVQRASVGAKN  199 (231)
Q Consensus       173 --------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~  199 (231)
                                    +.+....-+.|.|+.+.|++|.+....
T Consensus       139 rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk~~~  179 (311)
T KOG4205|consen  139 RGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPKEVM  179 (311)
T ss_pred             ccceeeEeccccccceecccceeeecCceeeEeeccchhhc
Confidence                          445556678899999999999866443

>KOG4206|consensus

Probab=99.44  E-value=1.5e-12  Score=105.38  Aligned_cols=79  Identities=22%  Similarity=0.405  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHH----HHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          44 RQARRLYVGNIPFGVTEDEMME----FFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~----~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .+..||||.||+..+..++|+.    +|++||++.        .|+..+..+-||-|||.|.+.+.|..|+ .|+|..|.
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~il--------dI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFy   78 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKIL--------DISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFY   78 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhCCeE--------EEEecCCCCccCceEEEecChhHHHHHHHHhcCCccc
Confidence            3445999999999999999988    999999544        3444455666899999999999999999 99999999


Q ss_pred             CceEEEeCCCCC
Q psy2204         119 GQSLKIRRPHDY  130 (231)
Q Consensus       119 gr~i~V~~~~~~  130 (231)
                      |++++|++++..
T Consensus        79 gK~mriqyA~s~   90 (221)
T KOG4206|consen   79 GKPMRIQYAKSD   90 (221)
T ss_pred             CchhheecccCc
Confidence            999999988643

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

Probab=99.44  E-value=8.8e-13  Score=109.95  Aligned_cols=129  Identities=22%  Similarity=0.475  Sum_probs=87.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      .++|||+|||+++|+++|+++|..||.+..+.     ...+..+++.+|||||+|.+.+++..|+ .+++..|.|++|.|
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~-----~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v  189 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVR-----LVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRV  189 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEE-----eeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEe
Confidence            68999999999999999999999999554432     1122234566899999999999999999 99999999999999


Q ss_pred             eCCCC-CCCCCCCCC--CCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHHHHHHHhC
Q psy2204         125 RRPHD-YQPTPGVTD--NAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLN  179 (231)
Q Consensus       125 ~~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee~Ai~~ln  179 (231)
                      ..... .........  .....................+++++++..++.+.....+.
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (306)
T COG0724         190 QKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFK  247 (306)
T ss_pred             eccccccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhcc
Confidence            98542 111111100  00000000111122233456889999999998874443333

>smart00362 RRM_2 RNA recognition motif

Probab=99.43  E-value=9.4e-13  Score=87.99  Aligned_cols=67  Identities=36%  Similarity=0.723  Sum_probs=60.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC----cEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK----NFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k----g~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      +|||+|||.++++++|+++|+.||           .+..+.+..++    ++|||+|.+.++|.+|+ .+++..+.|+.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g-----------~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i   69 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFG-----------PIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPL   69 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcC-----------CEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence            589999999999999999999999           67777666554    99999999999999999 999999999998


Q ss_pred             EEe
Q psy2204         123 KIR  125 (231)
Q Consensus       123 ~V~  125 (231)
                      .|+
T Consensus        70 ~v~   72 (72)
T smart00362       70 RVE   72 (72)
T ss_pred             eeC
Confidence            874

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.41  E-value=8.8e-13  Score=116.11  Aligned_cols=75  Identities=25%  Similarity=0.465  Sum_probs=64.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..++|||+|||+++|+++|+++|++||           .|+.+++.      +.|+||||+|.+.++|++|| .||+..+
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG-----------~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~  260 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYG-----------QIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIP  260 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcC-----------CEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCcc
Confidence            456899999999999999999999999           55555544      44699999999999999999 9999999


Q ss_pred             cC--ceEEEeCCCCC
Q psy2204         118 KG--QSLKIRRPHDY  130 (231)
Q Consensus       118 ~g--r~i~V~~~~~~  130 (231)
                      .+  ++|+|.++...
T Consensus       261 ~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       261 EGGSQPLTVRLAEEH  275 (346)
T ss_pred             CCCceeEEEEECCcc
Confidence            76  68888877643

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

>KOG0123|consensus

Probab=99.41  E-value=1.1e-12  Score=116.34  Aligned_cols=131  Identities=19%  Similarity=0.391  Sum_probs=98.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ++.++...|||.||++++|..+|.++|+.||           .|+++++..+    ||| ||+|+++++|++|| .+||.
T Consensus        71 ~s~rd~~~~~i~nl~~~~~~~~~~d~f~~~g-----------~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~  138 (369)
T KOG0123|consen   71 WSQRDPSLVFIKNLDESIDNKSLYDTFSEFG-----------NILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGM  138 (369)
T ss_pred             hhccCCceeeecCCCcccCcHHHHHHHHhhc-----------CeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCc
Confidence            4455555699999999999999999999999           6777776543    799 99999999999999 99999


Q ss_pred             eecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-----------------------
Q psy2204         116 NFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-----------------------  172 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-----------------------  172 (231)
                      .+.|++|.|........+.......             ...-..+||.|++.+.+++                       
T Consensus       139 ll~~kki~vg~~~~~~er~~~~~~~-------------~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g  205 (369)
T KOG0123|consen  139 LLNGKKIYVGLFERKEEREAPLGEY-------------KKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIG  205 (369)
T ss_pred             ccCCCeeEEeeccchhhhcccccch-------------hhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCC
Confidence            9999999998554333222111110             0111234444554444443                       


Q ss_pred             -----------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 -----------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 -----------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                       .|+..|||..+.+..+.|..+..+
T Consensus       206 ~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqkk  246 (369)
T KOG0123|consen  206 KSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQKK  246 (369)
T ss_pred             CCCCccceeecChhHHHHHHHhccCCcCCccceeecccccc
Confidence                             899999999999999999988764

>KOG0114|consensus

Probab=99.41  E-value=9.6e-13  Score=94.21  Aligned_cols=75  Identities=24%  Similarity=0.409  Sum_probs=68.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      -.|-|||.|||+++|.++..++|.+||           .|+.++++-.   +|-|||.|++..+|++|+ .|+|..+.++
T Consensus        17 vnriLyirNLp~~ITseemydlFGkyg-----------~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~r   85 (124)
T KOG0114|consen   17 VNRILYIRNLPFKITSEEMYDLFGKYG-----------TIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNR   85 (124)
T ss_pred             hheeEEEecCCccccHHHHHHHhhccc-----------ceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCc
Confidence            357899999999999999999999999           8888888654   799999999999999999 9999999999


Q ss_pred             eEEEeCCCCC
Q psy2204         121 SLKIRRPHDY  130 (231)
Q Consensus       121 ~i~V~~~~~~  130 (231)
                      .|.|-+....
T Consensus        86 yl~vlyyq~~   95 (124)
T KOG0114|consen   86 YLVVLYYQPE   95 (124)
T ss_pred             eEEEEecCHH
Confidence            9999877643

>KOG0113|consensus

Probab=99.39  E-value=1.1e-12  Score=109.83  Aligned_cols=82  Identities=18%  Similarity=0.338  Sum_probs=72.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ...++-+||||+-|+++++|+.|+..|+.||.|..+.     .|.+..++++||||||+|+++.++..|. ..+|..|+|
T Consensus        96 a~gDPy~TLFv~RLnydT~EskLrreF~~YG~Ikrir-----lV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idg  170 (335)
T KOG0113|consen   96 AIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIR-----LVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDG  170 (335)
T ss_pred             ccCCccceeeeeeccccccHHHHHHHHHhcCcceeEE-----EeeecccCCccceEEEEeccHHHHHHHHHhccCceecC
Confidence            3456779999999999999999999999999777664     4556667788999999999999999999 999999999


Q ss_pred             ceEEEeCC
Q psy2204         120 QSLKIRRP  127 (231)
Q Consensus       120 r~i~V~~~  127 (231)
                      +.|.|..-
T Consensus       171 rri~VDvE  178 (335)
T KOG0113|consen  171 RRILVDVE  178 (335)
T ss_pred             cEEEEEec
Confidence            99998743

>KOG0123|consensus

Probab=99.38  E-value=2.9e-12  Score=113.62  Aligned_cols=110  Identities=27%  Similarity=0.425  Sum_probs=93.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC---CCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL---DKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~---~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ..||||   +++|+..|+++|+.+|.           ++++++++   +-|||||.|.+.++|.+|| +||...++|++|
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~-----------v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~   67 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGP-----------VLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPI   67 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCC-----------ceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEE
Confidence            369999   99999999999999994           54444444   4699999999999999999 999999999999


Q ss_pred             EEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------------------------------
Q psy2204         123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------------------------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------------------------------  172 (231)
                      +|.|....                          +..|||.||+.+++..                              
T Consensus        68 rim~s~rd--------------------------~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~FV~  121 (369)
T KOG0123|consen   68 RIMWSQRD--------------------------PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGYFVQ  121 (369)
T ss_pred             EeehhccC--------------------------CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceeeEEE
Confidence            99987521                          1229999999988877                              


Q ss_pred             --------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 --------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 --------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                              +||+.|||..+.|++|.|......
T Consensus       122 f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~  153 (369)
T KOG0123|consen  122 FESEESAKKAIEKLNGMLLNGKKIYVGLFERK  153 (369)
T ss_pred             eCCHHHHHHHHHHhcCcccCCCeeEEeeccch
Confidence                    999999999999999999876543

>KOG0111|consensus

Probab=99.35  E-value=8.2e-13  Score=106.44  Aligned_cols=84  Identities=23%  Similarity=0.400  Sum_probs=73.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .+....|+||||+|..+++|.-|...|-.||           .|.++++      .++||||||+|.-.|||..|| .||
T Consensus         5 ~~a~~KrtlYVGGladeVtekvLhaAFIPFG-----------DI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn   73 (298)
T KOG0111|consen    5 QMANQKRTLYVGGLADEVTEKVLHAAFIPFG-----------DIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN   73 (298)
T ss_pred             cccccceeEEeccchHHHHHHHHHhcccccc-----------chhhcccccchhcccccceeEEEeeccchhHHHhhcCc
Confidence            3456789999999999999999999999999           5666655      456999999999999999999 999


Q ss_pred             CCeecCceEEEeCCCCCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQPTPG  135 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~~~~~  135 (231)
                      +.+|.||.|+|.++++..-..+
T Consensus        74 esEL~GrtirVN~AkP~kikeg   95 (298)
T KOG0111|consen   74 ESELFGRTIRVNLAKPEKIKEG   95 (298)
T ss_pred             hhhhcceeEEEeecCCccccCC
Confidence            9999999999998886654443

>KOG0147|consensus

Probab=99.35  E-value=6.1e-13  Score=119.22  Aligned_cols=145  Identities=17%  Similarity=0.278  Sum_probs=107.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ...+++.|++|+-.|....++-+|.+||+.+|+|..+-     .|.+-...+.||.|||+|.+.+++..||.|.|+.+.|
T Consensus       173 ~~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVr-----iI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg  247 (549)
T KOG0147|consen  173 SPEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVR-----IIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLG  247 (549)
T ss_pred             CchHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeE-----eeccccchhhcceeEEEEecccchhhHhhhcCCcccC
Confidence            45678899999999999999999999999999444332     2222222445899999999999999999999999999


Q ss_pred             ceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH---------------------------
Q psy2204         120 QSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED---------------------------  172 (231)
Q Consensus       120 r~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee---------------------------  172 (231)
                      .+|.|+......+... ....+.      ........-++|||+||.+.++++                           
T Consensus       248 ~pv~vq~sEaeknr~a-~~s~a~------~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~sk  320 (549)
T KOG0147|consen  248 VPVIVQLSEAEKNRAA-NASPAL------QGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSK  320 (549)
T ss_pred             ceeEecccHHHHHHHH-hccccc------cccccccchhhhhhcccccCchHHHHhhhccCcccceeeeecccccccccc
Confidence            9999985542222100 000010      000111122449999999999999                           


Q ss_pred             --------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 --------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 --------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                    +|+..|||++|.||.|+|..-+..
T Consensus       321 gfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r  358 (549)
T KOG0147|consen  321 GFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER  358 (549)
T ss_pred             CcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence                          899999999999999999876544

>KOG0122|consensus

Probab=99.34  E-value=2.4e-12  Score=105.21  Aligned_cols=82  Identities=21%  Similarity=0.364  Sum_probs=71.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      +++.+|=|.||+.+++|++|+++|..||.+..+.     ...+..++..||||||.|.+.++|.+|| .|||.-++.--|
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvy-----lardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LIL  261 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVY-----LARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLIL  261 (270)
T ss_pred             CccceeEEecCccccChhHHHHHhhccCccceeE-----EEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEE
Confidence            4678899999999999999999999999655543     3445556777999999999999999999 999999999999


Q ss_pred             EEeCCCCC
Q psy2204         123 KIRRPHDY  130 (231)
Q Consensus       123 ~V~~~~~~  130 (231)
                      +|.|+++.
T Consensus       262 rvEwskP~  269 (270)
T KOG0122|consen  262 RVEWSKPS  269 (270)
T ss_pred             EEEecCCC
Confidence            99998764

>KOG4207|consensus

Probab=99.34  E-value=2.5e-12  Score=102.78  Aligned_cols=75  Identities=24%  Similarity=0.449  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .....+|-|-||-+-++.++|+.+|++||           .|-||.|.++      +|||||.|.+..+|+.|+ .|+|.
T Consensus        10 v~gm~SLkVdNLTyRTspd~LrrvFekYG-----------~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~   78 (256)
T KOG4207|consen   10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYG-----------RVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGA   78 (256)
T ss_pred             cccceeEEecceeccCCHHHHHHHHHHhC-----------cccceecccccccccccceeEEEeeecchHHHHHHhhcce
Confidence            34566899999999999999999999999           6777777655      799999999999999999 99999


Q ss_pred             eecCceEEEeCCC
Q psy2204         116 NFKGQSLKIRRPH  128 (231)
Q Consensus       116 ~l~gr~i~V~~~~  128 (231)
                      +|+|+.|.|+.++
T Consensus        79 ~ldgRelrVq~ar   91 (256)
T KOG4207|consen   79 VLDGRELRVQMAR   91 (256)
T ss_pred             eeccceeeehhhh
Confidence            9999999999665

>KOG0108|consensus

Probab=99.33  E-value=2.4e-12  Score=115.41  Aligned_cols=80  Identities=23%  Similarity=0.501  Sum_probs=70.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      +.+||||+|+++++++|.++|+..|.|.++.     .+.|...++.|||||++|.+.+++.+|+ .|||.++.||+|+|.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~-----~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~   93 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFR-----LVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVN   93 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceee-----ecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEee
Confidence            8999999999999999999999999666664     4555566777999999999999999999 999999999999999


Q ss_pred             CCCCCC
Q psy2204         126 RPHDYQ  131 (231)
Q Consensus       126 ~~~~~~  131 (231)
                      ++....
T Consensus        94 ~~~~~~   99 (435)
T KOG0108|consen   94 YASNRK   99 (435)
T ss_pred             cccccc
Confidence            876543

>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=99.31  E-value=2e-11  Score=81.91  Aligned_cols=67  Identities=36%  Similarity=0.677  Sum_probs=60.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      +|||+|||..+++++|+++|+.||           .+..+.+..+     +++|||+|.+.++|..|+ .+++..+.|+.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g-----------~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~   69 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFG-----------KVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRP   69 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcC-----------CEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            589999999999999999999999           6666666544     699999999999999999 99999999999


Q ss_pred             EEEe
Q psy2204         122 LKIR  125 (231)
Q Consensus       122 i~V~  125 (231)
                      +.|.
T Consensus        70 ~~v~   73 (74)
T cd00590          70 LRVE   73 (74)
T ss_pred             EEEe
Confidence            9886

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).

>KOG0147|consensus

Probab=99.31  E-value=4e-12  Score=114.04  Aligned_cols=79  Identities=27%  Similarity=0.538  Sum_probs=65.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ...+.++||||||.++++++.|+.+|+.||.|..+.     ..++..+++.|||+||+|.+.++|++|+ .|||.+|-||
T Consensus       274 ~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~-----l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr  348 (549)
T KOG0147|consen  274 FTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQ-----LTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGR  348 (549)
T ss_pred             cccchhhhhhcccccCchHHHHhhhccCcccceeee-----eccccccccccCcceEEEecHHHHHHHHHHhccceecCc
Confidence            344555699999999999999999999999554432     2233346677999999999999999999 9999999999


Q ss_pred             eEEEe
Q psy2204         121 SLKIR  125 (231)
Q Consensus       121 ~i~V~  125 (231)
                      .|+|.
T Consensus       349 ~ikV~  353 (549)
T KOG0147|consen  349 LIKVS  353 (549)
T ss_pred             eEEEE
Confidence            99987

>KOG0126|consensus

Probab=99.29  E-value=2e-13  Score=106.96  Aligned_cols=85  Identities=21%  Similarity=0.484  Sum_probs=73.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .-+++.-|||||||+++||.+|..+|++||.+..+.     .|++.+++++|||||+-|++..+..-|+ .|||..+.||
T Consensus        31 ~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdin-----LiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gR  105 (219)
T KOG0126|consen   31 EYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDIN-----LIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGR  105 (219)
T ss_pred             hcccceEEEECCCcccccCCcEEEEeeccCceEEEE-----EEecCCCCcccceEEEEecCccceEEEEeccCCceecce
Confidence            445677899999999999999999999999666554     4566667777999999999999999999 9999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|..-..|.
T Consensus       106 tirVDHv~~Yk  116 (219)
T KOG0126|consen  106 TIRVDHVSNYK  116 (219)
T ss_pred             eEEeeeccccc
Confidence            99998655544

>smart00360 RRM RNA recognition motif

Probab=99.26  E-value=3.3e-11  Score=80.04  Aligned_cols=64  Identities=38%  Similarity=0.691  Sum_probs=56.1

Q ss_pred             EcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          51 VGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        51 VgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      |+|||..+++++|+++|+.||           .|..+.+.++      ++||||+|.+.++|.+|+ .+++..+.|+.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g-----------~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~   69 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFG-----------KIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLK   69 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhC-----------CEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEE
Confidence            689999999999999999999           5655555443      689999999999999999 9999999999988


Q ss_pred             Ee
Q psy2204         124 IR  125 (231)
Q Consensus       124 V~  125 (231)
                      |+
T Consensus        70 v~   71 (71)
T smart00360       70 VK   71 (71)
T ss_pred             eC
Confidence            74

>KOG4212|consensus

Probab=99.24  E-value=9.6e-11  Score=102.79  Aligned_cols=75  Identities=16%  Similarity=0.432  Sum_probs=63.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .-.|.+||.|||++..+++|+++|..-..          .|..|.+     .+.||||.|||+++|.++||+ .||..++
T Consensus        42 ~r~R~vfItNIpyd~rWqdLKdLvrekvG----------ev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~  111 (608)
T KOG4212|consen   42 ARDRSVFITNIPYDYRWQDLKDLVREKVG----------EVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEV  111 (608)
T ss_pred             cccceEEEecCcchhhhHhHHHHHHHhcC----------ceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccc
Confidence            34577999999999999999999985431          4555544     566899999999999999999 9999999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .||+|.|+...
T Consensus       112 ~GR~l~vKEd~  122 (608)
T KOG4212|consen  112 NGRELVVKEDH  122 (608)
T ss_pred             cCceEEEeccC
Confidence            99999998544

>PF13893 RRM_5: RNA recognition motif

Probab=99.23  E-value=3e-11  Score=78.46  Aligned_cols=54  Identities=30%  Similarity=0.572  Sum_probs=49.4

Q ss_pred             HHHHHHHhhhhhhccccCCCCeeeeEecCCC-cEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCC
Q psy2204          63 MMEFFNQQMHLSGLAQAAGNPVLACQINLDK-NFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRP  127 (231)
Q Consensus        63 L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k-g~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~  127 (231)
                      |+++|++||           .|.++.+.+++ ++|||+|.+.++|.+|+ .|||..+.|++|+|.++
T Consensus         1 L~~~f~~fG-----------~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFG-----------EVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS------------EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcc-----------cEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            689999999           89999888887 99999999999999999 99999999999999863

(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 ....

>KOG0153|consensus

Probab=99.20  E-value=1.1e-10  Score=99.83  Aligned_cols=81  Identities=22%  Similarity=0.361  Sum_probs=75.1

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH--HhCCC
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM--AFDGI  115 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al--~lng~  115 (231)
                      ..+......++||||+|...++|.+|+++|.+||           .|+++.+...++||||+|.+.++|+.|.  .+|..
T Consensus       220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyG-----------eirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~l  288 (377)
T KOG0153|consen  220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYG-----------EIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKL  288 (377)
T ss_pred             cCCCcccceeEEEecccccchhHHHHHHHHhhcC-----------CeeeEEeecccccceeeehhhHHHHHHHHhhccee
Confidence            5566777889999999999999999999999999           8999999999999999999999999998  88888


Q ss_pred             eecCceEEEeCCCC
Q psy2204         116 NFKGQSLKIRRPHD  129 (231)
Q Consensus       116 ~l~gr~i~V~~~~~  129 (231)
                      .++|++|+|.|.++
T Consensus       289 vI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  289 VINGFRLKIKWGRP  302 (377)
T ss_pred             eecceEEEEEeCCC
Confidence            89999999998887

>KOG0146|consensus

Probab=99.20  E-value=1.9e-11  Score=101.25  Aligned_cols=77  Identities=26%  Similarity=0.429  Sum_probs=61.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ....+.|+||||-|...-.|+|++.+|..||           .|.++.+     +.+||||||.|.+..+|..|| .|+|
T Consensus        14 srg~~drklfvgml~kqq~e~dvrrlf~pfG-----------~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHg   82 (371)
T KOG0146|consen   14 SRGGDDRKLFVGMLNKQQSEDDVRRLFQPFG-----------NIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHG   82 (371)
T ss_pred             cCCccchhhhhhhhcccccHHHHHHHhcccC-----------CcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcc
Confidence            3334779999999999999999999999999           4555444     445999999999999999999 9999


Q ss_pred             Cee-cC--ceEEEeCCC
Q psy2204         115 INF-KG--QSLKIRRPH  128 (231)
Q Consensus       115 ~~l-~g--r~i~V~~~~  128 (231)
                      ..- .|  ..|.|+++.
T Consensus        83 SqTmpGASSSLVVK~AD   99 (371)
T KOG0146|consen   83 SQTMPGASSSLVVKFAD   99 (371)
T ss_pred             cccCCCCccceEEEecc
Confidence            854 33  456666554

>KOG0144|consensus

Probab=99.18  E-value=3.7e-11  Score=105.18  Aligned_cols=79  Identities=25%  Similarity=0.463  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCCe-e
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGIN-F  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~~-l  117 (231)
                      ..|+||||-|+..+||.|++++|++||           .|+++++.+     +||||||.|++.+.|..|| .|||.. +
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG-----------~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tm  191 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFG-----------HIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTM  191 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhC-----------ccchhhheecccccccceeEEEEehHHHHHHHHHhhccceee
Confidence            478999999999999999999999999           566666654     5899999999999999999 999984 3


Q ss_pred             cC--ceEEEeCCCCCCCCC
Q psy2204         118 KG--QSLKIRRPHDYQPTP  134 (231)
Q Consensus       118 ~g--r~i~V~~~~~~~~~~  134 (231)
                      .|  .+|.|+++...+++.
T Consensus       192 eGcs~PLVVkFADtqkdk~  210 (510)
T KOG0144|consen  192 EGCSQPLVVKFADTQKDKD  210 (510)
T ss_pred             ccCCCceEEEecccCCCch
Confidence            44  689999887665553

>KOG0106|consensus

Probab=99.17  E-value=8.1e-11  Score=96.03  Aligned_cols=131  Identities=18%  Similarity=0.388  Sum_probs=95.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      .++|||+|++.+.+.+|..||..||           .+.++.+.  .||+||+|.+..+|..|+ .+|+..|.|-.+.|.
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg-----------~~~d~~mk--~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve   68 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYG-----------KIPDADMK--NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVE   68 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhcc-----------ccccceee--cccceeccCchhhhhcccchhcCceecceeeeee
Confidence            4799999999999999999999999           56665554  589999999999999999 999999999888888


Q ss_pred             CCCCCCCCCCCCCCCcccCCCCccc--CcCCCCCCcEEEcCCCCCCCHH-------------------------------
Q psy2204         126 RPHDYQPTPGVTDNAAVAVPAGVIS--TVVPDSPHKIFIGGLPNYLNED-------------------------------  172 (231)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~ifV~nLp~~~tee-------------------------------  172 (231)
                      +++......+..... .  ..+...  .....+...++|.+++..+.|.                               
T Consensus        69 ~~r~~~~~~g~~~~g-~--r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~d  145 (216)
T KOG0106|consen   69 HARGKRRGRGRPRGG-D--RRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARRNFAFVEFSEQED  145 (216)
T ss_pred             cccccccccCCCCCC-C--ccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhhccccceeehhhhh
Confidence            777432111110000 0  000000  0112234567777777777554                               


Q ss_pred             --HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 --QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 --~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                        .|++.|+|..+.++.|++...
T Consensus       146 a~ra~~~l~~~~~~~~~l~~~~~  168 (216)
T KOG0106|consen  146 AKRALEKLDGKKLNGRRISVEKN  168 (216)
T ss_pred             hhhcchhccchhhcCceeeeccc
Confidence              999999999999999999554

>KOG0130|consensus

Probab=99.13  E-value=8.9e-11  Score=88.01  Aligned_cols=81  Identities=17%  Similarity=0.340  Sum_probs=65.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      +-..--|||.++...+||++|.+.|..||.|..+-     .-++.+++.-||||+|+|++.++|.+|+ .+||..|.|.+
T Consensus        69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNih-----LNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~  143 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIH-----LNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQN  143 (170)
T ss_pred             ceeeEEEEEeccCcchhHHHHHHHHhhccccccee-----eccccccccccceeeeehHhHHHHHHHHHhccchhhhCCc
Confidence            33445699999999999999999999999443321     1123333444899999999999999999 99999999999


Q ss_pred             EEEeCCC
Q psy2204         122 LKIRRPH  128 (231)
Q Consensus       122 i~V~~~~  128 (231)
                      |.|.|+-
T Consensus       144 v~VDw~F  150 (170)
T KOG0130|consen  144 VSVDWCF  150 (170)
T ss_pred             eeEEEEE
Confidence            9999764

>KOG0132|consensus

Probab=99.10  E-value=1.9e-10  Score=106.88  Aligned_cols=78  Identities=21%  Similarity=0.393  Sum_probs=73.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      -+||||||.|+.++++.||.++|+.||           .|.++.+..+++||||......+|.+|+ +|+...+.++.|+
T Consensus       420 ~SrTLwvG~i~k~v~e~dL~~~feefG-----------eiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Ik  488 (894)
T KOG0132|consen  420 CSRTLWVGGIPKNVTEQDLANLFEEFG-----------EIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIK  488 (894)
T ss_pred             eeeeeeeccccchhhHHHHHHHHHhcc-----------cceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeE
Confidence            469999999999999999999999999           8999999999999999999999999999 9999999999999


Q ss_pred             EeCCCCCCCC
Q psy2204         124 IRRPHDYQPT  133 (231)
Q Consensus       124 V~~~~~~~~~  133 (231)
                      |.|+..+-..
T Consensus       489 i~Wa~g~G~k  498 (894)
T KOG0132|consen  489 IAWAVGKGPK  498 (894)
T ss_pred             EeeeccCCcc
Confidence            9998765433

>KOG4211|consensus

Probab=99.09  E-value=1.6e-09  Score=96.42  Aligned_cols=123  Identities=19%  Similarity=0.304  Sum_probs=91.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe----cCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI----NLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~----~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      .....|-+.+|||++|++||++||+.++            |.++.+    .+..|-|||+|++++++++||+.+...+..
T Consensus         8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~------------I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~   75 (510)
T KOG4211|consen    8 STAFEVRLRGLPWSATEKEILDFFSNCG------------IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGH   75 (510)
T ss_pred             CcceEEEecCCCccccHHHHHHHHhcCc------------eeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCC
Confidence            3445677889999999999999999985            555544    455799999999999999999999999999


Q ss_pred             ceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHHHHHHHhCCCeeCCeEE
Q psy2204         120 QSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKL  188 (231)
Q Consensus       120 r~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee~Ai~~lnG~~i~gr~l  188 (231)
                      |-|.|-........       |...+.+..+.   .....|-+++||+.||+++..+.|.|++|...-|
T Consensus        76 RYIEVf~~~~~e~d-------~~~~~~g~~s~---~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi  134 (510)
T KOG4211|consen   76 RYIEVFTAGGAEAD-------WVMRPGGPNSS---ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGI  134 (510)
T ss_pred             ceEEEEccCCcccc-------ccccCCCCCCC---CCCceEEecCCCccCcHHHHHHHhcCCcccccce
Confidence            99999866432211       11111111111   1224677899999999998888888888766533

>smart00361 RRM_1 RNA recognition motif

Probab=99.06  E-value=3.1e-10  Score=77.19  Aligned_cols=62  Identities=13%  Similarity=0.313  Sum_probs=46.8

Q ss_pred             HHHHHHHHH----HhhhhhhccccCCCCeeeeEe--cCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          60 EDEMMEFFN----QQMHLSGLAQAAGNPVLACQI--NLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        60 e~~L~~~F~----~~G~~~~~~~~~~~~i~~~~~--~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      +++|+++|+    .||.+.++..    .+.+...  .+++|||||+|.+.++|.+|+ .|||..+.||.|++.
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~----v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINK----IYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEE----EEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            678999999    9995443310    0111112  456899999999999999999 999999999999863

>KOG0109|consensus

Probab=99.01  E-value=2.9e-10  Score=95.18  Aligned_cols=75  Identities=27%  Similarity=0.578  Sum_probs=69.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ++.+.+|+||||.+.++.+||+..|++||           +++.+++.  |+|+||.|.-.++|..|+ .||+.+|.|++
T Consensus        75 sk~stkl~vgNis~tctn~ElRa~fe~yg-----------pviecdiv--kdy~fvh~d~~eda~~air~l~~~~~~gk~  141 (346)
T KOG0109|consen   75 SKASTKLHVGNISPTCTNQELRAKFEKYG-----------PVIECDIV--KDYAFVHFDRAEDAVEAIRGLDNTEFQGKR  141 (346)
T ss_pred             CCCccccccCCCCccccCHHHhhhhcccC-----------Cceeeeee--cceeEEEEeeccchHHHHhcccccccccce
Confidence            56788999999999999999999999999           88888887  689999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      ++|+.+..+
T Consensus       142 m~vq~stsr  150 (346)
T KOG0109|consen  142 MHVQLSTSR  150 (346)
T ss_pred             eeeeeeccc
Confidence            999966544

>KOG1190|consensus

Probab=98.96  E-value=3e-08  Score=86.68  Aligned_cols=138  Identities=20%  Similarity=0.287  Sum_probs=98.8

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC-cEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          46 ARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK-NFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        46 ~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k-g~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ...|.|.||.. .+|.+.|..+|.-||           .|..+++..+| --|.|.|.+...|.-|+ .|+|..++|++|
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYG-----------dVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~l  365 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYG-----------DVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKL  365 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhc-----------ceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceE
Confidence            56788999986 569999999999999           89999887664 68999999999999999 999999999999


Q ss_pred             EEeCCCCCCCCC---CCCC---------CCcccCCC-Cc-ccCcCCCCCCcEEEcCCCCCCCHH----------------
Q psy2204         123 KIRRPHDYQPTP---GVTD---------NAAVAVPA-GV-ISTVVPDSPHKIFIGGLPNYLNED----------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~---~~~~---------~~~~~~~~-~~-~~~~~~~~~~~ifV~nLp~~~tee----------------  172 (231)
                      +|..++-..-..   +...         .+..++.. +. .-...-....+|.+.|+|.+++||                
T Consensus       366 rvt~SKH~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkaf  445 (492)
T KOG1190|consen  366 RVTLSKHTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAF  445 (492)
T ss_pred             EEeeccCccccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEee
Confidence            999775322110   0000         00001100 00 000011223588899999999999                


Q ss_pred             ---------------------HHHHHhCCCeeCCe-EEEEEEee
Q psy2204         173 ---------------------QAIAGLNGMQLGDK-KLIVQRAS  194 (231)
Q Consensus       173 ---------------------~Ai~~lnG~~i~gr-~l~V~~a~  194 (231)
                                           .|+..++.+.+++. .|||+|+.
T Consensus       446 kff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk  489 (492)
T KOG1190|consen  446 KFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK  489 (492)
T ss_pred             eecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence                                 55666777788764 88998876

>KOG4661|consensus

Probab=98.95  E-value=1.1e-09  Score=99.03  Aligned_cols=82  Identities=12%  Similarity=0.303  Sum_probs=69.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ..+|.|||.+|...+...+|+.+|++||+|....     .|...+..--+.|+||++.+.++|.+|| .|+.++|+||.|
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAK-----VVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmI  477 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAK-----VVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMI  477 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHhcceecee-----eeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceee
Confidence            4569999999999999999999999999766543     3334444444799999999999999999 999999999999


Q ss_pred             EEeCCCCC
Q psy2204         123 KIRRPHDY  130 (231)
Q Consensus       123 ~V~~~~~~  130 (231)
                      .|..+++.
T Consensus       478 SVEkaKNE  485 (940)
T KOG4661|consen  478 SVEKAKNE  485 (940)
T ss_pred             eeeecccC
Confidence            99977654

>KOG1457|consensus

Probab=98.95  E-value=4.4e-09  Score=85.25  Aligned_cols=76  Identities=26%  Similarity=0.398  Sum_probs=58.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCC----CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLD----KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~----kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..-|||||.+||.++...||+.+|..|-.-         +-.-+++ .+.    +-+||+.|.+..+|..|+ .|||..|
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GY---------EgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrF  102 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGY---------EGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRF  102 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHhccCCCc---------cceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeee
Confidence            346899999999999999999999987411         1111222 222    479999999999999999 9999999


Q ss_pred             c---CceEEEeCCC
Q psy2204         118 K---GQSLKIRRPH  128 (231)
Q Consensus       118 ~---gr~i~V~~~~  128 (231)
                      +   +..|+|..++
T Consensus       103 DpE~~stLhiElAK  116 (284)
T KOG1457|consen  103 DPETGSTLHIELAK  116 (284)
T ss_pred             ccccCceeEeeehh
Confidence            6   5677776443

>KOG0129|consensus

Probab=98.91  E-value=6.6e-09  Score=93.13  Aligned_cols=133  Identities=20%  Similarity=0.281  Sum_probs=84.6

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCc---EEEEEecCHHHHHHHH-HhCC
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---FAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg---~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +....+-+|+||||+||++++|++|...|..||.   +..++............+|   |+|+.|+++.++...| +..-
T Consensus       252 ~~~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs---~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~  328 (520)
T KOG0129|consen  252 GYRSPRYSRKVFVGGLPWDITEAQINASFGQFGS---VKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE  328 (520)
T ss_pred             CCCccccccceeecCCCccccHHHHHhhcccccc---eEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh
Confidence            3455667899999999999999999999999993   3333332233333344577   9999999999999887 3322


Q ss_pred             CeecCce--EEEeCCCCCCCCCCCCCCCcccCCCC--cccCcCCCCCCcEEEcCCCCCCCHHHHHHHhC
Q psy2204         115 INFKGQS--LKIRRPHDYQPTPGVTDNAAVAVPAG--VISTVVPDSPHKIFIGGLPNYLNEDQAIAGLN  179 (231)
Q Consensus       115 ~~l~gr~--i~V~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ifV~nLp~~~tee~Ai~~ln  179 (231)
                         ...+  ++|.-++-+..  ..+-.+|......  ...+...|..+|||||+||.-++.++...-|+
T Consensus       329 ---~~~~~yf~vss~~~k~k--~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd  392 (520)
T KOG0129|consen  329 ---GEGNYYFKVSSPTIKDK--EVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIME  392 (520)
T ss_pred             ---cccceEEEEecCccccc--ceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHH
Confidence               3333  33443322221  1222333332221  12334456678999999999999984444444

>KOG1548|consensus

Probab=98.90  E-value=1.3e-08  Score=87.28  Aligned_cols=81  Identities=20%  Similarity=0.304  Sum_probs=64.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      -...|||+|||.++|.+++.++|++||.|.+-.+. +  --.+++     ++-||=|.+.|.-.+++.-|+ .|++..|.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t-~--epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r  209 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQT-G--EPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR  209 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCC-C--CeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc
Confidence            34569999999999999999999999955432111 1  112222     233799999999999999999 99999999


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      |+.|+|.+++
T Consensus       210 g~~~rVerAk  219 (382)
T KOG1548|consen  210 GKKLRVERAK  219 (382)
T ss_pred             CcEEEEehhh
Confidence            9999999775

>KOG0415|consensus

Probab=98.89  E-value=2.3e-09  Score=92.01  Aligned_cols=82  Identities=13%  Similarity=0.254  Sum_probs=69.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ...+.+.|||.-|++-+|+++|.-+|+.||+|.+..     .|.+.+++-+--||||+|++.+++++|. +|+...+++|
T Consensus       235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sce-----VIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDr  309 (479)
T KOG0415|consen  235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCE-----VIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDR  309 (479)
T ss_pred             cCCCcceEEEEecCCcccccchhhHHhhcccceeee-----EEecccccchhheeeeeecchhhHHHHHhhhcceeeccc
Confidence            445678999999999999999999999999655442     4455555555689999999999999999 9999999999


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      .|.|.++.
T Consensus       310 RIHVDFSQ  317 (479)
T KOG0415|consen  310 RIHVDFSQ  317 (479)
T ss_pred             eEEeehhh
Confidence            99998654

>KOG4212|consensus

Probab=98.87  E-value=5e-09  Score=92.18  Aligned_cols=76  Identities=22%  Similarity=0.358  Sum_probs=64.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ....+.+.+|||.|||+++|++-|++-|..||           .+...+++.+ +.-+.|.|.++++|++|+ .|||..|
T Consensus       530 ~gaarKa~qIiirNlP~dfTWqmlrDKfre~G-----------~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l  598 (608)
T KOG4212|consen  530 VGAARKACQIIIRNLPFDFTWQMLRDKFREIG-----------HVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRL  598 (608)
T ss_pred             ccccccccEEEEecCCccccHHHHHHHHHhcc-----------ceehhhhhccCCccceEEecCHHHHHHHHHHhccCcc
Confidence            45667888999999999999999999999999           5665555322 334489999999999999 9999999


Q ss_pred             cCceEEEeC
Q psy2204         118 KGQSLKIRR  126 (231)
Q Consensus       118 ~gr~i~V~~  126 (231)
                      .||.|+|.+
T Consensus       599 ~Gr~I~V~y  607 (608)
T KOG4212|consen  599 DGRNIKVTY  607 (608)
T ss_pred             cCceeeeee
Confidence            999999975

>KOG0131|consensus

Probab=98.86  E-value=3.7e-09  Score=83.20  Aligned_cols=82  Identities=17%  Similarity=0.282  Sum_probs=68.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      -+.+||||||.++++|..|.+.|+.||.+.+.=    +...+..+...++||||.|.+.+.+.+|+ .+||+.+..|+|.
T Consensus        95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P----~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~it  170 (203)
T KOG0131|consen   95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPP----KIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPIT  170 (203)
T ss_pred             ccccccccccCcchhHHHHHHHHHhccccccCC----cccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceE
Confidence            346899999999999999999999999655421    12334455667899999999999999999 9999999999999


Q ss_pred             EeCCCCC
Q psy2204         124 IRRPHDY  130 (231)
Q Consensus       124 V~~~~~~  130 (231)
                      |.++...
T Consensus       171 v~ya~k~  177 (203)
T KOG0131|consen  171 VSYAFKK  177 (203)
T ss_pred             EEEEEec
Confidence            9977543

>KOG0146|consensus

Probab=98.77  E-value=5.4e-09  Score=86.80  Aligned_cols=84  Identities=18%  Similarity=0.305  Sum_probs=72.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ...+...|||-.||.+..+.||...|-.||+|.+.+     ..+|.-+..+|.|+||.|.+..++..|| .|||..+.-+
T Consensus       281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaK-----VFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMK  355 (371)
T KOG0146|consen  281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAK-----VFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMK  355 (371)
T ss_pred             cCCCcceEEEEeCchhhccHHHHHHhccccceeeee-----eeehhccccccceeeEecCCchhHHHHHHHhcchhhhhh
Confidence            445678999999999999999999999999777653     4566666778999999999999999999 9999999999


Q ss_pred             eEEEeCCCCC
Q psy2204         121 SLKIRRPHDY  130 (231)
Q Consensus       121 ~i~V~~~~~~  130 (231)
                      +|+|...+++
T Consensus       356 RLKVQLKRPk  365 (371)
T KOG0146|consen  356 RLKVQLKRPK  365 (371)
T ss_pred             hhhhhhcCcc
Confidence            9998855543

>KOG4205|consensus

Probab=98.77  E-value=5.2e-09  Score=90.39  Aligned_cols=83  Identities=18%  Similarity=0.406  Sum_probs=70.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEe
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR  125 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~  125 (231)
                      .+++|||.||+++++++++++|.+||.|..+.     ...+....+.+||+||.|.+++++++++....+.|.|+.+.|.
T Consensus        97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~-----~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevk  171 (311)
T KOG4205|consen   97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVV-----IMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVK  171 (311)
T ss_pred             eeEEEecCcCCCCchHHHhhhhhccceeEeeE-----EeecccccccccceeeEeccccccceecccceeeecCceeeEe
Confidence            56899999999999999999999999555443     3344455666899999999999999999999999999999999


Q ss_pred             CCCCCCCC
Q psy2204         126 RPHDYQPT  133 (231)
Q Consensus       126 ~~~~~~~~  133 (231)
                      ++.++...
T Consensus       172 rA~pk~~~  179 (311)
T KOG4205|consen  172 RAIPKEVM  179 (311)
T ss_pred             eccchhhc
Confidence            88766544

>KOG0124|consensus

Probab=98.76  E-value=1.5e-08  Score=87.50  Aligned_cols=74  Identities=19%  Similarity=0.503  Sum_probs=66.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      +.-++|||..+.++.+|+||+.+|+-||           +|+.+++.+      +|||+|++|.+..+...|| .||=..
T Consensus       208 k~fnRiYVaSvHpDLSe~DiKSVFEAFG-----------~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFD  276 (544)
T KOG0124|consen  208 KKFNRIYVASVHPDLSETDIKSVFEAFG-----------EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFD  276 (544)
T ss_pred             HhhheEEeeecCCCccHHHHHHHHHhhc-----------ceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhh
Confidence            5568999999999999999999999999           788777743      5899999999999999999 999999


Q ss_pred             ecCceEEEeCCC
Q psy2204         117 FKGQSLKIRRPH  128 (231)
Q Consensus       117 l~gr~i~V~~~~  128 (231)
                      |.|..|+|.+..
T Consensus       277 LGGQyLRVGk~v  288 (544)
T KOG0124|consen  277 LGGQYLRVGKCV  288 (544)
T ss_pred             cccceEeccccc
Confidence            999999998554

>KOG0110|consensus

Probab=98.68  E-value=2e-08  Score=92.89  Aligned_cols=75  Identities=21%  Similarity=0.422  Sum_probs=67.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      ..+|+|.|||+..+..+++++|..||           .++++++.+.      +|||||+|-+..+|.+|+ .|.++.|.
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFG-----------qlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHly  681 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFG-----------QLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLY  681 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhccc-----------ceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhccccee
Confidence            57899999999999999999999999           6777766543      899999999999999999 99999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      ||.|.+.|++...
T Consensus       682 GRrLVLEwA~~d~  694 (725)
T KOG0110|consen  682 GRRLVLEWAKSDN  694 (725)
T ss_pred             chhhheehhccch
Confidence            9999999987543

>KOG4208|consensus

Probab=98.68  E-value=2.5e-08  Score=79.96  Aligned_cols=81  Identities=21%  Similarity=0.290  Sum_probs=63.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhh-hhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMH-LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~-~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .....--+||+.+|+.+.+.++..+|.+||. +..+.     .-++.+++.+||||||+|++++.|+-|- .||+..|.+
T Consensus        45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~r-----lsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e  119 (214)
T KOG4208|consen   45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFR-----LSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLME  119 (214)
T ss_pred             ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEE-----eecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence            3344557899999999999999999999952 22110     0133344556899999999999999999 999999999


Q ss_pred             ceEEEeCC
Q psy2204         120 QSLKIRRP  127 (231)
Q Consensus       120 r~i~V~~~  127 (231)
                      +-|.|..-
T Consensus       120 ~lL~c~vm  127 (214)
T KOG4208|consen  120 HLLECHVM  127 (214)
T ss_pred             heeeeEEe
Confidence            99998843

>KOG4209|consensus

Probab=98.65  E-value=1.9e-08  Score=83.78  Aligned_cols=84  Identities=23%  Similarity=0.347  Sum_probs=70.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ..+-+.+.+||||+.+.+|.+++...|+.||.+..++      |...+. ...|||+||+|.+.+.+.+++.|||..|.|
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~t------i~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~  169 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVT------VPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPG  169 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCcccee------eeccccCCCcceeEEEecccHhhhHHHhhcCCccccc
Confidence            4556778999999999999999999999999776552      333333 456999999999999999999999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      +.|.|...+..
T Consensus       170 ~~i~vt~~r~~  180 (231)
T KOG4209|consen  170 PAIEVTLKRTN  180 (231)
T ss_pred             ccceeeeeeee
Confidence            99999865543

>KOG0116|consensus

Probab=98.62  E-value=1.1e-07  Score=85.14  Aligned_cols=80  Identities=19%  Similarity=0.301  Sum_probs=62.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCCCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      +...+|||+|||++++.++|+++|..||.|...      .|..... .+...||||+|.+.+++..+|.-+-..+.+++|
T Consensus       286 ~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~------~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl  359 (419)
T KOG0116|consen  286 ADGLGIFVKNLPPDATPAELEEVFKQFGPIKEG------GIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKL  359 (419)
T ss_pred             ecccceEeecCCCCCCHHHHHHHHhhccccccc------ceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeE
Confidence            344679999999999999999999999955432      1111110 222389999999999999999777889999999


Q ss_pred             EEeCCCC
Q psy2204         123 KIRRPHD  129 (231)
Q Consensus       123 ~V~~~~~  129 (231)
                      .|...+.
T Consensus       360 ~Veek~~  366 (419)
T KOG0116|consen  360 NVEEKRP  366 (419)
T ss_pred             EEEeccc
Confidence            9985543

>KOG4454|consensus

Probab=98.60  E-value=1.7e-08  Score=81.60  Aligned_cols=72  Identities=25%  Similarity=0.300  Sum_probs=63.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC----cEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK----NFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k----g~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      ...|+|||+|+...++|+-|.++|-+.|           +|+.+.|...+    .||||+|+++-++.-|+ .+||..+.
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaG-----------PV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~   75 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAG-----------PVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLE   75 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccC-----------ceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhc
Confidence            3467999999999999999999999999           77777775432    49999999999999999 99999999


Q ss_pred             CceEEEeC
Q psy2204         119 GQSLKIRR  126 (231)
Q Consensus       119 gr~i~V~~  126 (231)
                      +++|.+..
T Consensus        76 ~~e~q~~~   83 (267)
T KOG4454|consen   76 EDEEQRTL   83 (267)
T ss_pred             cchhhccc
Confidence            99988873

>KOG4660|consensus

Probab=98.58  E-value=6.3e-08  Score=87.57  Aligned_cols=70  Identities=20%  Similarity=0.390  Sum_probs=62.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .-..++|+|-|||..+++++|+.+|+.||           +|+.++..++ ++..||+|.|..+|+.|+ +||+.++.|+
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yG-----------eir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~  140 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYG-----------EIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGK  140 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhc-----------chhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhh
Confidence            34668999999999999999999999999           5555555443 699999999999999999 9999999999


Q ss_pred             eEE
Q psy2204         121 SLK  123 (231)
Q Consensus       121 ~i~  123 (231)
                      .|+
T Consensus       141 ~~k  143 (549)
T KOG4660|consen  141 RIK  143 (549)
T ss_pred             hhc
Confidence            988

>KOG0226|consensus

Probab=98.56  E-value=8.7e-08  Score=79.15  Aligned_cols=79  Identities=18%  Similarity=0.367  Sum_probs=69.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ...+||+|.|.-+++++-|-..|.+|=......     .|++.++.++|||+||.|.+..++..|+ +|||+.++.|.|+
T Consensus       189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~ak-----viRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpik  263 (290)
T KOG0226|consen  189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAK-----VIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK  263 (290)
T ss_pred             ccceeecccccccccHHHHHHHHHhccchhhcc-----ccccccccccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence            446899999999999999999999886544433     5788899999999999999999999999 9999999999999


Q ss_pred             EeCCC
Q psy2204         124 IRRPH  128 (231)
Q Consensus       124 V~~~~  128 (231)
                      ++...
T Consensus       264 lRkS~  268 (290)
T KOG0226|consen  264 LRKSE  268 (290)
T ss_pred             hhhhh
Confidence            88543

>KOG0151|consensus

Probab=98.56  E-value=1.9e-07  Score=86.52  Aligned_cols=73  Identities=25%  Similarity=0.418  Sum_probs=65.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---------CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---------KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ....|||+||++.++++.|...|..||           +|.+++++-.         +.|+||-|-+..|+++|+ .|+|
T Consensus       173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfg-----------PlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg  241 (877)
T KOG0151|consen  173 QTTNLYVGNLNPSVDENFLLRTFGRFG-----------PLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQG  241 (877)
T ss_pred             cccceeeecCCccccHHHHHHHhcccC-----------cccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcc
Confidence            456799999999999999999999999           7777777533         589999999999999999 9999


Q ss_pred             CeecCceEEEeCCC
Q psy2204         115 INFKGQSLKIRRPH  128 (231)
Q Consensus       115 ~~l~gr~i~V~~~~  128 (231)
                      ..+.+..+++.|.+
T Consensus       242 ~iv~~~e~K~gWgk  255 (877)
T KOG0151|consen  242 IIVMEYEMKLGWGK  255 (877)
T ss_pred             eeeeeeeeeecccc
Confidence            99999999999885

>KOG0533|consensus

Probab=98.52  E-value=3e-07  Score=76.69  Aligned_cols=74  Identities=20%  Similarity=0.447  Sum_probs=62.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      +.-+.+|+|.||++.+++++|+++|..||           .+..+-+     +++.|.|-|.|...+||..|+ .+|+..
T Consensus        80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~-----------~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~  148 (243)
T KOG0533|consen   80 ETRSTKVNVSNLPYGVIDADLKELFAEFG-----------ELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVA  148 (243)
T ss_pred             CCCcceeeeecCCcCcchHHHHHHHHHhc-----------cceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcc
Confidence            33446799999999999999999999998           3443333     444699999999999999999 999999


Q ss_pred             ecCceEEEeCC
Q psy2204         117 FKGQSLKIRRP  127 (231)
Q Consensus       117 l~gr~i~V~~~  127 (231)
                      ++|+.+++...
T Consensus       149 ldG~~mk~~~i  159 (243)
T KOG0533|consen  149 LDGRPMKIEII  159 (243)
T ss_pred             cCCceeeeEEe
Confidence            99999888733

>KOG0120|consensus

Probab=98.49  E-value=4.3e-07  Score=82.61  Aligned_cols=82  Identities=24%  Similarity=0.451  Sum_probs=67.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ......++|||+||...++.+++++...||.+..+.     -+.+...+-+|||||.+|.+......|+ .|||..+.++
T Consensus       285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~-----lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~  359 (500)
T KOG0120|consen  285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFR-----LVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDK  359 (500)
T ss_pred             cccccchhhhccCcCccCHHHHHHHHHhcccchhhe-----eecccccccccceeeeeeeCCcchhhhhcccchhhhcCc
Confidence            345567999999999999999999999999554442     2333344566999999999999999999 9999999999


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      +|.|+++.
T Consensus       360 ~lvvq~A~  367 (500)
T KOG0120|consen  360 KLVVQRAI  367 (500)
T ss_pred             eeEeehhh
Confidence            99998554

>KOG2193|consensus

Probab=98.31  E-value=1.4e-07  Score=82.83  Aligned_cols=113  Identities=25%  Similarity=0.379  Sum_probs=88.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC-eecCceEEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI-NFKGQSLKI  124 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~-~l~gr~i~V  124 (231)
                      +.+|+|||.+..+.++|+.+|...-           .-.+-.+....||+||.+.+..++.+|+ .++|+ ++.|+++.+
T Consensus         2 nklyignL~p~~~psdl~svfg~ak-----------~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~   70 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAK-----------IPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEV   70 (584)
T ss_pred             CcccccccCCCCChHHHHHHhcccc-----------CCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeec
Confidence            4799999999999999999998652           1223333444699999999999999999 88887 678988888


Q ss_pred             eCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------------
Q psy2204         125 RRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------------  172 (231)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------------  172 (231)
                      ...-+...                       ..+++-|.|+|....|+                                
T Consensus        71 ~~sv~kkq-----------------------rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~  127 (584)
T KOG2193|consen   71 EHSVPKKQ-----------------------RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYS  127 (584)
T ss_pred             cchhhHHH-----------------------HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHH
Confidence            75543221                       13567777888777777                                


Q ss_pred             ------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 ------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 ------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                            .||..|||..+....++|.+-
T Consensus       128 ~~~~~~~ai~kl~g~Q~en~~~k~~Yi  154 (584)
T KOG2193|consen  128 AQQQHRQAIHKLNGPQLENQHLKVGYI  154 (584)
T ss_pred             HHHHHHHHHHhhcchHhhhhhhhcccC
Confidence                  899999999999999988764

>KOG1190|consensus

Probab=98.23  E-value=3.7e-05  Score=67.66  Aligned_cols=69  Identities=23%  Similarity=0.336  Sum_probs=56.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcE-EEEEecCHHHHHHHH-HhCCCeecC--ceE
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNF-AFLEFRSIDETTQAM-AFDGINFKG--QSL  122 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~-aFV~F~~~~~a~~Al-~lng~~l~g--r~i  122 (231)
                      +++|+|+-+-++-+-|..+|++||           .|..+ .+.++.+| |.|.|.+.++|..|- .|+|..+..  ..|
T Consensus       152 r~iie~m~ypVslDVLHqvFS~fG-----------~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtL  220 (492)
T KOG1190|consen  152 RTIIENMFYPVSLDVLHQVFSKFG-----------FVLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTL  220 (492)
T ss_pred             EEEeccceeeeEHHHHHHHHhhcc-----------eeEEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCceeEE
Confidence            578999999999999999999999           44443 34566676 999999999999998 999998854  346


Q ss_pred             EEeCC
Q psy2204         123 KIRRP  127 (231)
Q Consensus       123 ~V~~~  127 (231)
                      +|.++
T Consensus       221 rId~S  225 (492)
T KOG1190|consen  221 RIDFS  225 (492)
T ss_pred             Eeehh
Confidence            66533

>KOG1457|consensus

Probab=98.21  E-value=1.5e-06  Score=70.74  Aligned_cols=65  Identities=25%  Similarity=0.407  Sum_probs=54.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .--+|||.||..+++|++|+.+|+.|-         |..+..++-.-.-..||++|++.+.|..|| .|.|..+.
T Consensus       209 acstlfianl~~~~~ed~l~~~~~~~~---------gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~s  274 (284)
T KOG1457|consen  209 ACSTLFIANLGPNCTEDELKQLLSRYP---------GFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLLS  274 (284)
T ss_pred             hhhhHhhhccCCCCCHHHHHHHHHhCC---------CceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcceec
Confidence            336899999999999999999999994         546666655444568999999999999999 99987663

>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=98.19  E-value=1.5e-05  Score=55.35  Aligned_cols=67  Identities=19%  Similarity=0.298  Sum_probs=46.9

Q ss_pred             eEEEcCCCCCCCHHHH----HHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          48 RLYVGNIPFGVTEDEM----MEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L----~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      .|||.|||.+.+...|    +.++..||          ..|..+.    .+.|+|.|.+.+.|.+|. .|+|..+.|++|
T Consensus         4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCG----------GkVl~v~----~~tAilrF~~~~~A~RA~KRmegEdVfG~kI   69 (90)
T PF11608_consen    4 LLYVSNLPTNKDPSSIKNRLRQLSDNCG----------GKVLSVS----GGTAILRFPNQEFAERAQKRMEGEDVFGNKI   69 (90)
T ss_dssp             EEEEES--TTS-HHHHHHHHHHHHHTTT------------EEE------TT-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHhhccC----------CEEEEEe----CCEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence            6899999999887654    66666776          3677662    589999999999999999 999999999999


Q ss_pred             EEeCCC
Q psy2204         123 KIRRPH  128 (231)
Q Consensus       123 ~V~~~~  128 (231)
                      .|++..
T Consensus        70 ~v~~~~   75 (90)
T PF11608_consen   70 SVSFSP   75 (90)
T ss_dssp             EEESS-
T ss_pred             EEEEcC
Confidence            999774

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

>KOG1456|consensus

Probab=98.11  E-value=9.3e-05  Score=64.57  Aligned_cols=143  Identities=15%  Similarity=0.138  Sum_probs=102.6

Q ss_pred             CCCCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC-cEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          41 TITRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK-NFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k-g~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ....++.-+-|-+|... +.-+.|..+|..||           .|..+++++.| |-|.|++-+...+++|+ -||+..+
T Consensus       282 ~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYG-----------NV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~l  350 (494)
T KOG1456|consen  282 GGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYG-----------NVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPL  350 (494)
T ss_pred             CCCCCCcEEEEEeccccccchhhhhhhhhhcC-----------ceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCcc
Confidence            44445677889999985 46678999999999           89999998875 99999999999999999 9999999


Q ss_pred             cCceEEEeCCCCCCCCCC----C------------CCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHHHHHHHhCCC
Q psy2204         118 KGQSLKIRRPHDYQPTPG----V------------TDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGM  181 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~----~------------~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee~Ai~~lnG~  181 (231)
                      .|.+|.|..++...-.+.    .            +++..+..+.....+......+.|..-|.|..+|||.-+.-+|-+
T Consensus       351 fG~kl~v~~SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek  430 (494)
T KOG1456|consen  351 FGGKLNVCVSKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEK  430 (494)
T ss_pred             ccceEEEeeccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhc
Confidence            999999986653211110    0            001111111122223334445678788999999999999989988


Q ss_pred             eeCCeEEEEEEee
Q psy2204         182 QLGDKKLIVQRAS  194 (231)
Q Consensus       182 ~i~gr~l~V~~a~  194 (231)
                      ...-.+++|--.+
T Consensus       431 ~v~~~svkvFp~k  443 (494)
T KOG1456|consen  431 DVPPTSVKVFPLK  443 (494)
T ss_pred             CCCcceEEeeccc
Confidence            8875555554443

>KOG0112|consensus

Probab=97.99  E-value=3.4e-06  Score=80.26  Aligned_cols=136  Identities=21%  Similarity=0.278  Sum_probs=91.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      -.....+++||+|||+..+++.+|+..|..+|++.++      .|..-.+...-.|+||.|.+.+.+..|. ++.+..|.
T Consensus       366 ~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~V------DiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~  439 (975)
T KOG0112|consen  366 LDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEV------DIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIG  439 (975)
T ss_pred             ccchhhhhhhhhcCcccchhhhhhhhhhhhhcccccc------ccccCCCCcccchhhhhhhccccCcccchhhcCCccc
Confidence            3455678999999999999999999999999944433      2222223333579999999999999998 88888776


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------  172 (231)
                      .-.+++.........                       .+.+|+++|..-+...                          
T Consensus       440 ~g~~r~glG~~kst~-----------------------ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi  496 (975)
T KOG0112|consen  440 NGTHRIGLGQPKSTP-----------------------TTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYI  496 (975)
T ss_pred             cCccccccccccccc-----------------------ceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceee
Confidence            444444433211000                       1122222222222111                          


Q ss_pred             ---------HHHHHhCCCeeCC--eEEEEEEeecCcccccCCC
Q psy2204         173 ---------QAIAGLNGMQLGD--KKLIVQRASVGAKNASGQQ  204 (231)
Q Consensus       173 ---------~Ai~~lnG~~i~g--r~l~V~~a~~~~~~~~~~~  204 (231)
                               .|+..|-|..|++  ++|+|.+|...+.....++
T Consensus       497 ~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~~~Pqq~~  539 (975)
T KOG0112|consen  497 QYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPGATPQQNL  539 (975)
T ss_pred             ecccCccchhhHHHHhcCcCCCCCcccccccccCCCCChhhhc
Confidence                     8999999999996  8899999997766555333

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

Probab=97.95  E-value=8e-05  Score=57.74  Aligned_cols=43  Identities=28%  Similarity=0.424  Sum_probs=38.4

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+++|++                                         .|+..|||..|.|+.|+|+++
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            345799999999999998                                         899999999999999999999


Q ss_pred             ecCc
Q psy2204         194 SVGA  197 (231)
Q Consensus       194 ~~~~  197 (231)
                      ....
T Consensus       112 ~~~~  115 (144)
T PLN03134        112 NDRP  115 (144)
T ss_pred             CcCC
Confidence            7553

>KOG0106|consensus

Probab=97.84  E-value=1.1e-05  Score=66.09  Aligned_cols=70  Identities=26%  Similarity=0.507  Sum_probs=60.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ......++|-|+...+.+.+|.+.|..+|           .+.....  ..+++||+|++.+++.+|| .+++..+.++.
T Consensus        96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g-----------~~~~~~~--~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~  162 (216)
T KOG0106|consen   96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAG-----------EVTYVDA--RRNFAFVEFSEQEDAKRALEKLDGKKLNGRR  162 (216)
T ss_pred             ccccceeeeccchhhhhHHHHhhhhcccC-----------CCchhhh--hccccceeehhhhhhhhcchhccchhhcCce
Confidence            45567899999999999999999999999           4432222  4799999999999999999 99999999999


Q ss_pred             EEEe
Q psy2204         122 LKIR  125 (231)
Q Consensus       122 i~V~  125 (231)
                      |.+.
T Consensus       163 l~~~  166 (216)
T KOG0106|consen  163 ISVE  166 (216)
T ss_pred             eeec
Confidence            9994

>KOG4206|consensus

Probab=97.67  E-value=0.00022  Score=58.28  Aligned_cols=77  Identities=19%  Similarity=0.317  Sum_probs=63.7

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .....+.+.||+.|||.+++.+.|..+|++|.           -...+++... ++.|||+|.+...+..|. .+.+..+
T Consensus       140 ~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~-----------g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~i  208 (221)
T KOG4206|consen  140 AQMAPPNNILFLTNIPSESESEMLSDLFEQFP-----------GFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKI  208 (221)
T ss_pred             ccCCCCceEEEEecCCcchhHHHHHHHHhhCc-----------ccceeEeccCCCceeEEecchhhhhHHHhhhhcccee
Confidence            34456778999999999999999999999997           5667777664 699999999999999999 8888877


Q ss_pred             c-CceEEEeCC
Q psy2204         118 K-GQSLKIRRP  127 (231)
Q Consensus       118 ~-gr~i~V~~~  127 (231)
                      . ...+.|.++
T Consensus       209 t~~~~m~i~~a  219 (221)
T KOG4206|consen  209 TKKNTMQITFA  219 (221)
T ss_pred             ccCceEEeccc
Confidence            6 666666654

>KOG0128|consensus

Probab=97.64  E-value=7.2e-06  Score=77.75  Aligned_cols=77  Identities=19%  Similarity=0.311  Sum_probs=57.9

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCee-eeEecCCCcEEEEEecCHHHHHHHHHhCCCe
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVL-ACQINLDKNFAFLEFRSIDETTQAMAFDGIN  116 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~-~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~  116 (231)
                      ..+...++..++||+||+..+.+++|...|..+|.+..+      .|. .+.-.+-||+||++|...+++.+|++++...
T Consensus       659 vs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~v------qi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~  732 (881)
T KOG0128|consen  659 VSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVV------QIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSC  732 (881)
T ss_pred             cCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhH------HHHHHhhccccccceeeEeecCCchhhhhhhhhhh
Confidence            334444666789999999999999999999999854433      222 1222344799999999999999999777777


Q ss_pred             ecCc
Q psy2204         117 FKGQ  120 (231)
Q Consensus       117 l~gr  120 (231)
                      +.|+
T Consensus       733 ~~gK  736 (881)
T KOG0128|consen  733 FFGK  736 (881)
T ss_pred             hhhh
Confidence            7664

>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=97.62  E-value=0.00015  Score=53.20  Aligned_cols=55  Identities=13%  Similarity=0.221  Sum_probs=37.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      -|+|.+++..++.++|++.|+.||           .|.-|++.+.-..|||.|.+.++|.+|+ .+.
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g-----------~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFG-----------EVAYVDFSRGDTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS-------------EEEEE--TT-SEEEEEESS---HHHHHHHHH
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcC-----------CcceEEecCCCCEEEEEECCcchHHHHHHHHH
Confidence            478888999999999999999999           8888999888889999999999999998 443

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

>KOG4211|consensus

Probab=97.61  E-value=0.00014  Score=65.41  Aligned_cols=70  Identities=20%  Similarity=0.330  Sum_probs=55.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-------EecCCCcEEEEEecCHHHHHHHHHhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-------QINLDKNFAFLEFRSIDETTQAMAFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-------~~~~~kg~aFV~F~~~~~a~~Al~lng~~  116 (231)
                      ...-.|=+.+||+.||++||.+||+..            .|+..       .-.+..|-|||.|++.+.|++||..|...
T Consensus       101 ~~d~vVRLRGLPfscte~dI~~FFaGL------------~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~  168 (510)
T KOG4211|consen  101 ANDGVVRLRGLPFSCTEEDIVEFFAGL------------EIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHREN  168 (510)
T ss_pred             CCCceEEecCCCccCcHHHHHHHhcCC------------cccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHh
Confidence            344567789999999999999999964            33332       22344689999999999999999888888


Q ss_pred             ecCceEEEe
Q psy2204         117 FKGQSLKIR  125 (231)
Q Consensus       117 l~gr~i~V~  125 (231)
                      +.-|-|+|-
T Consensus       169 iGhRYIEvF  177 (510)
T KOG4211|consen  169 IGHRYIEVF  177 (510)
T ss_pred             hccceEEee
Confidence            888888885

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

Probab=97.60  E-value=0.00021  Score=45.67  Aligned_cols=52  Identities=17%  Similarity=0.398  Sum_probs=43.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM  110 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al  110 (231)
                      +.|-|.+.+.+.. +.++.+|.+||           .|.+..+...+.+.||.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fG-----------eI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFG-----------EIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcC-----------CEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            5677888877665 45666999999           8999999878899999999999999986

>KOG1365|consensus

Probab=97.59  E-value=0.00021  Score=62.66  Aligned_cols=121  Identities=18%  Similarity=0.245  Sum_probs=71.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe--cCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEe
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI--NLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR  125 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~--~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~  125 (231)
                      -|-.++||+++++.++.+||...-.+..-+    ..|+-++-  ++..|=|||.|..+++|..||.-|...+..|.|++-
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~----egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElF  238 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGT----EGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELF  238 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCc----cceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHH
Confidence            345679999999999999996332111110    02333322  344699999999999999999888888888877765


Q ss_pred             CCCCC--------CCCCCCCCCCcccCCCCcccCcCC--CCCCcEEEcCCCCCCCHH
Q psy2204         126 RPHDY--------QPTPGVTDNAAVAVPAGVISTVVP--DSPHKIFIGGLPNYLNED  172 (231)
Q Consensus       126 ~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ifV~nLp~~~tee  172 (231)
                      ++...        ......-.......-.+......+  .+..+|-+++|||+.+.|
T Consensus       239 RSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvE  295 (508)
T KOG1365|consen  239 RSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVE  295 (508)
T ss_pred             HHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHH
Confidence            44311        000001000000000011111111  124678899999999998

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

Probab=97.58  E-value=0.00057  Score=49.27  Aligned_cols=75  Identities=16%  Similarity=0.363  Sum_probs=54.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCe----eeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC--
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPV----LACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG--  119 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i----~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g--  119 (231)
                      .||=|.|||...|.++|.+++..... ..+      ..    .|.+..-+.|||||-|.+.+.+.+-. .++|..+..  
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~-g~y------DF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~   74 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFK-GKY------DFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFN   74 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhcc-Ccc------eEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCC
Confidence            47899999999999999999987531 000      12    22333445799999999999999998 999998853  


Q ss_pred             --ceEEEeCCC
Q psy2204         120 --QSLKIRRPH  128 (231)
Q Consensus       120 --r~i~V~~~~  128 (231)
                        +...|.+++
T Consensus        75 s~Kvc~i~yAr   85 (97)
T PF04059_consen   75 SKKVCEISYAR   85 (97)
T ss_pred             CCcEEEEehhH
Confidence              334455543

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

>KOG1456|consensus

Probab=97.56  E-value=0.00081  Score=58.83  Aligned_cols=72  Identities=21%  Similarity=0.266  Sum_probs=60.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH---HhCCCeecCce
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM---AFDGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al---~lng~~l~gr~  121 (231)
                      .+--|-|++|-..++|.+|.+-++.||           .|.-+..+..+..+.|+|++.+.|++|+   +-|...+.|..
T Consensus        30 ~spvvhvr~l~~~v~eadl~eal~~fG-----------~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~   98 (494)
T KOG1456|consen   30 PSPVVHVRGLHQGVVEADLVEALSNFG-----------PIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQ   98 (494)
T ss_pred             CCceEEEeccccccchhHHHHHHhcCC-----------ceEEEEeccccceeeeeeccccchhhheehhccCcccccCch
Confidence            345789999999999999999999999           8888888889999999999999999998   44555666766


Q ss_pred             EEEeCC
Q psy2204         122 LKIRRP  127 (231)
Q Consensus       122 i~V~~~  127 (231)
                      -.+.++
T Consensus        99 Al~NyS  104 (494)
T KOG1456|consen   99 ALFNYS  104 (494)
T ss_pred             hhcccc
Confidence            666655

>KOG0105|consensus

Probab=97.52  E-value=0.00037  Score=55.46  Aligned_cols=69  Identities=16%  Similarity=0.292  Sum_probs=58.6

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++++.+...+|.|.+||...++++|+++..+.|           .+.-..+.++ |++.|+|...|+++.|+ .|+.+.
T Consensus       107 rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaG-----------dvCfadv~rD-g~GvV~~~r~eDMkYAvr~ld~~~  174 (241)
T KOG0105|consen  107 RGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAG-----------DVCFADVQRD-GVGVVEYLRKEDMKYAVRKLDDQK  174 (241)
T ss_pred             cCCcccccceeEEEecCCCCCchHHHHHHHHhhC-----------Ceeeeeeecc-cceeeeeeehhhHHHHHHhhcccc
Confidence            4466677888999999999999999999999999           5655555554 79999999999999999 888877


Q ss_pred             ec
Q psy2204         117 FK  118 (231)
Q Consensus       117 l~  118 (231)
                      +.
T Consensus       175 ~~  176 (241)
T KOG0105|consen  175 FR  176 (241)
T ss_pred             cc
Confidence            74

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.47  E-value=0.00026  Score=61.09  Aligned_cols=76  Identities=21%  Similarity=0.436  Sum_probs=56.2

Q ss_pred             CCeEEEcCCCCCCCHHH----H--HHHHHHhhhhhhccccCCCCeeeeEec-CC--CcE--EEEEecCHHHHHHHH-HhC
Q psy2204          46 ARRLYVGNIPFGVTEDE----M--MEFFNQQMHLSGLAQAAGNPVLACQIN-LD--KNF--AFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~----L--~~~F~~~G~~~~~~~~~~~~i~~~~~~-~~--kg~--aFV~F~~~~~a~~Al-~ln  113 (231)
                      .+-+||-+|++.+-.++    |  .++|.+||+|..+       ++..+.. .+  .+.  .||+|.+.++|.+|| +.+
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KI-------vvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vD  186 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKI-------VVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVD  186 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEE-------EecccccccccccccceEEEEecchHHHHHHHHHhc
Confidence            35789999999886665    2  6899999955533       2222221 11  132  399999999999999 999


Q ss_pred             CCeecCceEEEeCCC
Q psy2204         114 GINFKGQSLKIRRPH  128 (231)
Q Consensus       114 g~~l~gr~i~V~~~~  128 (231)
                      |..++||-|+..+..
T Consensus       187 gs~~DGr~lkatYGT  201 (480)
T COG5175         187 GSLLDGRVLKATYGT  201 (480)
T ss_pred             cccccCceEeeecCc
Confidence            999999999987554

>KOG1995|consensus

Probab=97.45  E-value=0.00023  Score=61.76  Aligned_cols=90  Identities=17%  Similarity=0.200  Sum_probs=70.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhcccc--CCCC-eeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQA--AGNP-VLACQINLDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~--~~~~-i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .......-++||-+|+..+++++|.++|.+++.|..-...  +-.. -++.++.+.|+-|.|.|.+...|+.|+ -+++.
T Consensus        60 ~~~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agk  139 (351)
T KOG1995|consen   60 MADKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGK  139 (351)
T ss_pred             cccccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccc
Confidence            3345566789999999999999999999999966433211  1111 134455667899999999999999999 99999


Q ss_pred             eecCceEEEeCCCC
Q psy2204         116 NFKGQSLKIRRPHD  129 (231)
Q Consensus       116 ~l~gr~i~V~~~~~  129 (231)
                      .|.+..|+|..+..
T Consensus       140 df~gn~ikvs~a~~  153 (351)
T KOG1995|consen  140 DFCGNTIKVSLAER  153 (351)
T ss_pred             cccCCCchhhhhhh
Confidence            99999999985543

>KOG1548|consensus

Probab=97.30  E-value=0.0018  Score=56.10  Aligned_cols=79  Identities=18%  Similarity=0.230  Sum_probs=63.5

Q ss_pred             CCCCCCCCCeEEEcCCCC----CCC-------HHHHHHHHHHhhhhhhccccCCCCeeeeEec--CCCcEEEEEecCHHH
Q psy2204          39 GSTITRQARRLYVGNIPF----GVT-------EDEMMEFFNQQMHLSGLAQAAGNPVLACQIN--LDKNFAFLEFRSIDE  105 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~----~~t-------e~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~--~~kg~aFV~F~~~~~  105 (231)
                      ++.-.+..++|.+.|+=.    ..+       .++|++-.++||           .|.++.+.  ++.|.+-|.|.+.++
T Consensus       258 ~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G-----------~v~~vvv~d~hPdGvvtV~f~n~ee  326 (382)
T KOG1548|consen  258 DPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFG-----------QVRKVVVYDRHPDGVVTVSFRNNEE  326 (382)
T ss_pred             ccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhC-----------CcceEEEeccCCCceeEEEeCChHH
Confidence            455567789999999843    334       356667788999           77777775  668999999999999


Q ss_pred             HHHHH-HhCCCeecCceEEEeCCC
Q psy2204         106 TTQAM-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       106 a~~Al-~lng~~l~gr~i~V~~~~  128 (231)
                      |..|| .|+|..|.||.|......
T Consensus       327 A~~ciq~m~GR~fdgRql~A~i~D  350 (382)
T KOG1548|consen  327 ADQCIQTMDGRWFDGRQLTASIWD  350 (382)
T ss_pred             HHHHHHHhcCeeecceEEEEEEeC
Confidence            99999 999999999999877443

>KOG4307|consensus

Probab=97.28  E-value=0.00071  Score=63.38  Aligned_cols=73  Identities=25%  Similarity=0.390  Sum_probs=56.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCe-eeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPV-LACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i-~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      |-|-+.|+|++++-+||.+||..|--+-      +..+ +.-+-++..|-|.|-|++.++|..|. .++++.|..|.+++
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p------~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l  941 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDP------NSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL  941 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCC------CceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence            3677999999999999999999984111      1011 11111333699999999999999999 99999999999887


Q ss_pred             e
Q psy2204         125 R  125 (231)
Q Consensus       125 ~  125 (231)
                      .
T Consensus       942 ~  942 (944)
T KOG4307|consen  942 R  942 (944)
T ss_pred             E
Confidence            5

>KOG4210|consensus

Probab=97.26  E-value=0.0006  Score=58.74  Aligned_cols=142  Identities=15%  Similarity=0.152  Sum_probs=90.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCC-eecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGI-NFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~-~l~gr~i  122 (231)
                      +...++|+|++.+++.+.+...+|..+|......     -+..-.....++++++.|...+.+..|+.+.+. .+.++.+
T Consensus        86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~-----~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~  160 (285)
T KOG4210|consen   86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDAR-----SSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKG  160 (285)
T ss_pred             cccccccccccccchhhccccccchhhcCcccch-----hhhhccccccccceeeccccHHHHHHHHHhhhccccccccc
Confidence            4567899999999999999999999998332210     011112234589999999999999999977775 5555554


Q ss_pred             EEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEE-EcCCCCCCCHH-----------------------------
Q psy2204         123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIF-IGGLPNYLNED-----------------------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~if-V~nLp~~~tee-----------------------------  172 (231)
                      .......+.....           ............++| |++|++.++++                             
T Consensus       161 ~~dl~~~~~~~~~-----------n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~  229 (285)
T KOG4210|consen  161 EKDLNTRRGLRPK-----------NKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGF  229 (285)
T ss_pred             cCccccccccccc-----------chhcccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhh
Confidence            4433332221100           000011122335666 89999998887                             


Q ss_pred             ---------HHHHHh--CCCeeCCeEEEEEEeecCccccc
Q psy2204         173 ---------QAIAGL--NGMQLGDKKLIVQRASVGAKNAS  201 (231)
Q Consensus       173 ---------~Ai~~l--nG~~i~gr~l~V~~a~~~~~~~~  201 (231)
                               .+...|  +...+.++.+++.+..+......
T Consensus       230 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (285)
T KOG4210|consen  230 AYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPRPKSDG  269 (285)
T ss_pred             hhhhhhhchhHHHHhhcccCcccCcccccccCCCCccccc
Confidence                     222223  47788899999998877655443

>KOG1855|consensus

Probab=97.25  E-value=0.0002  Score=63.49  Aligned_cols=61  Identities=15%  Similarity=0.300  Sum_probs=52.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-------------------CcEEEEEecCH
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-------------------KNFAFLEFRSI  103 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-------------------kg~aFV~F~~~  103 (231)
                      +-++|+|.+-|||.+-.-+.|.++|+.+|           .|..|+|++.                   +-||||+|...
T Consensus       228 el~srtivaenLP~Dh~~enl~kiFg~~G-----------~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~  296 (484)
T KOG1855|consen  228 ELPSRTIVAENLPLDHSYENLSKIFGTVG-----------SIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEV  296 (484)
T ss_pred             ccccceEEEecCCcchHHHHHHHHhhccc-----------ceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhh
Confidence            35789999999999999999999999999           6666666654                   56999999999


Q ss_pred             HHHHHHHHhCC
Q psy2204         104 DETTQAMAFDG  114 (231)
Q Consensus       104 ~~a~~Al~lng  114 (231)
                      +.|.+|-++.+
T Consensus       297 ~~A~KA~e~~~  307 (484)
T KOG1855|consen  297 EAARKARELLN  307 (484)
T ss_pred             HHHHHHHHhhc
Confidence            99999994443

>KOG0125|consensus

Probab=97.13  E-value=0.0008  Score=57.91  Aligned_cols=45  Identities=22%  Similarity=0.452  Sum_probs=39.4

Q ss_pred             CCCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         154 PDSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+.+++|+|.|||+...|.                                       +|.++|||..+.||+|.|+.|+
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT  172 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT  172 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence            4567899999999987775                                       9999999999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      .+..
T Consensus       173 arV~  176 (376)
T KOG0125|consen  173 ARVH  176 (376)
T ss_pred             hhhc
Confidence            6643

>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=97.10  E-value=0.0019  Score=46.84  Aligned_cols=70  Identities=14%  Similarity=0.238  Sum_probs=49.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeE-------------ecCCCcEEEEEecCHHHHHHHHHh
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ-------------INLDKNFAFLEFRSIDETTQAMAF  112 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~-------------~~~~kg~aFV~F~~~~~a~~Al~l  112 (231)
                      .+-|.|=+.|+. ....+.+.|++||           .|++..             .....++-.|+|.+..+|.+||..
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G-----------~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~   73 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFG-----------TILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK   73 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS------------EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcc-----------eEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh
Confidence            445667677777 5577888999999           555543             344578999999999999999999


Q ss_pred             CCCeecCceE-EEeCC
Q psy2204         113 DGINFKGQSL-KIRRP  127 (231)
Q Consensus       113 ng~~l~gr~i-~V~~~  127 (231)
                      ||..|.|.-+ -|.+.
T Consensus        74 NG~i~~g~~mvGV~~~   89 (100)
T PF05172_consen   74 NGTIFSGSLMVGVKPC   89 (100)
T ss_dssp             TTEEETTCEEEEEEE-
T ss_pred             CCeEEcCcEEEEEEEc
Confidence            9999998654 34433

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.

>KOG4210|consensus

Probab=97.09  E-value=0.00031  Score=60.50  Aligned_cols=75  Identities=19%  Similarity=0.407  Sum_probs=61.3

Q ss_pred             CCCeEE-EcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          45 QARRLY-VGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        45 ~~r~lf-VgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      .+.++| |+||++++++++|+.+|..+|           .|..+++.      ..+||+||.|.+..+...++......+
T Consensus       183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~-----------~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~  251 (285)
T KOG4210|consen  183 PSDTIFFVGELDFSLTRDDLKEHFVSSG-----------EITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSI  251 (285)
T ss_pred             ccccceeecccccccchHHHhhhccCcC-----------cceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcc
Confidence            345566 999999999999999999998           56665553      337999999999999999993388889


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .++++.+.+....
T Consensus       252 ~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  252 GGRPLRLEEDEPR  264 (285)
T ss_pred             cCcccccccCCCC
Confidence            9999999876643

>KOG1365|consensus

Probab=97.08  E-value=0.001  Score=58.34  Aligned_cols=78  Identities=12%  Similarity=0.219  Sum_probs=59.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ....|-+++||+..+.++|.+||..|-....+-   |-.++-..-++..|-|||+|.+.++|..|. ..+.+..++|.|+
T Consensus       279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~---gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiE  355 (508)
T KOG1365|consen  279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQ---GVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIE  355 (508)
T ss_pred             CCCeeEecCCChhhhHHHHHHHHHHHhhhcccc---eeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEE
Confidence            356888999999999999999999997433220   001111112455799999999999999999 8888888899998


Q ss_pred             Ee
Q psy2204         124 IR  125 (231)
Q Consensus       124 V~  125 (231)
                      |-
T Consensus       356 vf  357 (508)
T KOG1365|consen  356 VF  357 (508)
T ss_pred             Ee
Confidence            86

>PF00076 RRM_1: RNA recognition motif

Probab=97.08  E-value=0.0007  Score=44.72  Aligned_cols=30  Identities=30%  Similarity=0.717  Sum_probs=27.3

Q ss_pred             EEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEE
Q psy2204         160 IFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLI  189 (231)
Q Consensus       160 ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~  189 (231)
                      |||+|||.++|++                                        +|++.|||..++|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            7999999999998                                        88888999999999886

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>KOG0121|consensus

Probab=97.06  E-value=0.00043  Score=51.94  Aligned_cols=39  Identities=21%  Similarity=0.509  Sum_probs=36.1

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+.+|||+||++.++||                                         .|+.-+||+.+..|.|++.|.-
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~  114 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA  114 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence            45899999999999999                                         8999999999999999999863

>PLN03213 repressor of silencing 3; Provisional

Probab=97.04  E-value=0.00074  Score=61.09  Aligned_cols=40  Identities=20%  Similarity=0.360  Sum_probs=36.7

Q ss_pred             CCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..+||||||++.++++                                       +||..|||.++.||.|+|..|.+.
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~   88 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEH   88 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHH
Confidence            4689999999999999                                       899999999999999999998643

>KOG2416|consensus

Probab=97.03  E-value=0.00087  Score=61.75  Aligned_cols=81  Identities=12%  Similarity=0.173  Sum_probs=66.3

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++...+.++.|||.||-.-.|.-+|+.++..-|.          .|.+..|.+-|..|||.|.+.++|.... +|||..
T Consensus       436 pSPsR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg----------~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~  505 (718)
T KOG2416|consen  436 PSPSRKEPSNVLHIDNLVRPFTLGQLKELLGRTGG----------NVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQ  505 (718)
T ss_pred             CCCCCCCccceEeeecccccchHHHHHHHHhhccC----------chHHHHHHHhhcceeEecccHHHHHHHHHHHhccc
Confidence            34556678899999999999999999999995442          5666677777899999999999999999 999998


Q ss_pred             ec---CceEEEeCCC
Q psy2204         117 FK---GQSLKIRRPH  128 (231)
Q Consensus       117 l~---gr~i~V~~~~  128 (231)
                      +.   .+.|.+.|..
T Consensus       506 WP~sNPK~L~adf~~  520 (718)
T KOG2416|consen  506 WPPSNPKHLIADFVR  520 (718)
T ss_pred             cCCCCCceeEeeecc
Confidence            83   5667776543

>KOG3152|consensus

Probab=97.02  E-value=0.00039  Score=57.85  Aligned_cols=77  Identities=14%  Similarity=0.179  Sum_probs=55.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-Ee--cCC--C--cEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QI--NLD--K--NFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~--~~~--k--g~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ..--||+++||+.+...-|+++|+.||.|-.+.+.++..-... +.  +.+  +  .-|+|+|.+...|..+- .||+..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~  152 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP  152 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence            4456999999999999999999999996554433322111000 00  011  1  24789999999999988 999999


Q ss_pred             ecCce
Q psy2204         117 FKGQS  121 (231)
Q Consensus       117 l~gr~  121 (231)
                      +.|++
T Consensus       153 Iggkk  157 (278)
T KOG3152|consen  153 IGGKK  157 (278)
T ss_pred             cCCCC
Confidence            99875

>KOG0129|consensus

Probab=96.84  E-value=0.0027  Score=57.69  Aligned_cols=70  Identities=13%  Similarity=0.145  Sum_probs=53.9

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHH-HhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhC
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFN-QQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFD  113 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~-~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~ln  113 (231)
                      ....-++.||||||+||.-++-++|..+|+ -||.|+-+.+     =.|-++...||-|=|+|.+..+-.+||+..
T Consensus       363 ~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGI-----DtD~k~KYPkGaGRVtFsnqqsYi~AIsar  433 (520)
T KOG0129|consen  363 HNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGI-----DTDPKLKYPKGAGRVTFSNQQAYIKAISAR  433 (520)
T ss_pred             cCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEe-----ccCcccCCCCCcceeeecccHHHHHHHhhh
Confidence            344557889999999999999999999999 7995544320     112244556899999999999999999443

>KOG4849|consensus

Probab=96.82  E-value=0.0029  Score=55.05  Aligned_cols=71  Identities=20%  Similarity=0.284  Sum_probs=56.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..-.+|||||-|++|++||.+.+...|-.         .+.++++      +.+||||+|..-+..++++.+ .|-.+.+
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~---------~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~i  149 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTGLA---------QFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTI  149 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhhHH---------HHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhccccee
Confidence            34569999999999999999988877722         2333333      456899999999999999999 8888999


Q ss_pred             cCceEEE
Q psy2204         118 KGQSLKI  124 (231)
Q Consensus       118 ~gr~i~V  124 (231)
                      +|..=.|
T Consensus       150 HGQ~P~V  156 (498)
T KOG4849|consen  150 HGQSPTV  156 (498)
T ss_pred             cCCCCee
Confidence            9875444

>KOG0108|consensus

Probab=96.77  E-value=0.0016  Score=59.12  Aligned_cols=39  Identities=36%  Similarity=0.565  Sum_probs=36.7

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +.|||||+|+++++|                                         .|++.|||.++.||+|+|.|+.-.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~   98 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR   98 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence            789999999999999                                         999999999999999999998744

>KOG0111|consensus

Probab=96.72  E-value=0.0013  Score=53.69  Aligned_cols=42  Identities=24%  Similarity=0.403  Sum_probs=37.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++||||+|..++|+.                                         .||..||+.++.||.|+|.+|.
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak   88 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK   88 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence            35899999999999988                                         8999999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus        89 P~k   91 (298)
T KOG0111|consen   89 PEK   91 (298)
T ss_pred             Ccc
Confidence            653

>KOG0107|consensus

Probab=96.63  E-value=0.0029  Score=49.99  Aligned_cols=41  Identities=17%  Similarity=0.340  Sum_probs=37.0

Q ss_pred             CCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         157 PHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      .++|||+||+..+++.                                    +|+..|||..|.|..|+|+.++...
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~   86 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRP   86 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCc
Confidence            4799999999999887                                    9999999999999999999987443

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

Probab=96.56  E-value=0.0066  Score=46.81  Aligned_cols=53  Identities=28%  Similarity=0.451  Sum_probs=43.9

Q ss_pred             HHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEeCC
Q psy2204          62 EMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRP  127 (231)
Q Consensus        62 ~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~~~  127 (231)
                      +|.+.|..||           .++-+++..  +.-+|+|.+.++|-+|+.++|..+.|+.|+|+..
T Consensus        52 ~ll~~~~~~G-----------evvLvRfv~--~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LK  104 (146)
T PF08952_consen   52 ELLQKFAQYG-----------EVVLVRFVG--DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLK  104 (146)
T ss_dssp             HHHHHHHCCS------------ECEEEEET--TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE-
T ss_pred             HHHHHHHhCC-----------ceEEEEEeC--CeEEEEECccHHHHHHHccCCcEECCEEEEEEeC
Confidence            6677788888           666667765  4678999999999999999999999999999843

; PDB: 1UFW_A 2DNR_A.

>KOG4676|consensus

Probab=96.54  E-value=0.0026  Score=56.03  Aligned_cols=77  Identities=21%  Similarity=0.264  Sum_probs=61.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~  125 (231)
                      .-|-|.||.+.+|.++++.+|...|+|..+-+.+.  +.++.+.-....|||.|.+..++..|--|-.+.|-++.|.|.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~--~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~   84 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPN--VDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVR   84 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCC--CCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEE
Confidence            37889999999999999999999997766543321  333334334689999999999999999888888888887775

>PLN03120 nucleic acid binding protein; Provisional

Probab=96.51  E-value=0.004  Score=52.58  Aligned_cols=38  Identities=16%  Similarity=0.202  Sum_probs=34.3

Q ss_pred             CCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+.+|++                                      .|+ .|||..|.||.|+|.++..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAED   79 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccC
Confidence            4799999999999998                                      777 5999999999999999863

>KOG2202|consensus

Probab=96.47  E-value=0.0021  Score=53.67  Aligned_cols=56  Identities=9%  Similarity=0.258  Sum_probs=42.8

Q ss_pred             HHHHHHHH-HhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCC
Q psy2204          61 DEMMEFFN-QQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRP  127 (231)
Q Consensus        61 ~~L~~~F~-~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~  127 (231)
                      +++...|+ +||.           |+.++++.+     +|-+||.|..+++|++|+ .||+..+.|++|...+.
T Consensus        83 Ed~f~E~~~kygE-----------iee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYGE-----------IEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhh-----------hhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            34555555 7774           444444433     688999999999999999 99999999999987754

>KOG0114|consensus

Probab=96.32  E-value=0.0058  Score=44.33  Aligned_cols=41  Identities=20%  Similarity=0.361  Sum_probs=36.1

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...+-|||+|||+++|.|                                      +|+..|+|..+.++.|.|-.-.+
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~   94 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP   94 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence            345779999999999998                                      99999999999999999987553

>KOG2314|consensus

Probab=96.16  E-value=0.0091  Score=54.98  Aligned_cols=71  Identities=14%  Similarity=0.292  Sum_probs=53.2

Q ss_pred             CCCCeEEEcCCCCCC------CHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHH-H
Q psy2204          44 RQARRLYVGNIPFGV------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAM-A  111 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al-~  111 (231)
                      .-...|+|-|+|---      -..-|.++|+++|           +++...+.     ..+||.|++|.+..+|..|+ .
T Consensus        56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~g-----------k~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~  124 (698)
T KOG2314|consen   56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAG-----------KIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKS  124 (698)
T ss_pred             CcceEEEECCCcccChhHHHHHHHHHHHHHHhhc-----------cccceeeccCccCCeeeEEEEEecChhhHHHHHHh
Confidence            444678899998521      1234678899999           55555553     34899999999999999999 9


Q ss_pred             hCCCeec-CceEEEe
Q psy2204         112 FDGINFK-GQSLKIR  125 (231)
Q Consensus       112 lng~~l~-gr~i~V~  125 (231)
                      +||+.|+ ...+.|+
T Consensus       125 l~G~~ldknHtf~v~  139 (698)
T KOG2314|consen  125 LNGKRLDKNHTFFVR  139 (698)
T ss_pred             cccceecccceEEee
Confidence            9999996 4556665

>KOG0226|consensus

Probab=96.13  E-value=0.0089  Score=49.94  Aligned_cols=130  Identities=16%  Similarity=0.248  Sum_probs=84.4

Q ss_pred             CeEEEcCCCCCCCHHH-H--HHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          47 RRLYVGNIPFGVTEDE-M--MEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        47 r~lfVgNLp~~~te~~-L--~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ..+|++|+-..+..+- |  ...|+.|=.....      +++..+-..-++++|+.|.......++- +-+++.+.-+.+
T Consensus        97 f~p~~~~~g~~v~pep~lp~~~~f~~~p~L~kt------k~v~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~V  170 (290)
T KOG0226|consen   97 FRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKT------KLVRDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPV  170 (290)
T ss_pred             ccccccccccccCCCCCCcchhhhccchhhhhh------hhhhcCCCccCcccccCcchhhhhhhhccccccccccCcce
Confidence            4566777766665554 3  5556554311111      2222222333699999999988888888 777777776666


Q ss_pred             EEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------------------------------
Q psy2204         123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------------------------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------------------------------  172 (231)
                      ++.....-... ..             .+. .+.--+||.|.|..+++++                              
T Consensus       171 R~a~gtswedP-sl-------------~ew-~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgyg  235 (290)
T KOG0226|consen  171 RLAAGTSWEDP-SL-------------AEW-DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYG  235 (290)
T ss_pred             eeccccccCCc-cc-------------ccC-ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccce
Confidence            65543321111 00             011 1222589999999999999                              


Q ss_pred             -----------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         173 -----------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 -----------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                                 .|+.+|||..++.|.|+++.+....
T Consensus       236 fVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke  271 (290)
T KOG0226|consen  236 FVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE  271 (290)
T ss_pred             eeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence                       9999999999999999999877553

>KOG0112|consensus

Probab=96.09  E-value=0.0093  Score=57.57  Aligned_cols=81  Identities=15%  Similarity=0.270  Sum_probs=69.9

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          38 VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        38 ~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ++.......+.+|+|+|..++....|...|..||           .|..+.+-+.--|+||.|++...+..|+ .|.|..
T Consensus       447 lG~~kst~ttr~~sgglg~w~p~~~l~r~fd~fG-----------pir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap  515 (975)
T KOG0112|consen  447 LGQPKSTPTTRLQSGGLGPWSPVSRLNREFDRFG-----------PIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAP  515 (975)
T ss_pred             ccccccccceeeccCCCCCCChHHHHHHHhhccC-----------cceeeecccCCcceeeecccCccchhhHHHHhcCc
Confidence            4433556678999999999999999999999999           8888888888899999999999999999 999999


Q ss_pred             ecC--ceEEEeCCCC
Q psy2204         117 FKG--QSLKIRRPHD  129 (231)
Q Consensus       117 l~g--r~i~V~~~~~  129 (231)
                      |.|  +.|+|.++..
T Consensus       516 ~G~P~~r~rvdla~~  530 (975)
T KOG0112|consen  516 LGGPPRRLRVDLASP  530 (975)
T ss_pred             CCCCCcccccccccC
Confidence            986  5677776654

>KOG0126|consensus

Probab=96.03  E-value=0.0021  Score=51.12  Aligned_cols=37  Identities=38%  Similarity=0.635  Sum_probs=33.5

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      -=|||||||+++||.                                         -|+..|||..|.||.|+|....
T Consensus        36 A~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~  113 (219)
T KOG0126|consen   36 AYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS  113 (219)
T ss_pred             eEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence            459999999999997                                         7899999999999999998653

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

Probab=95.92  E-value=0.012  Score=48.53  Aligned_cols=38  Identities=39%  Similarity=0.671  Sum_probs=36.1

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .++|||+|||+++|++                                         .|+..|+|..|.|++|+|.++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            5899999999999999                                         9999999999999999999975

>KOG2253|consensus

Probab=95.87  E-value=0.0079  Score=56.26  Aligned_cols=67  Identities=19%  Similarity=0.269  Sum_probs=54.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      +.-++||||+...+..+-++.+...+|.|           .+.+..+   |||.+|....-...|+ .++...++|..+.
T Consensus        39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v-----------~s~kr~~---fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~  104 (668)
T KOG2253|consen   39 PRDTVFVGNISYLVSQEFWKSILAKSGFV-----------PSWKRDK---FGFCEFLKHIGDLRASRLLTELNIDDQKLI  104 (668)
T ss_pred             CCceeEecchhhhhhHHHHHHHHhhCCcc-----------hhhhhhh---hcccchhhHHHHHHHHHHhcccCCCcchhh
Confidence            34599999999999999999999999943           3333322   9999999999999999 8888888888776


Q ss_pred             Ee
Q psy2204         124 IR  125 (231)
Q Consensus       124 V~  125 (231)
                      +.
T Consensus       105 ~~  106 (668)
T KOG2253|consen  105 EN  106 (668)
T ss_pred             cc
Confidence            65

>PF14259 RRM_6: RNA recognition motif (a

Probab=95.72  E-value=0.017  Score=38.30  Aligned_cols=21  Identities=19%  Similarity=0.335  Sum_probs=14.0

Q ss_pred             EEEcCCCCCCCHHHHHHHhCC
Q psy2204         160 IFIGGLPNYLNEDQAIAGLNG  180 (231)
Q Consensus       160 ifV~nLp~~~tee~Ai~~lnG  180 (231)
                      |||+|||+.+++++....|..
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~   21 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSR   21 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTT
T ss_pred             CEEeCCCCCCCHHHHHHHHHh
Confidence            789999999999854444444

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 ....

>KOG0128|consensus

Probab=95.72  E-value=0.0051  Score=58.96  Aligned_cols=75  Identities=11%  Similarity=0.207  Sum_probs=62.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      ...|||.|+|+..|.++|+.+|+++|.+.++      .++..+-++.||.+||.|.++.++.+++ ..+...+.-+.+.|
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~------~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v  809 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSL------RLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEV  809 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCcccc------chhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccc
Confidence            4579999999999999999999999965554      3445555777999999999999999999 88887777666666


Q ss_pred             eC
Q psy2204         125 RR  126 (231)
Q Consensus       125 ~~  126 (231)
                      ..
T Consensus       810 ~v  811 (881)
T KOG0128|consen  810 QV  811 (881)
T ss_pred             cc
Confidence            54

>smart00362 RRM_2 RNA recognition motif

Probab=95.50  E-value=0.026  Score=36.45  Aligned_cols=18  Identities=50%  Similarity=0.768  Sum_probs=12.6

Q ss_pred             HHHHHhCCCeeCCeEEEE
Q psy2204         173 QAIAGLNGMQLGDKKLIV  190 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V  190 (231)
                      +|+..++|..+.|+.|+|
T Consensus        54 ~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362       54 KAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             HHHHHhCCcEECCEEEee
Confidence            666777777777777665

>KOG4285|consensus

Probab=95.06  E-value=0.17  Score=43.49  Aligned_cols=65  Identities=15%  Similarity=0.295  Sum_probs=51.7

Q ss_pred             CCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce-EEEeCCCC
Q psy2204          53 NIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS-LKIRRPHD  129 (231)
Q Consensus        53 NLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~-i~V~~~~~  129 (231)
                      +.++.- -.-|..+|++||           .|++.....+-.|-+|.|.+..+|.+||..||+.|.|.. |-|....+
T Consensus       204 GFppg~-~s~vL~~F~~cG-----------~Vvkhv~~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtD  269 (350)
T KOG4285|consen  204 GFPPGQ-VSIVLNLFSRCG-----------EVVKHVTPSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTD  269 (350)
T ss_pred             ccCccc-hhHHHHHHHhhC-----------eeeeeecCCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCC
Confidence            555443 356778899999           788887887778999999999999999999999999864 45665443

>KOG1996|consensus

Probab=95.01  E-value=0.072  Score=45.52  Aligned_cols=61  Identities=18%  Similarity=0.255  Sum_probs=41.5

Q ss_pred             HHHHHHHHHhhhhhhccccCCCCeeeeE-ecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCC
Q psy2204          61 DEMMEFFNQQMHLSGLAQAAGNPVLACQ-INLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRP  127 (231)
Q Consensus        61 ~~L~~~F~~~G~~~~~~~~~~~~i~~~~-~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~  127 (231)
                      +++++..++||++-.+.      |..+- ...+ ----||+|+..++|.+|+ .|||..|.||.+...+.
T Consensus       301 de~keEceKyg~V~~vi------ifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy  364 (378)
T KOG1996|consen  301 DETKEECEKYGKVGNVI------IFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY  364 (378)
T ss_pred             HHHHHHHHhhcceeeEE------EEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence            46677888888544321      11110 0011 124699999999999999 99999999998776644

>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=94.93  E-value=0.056  Score=35.00  Aligned_cols=19  Identities=42%  Similarity=0.726  Sum_probs=12.1

Q ss_pred             HHHHHhCCCeeCCeEEEEE
Q psy2204         173 QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~  191 (231)
                      .|+..+++..+.|++|.|+
T Consensus        55 ~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590          55 KALEALNGKELGGRPLRVE   73 (74)
T ss_pred             HHHHHhCCCeECCeEEEEe
Confidence            5666666666666666654

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).

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=94.70  E-value=0.21  Score=32.86  Aligned_cols=56  Identities=11%  Similarity=0.238  Sum_probs=40.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .+|+|.++. +++.++|+.+|..|....        ....+...-+ ..|=|.|.+.+.|.+|| .|
T Consensus         6 eavhirGvd-~lsT~dI~~y~~~y~~~~--------~~~~IEWIdD-tScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVD-ELSTDDIKAYFSEYFDEE--------GPFRIEWIDD-TSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHhcccC--------CCceEEEecC-CcEEEEECCHHHHHHHHHcC
Confidence            478999995 688899999999992100        2334444333 45788999999999998 53

>KOG0130|consensus

Probab=94.35  E-value=0.052  Score=41.32  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=23.4

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      .|+..|||..+.|..|.|.|+-..+.
T Consensus       129 ~A~~~~Ng~~ll~q~v~VDw~Fv~gp  154 (170)
T KOG0130|consen  129 AAIDALNGAELLGQNVSVDWCFVKGP  154 (170)
T ss_pred             HHHHhccchhhhCCceeEEEEEecCC
Confidence            89999999999999999999976544

>KOG4307|consensus

Probab=94.33  E-value=0.053  Score=51.31  Aligned_cols=82  Identities=12%  Similarity=0.049  Sum_probs=58.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ........|||-.||..+++.++.++|...-.|..+.     .+...-..+-++-|||+|..++.+.+|+ .-..+.+.-
T Consensus       429 ~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I-----~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~  503 (944)
T KOG4307|consen  429 FPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFI-----ELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGH  503 (944)
T ss_pred             CCCCccceEEeccCCccccccchhhhhhhhhhhhhee-----EeccCCcccccchhhheeccccccchhhhcccccccCc
Confidence            3445567999999999999999999999876333210     1111111223689999999988888888 666666677


Q ss_pred             ceEEEeCC
Q psy2204         120 QSLKIRRP  127 (231)
Q Consensus       120 r~i~V~~~  127 (231)
                      |.|+|.-.
T Consensus       504 r~irv~si  511 (944)
T KOG4307|consen  504 RIIRVDSI  511 (944)
T ss_pred             eEEEeech
Confidence            88888733

>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=94.22  E-value=0.25  Score=32.95  Aligned_cols=54  Identities=19%  Similarity=0.282  Sum_probs=42.7

Q ss_pred             CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          57 GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        57 ~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      .++-++++.-+.+|+            ..++...+ .|| ||.|.+..+|++|. ..+|..+.+-.+.+
T Consensus        11 ~~~v~d~K~~Lr~y~------------~~~I~~d~-tGf-YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYR------------WDRIRDDR-TGF-YIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCC------------cceEEecC-CEE-EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            567889999999995            55554332 355 99999999999999 99999888776654

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

>KOG2135|consensus

Probab=93.76  E-value=0.046  Score=49.44  Aligned_cols=74  Identities=20%  Similarity=0.280  Sum_probs=60.1

Q ss_pred             CCCeEEEcCCCCCC-CHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGV-TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~-te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      +.+.|-+--.++.. |..+|...|.+||           .|.++.+..+---|.|+|.+..+|-+|-...+..|++|.|+
T Consensus       371 dhs~l~lek~~~glnt~a~ln~hfA~fG-----------~i~n~qv~~~~~~a~vTF~t~aeag~a~~s~~avlnnr~iK  439 (526)
T KOG2135|consen  371 DHSPLALEKSPFGLNTIADLNPHFAQFG-----------EIENIQVDYSSLHAVVTFKTRAEAGEAYASHGAVLNNRFIK  439 (526)
T ss_pred             ccchhhhhccCCCCchHhhhhhhhhhcC-----------ccccccccCchhhheeeeeccccccchhccccceecCceeE
Confidence            33445555555555 6689999999999           77777777666779999999999999999999999999999


Q ss_pred             EeCCCC
Q psy2204         124 IRRPHD  129 (231)
Q Consensus       124 V~~~~~  129 (231)
                      |.|-++
T Consensus       440 l~whnp  445 (526)
T KOG2135|consen  440 LFWHNP  445 (526)
T ss_pred             EEEecC
Confidence            997664

>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=93.72  E-value=0.19  Score=40.54  Aligned_cols=59  Identities=19%  Similarity=0.232  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC--CCeecCceEEEeCCC
Q psy2204          59 TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD--GINFKGQSLKIRRPH  128 (231)
Q Consensus        59 te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln--g~~l~gr~i~V~~~~  128 (231)
                      ..+.|+++|..|+           .+......++-+=..|.|.+.++|.+|. .++  +..+.|..+++.+..
T Consensus         8 ~~~~l~~l~~~~~-----------~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~   69 (184)
T PF04847_consen    8 NLAELEELFSTYD-----------PPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ   69 (184)
T ss_dssp             -HHHHHHHHHTT------------SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred             hHHHHHHHHHhcC-----------CceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence            3478999999998           7777777777778899999999999999 988  999999999998774

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.

>PF13893 RRM_5: RNA recognition motif

Probab=93.55  E-value=0.11  Score=32.83  Aligned_cols=21  Identities=43%  Similarity=0.525  Sum_probs=20.1

Q ss_pred             HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      .|++.|||..+.|++|+|++|
T Consensus        36 ~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen   36 KAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHHTTSEETTEEEEEEEE
T ss_pred             HHHHHhCCCEECCcEEEEEEC
Confidence            899999999999999999986

(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 ....

>KOG0122|consensus

Probab=93.46  E-value=0.13  Score=42.95  Aligned_cols=42  Identities=29%  Similarity=0.373  Sum_probs=38.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +...+|-|.||+.+++++                                         +||..|||+-+..--|+|+|+
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            345789999999999998                                         999999999999999999999


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      .+.
T Consensus       267 kP~  269 (270)
T KOG0122|consen  267 KPS  269 (270)
T ss_pred             CCC
Confidence            864

>KOG4676|consensus

Probab=93.20  E-value=0.024  Score=50.17  Aligned_cols=63  Identities=16%  Similarity=0.071  Sum_probs=51.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe--cCCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI--NLDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~--~~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      -.|+++|++|...+...++.++|..+|.+           ....+  ....-||-++|..-.+...|+.++|.++.
T Consensus       150 irRt~~v~sl~~~~~l~e~~e~f~r~Gev-----------~ya~~ask~~s~~c~~sf~~qts~~halr~~gre~k  214 (479)
T KOG4676|consen  150 IRRTREVQSLISAAILPESGESFERKGEV-----------SYAHTASKSRSSSCSHSFRKQTSSKHALRSHGRERK  214 (479)
T ss_pred             HHhhhhhhcchhhhcchhhhhhhhhcchh-----------hhhhhhccCCCcchhhhHhhhhhHHHHHHhcchhhh
Confidence            34899999999999999999999999943           32222  33467888999999999999988888876

>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=93.10  E-value=0.11  Score=36.41  Aligned_cols=36  Identities=17%  Similarity=0.315  Sum_probs=25.2

Q ss_pred             cEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         159 KIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       159 ~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      -|||.|||.+.+..                                    +|.+-|+|..+.|++|.|++..
T Consensus         4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~   75 (90)
T PF11608_consen    4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVSGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP   75 (90)
T ss_dssp             EEEEES--TTS-HHHHHHHHHHHHHTTT--EEE--TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEeCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence            47899999988776                                    9999999999999999999884

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

>PLN03121 nucleic acid binding protein; Provisional

Probab=92.50  E-value=0.27  Score=41.10  Aligned_cols=38  Identities=16%  Similarity=0.182  Sum_probs=33.4

Q ss_pred             CCcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .++|||+||++.+|++                                     +....|||..|.|+.|.|....
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG   79 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence            4799999999999998                                     4445899999999999999865

>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=92.18  E-value=0.47  Score=32.17  Aligned_cols=61  Identities=21%  Similarity=0.441  Sum_probs=37.3

Q ss_pred             CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeC
Q psy2204          57 GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRR  126 (231)
Q Consensus        57 ~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~  126 (231)
                      .++..+|..++...+.+..-      .|-++++.  ..|+||+-... .+..++ .|++..+.|++++|+.
T Consensus        12 g~~~~~iv~~i~~~~gi~~~------~IG~I~I~--~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~   73 (74)
T PF03880_consen   12 GLTPRDIVGAICNEAGIPGR------DIGRIDIF--DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVER   73 (74)
T ss_dssp             T--HHHHHHHHHTCTTB-GG------GEEEEEE---SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE
T ss_pred             CCCHHHHHHHHHhccCCCHH------hEEEEEEe--eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEE
Confidence            67888999999887644432      67777776  46889987654 778888 9999999999999874

; PDB: 2G0C_A 3MOJ_B.

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=92.16  E-value=0.07  Score=42.73  Aligned_cols=68  Identities=18%  Similarity=0.259  Sum_probs=41.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHH-hhhhhhccccCCCCeeeeE--ecC----C--CcEEEEEecCHHHHHHHH-HhC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQ-QMHLSGLAQAAGNPVLACQ--INL----D--KNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~-~G~~~~~~~~~~~~i~~~~--~~~----~--kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ....+|-|++||+++|++++.+.++. ++...        ....+.  ...    .  -.-|||.|.+.+++..-. .++
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~--------~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~   76 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEW--------DWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFD   76 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--SSE-----------EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCT
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhccccc--------ceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcC
Confidence            34568999999999999999885554 32100        001111  111    1  257999999999999988 999


Q ss_pred             CCeecC
Q psy2204         114 GINFKG  119 (231)
Q Consensus       114 g~~l~g  119 (231)
                      |..|.+
T Consensus        77 g~~F~D   82 (176)
T PF03467_consen   77 GHVFVD   82 (176)
T ss_dssp             TEEEE-
T ss_pred             CcEEEC
Confidence            998854

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG2068|consensus

Probab=91.93  E-value=0.042  Score=47.67  Aligned_cols=71  Identities=18%  Similarity=0.406  Sum_probs=53.1

Q ss_pred             CeEEEcCCCCCCCHHHH---HHHHHHhhhhhhccccCCCCeeeeEecCC---------CcEEEEEecCHHHHHHHH-HhC
Q psy2204          47 RRLYVGNIPFGVTEDEM---MEFFNQQMHLSGLAQAAGNPVLACQINLD---------KNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L---~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      +-+||-+|+.....+++   .++|.+||++.++           ...+.         ---+||+|+..++|..|| ..+
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki-----------~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~  146 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKI-----------VKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVD  146 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEE-----------eecCCcccccCCCCCCcccccccchHhhhhHHHHhh
Confidence            56888899987755544   5688888855433           22221         134899999999999999 999


Q ss_pred             CCeecCceEEEeCCC
Q psy2204         114 GINFKGQSLKIRRPH  128 (231)
Q Consensus       114 g~~l~gr~i~V~~~~  128 (231)
                      |..++|+.|+..+..
T Consensus       147 g~~~dg~~lka~~gt  161 (327)
T KOG2068|consen  147 GFVDDGRALKASLGT  161 (327)
T ss_pred             hHHhhhhhhHHhhCC
Confidence            999999987776543

>KOG4207|consensus

Probab=91.93  E-value=0.17  Score=41.29  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=23.6

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      +|++.|+|..++|+.|+|++|.-+..
T Consensus        70 dA~damDG~~ldgRelrVq~arygr~   95 (256)
T KOG4207|consen   70 DALDAMDGAVLDGRELRVQMARYGRP   95 (256)
T ss_pred             HHHHhhcceeeccceeeehhhhcCCC
Confidence            99999999999999999999986643

>KOG0149|consensus

Probab=91.92  E-value=0.21  Score=41.38  Aligned_cols=44  Identities=30%  Similarity=0.357  Sum_probs=34.0

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      -+|||||+|+++++.|                                         +||+.-| -.|+||+-.|++|.-
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence            4699999999999998                                         4444333 468999999999998


Q ss_pred             Cccccc
Q psy2204         196 GAKNAS  201 (231)
Q Consensus       196 ~~~~~~  201 (231)
                      +++...
T Consensus        91 g~~pR~   96 (247)
T KOG0149|consen   91 GGKPRP   96 (247)
T ss_pred             cCccCC
Confidence            766444

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

Probab=91.78  E-value=0.32  Score=33.94  Aligned_cols=53  Identities=15%  Similarity=0.291  Sum_probs=37.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      -||-=-.|..+...||.++|+.||           .|.---+.  ...|||...+.+.+..++ .++
T Consensus        10 HVFhltFPkeWK~~DI~qlFspfG-----------~I~VsWi~--dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   10 HVFHLTFPKEWKTSDIYQLFSPFG-----------QIYVSWIN--DTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             CEEEEE--TT--HHHHHHHCCCCC-----------CEEEEEEC--TTEEEEEECCCHHHHHHHHHHT
T ss_pred             eEEEEeCchHhhhhhHHHHhccCC-----------cEEEEEEc--CCcEEEEeecHHHHHHHHHHhc
Confidence            344334999999999999999999           44333332  468999999999999998 665

; 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.

>KOG2318|consensus

Probab=91.75  E-value=1.1  Score=41.93  Aligned_cols=84  Identities=25%  Similarity=0.467  Sum_probs=62.6

Q ss_pred             CCCCCCCCCCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---------------------
Q psy2204          35 VPVVGSTITRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---------------------   92 (231)
Q Consensus        35 ~~~~~~~~~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------------------   92 (231)
                      .|...+.....+++|-|-|+.|+ +.-.+|.-+|+.|..       .|..|++|.|..+                     
T Consensus       163 ~pE~~~~~~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP-------~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~  235 (650)
T KOG2318|consen  163 DPEENPVLGEETKRLAVVNMDWDRVKAKDLFVLFNSFLP-------KGGSILSVKIYPSEFGKERMKEEEVHGPPKELFK  235 (650)
T ss_pred             CcccccccccccceeeEeccccccccHHHHHHHHHhhcC-------CCCceeEEEechhhhhHHHhhhhcccCChhhhcc
Confidence            44445566778899999999995 588899999998852       2235666665432                     


Q ss_pred             --------------------------------CcEEEEEecCHHHHHHHH-HhCCCeecCc--eEEEe
Q psy2204          93 --------------------------------KNFAFLEFRSIDETTQAM-AFDGINFKGQ--SLKIR  125 (231)
Q Consensus        93 --------------------------------kg~aFV~F~~~~~a~~Al-~lng~~l~gr--~i~V~  125 (231)
                                                      .=||.|+|.+.+.|.+.. ..+|.+|...  .|-++
T Consensus       236 ~~e~~~~s~sD~ee~~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLR  303 (650)
T KOG2318|consen  236 PVEEYKESESDDEEEEDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLR  303 (650)
T ss_pred             ccccCcccccchhhhhhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeee
Confidence                                            028999999999999999 9999999743  44444

>KOG0132|consensus

Probab=91.60  E-value=0.19  Score=48.28  Aligned_cols=44  Identities=20%  Similarity=0.496  Sum_probs=38.6

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCcccc
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGAKNA  200 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~~  200 (231)
                      ++|||||.|+..+++.                                   +|+.+|+...+.++.|+|.||...+-..
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks  499 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS  499 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence            4799999999999998                                   9999999999999999999997554433

>KOG0113|consensus

Probab=91.51  E-value=0.45  Score=40.89  Aligned_cols=41  Identities=17%  Similarity=0.367  Sum_probs=37.0

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      .+.-+||||+-|+++++|.                                         .|.+..+|..|.|+.|.|..
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv  177 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV  177 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence            4566899999999999998                                         89999999999999999987


Q ss_pred             ee
Q psy2204         193 AS  194 (231)
Q Consensus       193 a~  194 (231)
                      ..
T Consensus       178 ER  179 (335)
T KOG0113|consen  178 ER  179 (335)
T ss_pred             cc
Confidence            65

>KOG2591|consensus

Probab=91.33  E-value=0.29  Score=45.39  Aligned_cols=69  Identities=17%  Similarity=0.378  Sum_probs=51.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh--CCCeecCce
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF--DGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l--ng~~l~gr~  121 (231)
                      ...-|.++-||..+-.|+++.+|+.-         .+-+++++.+..+.++ ||+|++..||..|. .|  .-++|-|++
T Consensus       174 kRcIvilREIpettp~e~Vk~lf~~e---------ncPk~iscefa~N~nW-yITfesd~DAQqAykylreevk~fqgKp  243 (684)
T KOG2591|consen  174 KRCIVILREIPETTPIEVVKALFKGE---------NCPKVISCEFAHNDNW-YITFESDTDAQQAYKYLREEVKTFQGKP  243 (684)
T ss_pred             ceeEEEEeecCCCChHHHHHHHhccC---------CCCCceeeeeeecCce-EEEeecchhHHHHHHHHHHHHHhhcCcc
Confidence            33457789999999999999999841         1227888888887776 99999999999986 32  233556665


Q ss_pred             EE
Q psy2204         122 LK  123 (231)
Q Consensus       122 i~  123 (231)
                      |.
T Consensus       244 Im  245 (684)
T KOG2591|consen  244 IM  245 (684)
T ss_pred             hh
Confidence            54

>KOG4574|consensus

Probab=91.12  E-value=0.16  Score=49.08  Aligned_cols=70  Identities=17%  Similarity=0.249  Sum_probs=58.5

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec--CceEEEe
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK--GQSLKIR  125 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~--gr~i~V~  125 (231)
                      .++-|..-+.+...|..+|++||           .+.+.++.++-..|.|+|.+.+.|..|+ +++|+++.  |-+.+|.
T Consensus       301 ~~~~nn~v~~tSssL~~l~s~yg-----------~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~  369 (1007)
T KOG4574|consen  301 QSLENNAVNLTSSSLATLCSDYG-----------SVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVS  369 (1007)
T ss_pred             hhhhcccccchHHHHHHHHHhhc-----------chhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEE
Confidence            33445555788899999999999           7888889899999999999999999999 99999874  6677777


Q ss_pred             CCCC
Q psy2204         126 RPHD  129 (231)
Q Consensus       126 ~~~~  129 (231)
                      +++.
T Consensus       370 ~ak~  373 (1007)
T KOG4574|consen  370 FAKT  373 (1007)
T ss_pred             eccc
Confidence            6653

>KOG0151|consensus

Probab=90.77  E-value=0.64  Score=44.40  Aligned_cols=73  Identities=16%  Similarity=0.270  Sum_probs=52.0

Q ss_pred             CCcEEEcCCCCCCCHH--------------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         157 PHKIFIGGLPNYLNED--------------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee--------------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      .+++||+||+..++++                                            .|+..|+|..+.+..+++-|
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gW  253 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGW  253 (877)
T ss_pred             ccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecc
Confidence            4689999999999999                                            89999999999999999999


Q ss_pred             eecCccccc-------CCCCccccccCCcccCCCCCCCccccCC
Q psy2204         193 ASVGAKNAS-------GQQAPVQIQVPGLTQVGQAGPATECPVP  229 (231)
Q Consensus       193 a~~~~~~~~-------~~~~~~~~q~~~~~~~~~~~~~~~~~~~  229 (231)
                      +..-.-.+.       .....-..+--+|-....+++++.+|++
T Consensus       254 gk~V~ip~~p~~ipp~~h~~~lp~p~s~Lpfnaqp~p~~~~pn~  297 (877)
T KOG0151|consen  254 GKAVPIPNIPIYIPPPLHEATLPPPPSNLPFNAQPGPPKSLPNQ  297 (877)
T ss_pred             ccccccCCccccCCChhhhccCCCCccCCcccCCCCccccCCCc
Confidence            853322111       1111222334455666777777777764

>KOG0115|consensus

Probab=90.61  E-value=0.29  Score=41.11  Aligned_cols=59  Identities=19%  Similarity=0.192  Sum_probs=47.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ..|||.||...++.+.|..-|+.||.+...       |..++. .+..+-++|+|...-.+.+|+ ..
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~a-------v~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~   92 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERA-------VAKVDDRGKPTREGIVEFAKKPNARKAARRC   92 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchh-------eeeecccccccccchhhhhcchhHHHHHHHh
Confidence            689999999999999999999999965543       222222 344678999999999999998 44

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

Probab=89.58  E-value=2.6  Score=31.00  Aligned_cols=67  Identities=16%  Similarity=0.281  Sum_probs=46.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .+.+..+.+...|+.++.++|..+.+.+-          +.|..+++.++    +=.+.+.|.+.++|..-. .+||+.|
T Consensus        10 ~~~~~~~~l~vp~~~~~~d~l~~f~~~~~----------~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~F   79 (110)
T PF07576_consen   10 ERRSTLCCLAVPPYMTPSDFLLFFGAPFR----------EDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPF   79 (110)
T ss_pred             CCCceEEEEEeCcccccHHHHHHhhhccc----------ccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCcc
Confidence            34455566666666667677765555543          14666666555    335889999999999998 9999988


Q ss_pred             cC
Q psy2204         118 KG  119 (231)
Q Consensus       118 ~g  119 (231)
                      ..
T Consensus        80 ns   81 (110)
T PF07576_consen   80 NS   81 (110)
T ss_pred             CC
Confidence            64

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

>smart00360 RRM RNA recognition motif

Probab=89.28  E-value=0.46  Score=30.08  Aligned_cols=19  Identities=37%  Similarity=0.614  Sum_probs=16.8

Q ss_pred             HHHHHhCCCeeCCeEEEEE
Q psy2204         173 QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~  191 (231)
                      .|+..|+|..+.|+.|+|+
T Consensus        53 ~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360       53 KALEALNGKELDGRPLKVK   71 (71)
T ss_pred             HHHHHcCCCeeCCcEEEeC
Confidence            8889999999999999874

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=86.51  E-value=1.3  Score=31.34  Aligned_cols=78  Identities=12%  Similarity=0.230  Sum_probs=45.8

Q ss_pred             EEEEecCHHHHHHHHHh--CCCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHHH
Q psy2204          96 AFLEFRSIDETTQAMAF--DGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQ  173 (231)
Q Consensus        96 aFV~F~~~~~a~~Al~l--ng~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee~  173 (231)
                      |.|+|.+..-|.+.+.+  +...+.+..+.|.-.- +.... .          ....-...-+.++|.|.|||..+++|.
T Consensus         1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P-~~~~~-~----------~k~qv~~~vs~rtVlvsgip~~l~ee~   68 (88)
T PF07292_consen    1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSP-VTLGH-L----------QKFQVFSGVSKRTVLVSGIPDVLDEEE   68 (88)
T ss_pred             CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEe-EecCC-c----------eEEEEEEcccCCEEEEeCCCCCCChhh
Confidence            68999999999999844  4445566666665211 10000 0          000001123568999999999887763


Q ss_pred             HHHHhCCCeeCCeEEEEEEeec
Q psy2204         174 AIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       174 Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      -.          ..|.+.|.++
T Consensus        69 l~----------D~LeIhFqK~   80 (88)
T PF07292_consen   69 LR----------DKLEIHFQKP   80 (88)
T ss_pred             he----------eeEEEEEecC
Confidence            21          4566666553

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=86.38  E-value=2.8  Score=32.39  Aligned_cols=74  Identities=12%  Similarity=0.200  Sum_probs=53.3

Q ss_pred             CCCCCeEEEcCCCCCCC-HHHHH---HHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          43 TRQARRLYVGNIPFGVT-EDEMM---EFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~t-e~~L~---~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      +.+..+|.|.=|..++. .+||+   ..++.||           +|.++..+- +-.|.|.|++..+|=+|+ ++.. ..
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fG-----------pI~SVT~cG-rqsavVvF~d~~SAC~Av~Af~s-~~  149 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFG-----------PIQSVTLCG-RQSAVVVFKDITSACKAVSAFQS-RA  149 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcC-----------CcceeeecC-CceEEEEehhhHHHHHHHHhhcC-CC
Confidence            34556888887776662 34444   4456788           777776643 678999999999999999 7765 66


Q ss_pred             cCceEEEeCCCC
Q psy2204         118 KGQSLKIRRPHD  129 (231)
Q Consensus       118 ~gr~i~V~~~~~  129 (231)
                      .|..+.+.+-..
T Consensus       150 pgtm~qCsWqqr  161 (166)
T PF15023_consen  150 PGTMFQCSWQQR  161 (166)
T ss_pred             CCceEEeecccc
Confidence            777778776543

>KOG0533|consensus

Probab=84.79  E-value=1.7  Score=36.59  Aligned_cols=41  Identities=20%  Similarity=0.327  Sum_probs=35.9

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .+.+|+|.|||+.++++                                        .|++.+||..+.|+.+++.....
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            34789999999999988                                        89999999999999999987764


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      .
T Consensus       162 ~  162 (243)
T KOG0533|consen  162 P  162 (243)
T ss_pred             c
Confidence            4

>KOG0153|consensus

Probab=83.55  E-value=4.8  Score=35.45  Aligned_cols=42  Identities=21%  Similarity=0.336  Sum_probs=35.5

Q ss_pred             CCCCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         154 PDSPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...-.+|||++|-..+++.                                    .|-+.+|...|.|++|+|.|..+
T Consensus       225 D~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  225 DTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             ccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            3345799999998788776                                    67788898899999999999987

>smart00361 RRM_1 RNA recognition motif

Probab=81.96  E-value=1.4  Score=29.27  Aligned_cols=19  Identities=26%  Similarity=0.450  Sum_probs=17.6

Q ss_pred             HHHHHhCCCeeCCeEEEEE
Q psy2204         173 QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~  191 (231)
                      +|+..|||..+.||.|+++
T Consensus        52 ~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361       52 RAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             HHHHHhCCCEECCEEEEeC
Confidence            9999999999999999873

>KOG4410|consensus

Probab=81.92  E-value=2.5  Score=36.22  Aligned_cols=47  Identities=9%  Similarity=0.110  Sum_probs=38.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCH
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI  103 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~  103 (231)
                      .-||++||+.++.-.||+..+.+.+.          .-.++...-+.|-||+.|-+.
T Consensus       331 ~di~~~nl~rd~rv~dlk~~lr~~~~----------~pm~iswkg~~~k~flh~~~~  377 (396)
T KOG4410|consen  331 TDIKLTNLSRDIRVKDLKSELRKREC----------TPMSISWKGHFGKCFLHFGNR  377 (396)
T ss_pred             cceeeccCccccchHHHHHHHHhcCC----------CceeEeeecCCcceeEecCCc
Confidence            45999999999999999999998761          345666667789999999864

>KOG0804|consensus

Probab=80.97  E-value=6.5  Score=35.85  Aligned_cols=64  Identities=17%  Similarity=0.382  Sum_probs=53.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ++.|+|--+|-.++-.||..|...+-.          .|.++++.++    +=...|.|.+.++|..-. ++||+.|..
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~----------~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIK----------QISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhh----------hhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            788999999999999999999887652          5666666554    235899999999999999 999998865

>KOG4660|consensus

Probab=80.85  E-value=1.4  Score=40.81  Aligned_cols=34  Identities=21%  Similarity=0.418  Sum_probs=31.5

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEE
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLI  189 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~  189 (231)
                      ..++|+|-|||.+++++                                    .|+++||+.+|.|++|+
T Consensus        74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            34789999999999998                                    99999999999999998

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	231
2yh0_A	198	Solution Structure Of The Closed Conformation Of Hu		4e-66
2g4b_A	172	Structure Of U2af65 Variant With Polyuridine Tract		3e-52
3vaf_A	174	Structure Of U2af65 Variant With Bru3 Dna Length =		4e-52
1u2f_A	90	Solution Structure Of The First Rna-Binding Domain		4e-40
2hzc_A	87	Crystal Structure Of The N-terminal Rrm Of The U2af		6e-35
2u2f_A	85	Solution Structure Of The Second Rna-Binding Domain		6e-12
3ucg_A	89	Crystal Structure Of A Rna Binding Domain Of Hypoth		3e-04
3b4d_A	96	Crystal Structure Of Human Pabpn1 Rrm Length = 96		4e-04

>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human U2af65 Tandem Rrm1 And Rrm2 Domains Length = 198

Iteration: 1
 Score =  247 bits (631), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 128/196 (65%), Positives = 141/196 (71%), Gaps = 42/196 (21%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 4   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 106 TTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGL 165
           TTQAMAFDGI F+GQSLKIRRPHDYQP PG+++N +V VP GV+STVVPDS HK+FIGGL
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGL 122
Query: 166 PNYLNE-----------------------------------------DQAIAGLNGMQLG 184
           PNYLN+                                         DQAIAGLNGMQLG
Sbjct: 123 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG 182
Query: 185 DKKLIVQRASVGAKNA 200
           DKKL+VQRASVGAKNA
Sbjct: 183 DKKLLVQRASVGAKNA 198

>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract Length = 172

Iteration: 1
 Score =  201 bits (511), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 109/190 (57%), Positives = 117/190 (61%), Gaps = 62/190 (32%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 4   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63
Query: 106 TTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGL 165
           TTQAMAFDGI F+GQSLKIRRPHDYQP PG                      HK+FIGGL
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA---------------------HKLFIGGL 102
Query: 166 PNYLNE-----------------------------------------DQAIAGLNGMQLG 184
           PNYLN+                                         DQAIAGLNGMQLG
Sbjct: 103 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG 162
Query: 185 DKKLIVQRAS 194
           DKKL+VQRAS
Sbjct: 163 DKKLLVQRAS 172

>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna Length = 174

Iteration: 1
 Score =  201 bits (510), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 109/190 (57%), Positives = 117/190 (61%), Gaps = 62/190 (32%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 6   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 106 TTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGL 165
           TTQAMAFDGI F+GQSLKIRRPHDYQP PG                      HK+FIGGL
Sbjct: 66  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA---------------------HKLFIGGL 104
Query: 166 PNYLNE-----------------------------------------DQAIAGLNGMQLG 184
           PNYLN+                                         DQAIAGLNGMQLG
Sbjct: 105 PNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG 164
Query: 185 DKKLIVQRAS 194
           DKKL+VQRAS
Sbjct: 165 DKKLLVQRAS 174

>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of Hu2af65 Length = 90

Iteration: 1
 Score =  160 bits (406), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 75/90 (83%), Positives = 80/90 (88%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 1   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60
Query: 106 TTQAMAFDGINFKGQSLKIRRPHDYQPTPG 135
           TTQAMAFDGI F+GQSLKIRRPHDYQP PG
Sbjct: 61  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPG 90

>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large Subunit Length = 87

Iteration: 1
 Score =  144 bits (362), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 68/82 (82%), Positives = 73/82 (89%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 6   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 65
Query: 106 TTQAMAFDGINFKGQSLKIRRP 127
           TTQAMAFDGI F+GQSLKIRRP
Sbjct: 66  TTQAMAFDGIIFQGQSLKIRRP 87

>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of Hu2af65 Length = 85

Iteration: 1
 Score = 67.4 bits (163), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 40/84 (47%), Positives = 43/84 (51%), Gaps = 41/84 (48%)
Query: 158 HKIFIGGLPNYLNEDQ-----------------------------------------AIA 176
           HK+FIGGLPNYLN+DQ                                         AIA
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 177 GLNGMQLGDKKLIVQRASVGAKNA 200
           GLNGMQLGDKKL+VQRASVGAKNA
Sbjct: 62  GLNGMQLGDKKLLVQRASVGAKNA 85

>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens At 1.95 A Resolution Length = 89

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 7/81 (8%)
Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSI 103
            AR +YVGN+ +G T +E+      + H  G        +L  + +   K FA++EF   
Sbjct: 5   DARSIYVGNVDYGATAEEL------EAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDK 58
Query: 104 DETTQAMAFDGINFKGQSLKI 124
           +    ++A D   F+G+ +K+
Sbjct: 59  ESVRTSLALDESLFRGRQIKV 79

>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm Length = 96

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSID 104
           AR +YVGN+ +G T +E+      + H  G        +L  + +   K FA++EF   +
Sbjct: 5   ARSIYVGNVDYGATAEEL------EAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 58
Query: 105 ETTQAMAFDGINFKGQSLKI 124
               ++A D   F+G+ +K+
Sbjct: 59  SVRTSLALDESLFRGRQIKV 78

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	231
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-64
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-10
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	7e-51
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-09
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	7e-40
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-15
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-10
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	1e-13
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	2e-13
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-13
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	4e-13
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	7e-13
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	1e-12
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	1e-12
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	2e-12
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	2e-12
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	4e-12
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	5e-12
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	5e-12
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	5e-12
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	6e-12
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	8e-12
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	9e-12
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	1e-11
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	1e-11
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	2e-11
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	2e-11
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	2e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	1e-06
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	2e-11
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	5e-11
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	5e-11
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	6e-11
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	6e-11
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	6e-11
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	7e-11
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	7e-11
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	7e-11
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	9e-11
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-10
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	1e-10
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	1e-10
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-10
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	1e-10
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	6e-04
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-10
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-10
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	1e-08
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-10
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	3e-10
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	5e-10
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	5e-10
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-07
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-06
2dis_A	109	Unnamed protein product; structural genomics, RRM	6e-10
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	8e-10
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	9e-10
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-09
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-09
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-09
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	1e-09
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	1e-09
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-09
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	2e-09
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-09
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-09
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	2e-09
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	2e-09
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-09
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	3e-09
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	3e-09
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	3e-09
1x4e_A	85	RNA binding motif, single-stranded interacting pro	3e-09
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	3e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	1e-04
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	3e-09
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	4e-09
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	4e-09
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	6e-09
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	5e-09
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	5e-09
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	5e-09
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	6e-09
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	6e-09
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	7e-09
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	7e-09
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	8e-09
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	9e-09
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	9e-09
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	9e-09
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	9e-09
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	1e-08
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	1e-08
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	1e-08
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	1e-08
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	2e-08
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	2e-08
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	2e-08
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	2e-08
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	2e-08
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	2e-08
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	2e-08
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	3e-08
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	3e-08
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	3e-08
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	3e-08
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-08
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	6e-05
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	4e-08
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	4e-08
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	4e-08
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	5e-08
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	5e-08
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	6e-08
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	6e-08
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	6e-08
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	7e-08
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	8e-08
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	1e-07
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	2e-07
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	2e-07
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	2e-07
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-07
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	2e-07
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	3e-07
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	3e-07
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	4e-07
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	5e-07
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	6e-07
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	6e-07
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	7e-07
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	8e-07
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	1e-06
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	1e-06
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-06
1x5p_A	97	Negative elongation factor E; structure genomics,	2e-06
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	4e-06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	5e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	7e-06
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	9e-06
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	9e-06
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	9e-06
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	1e-05
1x5o_A	114	RNA binding motif, single-stranded interacting pro	1e-05
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	1e-05
2div_A	99	TRNA selenocysteine associated protein; structural	2e-05
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	2e-05
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	2e-05
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	3e-05
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	3e-05
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	4e-05
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	5e-05
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	6e-05
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	6e-05
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	7e-05
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	1e-04
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	1e-04
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	2e-04
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	2e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	2e-04
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	2e-04
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	2e-04
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	3e-04
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	4e-04
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	5e-04
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	6e-04

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

 Score =  197 bits (504), Expect = 2e-64
 Identities = 128/197 (64%), Positives = 141/197 (71%), Gaps = 42/197 (21%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
            ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+D
Sbjct: 3   MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62

Query: 105 ETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGG 164
           ETTQAMAFDGI F+GQSLKIRRPHDYQP PG+++N +V VP GV+STVVPDS HK+FIGG
Sbjct: 63  ETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGG 121

Query: 165 LPNYLNEDQ-----------------------------------------AIAGLNGMQL 183
           LPNYLN+DQ                                         AIAGLNGMQL
Sbjct: 122 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQL 181

Query: 184 GDKKLIVQRASVGAKNA 200
           GDKKL+VQRASVGAKNA
Sbjct: 182 GDKKLLVQRASVGAKNA 198

>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 = 57.3 bits (139), Expect = 2e-10
 Identities = 24/117 (20%), Positives = 48/117 (41%), Gaps = 18/117 (15%)

Query: 17  PANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGL 76
           P +           +     VV + +   A +L++G +P  + +D++ E           
Sbjct: 85  PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELL--------- 135

Query: 77  AQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRR 126
             + G P+ A  +  D      K +AF E+  I+ T QA+   +G+    + L ++R
Sbjct: 136 -TSFG-PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR 190

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score =  162 bits (412), Expect = 7e-51
 Identities = 107/191 (56%), Positives = 115/191 (60%), Gaps = 62/191 (32%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
            ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+D
Sbjct: 3   SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62

Query: 105 ETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGG 164
           ETTQAMAFDGI F+GQSLKIRRPHDYQP                         HK+FIGG
Sbjct: 63  ETTQAMAFDGIIFQGQSLKIRRPHDYQP---------------------LPGAHKLFIGG 101

Query: 165 LPNYLNEDQ-----------------------------------------AIAGLNGMQL 183
           LPNYLN+DQ                                         AIAGLNGMQL
Sbjct: 102 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQL 161

Query: 184 GDKKLIVQRAS 194
           GDKKL+VQRAS
Sbjct: 162 GDKKLLVQRAS 172

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 53.0 bits (128), Expect = 4e-09
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 18/91 (19%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FA 96
              A +L++G +P  + +D++ E               G  + A  +  D        +A
Sbjct: 91  LPGAHKLFIGGLPNYLNDDQVKELLTSF----------GP-LKAFNLVKDSATGLSKGYA 139

Query: 97  FLEFRSIDETTQAMA-FDGINFKGQSLKIRR 126
           F E+  I+ T QA+A  +G+    + L ++R
Sbjct: 140 FCEYVDINVTDQAIAGLNGMQLGDKKLLVQR 170

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Length = 87

 Score =  131 bits (331), Expect = 7e-40
 Identities = 68/84 (80%), Positives = 73/84 (86%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
             ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+
Sbjct: 4   GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSV 63

Query: 104 DETTQAMAFDGINFKGQSLKIRRP 127
           DETTQAMAFDGI F+GQSLKIRRP
Sbjct: 64  DETTQAMAFDGIIFQGQSLKIRRP 87

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

 Score = 71.9 bits (177), Expect = 3e-15
 Identities = 31/181 (17%), Positives = 61/181 (33%), Gaps = 35/181 (19%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
            R  R++ +  +P  VT  E+ +  +               +  C ++  K  AF+   +
Sbjct: 19  FRNRRKILIRGLPGDVTNQEVHDLLSD----------YE--LKYCFVDKYKGTAFVTLLN 66

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPHDYQPT--------PGVTDN--AAVAVPAGVIST 151
            ++   A+ AF     + + L ++                P +T      +  P G +  
Sbjct: 67  GEQAEAAINAFHQSRLRERELSVQLQ--PTDALLCVANLPPSLTQQQFEELVRPFGSLER 124

Query: 152 --VVPDSP---HKIFIGGLPNYLNED---QAIAGLNGMQLGDKKLIVQRASVGAKNASGQ 203
             +V        K +  G   Y+ +D   +A + L G  LG + L V     G    +  
Sbjct: 125 CFLVYSERTGQSKGY--GFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTPALL 182

Query: 204 Q 204
            
Sbjct: 183 H 183

>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 = 58.1 bits (141), Expect = 2e-10
 Identities = 31/207 (14%), Positives = 58/207 (28%), Gaps = 49/207 (23%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAF 97
                L V N+P  +T+ +  E            +  G  +  C +         K + F
Sbjct: 93  PTDALLCVANLPPSLTQQQFEELV----------RPFG-SLERCFLVYSERTGQSKGYGF 141

Query: 98  LEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAV------------ 144
            E+   D   +A     G     ++L +      Q TP +  +  + V            
Sbjct: 142 AEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDA 201

Query: 145 ------PAGVIST--VVPDSPHKI----FIGGLPNYLNEDQ---AIAGLNGMQLGDKKLI 189
                      +   +      ++     +     Y   +    A    +G+ LG   L 
Sbjct: 202 LCRALSAVHSPTFCQLACGQDGQLKGFAVL----EYETAEMAEEAQQQADGLSLGGSHLR 257

Query: 190 VQRASVGAKNASGQQAPVQIQVPGLTQ 216
           V   + G    S   A +  Q   L +
Sbjct: 258 VSFCAPGPPGRSMLAALIAAQATALNR 284

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 64.0 bits (156), Expect = 1e-13
 Identities = 19/92 (20%), Positives = 33/92 (35%), Gaps = 16/92 (17%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFL 98
            + R +Y+   P   T D++ E+   +             VL  Q+    +       F+
Sbjct: 9   VKNRSVYIKGFPTDATLDDIKEWLEDK-----------GQVLNIQMRRTLHKAFKGSIFV 57

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRRPHDY 130
            F SI+   + +   G  +K   L I    DY
Sbjct: 58  VFDSIESAKKFVETPGQKYKETDLLILFKDDY 89

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 62.9 bits (154), Expect = 2e-13
 Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 17/91 (18%)

Query: 42  ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNF 95
           +   AR +YVGN+ +G T +E+   F+            G+ V    I  D      K F
Sbjct: 2   MEADARSIYVGNVDYGATAEELEAHFHG----------CGS-VNRVTILCDKFSGHPKGF 50

Query: 96  AFLEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           A++EF   +    ++A D   F+G+ +K+  
Sbjct: 51  AYIEFSDKESVRTSLALDESLFRGRQIKVIP 81

>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 = 64.9 bits (159), Expect = 2e-13
 Identities = 16/192 (8%), Positives = 47/192 (24%), Gaps = 71/192 (36%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAF 97
           +     L++GN+    +  E+    ++                   +        + F +
Sbjct: 10  STTPFNLFIGNLNPNKSVAELKVAISE----------LF-AKNDLAVVDVRTGTNRKFGY 58

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSP 157
           ++F S ++  +A+   G+   G  +K+ +P                            + 
Sbjct: 59  VDFESAEDLEKALELTGLKVFGNEIKLEKPKGRDSKK-------------------VRAA 99

Query: 158 HKIFIGGLPNYLNEDQ------------------------------------AIAGLNGM 181
             +    L   + ED+                                     +    G 
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGA 159

Query: 182 QLGDKKLIVQRA 193
           ++  + + +   
Sbjct: 160 EIDGRSVSLYYT 171

>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 = 65.5 bits (160), Expect = 4e-13
 Identities = 25/130 (19%), Positives = 40/130 (30%), Gaps = 39/130 (30%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           Q  RL+VGN+P  +TE++    F +           G       IN D+ F F+   S  
Sbjct: 21  QRCRLFVGNLPTDITEEDFKRLFER----------YG-EPSEVFINRDRGFGFIRLESRT 69

Query: 105 ETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIG 163
               A    DG   K + L+IR                                  + + 
Sbjct: 70  LAEIAKAELDGTILKSRPLRIRF---------------------------ATHGAALTVK 102

Query: 164 GLPNYLNEDQ 173
            L   ++ + 
Sbjct: 103 NLSPVVSNEL 112

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 61.9 bits (151), Expect = 7e-13
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 12/83 (14%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           Q  RL+VGN+P  +TE+EM + F +           G       I+ DK F F+   +  
Sbjct: 14  QRSRLFVGNLPPDITEEEMRKLFEK----------YG-KAGEVFIHKDKGFGFIRLETRT 62

Query: 105 ETTQAM-AFDGINFKGQSLKIRR 126
               A    D +  +G+ L++R 
Sbjct: 63  LAEIAKVELDNMPLRGKQLRVRF 85

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 61.1 bits (149), Expect = 1e-12
 Identities = 19/89 (21%), Positives = 41/89 (46%), Gaps = 13/89 (14%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           GS+ +    +LY+GN+   VT D++ + F               P+ A Q+ L   +AF+
Sbjct: 1   GSSGSSGMNKLYIGNLSPAVTADDLRQLFGD----------RKLPL-AGQVLLKSGYAFV 49

Query: 99  EFRSIDETTQAM-AFDG-INFKGQSLKIR 125
           ++   +   +A+    G +   G+ +++ 
Sbjct: 50  DYPDQNWAIRAIETLSGKVELHGKIMEVD 78

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 62.0 bits (151), Expect = 1e-12
 Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 17/87 (19%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLE 99
            R +YVGN+ +G T  ++   F+            G  +    I  DK       +A++E
Sbjct: 36  KRSVYVGNVDYGSTAQDLEAHFSS----------CG-SINRITILCDKFSGHPKGYAYIE 84

Query: 100 FRSIDETTQAMAFDGINFKGQSLKIRR 126
           F   +    A+A D   F+G+++K+  
Sbjct: 85  FAERNSVDAAVAMDETVFRGRTIKVLP 111

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 61.2 bits (149), Expect = 2e-12
 Identities = 17/89 (19%), Positives = 33/89 (37%), Gaps = 17/89 (19%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           R AR ++   +   +   ++ +FF+            G  V   +I  D+N       A+
Sbjct: 23  RDARTVFCMQLAARIRPRDLEDFFSA----------VG-KVRDVRIISDRNSRRSKGIAY 71

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +EF  I     A+   G    G  + ++ 
Sbjct: 72  VEFCEIQSVPLAIGLTGQRLLGVPIIVQA 100

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 61.0 bits (148), Expect = 2e-12
 Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 15/99 (15%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--KNFA 96
            S +  +  R+ + N+P G +  ++ +   +                   +N        
Sbjct: 21  MSKLPAKRYRITMKNLPEGCSWQDLKDLARE----------NSLETTFSSVNTRDFDGTG 70

Query: 97  FLEFRSIDETTQAMA-FDGINFKGQSLKIRRPHDYQPTP 134
            LEF S +   +A+   + I F+G  + + R  D  P P
Sbjct: 71  ALEFPSEEILVEALERLNNIEFRGSVITVER--DDNPPP 107

>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 Length = 104

 Score = 60.0 bits (146), Expect = 4e-12
 Identities = 22/98 (22%), Positives = 46/98 (46%), Gaps = 18/98 (18%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           R  R ++VGNIP+  TE+++ + F++           G PV++ ++  D+       + F
Sbjct: 6   RSLRSVFVGNIPYEATEEQLKDIFSE----------VG-PVVSFRLVYDRETGKPKGYGF 54

Query: 98  LEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTP 134
            E++  +    AM   +G  F G++L++      +   
Sbjct: 55  CEYQDQETALSAMRNLNGREFSGRALRVDNAASEKNKE 92

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 59.6 bits (145), Expect = 5e-12
 Identities = 19/88 (21%), Positives = 37/88 (42%), Gaps = 18/88 (20%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FA 96
           T      YVGN+PF   + ++   F                + + ++  DK+      F 
Sbjct: 12  TEPPYTAYVGNLPFNTVQGDIDAIFKDLS------------IRSVRLVRDKDTDKFKGFC 59

Query: 97  FLEFRSIDETTQAMAFDGINFKGQSLKI 124
           ++EF  +D   +A+ +DG     +SL++
Sbjct: 60  YVEFDEVDSLKEALTYDGALLGDRSLRV 87

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 61.0 bits (148), Expect = 5e-12
 Identities = 21/97 (21%), Positives = 38/97 (39%), Gaps = 23/97 (23%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            L+V +I     EDE+ E F             G  +    +NLD      K +A +E+ 
Sbjct: 74  ILFVTSIHEEAQEDEIQEKFCD----------YG-EIKNIHLNLDRRTGFSKGYALVEYE 122

Query: 102 SIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQP 132
           +  +   A  A +G    GQ++++     + P   + 
Sbjct: 123 THKQALAAKEALNGAEIMGQTIQVDWCFVKGPKRVKK 159

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 59.2 bits (144), Expect = 5e-12
 Identities = 20/97 (20%), Positives = 44/97 (45%), Gaps = 18/97 (18%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLE 99
           +R +Y+G+IP+  TE+++++  +            G PV+  ++  D        +AF+E
Sbjct: 2   SRVVYLGSIPYDQTEEQILDLCSN----------VG-PVINLKMMFDPQTGRSKGYAFIE 50

Query: 100 FRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
           FR ++ +  A+   +G     + LK     +   +  
Sbjct: 51  FRDLESSASAVRNLNGYQLGSRFLKCGYSSNSDISGV 87

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 58.9 bits (143), Expect = 6e-12
 Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 12/89 (13%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-FAF 97
           GS+ +   R ++V   P GV   ++ E+F             G PV +  ++ DK  FA 
Sbjct: 1   GSSGSSGLRSVFVSGFPRGVDSAQLSEYFLA----------FG-PVASVVMDKDKGVFAI 49

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +E   +      ++    +  G  L++R 
Sbjct: 50  VEMGDVGAREAVLSQSQHSLGGHRLRVRP 78

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 59.2 bits (144), Expect = 8e-12
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 18/93 (19%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------ 92
           G   + +   L+V +I     EDE+ E F             G  +    +NLD      
Sbjct: 19  GPQRSVEGWILFVTSIHEEAQEDEIQEKFCD----------YG-EIKNIHLNLDRRTGFS 67

Query: 93  KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
           K +A +E+ +  +   A  A +G    GQ++++
Sbjct: 68  KGYALVEYETHKQALAAKEALNGAEIMGQTIQV 100

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 59.3 bits (144), Expect = 9e-12
 Identities = 19/95 (20%), Positives = 36/95 (37%), Gaps = 18/95 (18%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            L+V  +    TE+++ + F +           G  +    +NLD      K +  +E+ 
Sbjct: 24  ILFVTGVHEEATEEDIHDKFAE----------YGE-IKNIHLNLDRRTGYLKGYTLVEYE 72

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
           +  E   AM   +G +  GQ + +       P  G
Sbjct: 73  TYKEAQAAMEGLNGQDLMGQPISVDWCFVRGPPKG 107

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 58.4 bits (142), Expect = 1e-11
 Identities = 17/101 (16%), Positives = 44/101 (43%), Gaps = 17/101 (16%)

Query: 30  AAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI 89
            ++ +  V   + + +  +L++  +PF  T++E+ E               G  V   ++
Sbjct: 1   GSSGSSGVFRYSTSLEKHKLFISGLPFSCTKEELEEICKA----------HG-TVKDLRL 49

Query: 90  NLDKN-----FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
             ++       A++E+ +  + +QA+   DG+  K   +K+
Sbjct: 50  VTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKV 90

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 58.0 bits (141), Expect = 1e-11
 Identities = 21/100 (21%), Positives = 40/100 (40%), Gaps = 17/100 (17%)

Query: 31  AAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN 90
            ++    +        R ++VGN+   V E+ + E F Q          AG P+    I 
Sbjct: 1   GSSGSSGMFPAQEEADRTVFVGNLEARVREEILYELFLQ----------AG-PLTKVTIC 49

Query: 91  LDKN-----FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
            D+      F F+ F+  +  + A+   +GI   G+ + +
Sbjct: 50  KDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINV 89

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 58.4 bits (142), Expect = 2e-11
 Identities = 19/92 (20%), Positives = 36/92 (39%), Gaps = 23/92 (25%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            L+V  +    TE+++ + F +           G  +    +NLD      K +  +E+ 
Sbjct: 25  ILFVTGVHEEATEEDIHDKFAE----------YG-EIKNIHLNLDRRTGYLKGYTLVEYE 73

Query: 102 SIDETTQAM-AFDGINFKGQSLKI-----RRP 127
           +  E   AM   +G +  GQ + +     R P
Sbjct: 74  TYKEAQAAMEGLNGQDLMGQPISVDWCFVRGP 105

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 58.0 bits (141), Expect = 2e-11
 Identities = 16/85 (18%), Positives = 37/85 (43%), Gaps = 19/85 (22%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-------FAFLE 99
              ++GN+P+ VTE+ + EFF             G  + A ++  + +       F + E
Sbjct: 20  YTAFLGNLPYDVTEESIKEFF------------RGLNISAVRLPREPSNPERLKGFGYAE 67

Query: 100 FRSIDETTQAMAFDGINFKGQSLKI 124
           F  +D    A++ +  +   + +++
Sbjct: 68  FEDLDSLLSALSLNEESLGNRRIRV 92

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 57.4 bits (139), Expect = 2e-11
 Identities = 16/95 (16%), Positives = 35/95 (36%), Gaps = 14/95 (14%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           +  +  + V N+P      E+ +                     C ++ +K  AF+   +
Sbjct: 2   SSGSSGILVKNLPQDSNCQEVHDLLKD----------YDLKY--CYVDRNKRTAFVTLLN 49

Query: 103 IDETTQAM-AFDGINFKGQSLKIRR-PHDYQPTPG 135
            ++   A+  F   +F+G+ L ++  P D     G
Sbjct: 50  GEQAQNAIQMFHQYSFRGKDLIVQLQPTDALLCSG 84

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

 Score = 60.0 bits (146), Expect = 2e-11
 Identities = 33/202 (16%), Positives = 68/202 (33%), Gaps = 69/202 (34%)

Query: 40  STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------K 93
                   R+YVG+I + + ED + + F             G P+ +  ++ D      K
Sbjct: 22  QGALAIMSRVYVGSIYYELGEDTIRQAFAP----------FG-PIKSIDMSWDSVTMKHK 70

Query: 94  NFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTV 152
            FAF+E+   +    A+   + +   G+++K+ RP +      + D  A           
Sbjct: 71  GFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEE--------- 121

Query: 153 VPDSPHKIFIGGLPNYLNED---------------------------------------- 172
              + ++I++  +   L++D                                        
Sbjct: 122 -ARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSS 180

Query: 173 -QAIAGLNGMQLGDKKLIVQRA 193
             A++ +N   LG + L V +A
Sbjct: 181 QDAVSSMNLFDLGGQYLRVGKA 202

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

 Score = 46.5 bits (111), Expect = 1e-06
 Identities = 19/106 (17%), Positives = 40/106 (37%), Gaps = 24/106 (22%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFA 96
            R   R+YV ++   +++D++   F             G  + +  +  D      K + 
Sbjct: 122 ARAFNRIYVASVHQDLSDDDIKSVFEAF----------GK-IKSATLARDPTTGKHKGYG 170

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKI------RRPHDYQPTPG 135
           F+E+     +  A+ + +  +  GQ L++        P     TPG
Sbjct: 171 FIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPMPLLTPATPG 216

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 57.2 bits (139), Expect = 2e-11
 Identities = 21/98 (21%), Positives = 35/98 (35%), Gaps = 14/98 (14%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           GS+ +    +L++GN+P   TE E+   F Q           G  VL C I   KN+ F+
Sbjct: 1   GSSGSSGMVKLFIGNLPREATEQEIRSLFEQ----------YG-KVLECDII--KNYGFV 47

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
                     A+         G ++ +    +      
Sbjct: 48  HIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSKASS 85

>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 = 56.9 bits (138), Expect = 5e-11
 Identities = 18/93 (19%), Positives = 39/93 (41%), Gaps = 17/93 (18%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
           G        +L V N+ FGV++ ++ E F +           G  +    ++ D++    
Sbjct: 22  GGAGVETGGKLLVSNLDFGVSDADIQELFAE----------FG-TLKKAAVHYDRSGRSL 70

Query: 95  -FAFLEFRSIDETTQAM-AFDGINFKGQSLKIR 125
             A + F    +  +AM  ++G+   G+ + I+
Sbjct: 71  GTADVHFERKADALKAMKQYNGVPLDGRPMNIQ 103

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 56.9 bits (138), Expect = 5e-11
 Identities = 16/90 (17%), Positives = 37/90 (41%), Gaps = 19/90 (21%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-------F 95
                  ++GN+P+ VTE+ + EFF             G  + A ++  + +       F
Sbjct: 12  KSPPYTAFLGNLPYDVTEESIKEFF------------RGLNISAVRLPREPSNPERLKGF 59

Query: 96  AFLEFRSIDETTQAMAFDGINFKGQSLKIR 125
            + EF  +D    A++ +  +   + +++ 
Sbjct: 60  GYAEFEDLDSLLSALSLNEESLGNKRIRVD 89

>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 = 58.3 bits (142), Expect = 6e-11
 Identities = 33/195 (16%), Positives = 60/195 (30%), Gaps = 77/195 (39%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFR 101
           R LYVGN+   +TED + ++F             G P+   +I +DKN     +AF+E+ 
Sbjct: 1   RVLYVGNLDKAITEDILKQYFQV----------GG-PIANIKIMIDKNNKNVNYAFVEYH 49

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKI 160
              +   A+   +G   +   +KI      Q +                     D    +
Sbjct: 50  QSHDANIALQTLNGKQIENNIVKINWAFQSQQSS-------------------SDDTFNL 90

Query: 161 FIGGLPNYLNE-----------------------------------------DQAIAGLN 179
           F+G L   +++                                           A+  + 
Sbjct: 91  FVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQ 150

Query: 180 GMQLGDKKLIVQRAS 194
           G  L  + L +  A+
Sbjct: 151 GQDLNGRPLRINWAA 165

>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 = 57.0 bits (138), Expect = 6e-11
 Identities = 17/93 (18%), Positives = 37/93 (39%), Gaps = 15/93 (16%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             +Y G I  G+T+  M + F             G  ++  ++  +K ++F+ F + +  
Sbjct: 26  CTVYCGGIASGLTDQLMRQTF----------SPFG-QIMEIRVFPEKGYSFVRFSTHESA 74

Query: 107 TQAM-AFDGINFKGQSLKI---RRPHDYQPTPG 135
             A+ + +G   +G  +K    +   D    P 
Sbjct: 75  AHAIVSVNGTTIEGHVVKCYWGKESPDMTSGPS 107

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 56.5 bits (137), Expect = 6e-11
 Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 21/103 (20%)

Query: 29  AAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ 88
            ++ ++ P+       Q   +YVG +   V+E  + E F Q          AG PV+   
Sbjct: 1   GSSGSSGPISERN---QDATVYVGGLDEKVSEPLLWELFLQ----------AG-PVVNTH 46

Query: 89  INLDKN------FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
           +  D+       + F+EF S ++   A+   D I   G+ +++
Sbjct: 47  MPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRV 89

>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 = 56.1 bits (136), Expect = 7e-11
 Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 14/94 (14%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           +    +++VGN+    T  E+   F +           G  V+ C +   K++AF+    
Sbjct: 6   SGNTWKIFVGNVSAACTSQELRSLFER----------RG-RVIECDVV--KDYAFVHMEK 52

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
             +   A+   +G   KG+ + +      Q   G
Sbjct: 53  EADAKAAIAQLNGKEVKGKRINVELSTKGQKKSG 86

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 57.0 bits (138), Expect = 7e-11
 Identities = 18/92 (19%), Positives = 37/92 (40%), Gaps = 17/92 (18%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
           G        +L V N+ FGV++ ++ E F +           G  +    ++ D++    
Sbjct: 28  GGEGVETGAKLLVSNLDFGVSDADIQELFAE----------FG-TLKKAAVDYDRSGRSL 76

Query: 95  -FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
             A + F    +  +AM  + G+   G+ + I
Sbjct: 77  GTADVHFERRADALKAMKQYKGVPLDGRPMDI 108

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 56.1 bits (136), Expect = 7e-11
 Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 14/87 (16%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
            + + +L+VGNI    T  E+   F +           G PV+ C I   K++AF+    
Sbjct: 7   GKASTKLHVGNISPTCTNQELRAKFEE----------YG-PVIECDIV--KDYAFVHMER 53

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPH 128
            ++  +A+   D   F+G+ + ++   
Sbjct: 54  AEDAVEAIRGLDNTEFQGKRMHVQLST 80

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 56.2 bits (136), Expect = 9e-11
 Identities = 20/96 (20%), Positives = 38/96 (39%), Gaps = 15/96 (15%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---FAFLEF 100
               R+YVGN+P  +   ++ + F +           G  +    +   +    FAF+EF
Sbjct: 20  NNDCRIYVGNLPPDIRTKDIEDVFYK----------YG-AIRDIDLKNRRGGPPFAFVEF 68

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
               +   A+   DG ++ G  L++  P   + T  
Sbjct: 69  EDPRDAEDAVYGRDGYDYDGYRLRVEFPRSGRGTGS 104

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

 Score = 55.8 bits (135), Expect = 1e-10
 Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 12/79 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
              Y+GNIP   TE +++  F          Q  G  +L  +   +K   F+++ + ++ 
Sbjct: 28  TTAYIGNIPHFATEADLIPLF----------QNFG-FILDFKHYPEKGCCFIKYDTHEQA 76

Query: 107 TQAM-AFDGINFKGQSLKI 124
              + A     F+G++L+ 
Sbjct: 77  AVCIVALANFPFQGRNLRT 95

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 56.2 bits (136), Expect = 1e-10
 Identities = 17/82 (20%), Positives = 35/82 (42%), Gaps = 15/82 (18%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSI 103
           R LY+ N+P+ +T +EM + F +           G P+   ++      +  A++ +  I
Sbjct: 9   RILYIRNLPYKITAEEMYDIFGK----------YG-PIRQIRVGNTPETRGTAYVVYEDI 57

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
            +   A+    G N   + L +
Sbjct: 58  FDAKNAVDHLSGFNVSNRYLVV 79

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 57.6 bits (139), Expect = 1e-10
 Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 17/93 (18%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
           G        +L V N+ FGV++ ++ E F +           G  +    ++ D++    
Sbjct: 81  GGEGVETGAKLLVSNLDFGVSDADIQELFAE----------FG-TLKKAAVDYDRSGRSL 129

Query: 95  -FAFLEFRSIDETTQAMA-FDGINFKGQSLKIR 125
             A + F    +  +AM  + G+   G+ + I+
Sbjct: 130 GTADVHFERRADALKAMKQYKGVPLDGRPMDIQ 162

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 55.7 bits (135), Expect = 1e-10
 Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 16/87 (18%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFL 98
             Q R LYVGN+   VTE  +++ F+Q           G P  +C++  +      + F+
Sbjct: 12  DGQPRTLYVGNLSRDVTEVLILQLFSQ----------IG-PCKSCKMITEHTSNDPYCFV 60

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKI 124
           EF    +   A+ A +G    G+ +K+
Sbjct: 61  EFYEHRDAAAALAAMNGRKILGKEVKV 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 = 57.2 bits (139), Expect = 1e-10
 Identities = 27/195 (13%), Positives = 62/195 (31%), Gaps = 82/195 (42%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK------NFAFLEFRS 102
           L V  +P  +T++E    F             G  + +C++  DK       + F+ +  
Sbjct: 5   LIVNYLPQNMTQEEFRSLFGS----------IG-EIESCKLVRDKITGQSLGYGFVNYID 53

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIF 161
             +  +A+   +G+  + +++K+      +P+     +A                   ++
Sbjct: 54  PKDAEKAINTLNGLRLQTKTIKVSYA---RPSSASIRDA------------------NLY 92

Query: 162 IGGLPNYLNE-----------------------------------------DQAIAGLNG 180
           + GLP  + +                                         ++AI GLNG
Sbjct: 93  VSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG 152

Query: 181 MQL--GDKKLIVQRA 193
            +     + + V+ A
Sbjct: 153 QKPSGATEPITVKFA 167

>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 = 38.3 bits (90), Expect = 6e-04
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 18/86 (20%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
             LYV  +P  +T+ E+ + F+Q           G  ++  +I +D+         F+ F
Sbjct: 89  ANLYVSGLPKTMTQKELEQLFSQY----------GR-IITSRILVDQVTGVSRGVGFIRF 137

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIR 125
               E  +A+   +G    G +  I 
Sbjct: 138 DKRIEAEEAIKGLNGQKPSGATEPIT 163

>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 = 55.4 bits (134), Expect = 2e-10
 Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 12/81 (14%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
             + LYV N+    +E+ + + FN              P    ++   +++AF+ F + +
Sbjct: 14  SVKILYVRNLMLSTSEEMIEKEFNN-----------IKPGAVERVKKIRDYAFVHFSNRE 62

Query: 105 ETTQAM-AFDGINFKGQSLKI 124
           +  +AM A +G    G  +++
Sbjct: 63  DAVEAMKALNGKVLDGSPIEV 83

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 57.3 bits (139), Expect = 2e-10
 Identities = 27/137 (19%), Positives = 49/137 (35%), Gaps = 36/137 (26%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFL 98
           Q R+L++G + F  T++ +   F Q           G  +  C +  D N      F F+
Sbjct: 12  QLRKLFIGGLSFETTDESLRSHFEQ----------WGT-LTDCVVMRDPNTKRSRGFGFV 60

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRR--PHDYQPTPGVTDNAAVAVPAGVISTVVPDS 156
            + +++E   AM        G+ ++ +R    +    PG                    +
Sbjct: 61  TYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPG-----------------AHLT 103

Query: 157 PHKIFIGGLPNYLNEDQ 173
             KIF+GG+     E  
Sbjct: 104 VKKIFVGGIKEDTEEHH 120

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 51.9 bits (125), Expect = 1e-08
 Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 17/88 (19%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFL 98
             ++++VG I     E  + ++F Q           G  +   +I  D+       FAF+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQY----------GK-IEVIEIMTDRGSGKKRGFAFV 151

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRR 126
            F   D   + +        G + ++R+
Sbjct: 152 TFDDHDSVDKIVIQKYHTVNGHNCEVRK 179

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 54.5 bits (132), Expect = 3e-10
 Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 18/93 (19%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
           GS+ +  + RL+V N+ +  +E+++ + F+            G P+      +D      
Sbjct: 1   GSSGSSGSGRLFVRNLSYTSSEEDLEKLFSA----------YG-PLSELHYPIDSLTKKP 49

Query: 95  --FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
             FAF+ F   +   +A    DG  F+G+ L +
Sbjct: 50  KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHV 82

>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 = 56.9 bits (138), Expect = 3e-10
 Identities = 36/195 (18%), Positives = 64/195 (32%), Gaps = 76/195 (38%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK------NFAFL 98
               LYVG++   VTE  + E F+           AG P+L+ ++  D        +A++
Sbjct: 14  PMASLYVGDLHPDVTEAMLYEKFSP----------AG-PILSIRVCRDMITRRSLGYAYV 62

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSP 157
            F+   +  +A+   +    KG+ ++I      Q  P +  +                  
Sbjct: 63  NFQQPADAERALDTMNFDVIKGKPVRIMWS---QRDPSLRKSGV---------------- 103

Query: 158 HKIFIGGLPNYLNE---------------------------------------DQAIAGL 178
             IFI  L   ++                                        ++AI  +
Sbjct: 104 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 163

Query: 179 NGMQLGDKKLIVQRA 193
           NGM L D+K+ V R 
Sbjct: 164 NGMLLNDRKVFVGRF 178

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 55.6 bits (134), Expect = 5e-10
 Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 18/88 (20%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           +++  LYVGN+ F  TE+++ E F++          +G  +    + LDK       F F
Sbjct: 37  KKSCTLYVGNLSFYTTEEQIYELFSK----------SG-DIKKIIMGLDKMKKTACGFCF 85

Query: 98  LEFRSIDETTQAM-AFDGINFKGQSLKI 124
           +E+ S  +   AM   +G     + ++ 
Sbjct: 86  VEYYSRADAENAMRYINGTRLDDRIIRT 113

>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 = 56.9 bits (138), Expect = 5e-10
 Identities = 27/181 (14%), Positives = 61/181 (33%), Gaps = 36/181 (19%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN----FAFLEFRSID 104
           + V N+P    ++++ ++F             G P++   +         FA +EF   D
Sbjct: 44  VLVKNLPKSYNQNKVYKYFKH----------CG-PIIHVDVADSLKKNFRFARIEFARYD 92

Query: 105 ETTQAMAFDGINFKGQSLKIRRPHDYQPT-------PGVTDNA--AVAVPAGVI--STVV 153
               A+            +I   H  + T       P  T      +     V+  S  +
Sbjct: 93  GALAAITKTHKVVGQN--EIIVSHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRL 150

Query: 154 PDSP---HKIFIGGLPNYLNED---QAIAGLNGMQLGDKKLIVQRASVGAKNASGQQAPV 207
           P       + F     +  +++     +  LNG+++    L+ + ++   K+     A +
Sbjct: 151 PSLRFNTSRRF--AYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATL 208

Query: 208 Q 208
           +
Sbjct: 209 E 209

>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 = 50.4 bits (121), Expect = 1e-07
 Identities = 19/137 (13%), Positives = 44/137 (32%), Gaps = 34/137 (24%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFR 101
             L++ N P   T+  + +                   L+ ++   +      FA+++  
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQD----------INVVALSIRLPSLRFNTSRRFAYIDVT 167

Query: 102 SIDETTQAM-AFDGINFKGQSL--KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPH 158
           S ++    +   +G+  +G +L  K+  P +             A   G           
Sbjct: 168 SKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKS------KRTDSATLEGR---------- 211

Query: 159 KIFIGGLPNYLNEDQAI 175
           +I I  L   L ++  +
Sbjct: 212 EIMIRNLSTELLDENLL 228

>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 = 46.1 bits (110), Expect = 3e-06
 Identities = 14/114 (12%), Positives = 35/114 (30%), Gaps = 23/114 (20%)

Query: 26  TVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVT-EDEMMEFFNQQMHLSGLAQAAGNPV 84
               +          + T + R + + N+   +  E+ + E F             G+ +
Sbjct: 190 VTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEG----------FGS-I 238

Query: 85  LACQINLD-------KNFAFLEFRSIDETTQAMAFDGINFKGQSLKI----RRP 127
               I             AF+ F + D   +A+  +      + + +    ++P
Sbjct: 239 EKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLADKKP 292

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 54.0 bits (130), Expect = 6e-10
 Identities = 19/98 (19%), Positives = 34/98 (34%), Gaps = 20/98 (20%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------ 92
           GS+ +    RL++G IP     +E++E   +              VL   +         
Sbjct: 1   GSSGSSGNCRLFIGGIPKMKKREEILEEIAK----------VTEGVLDVIVYASAADKMK 50

Query: 93  -KNFAFLEFRSIDETTQA---MAFDGINFKGQSLKIRR 126
            + FAF+E+ S      A   +    I   G  + +  
Sbjct: 51  NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW 88

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 54.4 bits (131), Expect = 8e-10
 Identities = 15/82 (18%), Positives = 31/82 (37%), Gaps = 1/82 (1%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
               R+YV N+   V E ++   F + +  S   Q     +   +    K  AF+   + 
Sbjct: 43  EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNE 102

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
               +A+   +G    G+ + +
Sbjct: 103 KAAAKALKEANGYVLFGKPMVV 124

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 53.6 bits (129), Expect = 9e-10
 Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 17/105 (16%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG-LAQAAGNPVLACQINLD------KNFA 96
                +YV  +   VT D++ +FF Q     G +            I LD      K  A
Sbjct: 13  SDNSAIYVQGLNDSVTLDDLADFFKQ----CGVVKMNKRTGQPMIHIYLDKETGKPKGDA 68

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
            + +        A+  FDG +F+G  LK+     + P +  P+ G
Sbjct: 69  TVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSGPSSG 113

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 53.4 bits (129), Expect = 1e-09
 Identities = 19/101 (18%), Positives = 36/101 (35%), Gaps = 23/101 (22%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEF 100
           + LY+ N+   VTE +++  F +                   I         +  AF+ F
Sbjct: 26  KVLYLKNLSPRVTERDLVSLFARF-----------QEKKGPPIQFRMMTGRMRGQAFITF 74

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
            + +   QA+   +G    G+ L I     ++     P+ G
Sbjct: 75  PNKEIAWQALHLVNGYKLYGKILVIEFGKNKKQRSSGPSSG 115

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

 Score = 53.1 bits (128), Expect = 1e-09
 Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 14/83 (16%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
              RL+V   P  V E E+ E F             G P+   +I     FAF+EF   +
Sbjct: 30  SNTRLFVRPFPLDVQESELNEIFGP----------FG-PMKEVKIL--NGFAFVEFEEAE 76

Query: 105 ETTQAM-AFDGINFKGQSLKIRR 126
              +A+    G +F  Q L++  
Sbjct: 77  SAAKAIEEVHGKSFANQPLEVVY 99

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 52.7 bits (127), Expect = 1e-09
 Identities = 17/89 (19%), Positives = 30/89 (33%), Gaps = 12/89 (13%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG-LAQAAGNPVLACQINLD------KNFA 96
                ++V  +   VT + + ++F Q     G +            +  D      K  A
Sbjct: 11  SDNNTIFVQGLGENVTIESVADYFKQ----IGIIKTNKKTGQPMINLYTDRETGKLKGEA 66

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKI 124
            + F        A+  FDG  F G  +K+
Sbjct: 67  TVSFDDPPSAKAAIDWFDGKEFSGNPIKV 95

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 52.6 bits (127), Expect = 1e-09
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 16/92 (17%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KN 94
           GS+ +  A +++V N+PF  T   + + FN+           G+ VL   I ++    K 
Sbjct: 1   GSSGSSGACQIFVRNLPFDFTWKMLKDKFNE----------CGH-VLYADIKMENGKSKG 49

Query: 95  FAFLEFRSIDETTQAM-AFDGINFKGQSLKIR 125
              ++F S +   +A    +G+   G+ + +R
Sbjct: 50  CGVVKFESPEVAERACRMMNGMKLSGREIDVR 81

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 52.6 bits (127), Expect = 1e-09
 Identities = 15/99 (15%), Positives = 36/99 (36%), Gaps = 18/99 (18%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FA 96
           +     L++GN+    +  E+    ++                   + +D        F 
Sbjct: 14  STTPFNLFIGNLNPNKSVAELKVAISEL-----------FAKNDLAV-VDVRTGTNRKFG 61

Query: 97  FLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPG 135
           +++F S ++  +A+   G+   G  +K+ +P     T G
Sbjct: 62  YVDFESAEDLEKALELTGLKVFGNEIKLEKPKGRDGTRG 100

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 17/88 (19%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFL 98
           R    ++V N+ + V   ++ E F+           AG  V+   I  DK+        +
Sbjct: 13  RLGSTVFVANLDYKVGWKKLKEVFSM----------AGV-VVRADILEDKDGKSRGIGTV 61

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIR 125
            F    E  QA+  F+G     + + ++
Sbjct: 62  TFEQSIEAVQAISMFNGQLLFDRPMHVK 89

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 52.8 bits (127), Expect = 2e-09
 Identities = 13/88 (14%), Positives = 33/88 (37%), Gaps = 15/88 (17%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFL 98
                 ++ NIPF +T+ ++++F           +       A  + +D N      A +
Sbjct: 13  SAKVCAHITNIPFSITKMDVLQFL----------EGIPVDENAVHVLVDNNGQGLGQALV 62

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +F++ D+  ++         G+   +  
Sbjct: 63  QFKNEDDARKSERLHRKKLNGREAFVHV 90

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 54.5 bits (130), Expect = 2e-09
 Identities = 20/89 (22%), Positives = 32/89 (35%), Gaps = 16/89 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFR 101
           R +Y+   P   T D++ E+   +             VL  Q+        K   F+ F 
Sbjct: 110 RSVYIKGFPTDATLDDIKEWLEDK-----------GQVLNIQMRRTLHKAFKGSIFVVFD 158

Query: 102 SIDETTQAMAFDGINFKGQSLKIRRPHDY 130
           SI+   + +   G  +K   L I    DY
Sbjct: 159 SIESAKKFVETPGQKYKETDLLILFKDDY 187

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 15/87 (17%), Positives = 28/87 (32%), Gaps = 11/87 (12%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
              A  +YVGN+P      ++     +           G+  L       +  AFL +  
Sbjct: 16  APLAADVYVGNLPRDARVSDLKRALRE----------LGSVPLRLTWQGPRRRAFLHYPD 65

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPH 128
                QA+    G+     +L++    
Sbjct: 66  SAAAQQAVSCLQGLRLGTDTLRVALAR 92

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 18/96 (18%), Positives = 34/96 (35%), Gaps = 16/96 (16%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R   R+ V  +P   +  ++ +   +          AG+ V    +  D     +EF   
Sbjct: 13  RSENRVVVSGLPPSGSWQDLKDHMRE----------AGD-VCYADVYRD-GTGVVEFVRK 60

Query: 104 DETTQAMA-FDGINFKGQSLK---IRRPHDYQPTPG 135
           ++ T A+   D   F+    +   IR   D   +P 
Sbjct: 61  EDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPS 96

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 52.2 bits (126), Expect = 2e-09
 Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 18/85 (21%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
             +YV N+PF +T +++   F++           G  V+   I  DK+       AF+ F
Sbjct: 17  STVYVSNLPFSLTNNDLYRIFSK----------YG-KVVKVTIMKDKDTRKSKGVAFILF 65

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI 124
              D       A +     G+ +K 
Sbjct: 66  LDKDSAQNCTRAINNKQLFGRVIKA 90

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 52.2 bits (126), Expect = 2e-09
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 18/86 (20%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLE 99
           +  LYVG++ F +TED +   F             G  +    +  D      K + F+ 
Sbjct: 5   SSGLYVGSLHFNITEDMLRGIFEP----------FGK-IDNIVLMKDSDTGRSKGYGFIT 53

Query: 100 FRSIDETTQAM-AFDGINFKGQSLKI 124
           F   +   +A+   +G    G+ +++
Sbjct: 54  FSDSECARRALEQLNGFELAGRPMRV 79

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

 Score = 52.1 bits (125), Expect = 3e-09
 Identities = 18/92 (19%), Positives = 34/92 (36%), Gaps = 13/92 (14%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN--FAFLEF 100
            ++ R+L + NIP  +  + +     Q           G      Q+N D       + +
Sbjct: 12  RQRIRKLQIRNIPPHLQWEVLDSLLVQ----------YGVVESCEQVNTDSETAVVNVTY 61

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIRRPHDYQ 131
            S D+  QA+   +G   +  +LK+    D  
Sbjct: 62  SSKDQARQALDKLNGFQLENFTLKVAYIPDEM 93

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 52.6 bits (126), Expect = 3e-09
 Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 14/82 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R +++  +P  VTE E++                G  V    +   KN AF+E  + +  
Sbjct: 32  RVIHIRKLPIDVTEGEVISLGLP----------FG-KVTNLLMLKGKNQAFIEMNTEEAA 80

Query: 107 TQAMAF---DGINFKGQSLKIR 125
              + +        +GQ + I+
Sbjct: 81  NTMVNYYTSVTPVLRGQPIYIQ 102

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 52.9 bits (127), Expect = 3e-09
 Identities = 21/119 (17%), Positives = 39/119 (32%), Gaps = 21/119 (17%)

Query: 16  IPANVIIPETT---VAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMH 72
           +P +V               +             R LYVG +   V +  +   F     
Sbjct: 30  LPESVAYTCVNCTERHVDGGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIP--- 86

Query: 73  LSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
                   G  +   QI LD      + FAF+EF   ++   A+   +     G+++++
Sbjct: 87  -------FG-DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 137

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 51.4 bits (124), Expect = 3e-09
 Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 18/87 (20%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            LY+  +  G T+ ++++               G  +++ +  LDK       + F++F 
Sbjct: 7   GLYIRGLQPGTTDQDLVKLCQPY----------GK-IVSTKAILDKTTNKCKGYGFVDFD 55

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRRP 127
           S     +A+ A      + Q  K   P
Sbjct: 56  SPSAAQKAVTALKASGVQAQMAKQSGP 82

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 52.3 bits (126), Expect = 3e-09
 Identities = 15/95 (15%), Positives = 35/95 (36%), Gaps = 24/95 (25%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FA 96
             + + +++ N+ F   E+ + E   Q           G  +   ++ L  +       A
Sbjct: 12  VTEGKTVFIRNLSFDSEEEALGEVLQQ----------FG-DLKYVRVVLHPDTEHSKGCA 60

Query: 97  FLEFRSIDETTQAMA-------FDGINFKGQSLKI 124
           F +F + +   + +A         G+   G+ LK+
Sbjct: 61  FAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKV 95

>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 = 53.3 bits (129), Expect = 3e-09
 Identities = 33/195 (16%), Positives = 61/195 (31%), Gaps = 82/195 (42%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRS 102
           L V  +P  +T+ E+   F             G P+  C+I  D        +AF++F S
Sbjct: 6   LIVNYLPQDMTDRELYALFRA----------IG-PINTCRIMRDYKTGYSYGYAFVDFTS 54

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIF 161
             ++ +A+   +GI  + + LK+      +P      +                    ++
Sbjct: 55  EMDSQRAIKVLNGITVRNKRLKVSYA---RPGGESIKDT------------------NLY 93

Query: 162 IGGLPNYLNEDQ-----------------------------------------AIAGLNG 180
           +  LP  + +DQ                                         AI+ LN 
Sbjct: 94  VTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNN 153

Query: 181 MQL--GDKKLIVQRA 193
           +    G + L V+ A
Sbjct: 154 VIPEGGSQPLSVRLA 168

>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 = 1e-04
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 18/90 (20%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFA 96
           + +   LYV N+P  +T+D++   F +           G+ ++   I  D      +  A
Sbjct: 86  SIKDTNLYVTNLPRTITDDQLDTIFGKY----------GS-IVQKNILRDKLTGRPRGVA 134

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKIR 125
           F+ +   +E  +A+ A + +  +G S  + 
Sbjct: 135 FVRYNKREEAQEAISALNNVIPEGGSQPLS 164

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 52.4 bits (126), Expect = 3e-09
 Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 23/94 (24%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEF 100
             L V  +    TE ++ E F++     G       P+    I  D      + FAF+ F
Sbjct: 47  CCLGVFGLSLYTTERDLREVFSKY----G-------PIADVSIVYDQQSRRSRGFAFVYF 95

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI-----RRPH 128
            ++D+  +A    +G+   G+ +++     +RPH
Sbjct: 96  ENVDDAKEAKERANGMELDGRRIRVDFSITKRPH 129

>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 = 51.5 bits (124), Expect = 4e-09
 Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 17/113 (15%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           GS+   + + L+V N+   VTE+ + + F+Q           G  +   +    K++AF+
Sbjct: 4   GSSGMAKVKVLFVRNLANTVTEEILEKAFSQ----------FG-KLERVKKL--KDYAFI 50

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKI---RRPHDYQPTPGVTDNAAVAVPAG 147
            F   D   +AM   +G + +G++++I   + P   +        AA    +G
Sbjct: 51  HFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQKRKERKAQRQAASGPSSG 103

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 52.9 bits (128), Expect = 4e-09
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 17/86 (19%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
            +++VG I   V   E  EFF+Q           G  ++  Q+ LDK+      F F+ +
Sbjct: 88  GKIFVGGIGPDVRPKEFEEFFSQW----------GT-IIDAQLMLDKDTGQSRGFGFVTY 136

Query: 101 RSIDETTQAMAFDGINFKGQSLKIRR 126
            S D   +      I+FK + ++I+R
Sbjct: 137 DSADAVDRVCQNKFIDFKDRKIEIKR 162

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 52.5 bits (127), Expect = 6e-09
 Identities = 23/136 (16%), Positives = 45/136 (33%), Gaps = 39/136 (28%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           +++ ++++G + +  TED + E+F +           G  V   +I  D        F F
Sbjct: 1   KESCKMFIGGLNWDTTEDNLREYFGK----------YG-TVTDLKIMKDPATGRSRGFGF 49

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSP 157
           L F       + +        G+ +  +R                      I     D  
Sbjct: 50  LSFEKPSSVDEVVK-TQHILDGKVIDPKRA---------------------IPRDEQDKT 87

Query: 158 HKIFIGGLPNYLNEDQ 173
            KIF+GG+   +   +
Sbjct: 88  GKIFVGGIGPDVRPKE 103

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 51.5 bits (124), Expect = 5e-09
 Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 16/85 (18%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEF 100
           Q +RL+V NIPF   + ++ + F Q           G  +L  +I  +    K F F+ F
Sbjct: 28  QPKRLHVSNIPFRFRDPDLRQMFGQ----------FG-KILDVEIIFNERGSKGFGFVTF 76

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI 124
            +  +  +A     G   +G+ +++
Sbjct: 77  ENSADADRAREKLHGTVVEGRKIEV 101

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 51.1 bits (123), Expect = 5e-09
 Identities = 19/90 (21%), Positives = 33/90 (36%), Gaps = 13/90 (14%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDET 106
           ++YVGN+  G  + E+   F+            G P+    I  +   FAF+EF    + 
Sbjct: 2   KVYVGNLGTGAGKGELERAFSY----------YG-PLRTVWIARNPPGFAFVEFEDPRDA 50

Query: 107 TQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
             A+   DG    G  +++           
Sbjct: 51  EDAVRGLDGKVICGSRVRVELSTGMPRRSR 80

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 51.1 bits (123), Expect = 5e-09
 Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 21/101 (20%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN----FAFLEF 100
             +RL+V NIPF   + ++ + F Q           G  +L  +I  ++     F F+ F
Sbjct: 14  TPKRLHVSNIPFRFRDPDLRQMFGQ----------FGK-ILDVEIIFNERGSKGFGFVTF 62

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
            +  +  +A     G   +G+ +++     R   +  P+ G
Sbjct: 63  ENSADADRAREKLHGTVVEGRKIEVNNATARVMTNSGPSSG 103

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 51.6 bits (124), Expect = 6e-09
 Identities = 17/89 (19%), Positives = 30/89 (33%), Gaps = 12/89 (13%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG-LAQAAGNPVLACQINLD------KNFA 96
                ++V  +   VT + + ++F Q     G +            +  D      K  A
Sbjct: 5   SDNNTIFVQGLGENVTIESVADYFKQ----IGIIKTNKKTGQPMINLYTDRETGKLKGEA 60

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKI 124
            + F        A+  FDG  F G  +K+
Sbjct: 61  TVSFDDPPSAKAAIDWFDGKEFSGNPIKV 89

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

 Score = 51.4 bits (123), Expect = 6e-09
 Identities = 18/106 (16%), Positives = 30/106 (28%), Gaps = 13/106 (12%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R    +   N+P G    E+ E F++           G  +    +      A +EF   
Sbjct: 8   RSKTVILAKNLPAGTLAAEIQETFSR----------FG-SLGRVLLPEGGITAIVEFLEP 56

Query: 104 DETTQAM-AFDGINFKGQSLKIRR-PHDYQPTPGVTDNAAVAVPAG 147
            E  +A        F    L +   P           ++    PA 
Sbjct: 57  LEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAE 102

>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 Length = 90

 Score = 50.7 bits (122), Expect = 7e-09
 Identities = 14/94 (14%), Positives = 32/94 (34%), Gaps = 18/94 (19%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            LY+GN+ +  T++++ E                N +L  +   ++       FA +   
Sbjct: 3   ALYIGNLTWWTTDEDLTEAV---------HSLGVNDILEIKFFENRANGQSKGFALVGVG 53

Query: 102 SIDETTQAM-AFDGINFKGQSLKIR--RPHDYQP 132
           S   + + M         GQ+  +      ++  
Sbjct: 54  SEASSKKLMDLLPKRELHGQNPVVTPSNKLEHHH 87

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 50.7 bits (122), Expect = 7e-09
 Identities = 20/93 (21%), Positives = 35/93 (37%), Gaps = 18/93 (19%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
            S +    R LYVG +   V +  +   F             G  +   QI LD      
Sbjct: 5   SSGMATTKRVLYVGGLAEEVDDKVLHAAFIP----------FG-DITDIQIPLDYETEKH 53

Query: 95  --FAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
             FAF+EF   ++   A+   +     G+++++
Sbjct: 54  RGFAFVEFELAEDAAAAIDNMNESELFGRTIRV 86

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 50.7 bits (122), Expect = 8e-09
 Identities = 21/100 (21%), Positives = 34/100 (34%), Gaps = 23/100 (23%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            L V N+ +  + D +   F +           G  V    I  + +      FAF+ F 
Sbjct: 15  TLKVDNLTYRTSPDSLRRVFEK----------YG-RVGDVYIPREPHTKAPRGFAFVRFH 63

Query: 102 SIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
              +   A  A DG    G+ L++      R     P+ G
Sbjct: 64  DRRDAQDAEAAMDGAELDGRELRVQVARYGRRDLSGPSSG 103

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 50.8 bits (122), Expect = 9e-09
 Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 18/100 (18%)

Query: 32  AAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL 91
           AAA+       +    RLYVG++ F +TED +   F             G  + + Q+ +
Sbjct: 12  AAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEP----------FG-RIESIQLMM 60

Query: 92  D------KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
           D      K + F+ F   +   +A+   +G    G+ +K+
Sbjct: 61  DSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKV 100

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 50.8 bits (122), Expect = 9e-09
 Identities = 15/90 (16%), Positives = 32/90 (35%), Gaps = 20/90 (22%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-------FA 96
           +   ++ V NIPF   + E+ E F+            G  +   ++            F 
Sbjct: 13  QTTSKILVRNIPFQANQREIRELFST----------FG-ELKTVRLPKKMTGTGAHRGFG 61

Query: 97  FLEFRSIDETTQAMA--FDGINFKGQSLKI 124
           F++F +  +  +A        +  G+ L +
Sbjct: 62  FVDFITKQDAKKAFNALCHSTHLYGRRLVL 91

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 50.3 bits (121), Expect = 9e-09
 Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 11/82 (13%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R AR L   N+ F +TEDE+ E F            A    L  Q    K  A++EF+S 
Sbjct: 14  RAARTLLAKNLSFNITEDELKEVFED----------ALEIRLVSQDGKSKGIAYIEFKSE 63

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
            +  + +    G    G+S+ +
Sbjct: 64  ADAEKNLEEKQGAEIDGRSVSL 85

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 50.2 bits (121), Expect = 9e-09
 Identities = 19/88 (21%), Positives = 34/88 (38%), Gaps = 18/88 (20%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAF 97
              R LYVG +   V +  +   F             G  +   QI LD      + FAF
Sbjct: 5   TTKRVLYVGGLAEEVDDKVLHAAFIP----------FG-DITDIQIPLDYETEKHRGFAF 53

Query: 98  LEFRSIDETTQAM-AFDGINFKGQSLKI 124
           +EF   ++   A+   +     G+++++
Sbjct: 54  VEFELAEDAAAAIDNMNESELFGRTIRV 81

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 50.0 bits (120), Expect = 1e-08
 Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 13/84 (15%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           +    LYVG +   +TE ++   F Q     G        +    +   +  AF++F + 
Sbjct: 10  KTITTLYVGGLGDTITETDLRNHFYQ----FG-------EIRTITVVQRQQCAFIQFATR 58

Query: 104 DETTQAM--AFDGINFKGQSLKIR 125
                A   +F+ +   G+ L ++
Sbjct: 59  QAAEVAAEKSFNKLIVNGRRLNVK 82

>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 Length = 115

 Score = 50.6 bits (121), Expect = 1e-08
 Identities = 19/101 (18%), Positives = 35/101 (34%), Gaps = 16/101 (15%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           G    R   R+ V  +P   +  ++ +   +          AG+ V    +  D     +
Sbjct: 9   GPPSRRSENRVVVSGLPPSGSWQDLKDHMRE----------AGD-VCYADVYRD-GTGVV 56

Query: 99  EFRSIDETTQAMA-FDGINFKGQSLK---IRRPHDYQPTPG 135
           EF   ++ T A+   D   F+    +   IR   D   +P 
Sbjct: 57  EFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPS 97

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 12/81 (14%), Positives = 28/81 (34%), Gaps = 14/81 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             +++  +  GV E +++E   +             P+    +   K  A +EF  +   
Sbjct: 22  PVVHIRGLIDGVVEADLVEALQE-----------FGPISYVVVMPKKRQALVEFEDVLGA 70

Query: 107 TQAMAF---DGINFKGQSLKI 124
             A+ +   + I   G    +
Sbjct: 71  CNAVNYAADNQIYIAGHPAFV 91

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 51.4 bits (123), Expect = 1e-08
 Identities = 23/94 (24%), Positives = 34/94 (36%), Gaps = 23/94 (24%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            L V N+ +  + D +   F +           G  V    I  D+       FAF+ F 
Sbjct: 72  SLKVDNLTYRTSPDTLRRVFEK----------YG-RVGDVYIPRDRYTKESRGFAFVRFH 120

Query: 102 SIDETTQAM-AFDGINFKGQSLKI-----RRPHD 129
              +   AM A DG    G+ L++      RP D
Sbjct: 121 DKRDAEDAMDAMDGAVLDGRELRVQMARYGRPPD 154

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 49.9 bits (120), Expect = 2e-08
 Identities = 22/104 (21%), Positives = 41/104 (39%), Gaps = 25/104 (24%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRS 102
            ++VG I   + E E+  FF +           G+ V   +I  D+      + F+ F +
Sbjct: 11  TVFVGGIDVRMDETEIRSFFAR----------YGS-VKEVKIITDRTGVSKGYGFVSFYN 59

Query: 103 IDETTQAMAFDGINFKGQSLKI--------RRPHDYQPTPGVTD 138
             +  + +    INF G+ LK+           +  QP P + +
Sbjct: 60  DVDVQKIVE-SQINFHGKKLKLGPAIRKQNLSTYHVQPRPLIFN 102

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 14/82 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R L++  +P  VTE E++                G  V    +   KN AFLE  + +  
Sbjct: 16  RVLHIRKLPGEVTETEVIALGLP----------FG-KVTNILMLKGKNQAFLELATEEAA 64

Query: 107 TQAMAF---DGINFKGQSLKIR 125
              + +      + + Q + I+
Sbjct: 65  ITMVNYYSAVTPHLRNQPIYIQ 86

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 49.9 bits (119), Expect = 2e-08
 Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 14/82 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R +++  +P  VTE E++                G  V    +   KN AF+E  + +  
Sbjct: 17  RVIHIRKLPIDVTEGEVISLG----------LPFG-KVTNLLMLKGKNQAFIEMNTEEAA 65

Query: 107 TQAMAF---DGINFKGQSLKIR 125
              + +        +GQ + I+
Sbjct: 66  NTMVNYYTSVTPVLRGQPIYIQ 87

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

 Score = 49.5 bits (119), Expect = 2e-08
 Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 21/96 (21%)

Query: 48  RLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           RL++GN+P   V+++++   F+   H+              QIN+   F F++F +    
Sbjct: 12  RLFIGNLPLKNVSKEDLFRIFSPYGHIM-------------QINIKNAFGFIQFDNPQSV 58

Query: 107 TQAM-AFDGINFKGQSLKI------RRPHDYQPTPG 135
             A+         G+ L +       RP       G
Sbjct: 59  RDAIECESQEMNFGKKLILEVSSSNARPQFDHGDHG 94

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 49.5 bits (119), Expect = 2e-08
 Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 12/80 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
            RL+VG +    +   +   F++           G  +         +FA++++ S+D  
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDR----------FG-SIRTIDHVKGDSFAYIQYESLDAA 66

Query: 107 TQAM-AFDGINFKGQSLKIR 125
             A     G    G   ++R
Sbjct: 67  QAACAKMRGFPLGGPDRRLR 86

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 50.5 bits (121), Expect = 2e-08
 Identities = 23/96 (23%), Positives = 34/96 (35%), Gaps = 23/96 (23%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLE 99
              L V N+ +  + D +   F +     G        V    I  D+       FAF+ 
Sbjct: 47  MTSLKVDNLTYRTSPDTLRRVFEKY----G-------RVGDVYIPRDRYTKESRGFAFVR 95

Query: 100 FRSIDETTQAM-AFDGINFKGQSLKI-----RRPHD 129
           F    +   AM A DG    G+ L++      RP D
Sbjct: 96  FHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRPPD 131

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 49.5 bits (119), Expect = 2e-08
 Identities = 18/85 (21%), Positives = 37/85 (43%), Gaps = 17/85 (20%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
           R +YVGN+ +  T +++ E F+Q           G  V   ++  D+       F F+E 
Sbjct: 2   RNIYVGNLVYSATSEQVKELFSQ----------FG-KVFNVKLIYDRETKKPKGFGFVEM 50

Query: 101 RSIDETTQAMAFDGINFKGQSLKIR 125
           +    +      D  +F G+++++ 
Sbjct: 51  QEESVSEAIAKLDNTDFMGRTIRVT 75

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 49.2 bits (118), Expect = 3e-08
 Identities = 20/108 (18%), Positives = 50/108 (46%), Gaps = 25/108 (23%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
            ST + +++ L + N+ +  TE+ + E F +          A       ++  ++N    
Sbjct: 8   NSTWSGESKTLVLSNLSYSATEETLQEVFEK----------ATF----IKVPQNQNGKSK 53

Query: 95  -FAFLEFRSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
            +AF+EF S ++  +A+ + +    +G+++++     R   +  P+ G
Sbjct: 54  GYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRGSPNSGPSSG 101

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 49.4 bits (118), Expect = 3e-08
 Identities = 19/100 (19%), Positives = 36/100 (36%), Gaps = 22/100 (22%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             ++V  +   V E +++E   +           G  +    +   K  A +EF +ID  
Sbjct: 16  PVVHVRGLCESVVEADLVEALEK----------FG-TICYVMMMPFKRQALVEFENIDSA 64

Query: 107 TQAMAF---DGINFKGQSL--------KIRRPHDYQPTPG 135
            + + F     +   GQ          +I RP +  P+ G
Sbjct: 65  KECVTFAADVPVYIAGQQAFFNYSTSKRITRPGNSGPSSG 104

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 49.1 bits (118), Expect = 3e-08
 Identities = 17/98 (17%), Positives = 33/98 (33%), Gaps = 21/98 (21%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            + V N+     E ++ E F             G  +    +  DK       FAF+ F 
Sbjct: 17  TIRVTNLSEDTRETDLQELFRP----------FG-SISRIYLAKDKTTGQSKGFAFISFH 65

Query: 102 SIDETTQAM-AFDGINFKGQSLKI---RRPHDYQPTPG 135
             ++  +A+    G  +    L +   +   +  P+ G
Sbjct: 66  RREDAARAIAGVSGFGYDHLILNVEWAKPSTNSGPSSG 103

>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 = 48.9 bits (117), Expect = 3e-08
 Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 15/84 (17%)

Query: 47  RRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
            RL++GN+P   V+++++   F+   H+              QIN+   F F++F +   
Sbjct: 23  SRLFIGNLPLKNVSKEDLFRIFSPYGHIM-------------QINIKNAFGFIQFDNPQS 69

Query: 106 TTQAMA-FDGINFKGQSLKIRRPH 128
              A+         G+ L +    
Sbjct: 70  VRDAIEXESQEMNFGKKLILEVSS 93

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 50.7 bits (122), Expect = 4e-08
 Identities = 24/139 (17%), Positives = 43/139 (30%), Gaps = 41/139 (29%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN--------FAF 97
           A +++VG +P   +E ++ E F Q           G  V    +  D++          F
Sbjct: 3   AIKMFVGQVPRTWSEKDLRELFEQ----------YG-AVYEINVLRDRSQNPPQSKGCCF 51

Query: 98  LEFRSIDETTQAM-AFDGINFKGQSLK--IRRPHDYQPTPGVTDNAAVAVPAGVISTVVP 154
           + F +     +A  A   +            +P D +    V D                
Sbjct: 52  VTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVED---------------- 95

Query: 155 DSPHKIFIGGLPNYLNEDQ 173
               K+FIG +     E+ 
Sbjct: 96  ---RKLFIGMISKKCTEND 111

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 41.4 bits (98), Expect = 6e-05
 Identities = 14/72 (19%), Positives = 28/72 (38%), Gaps = 16/72 (22%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLE 99
           + R+L++G I    TE+++   F+            G  +  C+I    +      AF+ 
Sbjct: 94  EDRKLFIGMISKKCTENDIRVMFSSF----------GQ-IEECRILRGPDGLSRGCAFVT 142

Query: 100 FRSIDETTQAMA 111
           F +      A+ 
Sbjct: 143 FTTRAMAQTAIK 154

>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 = 48.8 bits (117), Expect = 4e-08
 Identities = 17/84 (20%), Positives = 33/84 (39%), Gaps = 16/84 (19%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRSI 103
           + V N+PF V+ DE+++FF                  +  +  ++       A + F S 
Sbjct: 18  IKVQNMPFTVSIDEILDFFYG----------YQVIPGSVCLKYNEKGMPTGEAMVAFESR 67

Query: 104 DETTQAMA-FDGINFKGQSLKIRR 126
           DE T A+   +      + +K+  
Sbjct: 68  DEATAAVIDLNDRPIGSRKVKLVL 91

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 49.9 bits (119), Expect = 4e-08
 Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 13/85 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDE 105
            ++YVGN+     + E+   F             G P+ +  +  +   FAF+EF    +
Sbjct: 74  CKVYVGNLGNNGNKTELERAFGY----------YG-PLRSVWVARNPPGFAFVEFEDPRD 122

Query: 106 TTQAM-AFDGINFKGQSLKIRRPHD 129
              A+   DG    G  +++   + 
Sbjct: 123 AADAVRELDGRTLCGCRVRVELSNG 147

>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 = 48.9 bits (117), Expect = 4e-08
 Identities = 20/96 (20%), Positives = 41/96 (42%), Gaps = 20/96 (20%)

Query: 47  RRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
            R+++GN+    V + ++   F++           G  V  C ++  K +AF+++ +   
Sbjct: 28  SRVFIGNLNTALVKKSDVETIFSK----------YG-RVAGCSVH--KGYAFVQYSNERH 74

Query: 106 TTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
              A+   +G    GQ+L I      +P    P+ G
Sbjct: 75  ARAAVLGENGRVLAGQTLDINMAGEPKPDRSGPSSG 110

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 49.5 bits (118), Expect = 5e-08
 Identities = 14/93 (15%), Positives = 36/93 (38%), Gaps = 15/93 (16%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
            S  +     + +  +PFG T++E+++FF+                    + +D      
Sbjct: 35  NSADSANDGFVRLRGLPFGCTKEEIVQFFSG----------LEIVPNGITLPVDPEGKIT 84

Query: 95  -FAFLEFRSIDETTQAMAFDGINFKGQSLKIRR 126
             AF++F S +   +A+         + +++ +
Sbjct: 85  GEAFVQFASQELAEKALGKHKERIGHRYIEVFK 117

>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 = 48.5 bits (116), Expect = 5e-08
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 16/86 (18%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRS 102
            + V N+PF V+ DE+++FF                  +  +  ++       A + F S
Sbjct: 17  VIKVQNMPFTVSIDEILDFFYG----------YQVIPGSVCLKYNEKGMPTGEAMVAFES 66

Query: 103 IDETTQAMA-FDGINFKGQSLKIRRP 127
            DE T A+   +      + +K+  P
Sbjct: 67  RDEATAAVIDLNDRPIGSRKVKLSGP 92

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 47.9 bits (115), Expect = 6e-08
 Identities = 18/85 (21%), Positives = 38/85 (44%), Gaps = 19/85 (22%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-------FAFLEF 100
           ++++G +   VT+D +ME F+            G  +    + +++        +A++EF
Sbjct: 6   KVHIGRLTRNVTKDHIMEIFST----------YG-KIKMIDMPVERMHPHLSKGYAYVEF 54

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI 124
            + DE  +A+   DG    GQ +  
Sbjct: 55  ENPDEAEKALKHMDGGQIDGQEITA 79

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 48.4 bits (116), Expect = 6e-08
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 18/85 (21%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
             L V  +    TE ++ E F++           G P+    I  D+       FAF+ F
Sbjct: 16  CCLGVFGLSLYTTERDLREVFSK----------YG-PIADVSIVYDQQSRRSRGFAFVYF 64

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI 124
            ++D+  +A    +G+   G+ +++
Sbjct: 65  ENVDDAKEAKERANGMELDGRRIRV 89

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 49.5 bits (118), Expect = 6e-08
 Identities = 14/135 (10%), Positives = 41/135 (30%), Gaps = 18/135 (13%)

Query: 10  TGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ 69
              + + P  V    +        A+    S +  +   +YVG+  +  T+ ++++    
Sbjct: 19  YFQSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVI-- 76

Query: 70  QMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRSIDETTQAM-AFDGINFKGQSL 122
                         V+  +   ++       +A +   S +   + +    G    G+ +
Sbjct: 77  -------RSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKV 129

Query: 123 KIR--RPHDYQPTPG 135
            +R     +      
Sbjct: 130 DVRPATRQNLSQFEA 144

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 48.7 bits (116), Expect = 7e-08
 Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 12/93 (12%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNP--VLACQINLDKNFAFLEF 100
           T  ++ + + NI   V ++++         L  LA + G+   ++    + +   A++ F
Sbjct: 26  TEPSQVVLITNINPEVPKEKLQA------LLYALASSQGDILDIVVDLSDDNSGKAYIVF 79

Query: 101 RSIDETTQAM-AFDGINFKGQSLKI---RRPHD 129
            + +     + AF G  F+G  L I     P  
Sbjct: 80  ATQESAQAFVEAFQGYPFQGNPLVITFSETPQS 112

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 48.2 bits (115), Expect = 8e-08
 Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 17/83 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRSI 103
           + V  +PF   E+++ +FF             G  V A  +  D          ++F S 
Sbjct: 19  VSVHGMPFSAMENDVRDFF------------HGLRVDAVHLLKDHVGRNNGNGLVKFLSP 66

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
            +T +A+  + +    + +++  
Sbjct: 67  QDTFEALKRNRMLMIQRYVEVSP 89

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 7/85 (8%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-FAFLEFR 101
           T     + +  +PFG +++E+++FF      SGL        L           AF++F 
Sbjct: 12  TANDGFVRLRGLPFGCSKEEIVQFF------SGLEIVPNGMTLPVDFQGRSTGEAFVQFA 65

Query: 102 SIDETTQAMAFDGINFKGQSLKIRR 126
           S +   +A+         + ++I +
Sbjct: 66  SQEIAEKALKKHKERIGHRYIEIFK 90

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 18/88 (20%), Positives = 35/88 (39%), Gaps = 17/88 (19%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFL 98
           ++ +++VG IP    E E+ E+F +           G  V    +  D        F F+
Sbjct: 9   KSNKIFVGGIPHNCGETELREYFKKF----------GV-VTEVVMIYDAEKQRPRGFGFI 57

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRR 126
            F       QA+     +  G+ ++++R
Sbjct: 58  TFEDEQSVDQAVNMHFHDIMGKKVEVKR 85

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 21/109 (19%), Positives = 43/109 (39%), Gaps = 23/109 (21%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---- 94
            S +     +L+VG + F   E  + + F++           G  +    +  D+     
Sbjct: 5   SSGMASDEGKLFVGGLSFDTNEQSLEQVFSK----------YG-QISEVVVVKDRETQRS 53

Query: 95  --FAFLEFRSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
             F F+ F +ID+   AM A +G +  G+ +++        +   P+ G
Sbjct: 54  RGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDNRSGPSSG 102

>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 = 46.8 bits (112), Expect = 2e-07
 Identities = 16/90 (17%), Positives = 37/90 (41%), Gaps = 14/90 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSI 103
             +Y+ N+   + +DE+ +       L  +    G  +L   ++     +  AF+ F+ +
Sbjct: 9   HTIYINNLNEKIKKDELKK------SLHAIFSRFG-QILDILVSRSLKMRGQAFVIFKEV 61

Query: 104 DETTQAM-AFDGINFKGQSLKI---RRPHD 129
              T A+ +  G  F  + ++I   +   D
Sbjct: 62  SSATNALRSMQGFPFYDKPMRIQYAKTDSD 91

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 46.5 bits (111), Expect = 2e-07
 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 17/83 (20%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRSI 103
           + +   PF VTE  +MEF             A    +A +I  + +     + F++F + 
Sbjct: 13  VKLRGAPFNVTEKNVMEFL------------APLKPVAIRIVRNAHGNKTGYIFVDFSNE 60

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
           +E  QA+  +     G+ +++ R
Sbjct: 61  EEVKQALKCNREYMGGRYIEVFR 83

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Length = 437

 Score = 49.8 bits (118), Expect = 2e-07
 Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 18/91 (19%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
           + L+V  + +  TE ++   F       G       P+    +   K       +AF+E+
Sbjct: 103 KTLFVARVNYDTTESKLRREFEV----YG-------PIKRIHMVYSKRSGKPRGYAFIEY 151

Query: 101 RSIDETTQAMA-FDGINFKGQSLKIRRPHDY 130
               +   A    DG    G+ + +      
Sbjct: 152 EHERDMHSAYKHADGKKIDGRRVLVDVERGR 182

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 46.5 bits (111), Expect = 3e-07
 Identities = 17/105 (16%), Positives = 38/105 (36%), Gaps = 26/105 (24%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FA 96
           ++ ++ L+V  +    TE+ + E F+                +  +I  D+       F 
Sbjct: 12  SQPSKTLFVKGLSEDTTEETLKESFDG--------------SVRARIVTDRETGSSKGFG 57

Query: 97  FLEFRSIDETTQAM-AFDGINFKGQSLKI-----RRPHDYQPTPG 135
           F++F S ++   A  A +     G  + +     +      P+ G
Sbjct: 58  FVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPKGEGGSGPSSG 102

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 47.1 bits (112), Expect = 3e-07
 Identities = 13/89 (14%), Positives = 28/89 (31%), Gaps = 15/89 (16%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAF 97
                 +Y+  +PF      +++FF        L         +  I    N       F
Sbjct: 22  HEAGFCVYLKGLPFEAENKHVIDFF------KKL----DIVEDSIYIAYGPNGKATGEGF 71

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +EFR+  +   A+         + +++  
Sbjct: 72  VEFRNEADYKAALCRHKQYMGNRFIQVHP 100

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 14/89 (15%), Positives = 36/89 (40%), Gaps = 17/89 (19%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAF 97
           +     +++  +P+  TE+++  FF            +    +   I +  +      A 
Sbjct: 12  STTGHCVHMRGLPYRATENDIYNFF------------SPLNPMRVHIEIGPDGRVTGEAD 59

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +EF + ++   AMA D  N + + +++  
Sbjct: 60  VEFATHEDAVAAMAKDKANMQHRYVELFL 88

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 46.8 bits (111), Expect = 5e-07
 Identities = 14/89 (15%), Positives = 36/89 (40%), Gaps = 17/89 (19%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAF 97
           +     +++  +P+  TE+++  FF            +    +   I +  +      A 
Sbjct: 43  STTGHCVHMRGLPYKATENDIYNFF------------SPLNPVRVHIEIGPDGRVTGEAD 90

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +EF + +E   AM+ D  N + + +++  
Sbjct: 91  VEFATHEEAVAAMSKDRANMQHRYIELFL 119

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 46.0 bits (109), Expect = 6e-07
 Identities = 14/104 (13%), Positives = 33/104 (31%), Gaps = 12/104 (11%)

Query: 28  AAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC 87
           ++    +  V           + +  +PF  T +E++ FF Q   ++G            
Sbjct: 5   SSGGGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITG-------GKEGI 57

Query: 88  QINLDKN-----FAFLEFRSIDETTQAMAFDGINFKGQSLKIRR 126
                 +      AF+ F   +    A+         + +++ R
Sbjct: 58  LFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFR 101

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 46.7 bits (111), Expect = 6e-07
 Identities = 23/129 (17%), Positives = 42/129 (32%), Gaps = 21/129 (16%)

Query: 17  PANVIIPETTVAAAAAAAVPVVGSTITRQA-RRLYVGNIPFGVTEDEMMEFFNQQMHLSG 75
           P         +       +P           R L V  IP  V E ++ + F +      
Sbjct: 12  PYGQTAQLQQLQQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFER------ 65

Query: 76  LAQAAGNPVLACQINLDKN------FAFLEFRSIDETTQAM-AFDGINFKGQSLKIR--R 126
                G  + + +I  D+       + F++F+S     QA+   +G N   + LK+    
Sbjct: 66  ----YGP-IESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA 120

Query: 127 PHDYQPTPG 135
               +P   
Sbjct: 121 SGHQRPGIA 129

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 45.3 bits (108), Expect = 7e-07
 Identities = 18/91 (19%), Positives = 37/91 (40%), Gaps = 21/91 (23%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---------FAFL 98
            L++ N+ F  TE+ +   F++              + +C I+  KN         F F+
Sbjct: 7   GLFIKNLNFSTTEETLKGVFSKV-----------GAIKSCTISKKKNKAGVLLSMGFGFV 55

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRRPH 128
           E++  ++  +A+    G    G  L++R   
Sbjct: 56  EYKKPEQAQKALKQLQGHTVDGHKLEVRISE 86

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 47.2 bits (112), Expect = 8e-07
 Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 13/81 (16%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDE 105
             L++ NIP  V+E+++   F+            G  V        D+  A ++  S++E
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSSN----------GGVVKGFKFFQKDRKMALIQMGSVEE 170

Query: 106 TTQAM-AFDGINFK-GQSLKI 124
             QA+      +      L++
Sbjct: 171 AVQALIDLHNHDLGENHHLRV 191

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

 Score = 45.1 bits (107), Expect = 1e-06
 Identities = 10/90 (11%), Positives = 23/90 (25%), Gaps = 18/90 (20%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
           + +    +   V E  + +   +           G  V   +I L          A + F
Sbjct: 7   KEVTFARLNDNVRETFLKDMCRK----------YG-EVEEVEILLHPRTRKHLGLARVLF 55

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIRRPHD 129
            S     + +      +  G  +  +    
Sbjct: 56  TSTRGAKETVKNLHLTSVMGNIIHAQLDIK 85

>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 Length = 229

 Score = 46.6 bits (110), Expect = 1e-06
 Identities = 23/124 (18%), Positives = 41/124 (33%), Gaps = 16/124 (12%)

Query: 9   NTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFN 68
           N  A         +P T        A P V  T T +   LY+GN+ +  T++++ E   
Sbjct: 31  NGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAV- 89

Query: 69  QQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRSIDETTQAM-AFDGINFKGQS 121
                        N +L  +   ++       FA +   S   + + M         GQ+
Sbjct: 90  --------HSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQN 141

Query: 122 LKIR 125
             + 
Sbjct: 142 PVVT 145

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 44.2 bits (105), Expect = 2e-06
 Identities = 17/93 (18%), Positives = 30/93 (32%), Gaps = 17/93 (18%)

Query: 38  VGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN--- 94
           +G         + + NI      D +M   +           A   V   ++  DK    
Sbjct: 1   MGHHHHHHMDTIILRNIAPHTVVDSIMTALSPY---------ASLAVNNIRLIKDKQTQQ 51

Query: 95  ---FAFLEFRSIDETTQAMAFDGINFKGQSLKI 124
              FAF++  S  + +Q +    +      LKI
Sbjct: 52  NRGFAFVQLSSAMDASQLL--QILQSLHPPLKI 82

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 43.8 bits (104), Expect = 2e-06
 Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 17/97 (17%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
            R+   LYV      +T   +   F+            GN ++   ++  +N AF+ +  
Sbjct: 12  PRKGNTLYVYG--EDMTPTLLRGAFSPF----------GN-IIDLSMDPPRNCAFVTYEK 58

Query: 103 IDETTQAM-AFDGINFKGQSLKI---RRPHDYQPTPG 135
           ++   QA+   +G   +   LK+   R+       P 
Sbjct: 59  MESADQAVAELNGTQVESVQLKVNIARKQPMLDSGPS 95

>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 = 43.3 bits (103), Expect = 3e-06
 Identities = 18/92 (19%), Positives = 35/92 (38%), Gaps = 22/92 (23%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
            L+VG++   V ++ +   F              +  L+  +  D        + F+ F 
Sbjct: 3   NLFVGDLNVNVDDETLRNAFKDF----------PS-YLSGHVMWDMQTGSSRGYGFVSFT 51

Query: 102 SIDETTQAM-AFDGINFKGQSLKI----RRPH 128
           S D+   AM +  G +  G+ L+I    +  H
Sbjct: 52  SQDDAQNAMDSMQGQDLNGRPLRINWAAKLEH 83

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 43.3 bits (102), Expect = 4e-06
 Identities = 10/83 (12%), Positives = 30/83 (36%), Gaps = 13/83 (15%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRSI 103
           +    +P+  T ++++ FF+             N        L+++      A +E  S 
Sbjct: 14  IRAQGLPWSCTMEDVLNFFSDCRIR--------NGENGIHFLLNRDGKRRGDALIEMESE 65

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
            +  +A+    +    + +++  
Sbjct: 66  QDVQKALEKHRMYMGQRYVEVYE 88

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 43.4 bits (102), Expect = 5e-06
 Identities = 10/83 (12%), Positives = 30/83 (36%), Gaps = 13/83 (15%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRSI 103
           + +  +P+  + +++  F +             + V        +       AF+E  S 
Sbjct: 20  VKLRGLPWSCSIEDVQNFLSDCT--------IHDGVAGVHFIYTREGRQSGEAFVELESE 71

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
           D+   A+  D  +   + +++ +
Sbjct: 72  DDVKLALKKDRESMGHRYIEVFK 94

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 45.6 bits (107), Expect = 6e-06
 Identities = 26/206 (12%), Positives = 59/206 (28%), Gaps = 61/206 (29%)

Query: 25  TTVAAAAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQ--QMHLSGLAQAA-- 80
           TT        +    +T       + + +    +T DE+     +        L +    
Sbjct: 271 TTRFKQVTDFLSAATTT------HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324

Query: 81  GNPVLACQI-NLDKNFA----FLEFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPT-- 133
            NP     I    ++        +  + D+ T  +          SL +  P +Y+    
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE--------SSLNVLEPAEYRKMFD 376

Query: 134 -----PGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNEDQAIAGLNGMQLGDKKL 188
                P    +    +P  ++S +  D              ++   +  +N +    K  
Sbjct: 377 RLSVFP---PS--AHIPTILLSLIWFDVIK-----------SDVMVV--VNKLH---KYS 415

Query: 189 IVQRASVGAKNASGQQAPVQIQVPGL 214
           +V++          Q     I +P +
Sbjct: 416 LVEK----------QPKESTISIPSI 431

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 42.7 bits (101), Expect = 7e-06
 Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 17/85 (20%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFLEFRS 102
           +L++G +     E  +   F +           G P+    +  D+      FAF+ F +
Sbjct: 9   KLFIGGLNRETNEKMLKAVFGK----------HG-PISEVLLIKDRTSKSRGFAFITFEN 57

Query: 103 IDETTQAM-AFDGINFKGQSLKIRR 126
             +   A    +G +  G+++K+ +
Sbjct: 58  PADAKNAAKDMNGKSLHGKAIKVEQ 82

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 43.1 bits (101), Expect = 9e-06
 Identities = 10/89 (11%), Positives = 30/89 (33%), Gaps = 13/89 (14%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAF 97
             +   + +  +P+  + +++  F       S       +          +       AF
Sbjct: 41  GGEGFVVKLRGLPWSCSVEDVQNFL------SDCTIH--DGAAGVHFIYTREGRQSGEAF 92

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +E  S D+   A+  D  +   + +++ +
Sbjct: 93  VELGSEDDVKMALKKDRESMGHRYIEVFK 121

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 42.3 bits (100), Expect = 9e-06
 Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 19/90 (21%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
             A +L++G IP  + E ++   F +           G  +    +  D+        AF
Sbjct: 11  HDAIKLFIGQIPRNLDEKDLKPLFEE----------FGK-IYELTVLKDRFTGMHKGCAF 59

Query: 98  LEFRSIDETTQAM-AFDGIN-FKGQSLKIR 125
           L +   +   +A  A        G +  I+
Sbjct: 60  LTYCERESALKAQSALHEQKTLPGMNRPIQ 89

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 42.3 bits (100), Expect = 1e-05
 Identities = 20/104 (19%), Positives = 40/104 (38%), Gaps = 23/104 (22%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFL 98
            + R+L+VG +    +E++++  F             G  +  C +    +      AF+
Sbjct: 13  GRDRKLFVGMLNKQQSEEDVLRLFQP----------FGV-IDECTVLRGPDGSSKGCAFV 61

Query: 99  EFRSIDETTQAM-AFDG---INFKGQSLKIR---RPHDYQPTPG 135
           +F S  E   A+ A  G   +     SL ++      +  P+ G
Sbjct: 62  KFSSHTEAQAAIHALHGSQTMPGASSSLVVKFADTDKESGPSSG 105

>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 Length = 114

 Score = 42.2 bits (100), Expect = 1e-05
 Identities = 15/87 (17%), Positives = 28/87 (32%), Gaps = 17/87 (19%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-----FAFL 98
           +    LY+ N+P  + E E+                 G  V++ +I  D +       F 
Sbjct: 23  QDPTNLYISNLPLSMDEQELENMLKP----------FGQ-VISTRILRDSSGTSRGVGFA 71

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKI 124
              S ++    +  F+G   K      
Sbjct: 72  RMESTEKCEAVIGHFNGKFIKTPPGVS 98

>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 = 43.8 bits (103), Expect = 1e-05
 Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 11/66 (16%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDE 105
             L++ NIP  V+E+++   F+            G  V        D+  A ++  S++E
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSSN----------GGVVKGFKFFQKDRKMALIQMGSVEE 201

Query: 106 TTQAMA 111
             QA+ 
Sbjct: 202 AVQALI 207

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 14/88 (15%), Positives = 33/88 (37%), Gaps = 17/88 (19%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFL 98
            A  L++G++   + E+ +   F             G  V++ +I  ++       + F+
Sbjct: 8   MAASLWMGDLEPYMDENFISRAFAT----------MGETVMSVKIIRNRLTGIPAGYCFV 57

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIR 125
           EF  +    + +   +G    G +   R
Sbjct: 58  EFADLATAEKCLHKINGKPLPGATPAKR 85

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 112

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 12/89 (13%), Positives = 35/89 (39%), Gaps = 15/89 (16%)

Query: 47  RRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           R +++ N+P  G ++  +++                  +    +   K+ AF+E  + ++
Sbjct: 26  RVIHLSNLPHSGYSDSAVLKLAEP-----------YGKIKNYILMRMKSQAFIEMETRED 74

Query: 106 TTQAMAF---DGINFKGQSLKIRRPHDYQ 131
               +       + F+G+ +K+     Y+
Sbjct: 75  AMAMVDHCLKKALWFQGRCVKVDLSEKYK 103

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 41.5 bits (97), Expect = 2e-05
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 29/117 (24%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------ 92
           GS+ +  +R+++VG +P  + EDE+   F +           G P++    +        
Sbjct: 1   GSSGSSGSRKVFVGGLPPDIDEDEITASFRR----------FG-PLVVDWPHKAESKSYF 49

Query: 93  --KNFAFLEFRS-------IDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNA 140
             K +AFL F+        ID   +      +     ++K +     Q  P    ++
Sbjct: 50  PPKGYAFLLFQEESSVQALIDACLEEDGKLYLCVSSPTIKDKPV---QIRPWNLSDS 103

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 88

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 13/85 (15%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFR 101
           +  +  ++VG     +TEDE+ EFF+Q           G+ V+   I    + FAF+ F 
Sbjct: 2   SSGSSGVFVGRCTGDMTEDELREFFSQ----------YGD-VMDVFIPKPFRAFAFVTFA 50

Query: 102 SIDETTQAMAFDGINFKGQSLKIRR 126
             D+  Q++  + +  KG S+ I  
Sbjct: 51  D-DQIAQSLCGEDLIIKGISVHISN 74

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Length = 89

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 13/84 (15%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRS 102
               +++VG     +T +E+ +FF Q           G  V+   I    + FAF+ F  
Sbjct: 9   HHGSKVFVGRCTEDMTAEELQQFFCQ----------YGE-VVDVFIPKPFRAFAFVTFAD 57

Query: 103 IDETTQAMAFDGINFKGQSLKIRR 126
            D+  Q++  + +  KG S+ I  
Sbjct: 58  -DKVAQSLCGEDLIIKGISVHISN 80

>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 = 40.7 bits (96), Expect = 4e-05
 Identities = 20/98 (20%), Positives = 41/98 (41%), Gaps = 23/98 (23%)

Query: 39  GSTITRQAR-------RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL 91
           GS+ +   R        LYV N+  G+ ++ + + F             G  + + ++ +
Sbjct: 1   GSSGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAF----------SPFGT-ITSAKVMM 49

Query: 92  D----KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI 124
           +    K F F+ F S +E T+A+   +G     + L +
Sbjct: 50  EGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYV 87

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 40.8 bits (96), Expect = 5e-05
 Identities = 22/125 (17%), Positives = 47/125 (37%), Gaps = 22/125 (17%)

Query: 12  AAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQAR----RLYVGNIPFGVTEDEMMEFF 67
           A      +     T+  A+ A +     +   +        L++ ++P   T+ ++   F
Sbjct: 2   AGLPQFGSASALSTSPLASVALSAAAAAAAGKQIEGPEGCNLFIYHLPQEFTDTDLASTF 61

Query: 68  NQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRSIDETTQAM-AFDGINFKGQ 120
                        GN V++ ++ +DK       F F+ F + D    A+ A +G     +
Sbjct: 62  ----------LPFGN-VISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTK 110

Query: 121 SLKIR 125
            LK++
Sbjct: 111 RLKVQ 115

>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 = 39.5 bits (93), Expect = 6e-05
 Identities = 14/91 (15%), Positives = 32/91 (35%), Gaps = 22/91 (24%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            ++VG++   +T   +   F             G  +   ++  D      K + F+ F 
Sbjct: 8   HVFVGDLSPEITTAAIAAAFAP----------FG-RISDARVVKDMATGKSKGYGFVSFF 56

Query: 102 SIDETTQAM-AFDGINFKGQSLKI----RRP 127
           +  +   A+    G    G+ ++     R+P
Sbjct: 57  NKWDAENAIQQMGGQWLGGRQIRTNWATRKP 87

>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 Length = 115

 Score = 40.4 bits (95), Expect = 6e-05
 Identities = 14/82 (17%), Positives = 35/82 (42%), Gaps = 18/82 (21%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFRS 102
           L++ ++P    + ++++ F             GN V++ ++ +DK       F F+ + +
Sbjct: 28  LFIYHLPQEFGDQDLLQMFMP----------FGN-VVSAKVFIDKQTNLSKCFGFVSYDN 76

Query: 103 IDETTQAM-AFDGINFKGQSLK 123
                 A+ + +G     + LK
Sbjct: 77  PVSAQAAIQSMNGFQIGMKRLK 98

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 40.3 bits (95), Expect = 7e-05
 Identities = 14/83 (16%), Positives = 37/83 (44%), Gaps = 16/83 (19%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN----FAFLEFRSID 104
           +++ N+   +    + + F           A GN +L+C++  D+N    + F+ F + +
Sbjct: 8   IFIKNLDKSIDNKALYDTF----------SAFGN-ILSCKVVCDENGSKGYGFVHFETQE 56

Query: 105 ETTQAM-AFDGINFKGQSLKIRR 126
              +A+   +G+    + + + R
Sbjct: 57  AAERAIEKMNGMLLNDRKVFVGR 79

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 40.8 bits (95), Expect = 1e-04
 Identities = 12/93 (12%), Positives = 27/93 (29%), Gaps = 18/93 (19%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------ 92
            + I   +  L+  N P  VTE+   E  ++                   + +       
Sbjct: 116 KNRIQHPSNVLHFFNAPLEVTEENFFEICDEL-----------GVKRPTSVKVFSGKSER 164

Query: 93  KNFAFLEFRSIDETTQAMA-FDGINFKGQSLKI 124
            +   LE+ S  +  + +   +    K  +   
Sbjct: 165 SSSGLLEWDSKSDALETLGFLNHYQMKNPNGPY 197

>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 = 41.0 bits (95), Expect = 1e-04
 Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 11/82 (13%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN---FAFLEFRSI 103
             +Y+ N+   + +DE+ +       L  +    G  +L   ++        AF+ F+ +
Sbjct: 10  HTIYINNLNEKIKKDELKK------SLYAIFSQFGQ-ILDILVSRSLKMRGQAFVIFKEV 62

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
              T A+ +  G  F  + ++I
Sbjct: 63  SSATNALRSMQGFPFYDKPMRI 84

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 13/66 (19%)

Query: 47  RRLYVGN--IPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           + L V N  +  GV+ ++++    +              V A  +  +K ++F  +R+ +
Sbjct: 26  QSLVVANGGLGNGVSRNQLLPVLEK-----------CGLVDALLMPPNKPYSFARYRTTE 74

Query: 105 ETTQAM 110
           E+ +A 
Sbjct: 75  ESKRAY 80

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 17/74 (22%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           ++   L V  +P+  TE ++ E+F+            G  VL  Q+  D        F F
Sbjct: 13  QKTSDLIVLGLPWKTTEQDLKEYFSTF----------GE-VLMVQVKKDLKTGHSKGFGF 61

Query: 98  LEFRSIDETTQAMA 111
           + F   +   + M+
Sbjct: 62  VRFTEYETQVKVMS 75

>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 = 38.9 bits (91), Expect = 2e-04
 Identities = 15/100 (15%), Positives = 35/100 (35%), Gaps = 18/100 (18%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFR 101
            ++VG++   +T +++   F             G  +   ++  D      K + F+ F 
Sbjct: 17  HVFVGDLSPEITTEDIKAAFAP----------FGR-ISDARVVKDMATGKSKGYGFVSFF 65

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNA 140
           +  +   A+    G    G+ ++        P P  T  +
Sbjct: 66  NKWDAENAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYES 105

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 37.9 bits (89), Expect = 2e-04
 Identities = 14/85 (16%), Positives = 32/85 (37%), Gaps = 17/85 (20%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEFR 101
           +++VG +     E+++ E+F       G        V + ++ +D        F F+ F+
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGG----FG-------EVESIELPMDNKTNKRRGFCFITFK 49

Query: 102 SIDETTQAMAFDGINFKGQSLKIRR 126
             +   + M     N      +I+ 
Sbjct: 50  EEEPVKKIMEKKYHNVGLSKCEIKV 74

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A Length = 130

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 24/109 (22%), Positives = 40/109 (36%), Gaps = 16/109 (14%)

Query: 22  IPETTVAAAAAAAVPVVGSTITRQAR--RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQA 79
           +    +A AA+AA    G  +  Q+   R+ V N+ + VT D + + F++          
Sbjct: 2   VQSGNLALAASAAAVDAGMAMAGQSPVLRIIVENLFYPVTLDVLHQIFSKF--------- 52

Query: 80  AGNPVLACQINLDKN--FAFLEFRSIDETTQAM-AFDGINFKGQSLKIR 125
               VL        N   A L++        A  + DG N       +R
Sbjct: 53  --GTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR 99

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Length = 87

 Score = 37.5 bits (88), Expect = 3e-04
 Identities = 13/73 (17%), Positives = 31/73 (42%), Gaps = 17/73 (23%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFL 98
            A +++VG + +  ++ ++ ++F +           G  V+ C I +D N      F F+
Sbjct: 10  DAGKMFVGGLSWDTSKKDLKDYFTKF----------GE-VVDCTIKMDPNTGRSRGFGFI 58

Query: 99  EFRSIDETTQAMA 111
            F+      + + 
Sbjct: 59  LFKDAASVEKVLD 71

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 38.0 bits (89), Expect = 4e-04
 Identities = 13/96 (13%), Positives = 33/96 (34%), Gaps = 22/96 (22%)

Query: 30  AAAAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI 89
            ++ +  + GS       +++VG +P+  T+  + ++F             G+ +    +
Sbjct: 1   GSSGSSGMHGSQKDTTFTKIFVGGLPYHTTDASLRKYFEG----------FGD-IEEAVV 49

Query: 90  NLDKN------FAFLEFRSIDETTQAMA-----FDG 114
             D+       + F+         +A        DG
Sbjct: 50  ITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDG 85

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Length = 164

 Score = 38.5 bits (89), Expect = 5e-04
 Identities = 25/127 (19%), Positives = 48/127 (37%), Gaps = 14/127 (11%)

Query: 3   VNNEVLNTGAAGQIPANVIIPETTVAAAAAAAVPVVGSTITRQAR--RLYVGNIPFGVTE 60
           +++   +  A   + A   +    +A AA+AA    G  +  Q+   R+ V N+ + VT 
Sbjct: 1   MHHHHHHGSAQAALQAVNSVQSGNLALAASAAAVDAGMAMAGQSPVLRIIVENLFYPVTL 60

Query: 61  DEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNF-AFLEFRSIDETTQAM-AFDGINFK 118
           D + + F++           G  +       +  F A L++        A  + DG N  
Sbjct: 61  DVLHQIFSKF----------GTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIY 110

Query: 119 GQSLKIR 125
                +R
Sbjct: 111 NACCTLR 117

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 37.2 bits (86), Expect = 6e-04
 Identities = 25/128 (19%), Positives = 43/128 (33%), Gaps = 33/128 (25%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           GS+ +     + V  +P  V ++ +  +F +    SG     G PVL+ Q         L
Sbjct: 1   GSSGSSGGVAVEVRGLPPAVPDELLTLYF-ENRRRSG-----GGPVLSWQR--LGCGGVL 52

Query: 99  EFRSIDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPH 158
            FR   +  + +A       G  L +R                            P +P 
Sbjct: 53  TFREPADAERVLAQADHELHGAQLSLRP-------------------------APPRAPA 87

Query: 159 KIFIGGLP 166
           ++ + GLP
Sbjct: 88  RLLLQGLP 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	231
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.95
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.94
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.93
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.92
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.91
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.9
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.9
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.9
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.9
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.89
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.89
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.89
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.89
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.88
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.88
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.86
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.86
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.86
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.86
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.85
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.83
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.82
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.81
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.81
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.81
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.81
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.8
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.8
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.79
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.78
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.78
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.78
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.78
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.78
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.78
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.78
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.78
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.77
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.77
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.77
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.77
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.77
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.77
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.77
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.77
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.77
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.76
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.76
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.76
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.76
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.76
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.76
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.76
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.76
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.76
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.76
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.76
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.76
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.75
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.75
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.75
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.75
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.75
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.75
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.75
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.75
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.75
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.75
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.75
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.75
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.75
2div_A	99	TRNA selenocysteine associated protein; structural	99.75
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.75
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.75
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.75
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.74
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.74
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.74
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.74
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.74
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.74
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.74
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.74
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.74
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.74
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.74
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.74
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.74
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.74
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.74
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.74
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.73
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.73
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.73
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.73
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.73
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.73
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.73
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.73
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.73
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.73
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.73
1x5p_A	97	Negative elongation factor E; structure genomics,	99.73
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.73
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.73
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.73
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.72
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.72
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.72
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.72
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.72
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.72
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.72
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.72
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.72
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.72
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.72
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.72
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.72
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.72
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.72
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.71
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.71
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.71
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.71
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.71
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.71
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.71
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.71
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.71
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.7
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.7
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.7
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.7
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.7
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.7
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.7
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.7
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.7
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.7
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.7
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.69
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.69
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.69
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.69
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.69
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.69
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.69
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.69
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.69
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.69
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.69
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.69
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.68
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.68
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.68
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.68
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.67
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.67
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.67
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.67
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.67
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.66
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.66
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.66
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.66
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.47
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.65
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.65
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.64
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.64
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.63
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.63
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.62
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.62
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.61
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.61
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.61
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.59
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.58
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.57
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.56
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.56
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.56
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.55
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.54
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.54
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.54
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.52
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.51
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.5
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.49
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.49
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.48
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.47
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.47
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.46
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.46
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.36
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.33
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.33
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.33
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.26
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.25
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.23
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.22
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.08
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.07
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.94
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.67
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.65
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	98.62
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	98.55
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	98.46
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.34
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	98.3
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	98.24
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.21
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	98.2
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	98.2
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.2
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	98.19
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	98.18
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	98.17
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	98.17
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	98.16
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	98.16
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	98.15
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.14
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	98.14
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	98.14
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	98.14
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	98.13
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	98.13
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.13
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	98.13
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	98.13
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	98.12
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	98.12
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	98.12
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	98.11
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	98.11
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	98.1
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	98.1
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	98.1
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	98.09
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	98.09
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.09
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.08
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.08
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	98.07
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	98.07
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	98.06
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.06
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	98.05
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	98.05
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.05
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.05
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	98.05
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	98.05
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	98.04
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	98.04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	98.04
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	98.04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.03
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.02
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	98.01
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	98.01
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.01
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	98.0
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	98.0
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	98.0
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	98.0
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	98.0
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	97.99
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	97.99
2div_A	99	TRNA selenocysteine associated protein; structural	97.98
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	97.97
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	97.97
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	97.96
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	97.96
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	97.96
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	97.95
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	97.94
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	97.94
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	97.93
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	97.93
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	97.92
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	97.92
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	97.91
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	97.9
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	97.9
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	97.88
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	97.88
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	97.88
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	97.86
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	97.85
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	97.85
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	97.85
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	97.85
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	97.85
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	97.84
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	97.84
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	97.84
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.83
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	97.83
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.82
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	97.82
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	97.82
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	97.82
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	97.81
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	97.81
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	97.8
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	97.79
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	97.79
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	97.78
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	97.77
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	97.77
2dis_A	109	Unnamed protein product; structural genomics, RRM	97.76
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	97.76
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	97.74
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	97.74
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	97.73
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	97.73
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	97.72
1x4e_A	85	RNA binding motif, single-stranded interacting pro	97.72
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	97.71
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	97.7
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	97.68
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	97.67
1x5o_A	114	RNA binding motif, single-stranded interacting pro	97.67
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	97.66
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	97.65
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	97.65
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	97.63
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	97.6
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.59
1x5p_A	97	Negative elongation factor E; structure genomics,	97.56
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	97.55
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	97.55
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	97.54
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	97.53
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	97.52
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	97.51
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	97.46
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	97.44
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	97.44
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	97.43
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	97.42
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	97.41
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	97.39
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	97.37
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	96.45
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	97.33
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	97.3
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	97.27
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	97.27
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.25
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	97.25
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	97.25
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	97.25
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	97.22
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	97.05
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	97.03
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	96.99
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	96.86
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	96.85
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	96.81
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	96.79
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.73
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	96.64
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	96.48
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	96.03
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	95.87
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	95.85
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	95.63
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	95.41
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	95.32
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	95.16
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	93.14
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	92.5
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	92.36
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	91.11
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	90.83
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	90.36
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	89.9
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	89.54
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	83.16
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	82.59

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

Probab=99.95  E-value=9.8e-27  Score=186.89  Aligned_cols=155  Identities=82%  Similarity=1.276  Sum_probs=126.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      +.+++|||+|||+++|+++|+++|+.||.+.++...++..|.++++.+++|||||+|.+.++|.+||.|||..+.|+.|+
T Consensus         2 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al~l~g~~~~g~~i~   81 (198)
T 2yh0_A            2 AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLK   81 (198)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHGGGTTEEETTEEEE
T ss_pred             CceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHHHhcCCEEcCceEE
Confidence            46789999999999999999999999999888765666679999999999999999999999999999999999999999


Q ss_pred             EeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------------
Q psy2204         124 IRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------------  172 (231)
Q Consensus       124 V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------------  172 (231)
                      |.++..+..............+ +..........++|||+|||+.++++                               
T Consensus        82 v~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~af  160 (198)
T 2yh0_A           82 IRRPHDYQPLPGMSENPSVYVP-GVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAF  160 (198)
T ss_dssp             EECCCCCCCCCCSSSCSSCCCT-TSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEE
T ss_pred             EeCCCCCCCCCCCcCCCcCCCC-CCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEE
Confidence            9988776544332222111111 22223334566899999999999998                               


Q ss_pred             ----------HHHHHhCCCeeCCeEEEEEEeecCccc
Q psy2204         173 ----------QAIAGLNGMQLGDKKLIVQRASVGAKN  199 (231)
Q Consensus       173 ----------~Ai~~lnG~~i~gr~l~V~~a~~~~~~  199 (231)
                                +|+..|||..++|+.|+|++|.++.++
T Consensus       161 V~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~  197 (198)
T 2yh0_A          161 CEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKN  197 (198)
T ss_dssp             EEESSSSHHHHHHHHHTTCEETTEECEEEESCCCCCC
T ss_pred             EEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCCC
Confidence                      899999999999999999999876543

>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=99.94  E-value=6.1e-26  Score=178.34  Aligned_cols=130  Identities=82%  Similarity=1.277  Sum_probs=116.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      +++++|||+|||+++|+++|+++|++||.+.++...++..|.++++.+++|||||+|.+.++|.+|+.+||..+.|+.|+
T Consensus         2 r~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~   81 (172)
T 2g4b_A            2 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLK   81 (172)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHGGGTTCEETTEECE
T ss_pred             CcccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHHHhCCcEecCceee
Confidence            46789999999999999999999999998887665556679999999999999999999999999999999999999999


Q ss_pred             EeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------------
Q psy2204         124 IRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------------  172 (231)
Q Consensus       124 V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------------  172 (231)
                      |.++..+...                     ...++|||+|||.++|++                               
T Consensus        82 v~~~~~~~~~---------------------~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~af  140 (172)
T 2g4b_A           82 IRRPHDYQPL---------------------PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAF  140 (172)
T ss_dssp             EECCSSCCCC---------------------TTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEE
T ss_pred             ecCCcccCCC---------------------CCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEE
Confidence            9987654321                     125899999999999998                               


Q ss_pred             ----------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         173 ----------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       173 ----------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                                +|+..|||..++|+.|+|++|+
T Consensus       141 V~f~~~~~A~~A~~~l~g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          141 CEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  172 (172)
T ss_dssp             EEESSTTHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EEeCCHHHHHHHHHHcCCCEECCeEEEEEeCC
Confidence                      8999999999999999999985

>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=99.93  E-value=1e-24  Score=172.07  Aligned_cols=131  Identities=14%  Similarity=0.335  Sum_probs=115.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCc
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQ  120 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr  120 (231)
                      ...+..++|||+|||+++|+++|+++|+.||.+.++      .+.+....+++|||||+|.+.++|.+|++|||..+.|+
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~------~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~   81 (175)
T 1fje_B            8 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDL------AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGN   81 (175)
T ss_dssp             SSCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC------CCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTE
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceE------EEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCe
Confidence            345678999999999999999999999999988763      57888889999999999999999999999999999999


Q ss_pred             eEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------------
Q psy2204         121 SLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------------  172 (231)
Q Consensus       121 ~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------------  172 (231)
                      .|+|.++......                   .....++|||+|||+++|++                            
T Consensus        82 ~l~v~~~~~~~~~-------------------~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~  142 (175)
T 1fje_B           82 EIKLEKPKGRDSK-------------------KVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIE  142 (175)
T ss_dssp             EEEEECCCCSSCS-------------------TTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEECSSSSCCSEEEEE
T ss_pred             EEEEecCCCcccc-------------------ccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEecCCCCCceEEEEE
Confidence            9999988653211                   11234799999999999998                            


Q ss_pred             --------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 --------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 --------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                              +|+..|||..|.|+.|+|++|.++
T Consensus       143 f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~k  174 (175)
T 1fje_B          143 FKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK  174 (175)
T ss_dssp             CSSHHHHHHHHHHHTEEEETTEEEEEEECSSC
T ss_pred             ECCHHHHHHHHHHhCCCEECCeEEEEEecCCC
Confidence                    999999999999999999999754

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

Probab=99.92  E-value=7.8e-25  Score=179.08  Aligned_cols=124  Identities=25%  Similarity=0.399  Sum_probs=105.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .+.++|||||||+++|+++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|| .+|+..
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G-----------~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~   81 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAG-----------PILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDV   81 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhC-----------CEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhh
Confidence            4567999999999999999999999999           677776654      4689999999999999999 999999


Q ss_pred             ecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------------------------
Q psy2204         117 FKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------------------------  172 (231)
Q Consensus       117 l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------------------------  172 (231)
                      +.|+.|++.++......                   .....++|||+|||+++|++                        
T Consensus        82 ~~g~~i~~~~~~~~~~~-------------------~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~  142 (213)
T 4f02_A           82 IKGKPVRIMWSQRDPSL-------------------RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS  142 (213)
T ss_dssp             ETTEECEEEECCCCTHH-------------------HHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEE
T ss_pred             cCCcccccccccccccc-------------------cccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCC
Confidence            99999999876532211                   01124689999999999999                        


Q ss_pred             ---------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         173 ---------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 ---------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                                     +|++.|||+.|+|+.|+|++|.++.
T Consensus       143 ~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~~~  182 (213)
T 4f02_A          143 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK  182 (213)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCHH
T ss_pred             ceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCCCc
Confidence                           8999999999999999999998653

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

Probab=99.91  E-value=1.2e-23  Score=163.81  Aligned_cols=118  Identities=25%  Similarity=0.522  Sum_probs=103.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      |+|||+|||+++|+++|+++|++||           .|.++++.+     ++|||||+|.+.++|.+|+ .+||..+.|+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~   69 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGG-----------PIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENN   69 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGS-----------CEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCC
Confidence            6999999999999999999999999           677776643     4699999999999999999 9999999999


Q ss_pred             eEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH----------------------------
Q psy2204         121 SLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED----------------------------  172 (231)
Q Consensus       121 ~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee----------------------------  172 (231)
                      .|.|.++......                   .....++|||+|||.++|++                            
T Consensus        70 ~i~v~~~~~~~~~-------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g  130 (166)
T 3md3_A           70 IVKINWAFQSQQS-------------------SSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRG  130 (166)
T ss_dssp             ECEEEECCCCCCC-------------------CCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEE
T ss_pred             eeEEEEcCCCCCC-------------------CCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcce
Confidence            9999987643321                   12235789999999999998                            


Q ss_pred             -------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         173 -------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       173 -------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                                   +|+..|||..++|+.|+|+||.
T Consensus       131 ~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A          131 YGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA  165 (166)
T ss_dssp             EEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             EEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEecC
Confidence                         8999999999999999999986

>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=99.90  E-value=3.9e-23  Score=165.54  Aligned_cols=132  Identities=18%  Similarity=0.351  Sum_probs=102.8

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFD  113 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~ln  113 (231)
                      +......++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+||.++
T Consensus         7 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~   75 (196)
T 1l3k_A            7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWG-----------TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR   75 (196)
T ss_dssp             -CCCGGGGEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcC
Confidence            34456788999999999999999999999999           677766644      3689999999999999999779


Q ss_pred             CCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH---------------------
Q psy2204         114 GINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED---------------------  172 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee---------------------  172 (231)
                      +..+.|+.|.|.++........               .......++|||+|||+++|++                     
T Consensus        76 ~~~~~g~~l~v~~~~~~~~~~~---------------~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~  140 (196)
T 1l3k_A           76 PHKVDGRVVEPKRAVSREDSQR---------------PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDR  140 (196)
T ss_dssp             SCEETTEECEEEECCC--------------------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECT
T ss_pred             CCEECCEEeeeecccCcccccc---------------cccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecC
Confidence            9999999999998764432210               0112234799999999999998                     


Q ss_pred             --------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 --------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 --------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                          +|+.. +|..|+|+.|+|++|.+...
T Consensus       141 ~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~k~~  185 (196)
T 1l3k_A          141 GSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALSKQE  185 (196)
T ss_dssp             TTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC----
T ss_pred             CCCCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCChhH
Confidence                                66665 89999999999999986643

>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=99.90  E-value=6.9e-23  Score=160.07  Aligned_cols=117  Identities=24%  Similarity=0.445  Sum_probs=102.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ++++|||+|||+++++++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|+ .+||..+
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~   70 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIG-----------PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITV   70 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEe
Confidence            468999999999999999999999999           677766643      3689999999999999999 8999999


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                      .|+.|.|.++.+...                     ....++|||+|||.+++++                         
T Consensus        71 ~g~~l~v~~~~~~~~---------------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~  129 (168)
T 1b7f_A           71 RNKRLKVSYARPGGE---------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGR  129 (168)
T ss_dssp             TTEECEEEECCCCSS---------------------TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCC
T ss_pred             CCcEEEEEecCCCcc---------------------cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCC
Confidence            999999998764321                     1234789999999999998                         


Q ss_pred             ----------------HHHHHhCCCeeCC--eEEEEEEe
Q psy2204         173 ----------------QAIAGLNGMQLGD--KKLIVQRA  193 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~g--r~l~V~~a  193 (231)
                                      +|+..|||..+.|  +.|+|++|
T Consensus       130 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          130 PRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence                            8999999999987  99999986

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.90  E-value=2.5e-22  Score=165.86  Aligned_cols=142  Identities=18%  Similarity=0.243  Sum_probs=110.2

Q ss_pred             CCCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          44 RQARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ..+++|||+|||+ ++++++|+++|+.||           .|.++++.++ +|||||+|.+.++|.+|+ .|||..+.|+
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~G-----------~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~  100 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVYG-----------DVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGK  100 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHHT-----------CEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSS
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhCC-----------CeEEEEEEECCCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            4678999999999 999999999999999           8999988877 599999999999999999 8999999999


Q ss_pred             eEEEeCCCCCCCCCCCCCCC------------cccC--CCCcccCcCCCCCCcEEEcCCCCCCCHH--------------
Q psy2204         121 SLKIRRPHDYQPTPGVTDNA------------AVAV--PAGVISTVVPDSPHKIFIGGLPNYLNED--------------  172 (231)
Q Consensus       121 ~i~V~~~~~~~~~~~~~~~~------------~~~~--~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------  172 (231)
                      .|+|.+++............            ....  .............++|||+|||.+++++              
T Consensus       101 ~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~  180 (229)
T 2adc_A          101 PIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVK  180 (229)
T ss_dssp             BCEEECCSCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEE
T ss_pred             EEEEEEecCccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCee
Confidence            99999876442111000000            0000  0000011112345899999999999998              


Q ss_pred             -----------------------HHHHHhCCCeeC-CeEEEEEEeecC
Q psy2204         173 -----------------------QAIAGLNGMQLG-DKKLIVQRASVG  196 (231)
Q Consensus       173 -----------------------~Ai~~lnG~~i~-gr~l~V~~a~~~  196 (231)
                                             +|+..|||..+. |+.|+|+|+.+.
T Consensus       181 ~v~i~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~~  228 (229)
T 2adc_A          181 GFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  228 (229)
T ss_dssp             EEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSSC
T ss_pred             EEEEEECCCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecCC
Confidence                                   899999999999 999999999753

>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=99.90  E-value=5.7e-23  Score=160.05  Aligned_cols=117  Identities=20%  Similarity=0.458  Sum_probs=101.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ++++|||+|||+++++++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..+
T Consensus         1 s~~~l~v~nlp~~~~~~~l~~~f~~~G-----------~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~   69 (167)
T 1fxl_A            1 SKTNLIVNYLPQNMTQEEFRSLFGSIG-----------EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRL   69 (167)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            368999999999999999999999999           6777777554      499999999999999999 8999999


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                      .|+.|+|.++.+...                     ....++|||+|||..++++                         
T Consensus        70 ~g~~l~v~~~~~~~~---------------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~  128 (167)
T 1fxl_A           70 QTKTIKVSYARPSSA---------------------SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV  128 (167)
T ss_dssp             TTEECEEEECCCCCG---------------------GGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC
T ss_pred             CCceEEEEecCCCcc---------------------cCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCC
Confidence            999999998764321                     1234789999999999998                         


Q ss_pred             ----------------HHHHHhCCCeeCCeE--EEEEEe
Q psy2204         173 ----------------QAIAGLNGMQLGDKK--LIVQRA  193 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~gr~--l~V~~a  193 (231)
                                      +|++.|||..+.|+.  |+|+||
T Consensus       129 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          129 SRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             ccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence                            889999999999965  888876

>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=99.89  E-value=1.7e-23  Score=155.38  Aligned_cols=103  Identities=12%  Similarity=0.307  Sum_probs=67.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      +.+|||+|||+++|+++|+++|++||           .|.++++.++    ||||||+|.+.++|.+|| .|||..|.||
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G-----------~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~   73 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFG-----------NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR   73 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccC-----------CEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45899999999999999999999999           6777776543    689999999999999999 9999999999


Q ss_pred             eEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH
Q psy2204         121 SLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED  172 (231)
Q Consensus       121 ~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee  172 (231)
                      .|+|.+++.........             .......++|||+|||+++|++
T Consensus        74 ~i~V~~a~~~~~~~~~~-------------~~~~~~~~~lyv~Nl~~~~T~~  112 (115)
T 4f25_A           74 KVFVGRFKSRKEREAEL-------------GARAKEFTNVYIKNFGPGSTRA  112 (115)
T ss_dssp             ECEEEESSCCCC----------------------------------------
T ss_pred             EEEEEECCCcccccccc-------------ccccCCCCceEeCCCCCCcccc
Confidence            99999876543221110             0112234679999999999986

>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=99.89  E-value=4e-22  Score=168.92  Aligned_cols=79  Identities=22%  Similarity=0.414  Sum_probs=69.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHH----HHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMM----EFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~----~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ...+.+++|||+|||+++|+++|+    ++|+.||           .|.++++.   +.||||||+|.+.++|.+|+ .|
T Consensus         4 ~~~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G-----------~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~~~l   72 (282)
T 3pgw_A            4 PETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFG-----------QILDILVSRSLKMRGQAFVIFKEVSSATNALRSM   72 (282)
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccC-----------CeEEEEEcCCCCcceEEEEEECCHHHHHHHHHHh
Confidence            445778999999999999999976    8999999           66666654   46899999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~  130 (231)
                      ||..|.|+.|+|.+++..
T Consensus        73 ~g~~~~g~~l~v~~a~~~   90 (282)
T 3pgw_A           73 QGFPFYDKPMRIQYAKTD   90 (282)
T ss_pred             cCCeeCCcEEEEEEeccC
Confidence            999999999999977543

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.89  E-value=2.6e-22  Score=163.61  Aligned_cols=138  Identities=13%  Similarity=0.136  Sum_probs=102.4

Q ss_pred             CCCeEEEcCCC-CCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          45 QARRLYVGNIP-FGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp-~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ++++|||+||+ +.+|+++|+++|+.||           .|.++++.++ ||||||+|.+.++|.+|| .|||..|.|+.
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G-----------~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~   71 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYG-----------NVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQK   71 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTS-----------CEEEEEECTTSTTCEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcC-----------CeEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCEECCce
Confidence            46799999999 8999999999999999           8999988775 799999999999999999 99999999999


Q ss_pred             EEEeCCCCCCCCCCC----CCCCc----------ccCCCC--cccCcCCCCCCcEEEcCCCCCCCHH-------------
Q psy2204         122 LKIRRPHDYQPTPGV----TDNAA----------VAVPAG--VISTVVPDSPHKIFIGGLPNYLNED-------------  172 (231)
Q Consensus       122 i~V~~~~~~~~~~~~----~~~~~----------~~~~~~--~~~~~~~~~~~~ifV~nLp~~~tee-------------  172 (231)
                      |+|.+++.....+..    .....          ......  ..........++|||+|||+++|++             
T Consensus        72 l~v~~s~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~  151 (205)
T 3tyt_A           72 MNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKR  151 (205)
T ss_dssp             CEEEECSCSCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCC
T ss_pred             EEEEEccCCccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcc
Confidence            999987643211110    00000          000000  0000112335789999999999998             


Q ss_pred             ----------------------------HHHHHhCCCeeCCe----EEEEEEe
Q psy2204         173 ----------------------------QAIAGLNGMQLGDK----KLIVQRA  193 (231)
Q Consensus       173 ----------------------------~Ai~~lnG~~i~gr----~l~V~~a  193 (231)
                                                  +||..|||++|.|+    .+.|++|
T Consensus       152 ~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          152 PTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             CSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             eEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence                                        78888888888775    5666664

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

Probab=99.89  E-value=3.3e-22  Score=162.42  Aligned_cols=131  Identities=22%  Similarity=0.411  Sum_probs=106.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .+++|||+|||+++|+++|+++|+.||           .|.++++.+      .+|||||+|.+.++|.+|+ .||+..+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~   95 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFG-----------PIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVML   95 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCC-----------CEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCee
Confidence            467999999999999999999999999           677776643      5799999999999999999 7999999


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                      .|+.|+|.++.........          ...........++|||+|||.++|++                         
T Consensus        96 ~g~~l~v~~~~~~~~~~~~----------~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~  165 (216)
T 2qfj_A           96 GGRNIKVGRPSNIGQAQPI----------IDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGK  165 (216)
T ss_dssp             C-CCCEEECCSCCGGGHHH----------HHHHHHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCC
T ss_pred             CCeeEEEecCCCccccchh----------hhhhhcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCC
Confidence            9999999877643211000          00000012345899999999999998                         


Q ss_pred             ----------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ----------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                      +|+..|||..|+|+.|+|+++...
T Consensus       166 ~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~~  205 (216)
T 2qfj_A          166 HKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTP  205 (216)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSSC
T ss_pred             cCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecCC
Confidence                            899999999999999999999865

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.88  E-value=5.5e-22  Score=159.59  Aligned_cols=141  Identities=17%  Similarity=0.227  Sum_probs=108.4

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          45 QARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      .+++|||+|||+ ++++++|+++|+.||           .|.++++.++ +|||||+|.+.++|.+|+ .|||..+.|+.
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~G-----------~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~   70 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVYG-----------DVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKP   70 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTC-----------CCSEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeE
Confidence            368999999999 999999999999999           7888888776 599999999999999999 89999999999


Q ss_pred             EEEeCCCCCCCCCCCCCCC------------cccCC--CCcccCcCCCCCCcEEEcCCCCCCCHH---------------
Q psy2204         122 LKIRRPHDYQPTPGVTDNA------------AVAVP--AGVISTVVPDSPHKIFIGGLPNYLNED---------------  172 (231)
Q Consensus       122 i~V~~~~~~~~~~~~~~~~------------~~~~~--~~~~~~~~~~~~~~ifV~nLp~~~tee---------------  172 (231)
                      |+|.+++............            .....  ............++|||+|||..++++               
T Consensus        71 l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~  150 (198)
T 1qm9_A           71 IRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG  150 (198)
T ss_dssp             CEEEECCCCSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCE
T ss_pred             EEEEEecCCCcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceE
Confidence            9999776432111000000            00000  000001112346899999999999998               


Q ss_pred             ----------------------HHHHHhCCCeeC-CeEEEEEEeecC
Q psy2204         173 ----------------------QAIAGLNGMQLG-DKKLIVQRASVG  196 (231)
Q Consensus       173 ----------------------~Ai~~lnG~~i~-gr~l~V~~a~~~  196 (231)
                                            +|+..|||..++ |+.|+|+|+.+.
T Consensus       151 v~i~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~  197 (198)
T 1qm9_A          151 FKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  197 (198)
T ss_dssp             EEESSTTSSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECCC
T ss_pred             EEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeeccc
Confidence                                  899999999999 999999999753

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.88  E-value=1.5e-22  Score=158.97  Aligned_cols=119  Identities=20%  Similarity=0.349  Sum_probs=98.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec--------CCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN--------LDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~--------~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ++++|||+|||+++|+++|+++|++||           .|.++++.        +++|||||+|.+.++|.+|+ .||+.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~   70 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYG-----------AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNM   70 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTT
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCc
Confidence            568999999999999999999999999           66666664        45799999999999999999 99998


Q ss_pred             eec---CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------
Q psy2204         116 NFK---GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------  172 (231)
Q Consensus       116 ~l~---gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------  172 (231)
                      .+.   ++.+.+.++......                    ....++|||+|||+++|++                    
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~  130 (175)
T 3nmr_A           71 KVLPGMHHPIQMKPADSEKNN--------------------AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRG  130 (175)
T ss_dssp             CCCTTCSSCCEEEECGGGCCS--------------------CGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             EEccCCccceEEccccccccc--------------------cCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEEC
Confidence            876   567777765432211                    1234789999999999998                    


Q ss_pred             --------------------HHHHHhCCCeeC---CeEEEEEEee
Q psy2204         173 --------------------QAIAGLNGMQLG---DKKLIVQRAS  194 (231)
Q Consensus       173 --------------------~Ai~~lnG~~i~---gr~l~V~~a~  194 (231)
                                          +|+..|||..+.   ++.|+|+||.
T Consensus       131 ~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          131 PDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD  175 (175)
T ss_dssp             TTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEECC
T ss_pred             CCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEecC
Confidence                                899999998876   3999999974

>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=99.86  E-value=2.8e-21  Score=163.88  Aligned_cols=115  Identities=22%  Similarity=0.401  Sum_probs=104.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      +.+++|||+|||+++|+++|+++|+.||            |.++++.+++|||||+|.+.++|.+|+ .|||..+.|+.|
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G------------i~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i   87 (284)
T 3smz_A           20 RNRRKILIRGLPGDVTNQEVHDLLSDYE------------LKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSRLREREL   87 (284)
T ss_dssp             HCCCEEEEECCCTTCCHHHHHHHTTTSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC------------CEEEEEecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEE
Confidence            4678999999999999999999999997            677777899999999999999999999 999999999999


Q ss_pred             EEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------------------------------
Q psy2204         123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------------------------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------------------------------  172 (231)
                      .|.+..                           ..++|||+|||+++|++                              
T Consensus        88 ~v~~~~---------------------------~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~a  140 (284)
T 3smz_A           88 SVQLQP---------------------------TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYG  140 (284)
T ss_dssp             EEEECC---------------------------CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEE
T ss_pred             EEEecC---------------------------CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEE
Confidence            998642                           12689999999999998                              


Q ss_pred             -----------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         173 -----------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 -----------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                                 +|+..|||..+.|+.|+|.++....
T Consensus       141 fV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~  176 (284)
T 3smz_A          141 FAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQ  176 (284)
T ss_dssp             EEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGG
T ss_pred             EEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCC
Confidence                       8899999999999999999998654

>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=99.86  E-value=1.8e-22  Score=157.64  Aligned_cols=119  Identities=20%  Similarity=0.408  Sum_probs=99.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      +++++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|+. ++..+
T Consensus         1 k~~~~l~v~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~   68 (167)
T 2cjk_A            1 KESCKMFIGGLNWDTTEDNLREYFGKYG-----------TVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK-TQHIL   68 (167)
T ss_dssp             CGGGEEEECSCCTTCCHHHHHHHHTTTC-----------CEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHH-SCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEEECCCCCCccceEEEEEccHHHHHHHHh-ccccc
Confidence            3578999999999999999999999999           677776654      46999999999999999995 36789


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-------------------------  172 (231)
                      .|+.|.|.++.....                     ....++|||+|||+++|++                         
T Consensus        69 ~g~~i~v~~~~~~~~---------------------~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~  127 (167)
T 2cjk_A           69 DGKVIDPKRAIPRDE---------------------QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQ  127 (167)
T ss_dssp             TTEECCCEECCCHHH---------------------HHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSST
T ss_pred             CCeEcccccccchhh---------------------ccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCc
Confidence            999998887653210                     1124689999999999998                         


Q ss_pred             ----------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ----------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                      +|++ +||..++|+.|+|++|.++
T Consensus       128 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~pk  166 (167)
T 2cjk_A          128 SRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAEPR  166 (167)
T ss_dssp             TSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECCCC
T ss_pred             cceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecCCC
Confidence                            6776 8999999999999999864

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

Probab=99.86  E-value=3e-21  Score=162.45  Aligned_cols=119  Identities=24%  Similarity=0.361  Sum_probs=105.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .......++|||+|||+++|+++|+++|+.||           .|.++++.+++|||||+|.+.++|.+|+ .+||..+.
T Consensus        16 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~   84 (261)
T 3sde_A           16 EKTYTQRCRLFVGNLPTDITEEDFKRLFERYG-----------EPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILK   84 (261)
T ss_dssp             CCSSCGGGEEEEESCCTTCCHHHHHHHTGGGC-----------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CEEEEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEEC
Confidence            34445678999999999999999999999999           8899999999999999999999999999 89999999


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------  172 (231)
                      |+.|.|.++.+                           .++|||+|||+.+|++                          
T Consensus        85 g~~l~v~~a~~---------------------------~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~  137 (261)
T 3sde_A           85 SRPLRIRFATH---------------------------GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRAT  137 (261)
T ss_dssp             TEECEEEECCC---------------------------SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEE
T ss_pred             CceeEeeeccc---------------------------CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcC
Confidence            99999997652                           3689999999999998                          


Q ss_pred             --------------HHHHHhC-CCeeC---CeEEEEEEeecC
Q psy2204         173 --------------QAIAGLN-GMQLG---DKKLIVQRASVG  196 (231)
Q Consensus       173 --------------~Ai~~ln-G~~i~---gr~l~V~~a~~~  196 (231)
                                    +|+..|| |..+.   +|.|+|.++...
T Consensus       138 g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          138 GKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             EEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCCE
T ss_pred             cEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecccc
Confidence                          8999995 55555   999999999754

>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=99.86  E-value=2e-21  Score=164.76  Aligned_cols=125  Identities=22%  Similarity=0.309  Sum_probs=105.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||..+
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~  162 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFG-----------SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPL  162 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcC-----------CeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEe
Confidence            457999999999999999999999999           666665543      3689999999999999999 9999999


Q ss_pred             cCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCC-CHH------------------------
Q psy2204         118 KGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYL-NED------------------------  172 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~-tee------------------------  172 (231)
                      .|+.|.|.++.......                  .....++|||+|||.++ |++                        
T Consensus       163 ~g~~i~v~~a~~~~~~~------------------~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~  224 (284)
T 3smz_A          163 GPRTLYVHWTDAGQLTP------------------ALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQ  224 (284)
T ss_dssp             TTEECEEEECCGGGCCT------------------TTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCC
T ss_pred             CCcEEEEEECCCCCCCc------------------ccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCC
Confidence            99999999876432110                  11235789999999995 766                        


Q ss_pred             ----------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 ----------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ----------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                      +|+..|||..++|+.|+|+++.+...
T Consensus       225 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~  266 (284)
T 3smz_A          225 LKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPP  266 (284)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCSSSC
T ss_pred             cccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecCCCc
Confidence                            89999999999999999999987644

>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=99.85  E-value=4e-21  Score=163.54  Aligned_cols=120  Identities=16%  Similarity=0.291  Sum_probs=102.5

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----CCcEEEEEecCHHHHHHHHHhCCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----DKNFAFLEFRSIDETTQAMAFDGI  115 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----~kg~aFV~F~~~~~a~~Al~lng~  115 (231)
                      ....+.+++|||+|||+++|+++|+++|+.||           .|.++++.+    ++|||||+|.+.++|.+|+++||.
T Consensus        35 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~~~~~  103 (292)
T 2ghp_A           35 LTRNRELTTVLVKNLPKSYNQNKVYKYFKHCG-----------PIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHK  103 (292)
T ss_dssp             -------CEEEEEEECTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTC
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCcEEEEEEECCHHHHHHHHHhCCc
Confidence            34556789999999999999999999999999           788887766    479999999999999999999999


Q ss_pred             eecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH-----------------------
Q psy2204         116 NFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED-----------------------  172 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee-----------------------  172 (231)
                      .+.|+.|.|.+..                            .++|||+|||++++++                       
T Consensus       104 ~~~g~~i~v~~~~----------------------------~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~  155 (292)
T 2ghp_A          104 VVGQNEIIVSHLT----------------------------ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF  155 (292)
T ss_dssp             EETTEECEEEECC----------------------------SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC----
T ss_pred             EeCCcEEEEEECC----------------------------CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCC
Confidence            9999999998642                            3789999999999988                       


Q ss_pred             ------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 ------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                        +|+..|||..+.|+.|+|+++.+...
T Consensus       156 ~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  199 (292)
T 2ghp_A          156 NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEK  199 (292)
T ss_dssp             ---CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC--
T ss_pred             CCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCcc
Confidence                              88899999999999999999986543

>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=99.83  E-value=2e-20  Score=159.15  Aligned_cols=131  Identities=17%  Similarity=0.328  Sum_probs=101.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhh-hhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQM-HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G-~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ..++|||+|||+++++++|+++|+.|| .|..+.      +......+++|||||+|.+.++|.+|+ .|||..+.|+.|
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~------i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l  189 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIR------LPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTL  189 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEE------CC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEE------EEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            578999999999999999999999999 655442      222222456899999999999999999 799999999999


Q ss_pred             EEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCC-CCHH-----------------------------
Q psy2204         123 KIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNY-LNED-----------------------------  172 (231)
Q Consensus       123 ~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~-~tee-----------------------------  172 (231)
                      .|.++.+.......              .......++|||+|||++ +|++                             
T Consensus       190 ~v~~a~~~~~~~~~--------------~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g  255 (292)
T 2ghp_A          190 VTKVSNPLEKSKRT--------------DSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNC  255 (292)
T ss_dssp             EEEECCCC-----------------------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCE
T ss_pred             EEEECCCCcccccc--------------cccCCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCce
Confidence            99987644322110              011234589999999999 9988                             


Q ss_pred             -------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 -------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 -------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                   +|+ .|||..|+|+.|+|++|.++
T Consensus       256 ~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~~a~~k  291 (292)
T 2ghp_A          256 CAFMVFENKDSAERAL-QMNRSLLGNREISVSLADKK  291 (292)
T ss_dssp             EEEEEESSHHHHHHHG-GGTTEEETTEEEEEEECCCC
T ss_pred             EEEEEeCCHHHHHHHH-HhcCCEECCcEEEEEEecCC
Confidence                         788 99999999999999999854

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.82  E-value=3.7e-20  Score=133.73  Aligned_cols=98  Identities=21%  Similarity=0.353  Sum_probs=79.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      ++|||+|||+++|+++|+++|++||           .|.++++.++ +|||||+|.+.++|.+|+ .|||..+.|+.|+|
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   69 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYG-----------PLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRV   69 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHC-----------CCSEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEE
Confidence            4899999999999999999999999           7888888775 999999999999999999 89999999999999


Q ss_pred             eCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCC
Q psy2204         125 RRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLP  166 (231)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp  166 (231)
                      .+++..........           ........++|||+||+
T Consensus        70 ~~a~~~~~~~~~~~-----------~~~~~~~~~~ifvg~L~  100 (101)
T 2hvz_A           70 ELSTGMPRRSRFDR-----------PPARRKLLEVLFNGPLE  100 (101)
T ss_dssp             EESSSCCCSSCCCS-----------CCCSCCCCSCCCSCCCC
T ss_pred             EEccCCCCcccCCC-----------CCccccCCCceecCCCC
Confidence            98876542211111           00112345789999996

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.81  E-value=1.4e-19  Score=131.87  Aligned_cols=79  Identities=19%  Similarity=0.238  Sum_probs=71.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC--CCeec
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD--GINFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln--g~~l~  118 (231)
                      +...+++|||+|||+++|+++|+++|++||           .|.++++.++||||||+|++.++|.+|+ .++  +..|.
T Consensus        12 ~~~~~~~LfV~nLp~~vte~dL~~lF~~fG-----------~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~   80 (105)
T 1sjq_A           12 SGVPSRVIHIRKLPIDVTEGEVISLGLPFG-----------KVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLR   80 (105)
T ss_dssp             CCCCCCEEEECSCCTTSCHHHHHHHHHHHC-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEET
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            345678999999999999999999999999           8999999999999999999999999999 776  47999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      ||+|+|.+++...
T Consensus        81 Gr~l~V~~A~~~~   93 (105)
T 1sjq_A           81 GQPIYIQFSNHKE   93 (105)
T ss_dssp             TEECCBCCCSSSS
T ss_pred             CEEEEEEEcCCCC
Confidence            9999999887543

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

Probab=99.81  E-value=1.5e-19  Score=130.49  Aligned_cols=75  Identities=20%  Similarity=0.435  Sum_probs=70.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ...++|||+|||+++++++|+++|++||           .|.++++.+++|||||+|.+.++|.+|+ .|||..+.|+.|
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G-----------~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   93 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFG-----------FILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNL   93 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTS-----------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCC-----------CEEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            4568999999999999999999999999           7888889899999999999999999999 999999999999


Q ss_pred             EEeCCCC
Q psy2204         123 KIRRPHD  129 (231)
Q Consensus       123 ~V~~~~~  129 (231)
                      +|.++++
T Consensus        94 ~V~~a~~  100 (101)
T 2la4_A           94 RTGWGKE  100 (101)
T ss_dssp             CCCBCCC
T ss_pred             EEEeccC
Confidence            9998764

>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=99.81  E-value=1.6e-19  Score=126.63  Aligned_cols=85  Identities=80%  Similarity=1.222  Sum_probs=76.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      .++.++|||+|||+++++++|+++|++||.+.++...++..|.++++.++||||||+|.+.++|.+|+.|||..+.|+.|
T Consensus         3 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~kg~afV~f~~~~~a~~A~~l~g~~~~g~~l   82 (87)
T 2hzc_A            3 LGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSL   82 (87)
T ss_dssp             SGGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSSSEEEEEESSHHHHHHHGGGTTCEETTEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCCcEEEEEcCCHHHHHHHHhcCCCEECCeEE
Confidence            45678999999999999999999999997666555455567999999999999999999999999999999999999999


Q ss_pred             EEeCC
Q psy2204         123 KIRRP  127 (231)
Q Consensus       123 ~V~~~  127 (231)
                      +|+++
T Consensus        83 ~V~rp   87 (87)
T 2hzc_A           83 KIRRP   87 (87)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            99864

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.81  E-value=2.3e-19  Score=125.88  Aligned_cols=73  Identities=14%  Similarity=0.266  Sum_probs=69.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      .+..||||||++.+||++|+++|.+||           +|.++++..+||||||+|.+.++|.+|+ .||+..+.||+|+
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G-----------~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~   74 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHG-----------PLVSFHPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIF   74 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhC-----------CEEEEEEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEE
Confidence            466899999999999999999999999           8999999999999999999999999999 9999999999999


Q ss_pred             EeCCC
Q psy2204         124 IRRPH  128 (231)
Q Consensus       124 V~~~~  128 (231)
                      |+.+.
T Consensus        75 V~~A~   79 (89)
T 2wbr_A           75 AESPS   79 (89)
T ss_dssp             EECCC
T ss_pred             EEECC
Confidence            99874

>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=99.80  E-value=1.2e-19  Score=131.03  Aligned_cols=77  Identities=17%  Similarity=0.404  Sum_probs=67.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ..-+..+|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|+ .|||
T Consensus        15 ~~~~gt~lfV~nLp~~~te~~L~~~F~~~G-----------~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng   83 (99)
T 4fxv_A           15 LYFQGTNLIVNYLPQNMTQDELRSLFSSIG-----------EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG   83 (99)
T ss_dssp             -CCCCSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCC
Confidence            344567999999999999999999999999           66666664      34689999999999999999 9999


Q ss_pred             CeecCceEEEeCCCC
Q psy2204         115 INFKGQSLKIRRPHD  129 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~  129 (231)
                      ..|.||+|+|.++++
T Consensus        84 ~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           84 LRLQSKTIKVSYARP   98 (99)
T ss_dssp             CEETTEECEEEECCB
T ss_pred             CEECCEEEEEEEeeC
Confidence            999999999998763

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.80  E-value=1.8e-19  Score=130.16  Aligned_cols=79  Identities=15%  Similarity=0.165  Sum_probs=71.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCe--e
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGIN--F  117 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~--l  117 (231)
                      ....++++|||+|||+++|+++|+++|++||           .|.++++.++||||||+|++.++|.+|+ .||+..  +
T Consensus        16 ~~~~ps~~l~V~NLp~~~te~~L~~lF~~fG-----------~V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i   84 (100)
T 3r27_A           16 HKTPASPVVHIRGLIDGVVEADLVEALQEFG-----------PISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYI   84 (100)
T ss_dssp             -CCCCCSEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEE
T ss_pred             ccCCCCcEEEEeCCCCCCCHHHHHHHHhccC-----------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCcee
Confidence            3445788999999999999999999999999           8999999999999999999999999999 999876  7


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .||+|+|.+++.+
T Consensus        85 ~Gr~i~V~~S~~k   97 (100)
T 3r27_A           85 AGHPAFVNYSTSQ   97 (100)
T ss_dssp             TTEEEEEEECSCS
T ss_pred             CCcEEEEEecccc
Confidence            8999999988743

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.79  E-value=3.1e-19  Score=126.89  Aligned_cols=81  Identities=19%  Similarity=0.290  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhh-hhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh-CCCeecCceE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQM-HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF-DGINFKGQSL  122 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G-~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l-ng~~l~gr~i  122 (231)
                      +++|||+|||+++|+++|+++|++|| .|.++.     .+.+....++||||||+|.+.++|.+|| .+ ++..+.||+|
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~-----i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i   75 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVR-----LMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKV   75 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCC-----SSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEE-----EEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEE
Confidence            57999999999999999999999999 454442     2233344566899999999999999999 66 5678999999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.++.+..
T Consensus        76 ~V~~a~~~~   84 (91)
T 2lxi_A           76 SMHYSDPKP   84 (91)
T ss_dssp             EEECCCSCC
T ss_pred             EEEEcCCCC
Confidence            999887543

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.78  E-value=1.8e-19  Score=129.26  Aligned_cols=86  Identities=15%  Similarity=0.297  Sum_probs=69.8

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhh--hhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHL--SGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~--~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      +.......++|||+|||+++|+++|+++|++||.+  .++.     .+.+....++||||||+|.+.++|.+|| .|||.
T Consensus         2 g~~~~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~-----i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~   76 (95)
T 2lkz_A            2 GHHHHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIR-----LIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSL   76 (95)
T ss_dssp             CCCSSCCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEE-----CCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSS
T ss_pred             CcccCCccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEE-----EEecCCCCCCceEeEEEECCHHHHHHHHHHhcCC
Confidence            45566778999999999999999999999999942  2221     1223334566899999999999999999 99997


Q ss_pred             ----eecCceEEEeCCCC
Q psy2204         116 ----NFKGQSLKIRRPHD  129 (231)
Q Consensus       116 ----~l~gr~i~V~~~~~  129 (231)
                          .++||+|.|.+++.
T Consensus        77 ~~~~~i~Gr~i~V~~Aks   94 (95)
T 2lkz_A           77 HPPLKIDGKTIGVDFAKS   94 (95)
T ss_dssp             SSCEEETTEEEEEEECCC
T ss_pred             CCCceECCEEEEEEEccC
Confidence                58999999998864

>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=99.78  E-value=2.3e-19  Score=130.34  Aligned_cols=78  Identities=12%  Similarity=0.177  Sum_probs=71.2

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC--eec
Q psy2204          43 TRQARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI--NFK  118 (231)
Q Consensus        43 ~~~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~--~l~  118 (231)
                      ..++++|||+|||+ ++|+++|+++|++||           .|.++++.++||||||+|++.++|.+|+ .||+.  .|.
T Consensus        12 ~~p~~~l~V~nLp~~~~te~dL~~lF~~fG-----------~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~   80 (102)
T 1x4d_A           12 VETRRVVHIMDFQRGKNLRYQLLQLVEPFG-----------VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVF   80 (102)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGS-----------CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCCEEEEeCCCCCcCCHHHHHHHHHhcC-----------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceEC
Confidence            44688999999999 999999999999999           8999999999999999999999999999 88864  599


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      ||+|+|.+++.+.
T Consensus        81 Gr~l~V~~a~~~~   93 (102)
T 1x4d_A           81 GKPVRVHLSQKYK   93 (102)
T ss_dssp             TEECEEEEECCCT
T ss_pred             CcEEEEEECCCCC
Confidence            9999999887543

>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=99.78  E-value=1.4e-18  Score=124.58  Aligned_cols=81  Identities=15%  Similarity=0.268  Sum_probs=73.6

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .....++++|||+|||+++|+++|+++|++||           .|.++++.+++|||||+|.+.++|.+|+ .||+..+.
T Consensus        11 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   79 (97)
T 1why_A           11 YGKANPTTRLWVGGLGPNTSLAALAREFDRFG-----------SIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLG   79 (97)
T ss_dssp             CCCCCCCSCEEEECCCSSCCHHHHHHHHHTTS-----------CEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeC
Confidence            33445678999999999999999999999999           8999999888999999999999999999 89999999


Q ss_pred             --CceEEEeCCCCCC
Q psy2204         119 --GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 --gr~i~V~~~~~~~  131 (231)
                        |+.|+|.++++..
T Consensus        80 ~~g~~l~V~~a~~~~   94 (97)
T 1why_A           80 GPDRRLRVDFAKSGP   94 (97)
T ss_dssp             SSSCBCEEEECCCCC
T ss_pred             CCCcEEEEEECCCCC
Confidence              9999999887543

>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=99.78  E-value=6.9e-19  Score=122.91  Aligned_cols=78  Identities=19%  Similarity=0.299  Sum_probs=71.7

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh-CCCee
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF-DGINF  117 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l-ng~~l  117 (231)
                      +......++|||+|||+++++++|+++|++||           .|.++++.+++|||||+|.+.++|.+|+ .| |+..+
T Consensus         6 ~~~~~~~~~l~V~~l~~~~t~~~l~~~f~~~G-----------~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~   74 (85)
T 2ytc_A            6 SGEDKTITTLYVGGLGDTITETDLRNHFYQFG-----------EIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIV   74 (85)
T ss_dssp             CCSCSSCCCEEEECCTTTSCHHHHHHHHHTTS-----------CEEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEE
T ss_pred             CCCCCCccEEEEcCCCCCCCHHHHHHHHHhCC-----------CEeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeE
Confidence            34456778999999999999999999999999           8999999999999999999999999999 78 99999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .|+.|+|.+++
T Consensus        75 ~g~~l~v~~ak   85 (85)
T 2ytc_A           75 NGRRLNVKWGR   85 (85)
T ss_dssp             TTEECCEEECC
T ss_pred             CCCEEEEEecC
Confidence            99999998764

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=5.2e-19  Score=129.79  Aligned_cols=88  Identities=22%  Similarity=0.423  Sum_probs=71.9

Q ss_pred             hhcCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHH
Q psy2204          32 AAAVPVVGSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETT  107 (231)
Q Consensus        32 ~~~~~~~~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~  107 (231)
                      +.+.+..........++|||+|||+++|+++|+++|++||           .|.++++.++    +|||||+|.+.++|.
T Consensus        15 ~~~~~S~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~~kg~afV~f~~~~~A~   83 (109)
T 2err_A           15 VPRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFG-----------KILDVEIIFNERGSKGFGFVTFENSADAD   83 (109)
T ss_dssp             -------CCSCTTCCCEEEEESCCTTCCHHHHHHHGGGTC-----------CCSCEEECCBTTBCTTEEEEECCCSHHHH
T ss_pred             CCCCCCCCccCCCCCCEEEEECCCCcCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCceEEEEEECCHHHHH
Confidence            3333445556667889999999999999999999999999           6666666544    899999999999999


Q ss_pred             HHH-HhCCCeecCceEEEeCCCCC
Q psy2204         108 QAM-AFDGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       108 ~Al-~lng~~l~gr~i~V~~~~~~  130 (231)
                      +|+ .|||..+.|+.|+|.+++..
T Consensus        84 ~Ai~~l~g~~~~g~~l~V~~a~~~  107 (109)
T 2err_A           84 RAREKLHGTVVEGRKIEVNNATAR  107 (109)
T ss_dssp             HHHHHHTTCEETTEECEEEECCCS
T ss_pred             HHHHHcCCCEECCEEEEEEECCCC
Confidence            999 89999999999999987643

>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=99.78  E-value=9.9e-19  Score=127.49  Aligned_cols=79  Identities=15%  Similarity=0.140  Sum_probs=70.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC--eec
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI--NFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~--~l~  118 (231)
                      ...++++|||+|||+++++++|+++|++||           .|.++.+.++||||||+|.+.++|.+|+ .|++.  .+.
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG-----------~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~   79 (104)
T 1wex_A           11 KVSVSPVVHVRGLCESVVEADLVEALEKFG-----------TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIA   79 (104)
T ss_dssp             CCCCCSEEEEESCCSSCCHHHHHHHHTTTS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSS
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            345678999999999999999999999999           8999999889999999999999999999 78654  599


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |++|+|.+++...
T Consensus        80 Gr~l~V~~a~~~~   92 (104)
T 1wex_A           80 GQQAFFNYSTSKR   92 (104)
T ss_dssp             SSBCEEEECSSSS
T ss_pred             CEEEEEEEccCcc
Confidence            9999999887543

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.78  E-value=5.2e-19  Score=131.21  Aligned_cols=78  Identities=19%  Similarity=0.361  Sum_probs=68.1

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus        34 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l  102 (118)
T 2khc_A           34 QIEGPEGCNLFIYHLPQEFTDTDLASTFLPFG-----------NVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM  102 (118)
T ss_dssp             SCCCCCSEEEEEECSCTTCCHHHHHHHTTTSC-----------EEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHc
Confidence            34456778999999999999999999999999           666666643      4799999999999999999 89


Q ss_pred             CCCeecCceEEEeCCC
Q psy2204         113 DGINFKGQSLKIRRPH  128 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~  128 (231)
                      ||..|.|+.|+|.+++
T Consensus       103 ~g~~~~g~~l~V~~ak  118 (118)
T 2khc_A          103 NGFQVGTKRLKVQLKK  118 (118)
T ss_dssp             CCCEETTEECCEEEC-
T ss_pred             CCCEECCEEEEEEecC
Confidence            9999999999998753

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.78  E-value=1.8e-18  Score=124.84  Aligned_cols=84  Identities=17%  Similarity=0.420  Sum_probs=75.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      ....++|||+|||+++|+++|+++|+.||.+...      .+.+....+++|||||+|.+.++|.+||+|||..+.|+.|
T Consensus        14 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~------~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l   87 (101)
T 1fj7_A           14 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDL------AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEI   87 (101)
T ss_dssp             CSCSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC------CCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceE------EEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEE
Confidence            3457899999999999999999999999988762      5777788889999999999999999999999999999999


Q ss_pred             EEeCCCCCCC
Q psy2204         123 KIRRPHDYQP  132 (231)
Q Consensus       123 ~V~~~~~~~~  132 (231)
                      +|.+++....
T Consensus        88 ~V~~a~~~~~   97 (101)
T 1fj7_A           88 KLEKPKGRDG   97 (101)
T ss_dssp             EEECCSCCCC
T ss_pred             EEEEcCCCCC
Confidence            9998876543

>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=99.77  E-value=7.9e-19  Score=130.85  Aligned_cols=81  Identities=19%  Similarity=0.241  Sum_probs=72.7

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC--CCe
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD--GIN  116 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln--g~~  116 (231)
                      .....++++|||+|||+++|+++|+++|++||           .|.++++.++||||||+|++.++|.+|+ .++  +..
T Consensus        25 ~~~~~ps~~LfVgNLp~~vte~dL~~lF~~fG-----------~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~   93 (119)
T 2ad9_A           25 RSAGVPSRVIHIRKLPIDVTEGEVISLGLPFG-----------KVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPV   93 (119)
T ss_dssp             TSCSSCCSEEEEESCCTTCCHHHHHHHHTTTS-----------CCCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCC
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCce
Confidence            44556789999999999999999999999999           8888889888999999999999999999 787  468


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      |.|++|+|.+++...
T Consensus        94 l~Gr~l~V~~a~~k~  108 (119)
T 2ad9_A           94 LRGQPIYIQFSNHKE  108 (119)
T ss_dssp             BTTBCCEEEECSSSS
T ss_pred             ECCeEEEEEEccCCC
Confidence            999999999887544

>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=99.77  E-value=2.8e-18  Score=123.26  Aligned_cols=81  Identities=23%  Similarity=0.432  Sum_probs=71.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .....+++|||+|||+++|+++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|+ .||
T Consensus         3 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~   71 (99)
T 1whw_A            3 SGSSGSGRLFVRNLSYTSSEEDLEKLFSAYG-----------PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD   71 (99)
T ss_dssp             CCCCSCEEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhC
Confidence            3456788999999999999999999999999           6777777544      699999999999999999 999


Q ss_pred             CCeecCceEEEeCCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~~  132 (231)
                      |..|.|+.|+|.+++....
T Consensus        72 g~~~~g~~l~V~~a~~~~~   90 (99)
T 1whw_A           72 GQVFQGRMLHVLPSTIKKE   90 (99)
T ss_dssp             TEESSSCEEEEEECCCCST
T ss_pred             CCEECCcEEEEEEcCCCcc
Confidence            9999999999998876543

>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=99.77  E-value=1.6e-18  Score=125.70  Aligned_cols=79  Identities=20%  Similarity=0.191  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh--CCCeec
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF--DGINFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l--ng~~l~  118 (231)
                      ...++++|||+|||+++|+++|+++|++||           .|.++.+.++||||||+|.+.++|.+|+ .|  ++..+.
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG-----------~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~   79 (101)
T 2cq1_A           11 DGAPSRVLHIRKLPGEVTETEVIALGLPFG-----------KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLR   79 (101)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            335678999999999999999999999999           8999999999999999999999999999 66  578899


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      ||+|+|.+++...
T Consensus        80 Gr~l~V~~a~~~~   92 (101)
T 2cq1_A           80 NQPIYIQYSNHKE   92 (101)
T ss_dssp             TEECEEEECSCSS
T ss_pred             CcEEEEEEcCccc
Confidence            9999999887543

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.77  E-value=2.3e-18  Score=121.71  Aligned_cols=78  Identities=23%  Similarity=0.475  Sum_probs=71.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.  |+||||+|.+.++|.+|+ .||+..+.|
T Consensus         3 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~g   69 (90)
T 2dnq_A            3 SGSSGMVKLFIGNLPREATEQEIRSLFEQYG-----------KVLECDII--KNYGFVHIEDKTAAEDAIRNLHHYKLHG   69 (90)
T ss_dssp             SCSSCCEEEEEESCCSSCCHHHHHHHHHTSS-----------CEEEEEEE--TTEEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCCCeEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEE--CCEEEEEECCHHHHHHHHHHhcCCccCC
Confidence            3445678999999999999999999999999           78888887  799999999999999999 999999999


Q ss_pred             ceEEEeCCCCCC
Q psy2204         120 QSLKIRRPHDYQ  131 (231)
Q Consensus       120 r~i~V~~~~~~~  131 (231)
                      +.|+|.+++...
T Consensus        70 ~~l~v~~a~~~~   81 (90)
T 2dnq_A           70 VNINVEASKNKS   81 (90)
T ss_dssp             CBCEEECSSCCC
T ss_pred             cEEEEEECCCCC
Confidence            999999887654

>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=99.77  E-value=8.3e-19  Score=126.21  Aligned_cols=80  Identities=28%  Similarity=0.455  Sum_probs=73.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ....+.++|||+|||+++|+++|+++|++||           .|.++++.++||||||+|.+.++|.+|+ .|||..|.|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~~~~~kg~afV~f~~~~~a~~a~~~l~g~~~~g   78 (99)
T 2cpj_A           10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYG-----------KAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRG   78 (99)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHHTSTTC-----------CCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTT
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHhhcC-----------CeEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            3445678999999999999999999999999           8889999999999999999999999999 999999999


Q ss_pred             ceEEEeCCCCCC
Q psy2204         120 QSLKIRRPHDYQ  131 (231)
Q Consensus       120 r~i~V~~~~~~~  131 (231)
                      +.|+|.+++...
T Consensus        79 ~~l~v~~a~~~~   90 (99)
T 2cpj_A           79 KQLRVRFACHSA   90 (99)
T ss_dssp             BCCEEEESSCCS
T ss_pred             ceEEEEEcCCCC
Confidence            999999887543

>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=99.77  E-value=6.2e-18  Score=122.38  Aligned_cols=81  Identities=27%  Similarity=0.482  Sum_probs=71.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .......++|||+|||+++++++|+++|+.||           .|.++++.+    .+|||||+|.+.++|.+|+ .||+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g   77 (103)
T 2cqi_A            9 MEDDGQPRTLYVGNLSRDVTEVLILQLFSQIG-----------PCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNG   77 (103)
T ss_dssp             CCCSCCCCEEEEESCCTTCCHHHHHHHHHHHS-----------CEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCCCCCEEEEeCCCccCCHHHHHHHHHhcC-----------CEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCC
Confidence            34456779999999999999999999999999           777777765    4799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.+++...
T Consensus        78 ~~~~g~~l~V~~a~~~~   94 (103)
T 2cqi_A           78 RKILGKEVKVNWATTPS   94 (103)
T ss_dssp             EEETTEEEEEEECCCTT
T ss_pred             CCcCCCeEEEEECCCCc
Confidence            99999999999887543

>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=99.77  E-value=4.8e-18  Score=124.35  Aligned_cols=77  Identities=18%  Similarity=0.400  Sum_probs=72.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ...++|||+|||+++++++|+++|+.||           .|.++++.+++|||||+|.+.++|.+|+ .|||..|.|+.|
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   91 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFG-----------QIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVV   91 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCcEE
Confidence            4578999999999999999999999999           8999999999999999999999999999 999999999999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.+++...
T Consensus        92 ~v~~a~~~~  100 (109)
T 1x4g_A           92 KCYWGKESP  100 (109)
T ss_dssp             EEECCCCCC
T ss_pred             EEEecCCCC
Confidence            999887644

>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=99.77  E-value=3.5e-18  Score=122.45  Aligned_cols=76  Identities=12%  Similarity=0.238  Sum_probs=69.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH----HHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMM----EFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~----~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ...++|||+|||+++++++|+    ++|++||           .|.++++.++   ||||||+|.+.++|.+|+ .|||.
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G-----------~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~   75 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHG-----------KVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRY   75 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHS-----------CEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccC-----------cEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCC
Confidence            456799999999999999999    9999999           7888888765   899999999999999999 89999


Q ss_pred             eecCceEEEeCCCCC
Q psy2204         116 NFKGQSLKIRRPHDY  130 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~  130 (231)
                      .+.||.|+|.++++.
T Consensus        76 ~~~gr~l~V~~a~~~   90 (96)
T 2dgx_A           76 KIGSKKILVSLATGA   90 (96)
T ss_dssp             EETTEEEEEEECCCS
T ss_pred             EECCeEEEEEEcCCC
Confidence            999999999988754

>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=99.77  E-value=4.8e-18  Score=122.98  Aligned_cols=81  Identities=23%  Similarity=0.462  Sum_probs=72.6

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +......++|||+|||+++|+++|+++|++||           .|.++++.++    +|||||+|.+.++|.+|+ .||+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g   77 (103)
T 2cq3_A            9 SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFG-----------KILDVEIIFNERGSKGFGFVTFENSADADRAREKLHG   77 (103)
T ss_dssp             SCCSCCCCEEEEESCCTTCCHHHHHHHGGGTS-----------CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTT
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCC
Confidence            44556779999999999999999999999999           7888877655    799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.+++...
T Consensus        78 ~~~~g~~l~v~~a~~~~   94 (103)
T 2cq3_A           78 TVVEGRKIEVNNATARV   94 (103)
T ss_dssp             CEETTEECEEEECCSSC
T ss_pred             CEECCEEEEEEEcccCC
Confidence            99999999999887654

>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=99.76  E-value=5.1e-18  Score=124.17  Aligned_cols=79  Identities=16%  Similarity=0.296  Sum_probs=72.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC-
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG-  119 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g-  119 (231)
                      ..+..++|||+|||+++|+++|+++|++||           .|.++++.++ |||||+|.+.++|.+|| .||+..|.| 
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~g~   78 (108)
T 1x4c_A           11 SRRSENRVVVSGLPPSGSWQDLKDHMREAG-----------DVCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSH   78 (108)
T ss_dssp             CCSCCCEEEEESCCSSCCHHHHHHHHGGGS-----------CEEEEEEETT-TEEEEEESSHHHHHHHHHHSSSEEEECT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEeEEEEecC-CEEEEEECCHHHHHHHHHHHCcCCccCC
Confidence            345678999999999999999999999999           8999988877 99999999999999999 899999999 


Q ss_pred             ----ceEEEeCCCCCCC
Q psy2204         120 ----QSLKIRRPHDYQP  132 (231)
Q Consensus       120 ----r~i~V~~~~~~~~  132 (231)
                          +.|+|.++++...
T Consensus        79 ~~~~~~i~V~~a~~~~~   95 (108)
T 1x4c_A           79 EGETAYIRVKVDGPRSP   95 (108)
T ss_dssp             TSCEEEEEEEESSCCSC
T ss_pred             cCcceEEEEEeCCCCCC
Confidence                9999998876543

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

Probab=99.76  E-value=1.4e-18  Score=127.86  Aligned_cols=75  Identities=11%  Similarity=0.086  Sum_probs=67.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .+.++|||+||++++++++|+++|++||           .|.++++      .++||||||+|.+.++|.+|+ .|||..
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G-----------~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~   72 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYG-----------EVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTS   72 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcC-----------CeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCE
Confidence            3568999999999999999999999999           6666665      345799999999999999999 999999


Q ss_pred             ecCceEEEeCCCC
Q psy2204         117 FKGQSLKIRRPHD  129 (231)
Q Consensus       117 l~gr~i~V~~~~~  129 (231)
                      |.||.|+|.++..
T Consensus        73 ~~gr~i~V~~a~~   85 (110)
T 3s8s_A           73 VMGNIIHAQLDIK   85 (110)
T ss_dssp             ETTEECEEEECST
T ss_pred             ECCeEEEEEECCC
Confidence            9999999997753

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.76  E-value=4.4e-19  Score=138.50  Aligned_cols=80  Identities=14%  Similarity=0.243  Sum_probs=64.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhh--hhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQM--HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G--~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ...++|||||||+++|+++|+++|+.||  .|.++.     .+.+...++.||||||+|.+.++|.+|| .|||..|.||
T Consensus        53 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~-----i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr  127 (156)
T 3n9u_C           53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELK-----FAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGE  127 (156)
T ss_dssp             ---CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEE-----EEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEE-----EEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            3668999999999999999999999999  444331     1122223455799999999999999999 9999999999


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      .|+|.++.
T Consensus       128 ~l~V~~a~  135 (156)
T 3n9u_C          128 KVDVRPAT  135 (156)
T ss_dssp             ECEEEECC
T ss_pred             EeEEEEcC
Confidence            99999775

>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=99.76  E-value=2.4e-18  Score=120.03  Aligned_cols=75  Identities=23%  Similarity=0.416  Sum_probs=67.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ..+.++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .|||.
T Consensus         4 ~~~~~~l~V~nl~~~~~~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~   72 (85)
T 3mdf_A            4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFG-----------DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNES   72 (85)
T ss_dssp             CCCSSEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhccC-----------CEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCC
Confidence            45678999999999999999999999999           677776643      4899999999999999999 99999


Q ss_pred             eecCceEEEeCCC
Q psy2204         116 NFKGQSLKIRRPH  128 (231)
Q Consensus       116 ~l~gr~i~V~~~~  128 (231)
                      .+.|+.|+|.+++
T Consensus        73 ~~~g~~l~v~~ak   85 (85)
T 3mdf_A           73 ELFGRTIRVNLAK   85 (85)
T ss_dssp             EETTEECEEEECC
T ss_pred             EECCcEEEEEEcC
Confidence            9999999998764

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=5e-18  Score=123.54  Aligned_cols=80  Identities=19%  Similarity=0.397  Sum_probs=71.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-------CcEEEEEecCHHHHHHHH-Hh
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-------KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-------kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ......++|||+|||+++++++|+++|+.||           .|.++++.++       +|||||+|.+.++|.+|+ .|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l   78 (107)
T 2cph_A           10 PKKQTTSKILVRNIPFQANQREIRELFSTFG-----------ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNAL   78 (107)
T ss_dssp             CCSSCCCCEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHH
T ss_pred             ccCCCCCEEEEeCCCCcCCHHHHHHHHHccC-----------CeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHh
Confidence            3455778999999999999999999999999           7777777655       799999999999999999 89


Q ss_pred             -CCCeecCceEEEeCCCCCC
Q psy2204         113 -DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 -ng~~l~gr~i~V~~~~~~~  131 (231)
                       |+..|.|+.|+|.+++...
T Consensus        79 ~~~~~~~g~~l~v~~a~~~~   98 (107)
T 2cph_A           79 CHSTHLYGRRLVLEWADSEV   98 (107)
T ss_dssp             HTCCBSSSCBCEEEECCCCC
T ss_pred             ccCCeECCCEEEEEeCCCCC
Confidence             9999999999999887654

>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=99.76  E-value=5.3e-18  Score=124.07  Aligned_cols=81  Identities=22%  Similarity=0.462  Sum_probs=71.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .......++|||+|||+++|+++|+++|++||           .|.++++..+   ++||||+|.+.++|.+|| .||+.
T Consensus        16 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~   84 (109)
T 1x4a_A           16 GPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYG-----------AIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGY   84 (109)
T ss_dssp             CCCCCCSSEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCC
Confidence            34455678999999999999999999999999           6777776543   689999999999999999 99999


Q ss_pred             eecCceEEEeCCCCCC
Q psy2204         116 NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~  131 (231)
                      .|.|+.|+|.+++...
T Consensus        85 ~~~g~~l~V~~a~~~~  100 (109)
T 1x4a_A           85 DYDGYRLRVEFPRSGR  100 (109)
T ss_dssp             EETTEECEEECCCCCC
T ss_pred             EECCeEEEEEEcccCC
Confidence            9999999999887654

>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=99.76  E-value=1.8e-18  Score=122.97  Aligned_cols=80  Identities=18%  Similarity=0.435  Sum_probs=68.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCC-Ceec
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDG-INFK  118 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng-~~l~  118 (231)
                      ......++|||+|||+++|+++|+++|++||.+          |..+.+ .++|||||+|.+.++|.+|+ .||| ..+.
T Consensus         3 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v----------v~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~~   71 (93)
T 2cqh_A            3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLP----------LAGQVL-LKSGYAFVDYPDQNWAIRAIETLSGKVELH   71 (93)
T ss_dssp             CCCCCCCCEEEECCCTTCCHHHHHHHHHHTTCC----------CSSCEE-EETTEEEECCSCHHHHHHHHHHHTTTCEET
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHcCCc----------eEEEEE-cCCCEEEEEECCHHHHHHHHHHccCCeeEC
Confidence            344567899999999999999999999999931          333333 46899999999999999999 8999 9999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|+|.++++..
T Consensus        72 g~~l~v~~a~~~~   84 (93)
T 2cqh_A           72 GKIMEVDYSVSKK   84 (93)
T ss_dssp             TEECEEEECCCCC
T ss_pred             CEEEEEEEccCcc
Confidence            9999999887654

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.76  E-value=1.9e-18  Score=122.41  Aligned_cols=81  Identities=23%  Similarity=0.415  Sum_probs=70.5

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +......++|||+|||+++++++|+++|++||           .|.++++.+    .+|||||+|.+.++|.+|+ .||+
T Consensus         2 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G-----------~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g   70 (92)
T 2dgv_A            2 SSGSSGACQIFVRNLPFDFTWKMLKDKFNECG-----------HVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNG   70 (92)
T ss_dssp             CCSSSSCCEEEECSCCTTCCHHHHHHHHHTTS-----------CEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence            34456778999999999999999999999999           666666543    4799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..+.|+.|+|.++++..
T Consensus        71 ~~~~g~~l~v~~a~~~~   87 (92)
T 2dgv_A           71 MKLSGREIDVRIDRNAS   87 (92)
T ss_dssp             CCBTTBCCCCEECSCCS
T ss_pred             CEECCcEEEEEEcCCCC
Confidence            99999999999887543

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.76  E-value=5.6e-18  Score=129.15  Aligned_cols=83  Identities=23%  Similarity=0.386  Sum_probs=72.1

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .......++|||+|||+++++++|+++|+.||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus        36 ~~~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l  104 (139)
T 1u6f_A           36 NPEPDVLRNLMVNYIPTTVDEVQLRQLFERYG-----------PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL  104 (139)
T ss_dssp             SCCTTTTSEEEEESCSTTCCHHHHHHHHHHHS-----------CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence            34556779999999999999999999999999           676666643      3789999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQPT  133 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~~~  133 (231)
                      ||..|.|+.|+|.+++.....
T Consensus       105 ~g~~~~g~~l~v~~a~~~~~~  125 (139)
T 1u6f_A          105 NGFNILNKRLKVALAASGHQR  125 (139)
T ss_dssp             TTEECSSCEEEEEESSCCCCC
T ss_pred             CCCEECCeEEEEEECCCCCCC
Confidence            999999999999988765544

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=4.1e-18  Score=123.08  Aligned_cols=80  Identities=20%  Similarity=0.373  Sum_probs=70.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.      +.+|||||+|.+.++|.+|+ .||
T Consensus         7 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   75 (102)
T 2cqb_A            7 GMATTKRVLYVGGLAEEVDDKVLHAAFIPFG-----------DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN   75 (102)
T ss_dssp             CSCCCCSCEEEESCCSSCCHHHHHHHHTTTS-----------CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHT
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHhhccC-----------CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence            4456789999999999999999999999999           56666664      34899999999999999999 999


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      +..|.|+.|+|.++++..
T Consensus        76 g~~~~g~~l~V~~a~~~~   93 (102)
T 2cqb_A           76 ESELFGRTIRVNLAKPMR   93 (102)
T ss_dssp             TEEETTEEEEEEECCCCC
T ss_pred             CCEECCcEEEEEeCCCCC
Confidence            999999999999887654

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.76  E-value=6.5e-18  Score=121.42  Aligned_cols=80  Identities=20%  Similarity=0.423  Sum_probs=71.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng  114 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+||.||+
T Consensus         5 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~   73 (99)
T 2dgs_A            5 SSGSKSNKIFVGGIPHNCGETELREYFKKFG-----------VVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHF   73 (99)
T ss_dssp             CCCSSCCEEEEESCCSSCCHHHHHHHHSSSS-----------CEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCC
Confidence            3445778999999999999999999999999           777777754      47999999999999999999999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.++++..
T Consensus        74 ~~~~g~~l~V~~a~~~~   90 (99)
T 2dgs_A           74 HDIMGKKVEVKRAEPRD   90 (99)
T ss_dssp             CBSSSCBCEEEECCCCC
T ss_pred             CEECCeEEEEEECCCCc
Confidence            99999999999887554

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=4.1e-18  Score=122.19  Aligned_cols=77  Identities=22%  Similarity=0.524  Sum_probs=68.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec---------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN---------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~---------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .++++|||+|||+++++++|+++|++||           .|.++++.         +.+|||||+|.+.++|.+|+ .||
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~   71 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVG-----------AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQ   71 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHST
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhC
Confidence            4678999999999999999999999999           56665554         44689999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      |..|.|+.|+|.+++...
T Consensus        72 g~~~~g~~l~V~~a~~~~   89 (98)
T 2cpf_A           72 GHTVDGHKLEVRISERAT   89 (98)
T ss_dssp             TCEETTEECEEECSSCSS
T ss_pred             CCeeCCeEEEEEEccCCC
Confidence            999999999999887544

>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=99.75  E-value=5.1e-18  Score=121.94  Aligned_cols=76  Identities=18%  Similarity=0.403  Sum_probs=68.6

Q ss_pred             CCCCCCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          41 TITRQARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .....+++|||+|||+ ++++++|+++|++||           .|.++++.  +|||||+|.+.++|.+|+ .|||..+.
T Consensus        17 ~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G-----------~v~~v~i~--~g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (97)
T 2xnq_A           17 RGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYG-----------HIMQINIK--NAFGFIQFDNPQSVRDAIEXESQEMNF   83 (97)
T ss_dssp             --CCTTCEEEEESCCSSCCCHHHHHHHHGGGS-----------CEEEEEEC--SSEEEEEESSHHHHHHHHHHHTTSEET
T ss_pred             CCCCCCCEEEEeCCCcccCCHHHHHHHHHhcC-----------CEEEEEEe--CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            3445678999999998 999999999999999           78888884  899999999999999999 89999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      |+.|+|.+++.
T Consensus        84 g~~l~V~~a~~   94 (97)
T 2xnq_A           84 GKKLILEVSSS   94 (97)
T ss_dssp             TEECEEEECCC
T ss_pred             CEEEEEEecCC
Confidence            99999998764

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

Probab=99.75  E-value=3.6e-18  Score=125.23  Aligned_cols=79  Identities=27%  Similarity=0.425  Sum_probs=70.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      ......+++|||+|||+++|+++|+++|++||           .|.++++.  +|||||+|.+.++|.+|+ .|||..+.
T Consensus        25 ~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G-----------~i~~v~i~--kg~afV~f~~~~~A~~Ai~~l~g~~~~   91 (108)
T 2jvo_A           25 QEGELSNTRLFVRPFPLDVQESELNEIFGPFG-----------PMKEVKIL--NGFAFVEFEEAESAAKAIEEVHGKSFA   91 (108)
T ss_dssp             ---CCSCSEEEECSSCTTCCHHHHHHHHTTTS-----------CCCEEEEE--TTEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             cCCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CEEEEEEE--CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            44556779999999999999999999999999           77777777  899999999999999999 89999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|.|.+++...
T Consensus        92 g~~l~V~~a~~~~  104 (108)
T 2jvo_A           92 NQPLEVVYSKLPA  104 (108)
T ss_dssp             TEECEEESCSCCC
T ss_pred             CeEEEEEEecCCC
Confidence            9999999887543

>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=99.75  E-value=1.2e-17  Score=122.25  Aligned_cols=82  Identities=17%  Similarity=0.339  Sum_probs=71.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +......++|||+|||+++|+++|+++|+.||           .|.++++.      +.+|||||+|.+.++|.+|| .|
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~   77 (111)
T 1x4h_A            9 PSDVTEGKTVFIRNLSFDSEEEALGEVLQQFG-----------DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA   77 (111)
T ss_dssp             CCCCCCCCCEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHH
T ss_pred             CCcCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHh
Confidence            34456788999999999999999999999999           67777775      44799999999999999999 99


Q ss_pred             C------CCeecCceEEEeCCCCCCC
Q psy2204         113 D------GINFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       113 n------g~~l~gr~i~V~~~~~~~~  132 (231)
                      |      +..|.|+.|+|.++.+...
T Consensus        78 ~~~~~~~~~~~~g~~l~v~~a~~~~~  103 (111)
T 1x4h_A           78 SLEAEGGGLKLDGRQLKVDLAVTRDE  103 (111)
T ss_dssp             CTTTTTCCEESSSCEEEEECCCCCCC
T ss_pred             ccccccCCcEEcCEEEEEEECCCCcc
Confidence            9      9999999999998876543

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=5.2e-18  Score=122.53  Aligned_cols=81  Identities=21%  Similarity=0.504  Sum_probs=71.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .....+.++|||+|||+++++++|+++|+.||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus         6 ~~~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   74 (102)
T 1x5s_A            6 SGMASDEGKLFVGGLSFDTNEQSLEQVFSKYG-----------QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM   74 (102)
T ss_dssp             CCCCCCCSEEEEESCCTTCCHHHHHHHHHHHS-----------CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHh
Confidence            34556789999999999999999999999999           666666654      4789999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      |+..|.|+.|+|.+++...
T Consensus        75 ~g~~~~g~~l~v~~a~~~~   93 (102)
T 1x5s_A           75 NGKSVDGRQIRVDQAGKSS   93 (102)
T ss_dssp             TTCCTTSCCCEEEEEECCC
T ss_pred             CCCEECCeEEEEEECCCCC
Confidence            9999999999999876543

>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=99.75  E-value=5.2e-18  Score=121.34  Aligned_cols=75  Identities=27%  Similarity=0.612  Sum_probs=68.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ++++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..+
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   69 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLCSNVG-----------PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQL   69 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeE
Confidence            468999999999999999999999999           6777777543      799999999999999999 9999999


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .|+.|+|.++++.
T Consensus        70 ~g~~l~V~~a~~~   82 (96)
T 2x1f_A           70 GSRFLKCGYSSNS   82 (96)
T ss_dssp             TTEECEEEECSCS
T ss_pred             CCeEEEEEEcCCC
Confidence            9999999988754

>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=99.75  E-value=4.8e-18  Score=125.48  Aligned_cols=81  Identities=14%  Similarity=0.333  Sum_probs=69.8

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|| .|
T Consensus        19 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l   87 (115)
T 2cpz_A           19 QKEGPEGANLFIYHLPQEFGDQDLLQMFMPFG-----------NVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM   87 (115)
T ss_dssp             CCCCSTTCCEEEESCCSSCCHHHHHHHHGGGS-----------CCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH
T ss_pred             CcCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHc
Confidence            33445678999999999999999999999999           565555543      3589999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      |+..|.|+.|+|.++++..
T Consensus        88 ~g~~~~g~~l~V~~a~~~~  106 (115)
T 2cpz_A           88 NGFQIGMKRLKVQLKRSKN  106 (115)
T ss_dssp             TTCEETTEECEEECCCCSC
T ss_pred             CCCEECCEEEEEEEcCCCC
Confidence            9999999999999887654

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

Probab=99.75  E-value=2e-17  Score=118.93  Aligned_cols=80  Identities=20%  Similarity=0.382  Sum_probs=71.2

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHh--hhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQ--MHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~--G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ........++|||+|||+++|+++|+++|++|  |           .|.++++.  +|||||+|.+.++|.+|+ .|||.
T Consensus         8 ~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g-----------~v~~~~~~--~g~afV~f~~~~~A~~A~~~l~g~   74 (99)
T 2cpd_A            8 DEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPG-----------AVERVKKI--RDYAFVHFSNREDAVEAMKALNGK   74 (99)
T ss_dssp             CCSCSSCCCEEEEESCCTTCCHHHHHHHHHTTSTT-----------CEEEEEEC--SSEEEEEESSHHHHHHHHHHHSSE
T ss_pred             cccccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCc-----------ceEEEEEe--CCeEEEEeCCHHHHHHHHHHhCCC
Confidence            34455678999999999999999999999999  7           78877765  789999999999999999 89999


Q ss_pred             eecCceEEEeCCCCCC
Q psy2204         116 NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~  131 (231)
                      .|.|+.|+|.++++..
T Consensus        75 ~~~g~~l~v~~a~~~~   90 (99)
T 2cpd_A           75 VLDGSPIEVTLAKPVD   90 (99)
T ss_dssp             EETTEEEEEECCCCCC
T ss_pred             EeCCcEEEEEECCCCC
Confidence            9999999999887644

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

Probab=99.75  E-value=9.1e-18  Score=123.89  Aligned_cols=83  Identities=16%  Similarity=0.301  Sum_probs=72.6

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .......++|||+|||+++++++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|| .|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l   77 (115)
T 2dgo_A            9 KKDTSNHFHVFVGDLSPEITTEDIKAAFAPFG-----------RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM   77 (115)
T ss_dssp             CCCSTTCEEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence            44556788999999999999999999999999           6777776544      689999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQPT  133 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~~~  133 (231)
                      ||..|.|+.|+|.+++.....
T Consensus        78 ~g~~~~g~~l~V~~a~~~~~~   98 (115)
T 2dgo_A           78 GGQWLGGRQIRTNWATRKPPA   98 (115)
T ss_dssp             TTCEETTEECEEEESSCCCCC
T ss_pred             CCCEECCEEEEEEEccCCCCC
Confidence            999999999999988765443

>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=99.75  E-value=1.8e-18  Score=127.35  Aligned_cols=77  Identities=18%  Similarity=0.136  Sum_probs=71.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      .+..++|||+|||+++++++|+++|++||           .|.++.+.++++||||+|.+.++|.+|+ .|||..|.|+.
T Consensus         7 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G-----------~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   75 (111)
T 1whx_A            7 GRSKTVILAKNLPAGTLAAEIQETFSRFG-----------SLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVP   75 (111)
T ss_dssp             SEEEEEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeE
Confidence            34568999999999999999999999999           8999999999999999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.++...
T Consensus        76 l~V~~a~~~   84 (111)
T 1whx_A           76 LYLEWAPIG   84 (111)
T ss_dssp             CEEEEEETT
T ss_pred             EEEEECCCC
Confidence            999987643

>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=99.75  E-value=5.5e-18  Score=118.85  Aligned_cols=74  Identities=24%  Similarity=0.465  Sum_probs=66.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-------CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-------DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-------~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .+++|||+|||+++|+++|+++|++||           .|.++++..       .+|||||+|.+.++|.+|+ .|||..
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~   71 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYG-----------KIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQ   71 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCe
Confidence            468999999999999999999999999           677766632       5899999999999999999 899999


Q ss_pred             ecCceEEEeCCCC
Q psy2204         117 FKGQSLKIRRPHD  129 (231)
Q Consensus       117 l~gr~i~V~~~~~  129 (231)
                      +.|+.|+|.++.+
T Consensus        72 ~~g~~l~v~~a~~   84 (88)
T 4a8x_A           72 IDGQEITATAVLA   84 (88)
T ss_dssp             ETTEECEEEEECC
T ss_pred             ECCeEEEEEECCC
Confidence            9999999997764

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

Probab=99.75  E-value=5.8e-18  Score=120.85  Aligned_cols=77  Identities=19%  Similarity=0.390  Sum_probs=67.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecC------CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINL------DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~------~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ..+++|||+|||+++++++|+++|++||           .|.++ ++.+      .+|||||+|.+.++|.+|+ .||+.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~   71 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFG-----------VILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQ   71 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTS-----------CBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCC
Confidence            3578999999999999999999999999           55555 4544      4799999999999999999 79999


Q ss_pred             eecCceEEEeCCCCCC
Q psy2204         116 NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~  131 (231)
                      .+.|+.|+|.++++..
T Consensus        72 ~~~g~~l~v~~a~~~~   87 (96)
T 1x5t_A           72 YLCNRPITVSYAFKKD   87 (96)
T ss_dssp             EETTEECEEEESCCCC
T ss_pred             EECCEEEEEEEecccC
Confidence            9999999999887554

>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=99.75  E-value=5.1e-18  Score=123.16  Aligned_cols=80  Identities=23%  Similarity=0.363  Sum_probs=70.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ......++|||+|||+++++++|+++|+.||           .|.++++.++     +|||||+|.+.++|.+|| .|||
T Consensus        10 ~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g   78 (105)
T 2dnh_A           10 SRGGRDRKLFVGMLNKQQSEEDVLRLFQPFG-----------VIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHG   78 (105)
T ss_dssp             CSCCCCCEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSS
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcC
Confidence            3445678999999999999999999999999           6777666554     799999999999999999 8999


Q ss_pred             CeecC---ceEEEeCCCCCC
Q psy2204         115 INFKG---QSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~g---r~i~V~~~~~~~  131 (231)
                      ..+.|   +.|+|.+++...
T Consensus        79 ~~~~gg~~~~l~V~~a~~~~   98 (105)
T 2dnh_A           79 SQTMPGASSSLVVKFADTDK   98 (105)
T ss_dssp             CCCCTTCSSCCEEEESCSSC
T ss_pred             CccCCCCCccEEEEECccCc
Confidence            99998   999999887544

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

Probab=99.75  E-value=7.3e-18  Score=121.36  Aligned_cols=82  Identities=20%  Similarity=0.421  Sum_probs=71.4

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-Hh
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ........++|||+|||+++|+++|+++|++||           .|.++++.++     +|||||+|.+.++|.+|+ .|
T Consensus        10 ~~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l   78 (100)
T 2do4_A           10 RYSTSLEKHKLFISGLPFSCTKEELEEICKAHG-----------TVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKM   78 (100)
T ss_dssp             CCSSCCCCSCEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CcccCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHh
Confidence            344556778999999999999999999999999           6777766543     599999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      |+..+.|+.|+|.++++..
T Consensus        79 ~g~~~~g~~l~v~~a~~~~   97 (100)
T 2do4_A           79 DGMTIKENIIKVAISNSGP   97 (100)
T ss_dssp             TTEESSSCEEEEEECCCCS
T ss_pred             CCCEECCEEEEEEECCCCC
Confidence            9999999999999887543

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.75  E-value=5.4e-18  Score=121.77  Aligned_cols=79  Identities=15%  Similarity=0.302  Sum_probs=68.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCee-eeEecCC------CcEEEEEecCHHHHHHHH-Hh
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVL-ACQINLD------KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~-~~~~~~~------kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .....+++|||+|||+++++++|+++|++||           .|. ++++.++      +|||||+|.+.++|.+|+ .|
T Consensus         4 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l   72 (99)
T 2div_A            4 GSSGMAASLWMGDLEPYMDENFISRAFATMG-----------ETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKI   72 (99)
T ss_dssp             CCCSSSSEEEECSCCTTCCHHHHHHHHHHTT-----------CCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTT
T ss_pred             CCCCCccEEEEeCCCCCCCHHHHHHHHHHhC-----------CcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHH
Confidence            3455789999999999999999999999999           566 6666443      599999999999999999 89


Q ss_pred             CCCeecCce----EEEeCCCCC
Q psy2204         113 DGINFKGQS----LKIRRPHDY  130 (231)
Q Consensus       113 ng~~l~gr~----i~V~~~~~~  130 (231)
                      ||..+.|+.    |+|.+++..
T Consensus        73 ~g~~~~g~~~~~~l~v~~a~~~   94 (99)
T 2div_A           73 NGKPLPGATPAKRFKLNYATYS   94 (99)
T ss_dssp             TTSEESSCSSCEECCEEETTCC
T ss_pred             cCCccCCCCcceeEEEeecCCC
Confidence            999999999    999988754

>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=99.75  E-value=2.3e-17  Score=119.47  Aligned_cols=79  Identities=23%  Similarity=0.356  Sum_probs=70.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ......++|||+|||+++|+++|+++|++||           .|.++++.  ++||||+|.+.++|.+|+ .||+..|.|
T Consensus         6 ~~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G-----------~i~~v~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g   72 (103)
T 2dgu_A            6 SGMAKVKVLFVRNLANTVTEEILEKAFSQFG-----------KLERVKKL--KDYAFIHFDERDGAVKAMEEMNGKDLEG   72 (103)
T ss_dssp             CCCCCCCCEEEECCCTTCCHHHHHHHHHHHS-----------CEEEEEEC--SSCEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEE--CCEEEEEeCCHHHHHHHHHHHCCCccCC
Confidence            3445678999999999999999999999999           78888877  679999999999999999 899999999


Q ss_pred             ceEEEeCCCCCCC
Q psy2204         120 QSLKIRRPHDYQP  132 (231)
Q Consensus       120 r~i~V~~~~~~~~  132 (231)
                      +.|+|.+++....
T Consensus        73 ~~l~v~~a~~~~~   85 (103)
T 2dgu_A           73 ENIEIVFAKPPDQ   85 (103)
T ss_dssp             EEEEEEECCCCCC
T ss_pred             CEEEEEEcCCCcc
Confidence            9999998876543

>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=99.75  E-value=4e-18  Score=118.36  Aligned_cols=74  Identities=23%  Similarity=0.512  Sum_probs=66.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      +.+|||+|||+++++++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..+.
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~   69 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFP-----------SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN   69 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTST-----------TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeC
Confidence            35899999999999999999999999           6777766544      799999999999999999 89999999


Q ss_pred             CceEEEeCCCCC
Q psy2204         119 GQSLKIRRPHDY  130 (231)
Q Consensus       119 gr~i~V~~~~~~  130 (231)
                      |+.|+|.++++.
T Consensus        70 g~~l~v~~a~~~   81 (83)
T 3md1_A           70 GRPLRINWAAKL   81 (83)
T ss_dssp             TEECEEEECCCC
T ss_pred             CcEEEEEecCcC
Confidence            999999988753

>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=99.75  E-value=3.3e-18  Score=121.88  Aligned_cols=77  Identities=27%  Similarity=0.521  Sum_probs=68.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.++     +|||||+|.+.++|.+|+ .||+
T Consensus        11 ~~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g   79 (95)
T 2ywk_A           11 AQEEADRTVFVGNLEARVREEILYELFLQAG-----------PLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNG   79 (95)
T ss_dssp             -CTTGGGEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCC
Confidence            3445678999999999999999999999999           6777777544     699999999999999999 8999


Q ss_pred             CeecCceEEEeCCC
Q psy2204         115 INFKGQSLKIRRPH  128 (231)
Q Consensus       115 ~~l~gr~i~V~~~~  128 (231)
                      ..+.|+.|+|.+++
T Consensus        80 ~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           80 IRLYGRPINVSGPS   93 (95)
T ss_dssp             CEETTEECEEECCC
T ss_pred             CEECCCEEEEEEcC
Confidence            99999999999876

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

Probab=99.74  E-value=9.1e-18  Score=119.57  Aligned_cols=77  Identities=19%  Similarity=0.430  Sum_probs=68.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ..+++|||+|||+++++++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .||+..
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~   71 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFG-----------KIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFE   71 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCe
Confidence            4568999999999999999999999999           677766654      4789999999999999999 899999


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      +.|+.|+|.++++..
T Consensus        72 ~~g~~l~V~~a~~~~   86 (95)
T 2dnz_A           72 LAGRPMRVGHVTERL   86 (95)
T ss_dssp             SSSSCCEEEESSCCC
T ss_pred             eCCcEEEEEEccccc
Confidence            999999999887654

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

Probab=99.74  E-value=6.8e-18  Score=120.02  Aligned_cols=77  Identities=22%  Similarity=0.399  Sum_probs=68.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .||
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   79 (94)
T 2e5h_A           11 GLAPSKSTVYVSNLPFSLTNNDLYRIFSKYG-----------KVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAIN   79 (94)
T ss_dssp             SCCCCTTSEEEESCCTTSCHHHHHHHTTTTS-----------CEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcC
Confidence            3445678999999999999999999999999           677777754      4789999999999999999 999


Q ss_pred             CCeecCceEEEeCCC
Q psy2204         114 GINFKGQSLKIRRPH  128 (231)
Q Consensus       114 g~~l~gr~i~V~~~~  128 (231)
                      +..|.|++|+|.+++
T Consensus        80 g~~~~g~~l~v~~ak   94 (94)
T 2e5h_A           80 NKQLFGRVIKASIAI   94 (94)
T ss_dssp             TEEETTEEEEEEECC
T ss_pred             CCeeCCcEEEEEecC
Confidence            999999999998764

>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=99.74  E-value=1.2e-17  Score=123.07  Aligned_cols=85  Identities=20%  Similarity=0.269  Sum_probs=72.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ....+++|||+|||+++|+++|+++|+.||.|..+.     ...+....+++|||||+|.+.++|.+|+ .|||..|.|+
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~-----~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   95 (115)
T 2cpx_A           21 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP-----IQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGK   95 (115)
T ss_dssp             CCSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC-----CEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceE-----EEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            345678999999999999999999999999775442     2233345677899999999999999999 8999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|.+++...
T Consensus        96 ~l~v~~a~~~~  106 (115)
T 2cpx_A           96 ILVIEFGKNKK  106 (115)
T ss_dssp             BCEEEECCCCS
T ss_pred             EEEEEEccCCC
Confidence            99999887654

>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=99.74  E-value=8.1e-19  Score=129.41  Aligned_cols=78  Identities=14%  Similarity=0.293  Sum_probs=70.6

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC--CCeec
Q psy2204          43 TRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD--GINFK  118 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln--g~~l~  118 (231)
                      ..++++|||+|||++ +|+++|+++|++||           .|.++++.++||||||+|.+.++|.+|+ .||  +..|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG-----------~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~   90 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG-----------KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQ   90 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS-----------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSS
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcC-----------CEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            456889999999998 99999999999999           8899999999999999999999999999 775  56699


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      ||+|+|.+++.+.
T Consensus        91 Gr~l~V~~a~~~~  103 (112)
T 1x4f_A           91 GRCVKVDLSEKYK  103 (112)
T ss_dssp             SSCCEEEEECSCS
T ss_pred             CEEEEEEECcccc
Confidence            9999999887543

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

Probab=99.74  E-value=2.1e-17  Score=116.73  Aligned_cols=77  Identities=21%  Similarity=0.499  Sum_probs=70.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .....++|||+|||+++|+++|+++|++||           .|.++++.  ++||||+|.+.++|.+|+ .|||..+.|+
T Consensus         5 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~~~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g~   71 (90)
T 2dnp_A            5 SSGNTWKIFVGNVSAACTSQELRSLFERRG-----------RVIECDVV--KDYAFVHMEKEADAKAAIAQLNGKEVKGK   71 (90)
T ss_dssp             SSCCSCCEEEESCCTTCCHHHHHHHHHHHS-----------CEEEEEEC--SSCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHcCC-----------CEEEEEEE--CCEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            345678999999999999999999999999           88888887  569999999999999999 8999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|.+++...
T Consensus        72 ~l~v~~a~~~~   82 (90)
T 2dnp_A           72 RINVELSTKGQ   82 (90)
T ss_dssp             ECEEEESCCCC
T ss_pred             EEEEEECCCCC
Confidence            99999887654

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=1.3e-17  Score=122.68  Aligned_cols=90  Identities=22%  Similarity=0.289  Sum_probs=70.3

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +......++|||+|||+++|+++|+++|++||.|.+....   ....+++.      +.+|||||+|.+.++|.+|| .|
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~---~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l   85 (113)
T 2cpe_A            9 PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRT---GQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWF   85 (113)
T ss_dssp             CCCCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSS---CCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHH
T ss_pred             cccCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEcccc---CccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHc
Confidence            3455678999999999999999999999999944310000   00034443      44799999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~~  132 (231)
                      ||..|.|+.|+|.+++....
T Consensus        86 ~g~~~~g~~l~V~~a~~~~~  105 (113)
T 2cpe_A           86 DGKDFQGSKLKVSLARKKPP  105 (113)
T ss_dssp             TTCEETTEECEEECSSCCCC
T ss_pred             CCCccCCCEEEEEECCCCCC
Confidence            99999999999998876543

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.74  E-value=1.4e-17  Score=119.37  Aligned_cols=78  Identities=18%  Similarity=0.316  Sum_probs=67.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ...+++|||+|||+++|+++|+++|++||.|.          ..+...+++|||||+|.+.++|.+|+ .|||..|.|+.
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~----------~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   85 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP----------LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDT   85 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC----------SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE----------EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            34578999999999999999999999999431          23334577999999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.++++.
T Consensus        86 l~V~~a~~~   94 (97)
T 2e5j_A           86 LRVALARQQ   94 (97)
T ss_dssp             CEEEECCCC
T ss_pred             EEEEEcCCC
Confidence            999988754

>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=99.74  E-value=1.9e-17  Score=120.33  Aligned_cols=81  Identities=16%  Similarity=0.314  Sum_probs=70.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus         7 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l   75 (106)
T 2dgp_A            7 GMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFG-----------KIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL   75 (106)
T ss_dssp             SCCCTTCEEEEEESCCTTCCHHHHHHHHHHHS-----------CCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence            34456778999999999999999999999999           666666644      4799999999999999999 89


Q ss_pred             CCCee---cCceEEEeCCCCCC
Q psy2204         113 DGINF---KGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l---~gr~i~V~~~~~~~  131 (231)
                      |+..+   .|+.|+|.++....
T Consensus        76 ~g~~~~~~~g~~l~v~~a~~~~   97 (106)
T 2dgp_A           76 HEQKTLPGMNRPIQVKPADSES   97 (106)
T ss_dssp             TTTCCCTTCSSCCEEEECCCCS
T ss_pred             cCCcccCCCCceEEEEECCccc
Confidence            99998   89999999887544

>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=99.74  E-value=3.8e-18  Score=119.52  Aligned_cols=75  Identities=15%  Similarity=0.283  Sum_probs=65.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .+.++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~   72 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFG-----------RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQW   72 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcC-----------CEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCE
Confidence            4568999999999999999999999999           6777766543      689999999999999999 899999


Q ss_pred             ecCceEEEeCCCC
Q psy2204         117 FKGQSLKIRRPHD  129 (231)
Q Consensus       117 l~gr~i~V~~~~~  129 (231)
                      +.|+.|+|.+++.
T Consensus        73 ~~g~~l~v~~a~~   85 (87)
T 3bs9_A           73 LGGRQIRTNWATR   85 (87)
T ss_dssp             ETTEECEEEEEC-
T ss_pred             ECCeEEEEEecCC
Confidence            9999999998764

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

Probab=99.74  E-value=7.5e-18  Score=119.93  Aligned_cols=78  Identities=22%  Similarity=0.408  Sum_probs=68.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.      +.+|||||+|.+.++|.+|+ .||
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   78 (95)
T 2cqc_A           10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYG-----------PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN   78 (95)
T ss_dssp             CSCCGGGCEEEESCCSSCCHHHHHHHHHTTS-----------CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhC
Confidence            3345678999999999999999999999999           67777664      34689999999999999999 899


Q ss_pred             CCeecCceEEEeCCCC
Q psy2204         114 GINFKGQSLKIRRPHD  129 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~  129 (231)
                      |..+.|++|+|.+++.
T Consensus        79 g~~~~g~~l~v~~a~~   94 (95)
T 2cqc_A           79 GMELDGRRIRVSGPSS   94 (95)
T ss_dssp             TEEETTEEEEEECCSC
T ss_pred             CCEECCEEEEEEecCC
Confidence            9999999999998763

>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=99.74  E-value=2.7e-17  Score=120.15  Aligned_cols=78  Identities=22%  Similarity=0.352  Sum_probs=69.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCC-eeeeEec-------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNP-VLACQIN-------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~-i~~~~~~-------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      +.+.++|||+|||+++|+++|+++|++||           . |.++.+.       +++|||||+|.+.++|.+|+ .||
T Consensus         5 s~~~~~l~V~nLp~~~t~~~l~~~f~~~G-----------~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~   73 (109)
T 2dis_A            5 SSGNCRLFIGGIPKMKKREEILEEIAKVT-----------EGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLM   73 (109)
T ss_dssp             CCCSEEEEEECCCTTSCHHHHHHHHHHHS-----------TTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTT
T ss_pred             ccCCCEEEEeCCCCcCCHHHHHHHHHHhc-----------CCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhh
Confidence            34578999999999999999999999999           5 7777665       56899999999999999999 896


Q ss_pred             --CCeecCceEEEeCCCCCC
Q psy2204         114 --GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 --g~~l~gr~i~V~~~~~~~  131 (231)
                        +..+.|+.|+|.++++..
T Consensus        74 ~g~~~~~g~~l~V~~a~~~~   93 (109)
T 2dis_A           74 PGRIQLWGHQIAVDWAEPEI   93 (109)
T ss_dssp             TCCSCBTTBCCEEEESCSSC
T ss_pred             CCCceecCCeEEEEEcCCCC
Confidence              599999999999887654

>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=99.74  E-value=1.1e-17  Score=124.07  Aligned_cols=78  Identities=17%  Similarity=0.430  Sum_probs=68.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ....++|||+|||+++|+++|+++|++||           .|.++++..     .+|||||+|.+.++|.+|+ .|||..
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~   72 (116)
T 2fy1_A            4 ADHPGKLFIGGLNRETNEKMLKAVFGKHG-----------PISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKS   72 (116)
T ss_dssp             TCSCCEEEEECCTTTCCHHHHHHHHHTSS-----------CCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCE
Confidence            35678999999999999999999999999           566666654     4699999999999999999 899999


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      |.|+.|+|.+++...
T Consensus        73 ~~g~~l~V~~a~~~~   87 (116)
T 2fy1_A           73 LHGKAIKVEQAKKPS   87 (116)
T ss_dssp             CSSSBCEEEECCCSS
T ss_pred             ECCEEEEEEECCCCC
Confidence            999999999887543

>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=99.74  E-value=2.2e-17  Score=119.83  Aligned_cols=80  Identities=24%  Similarity=0.437  Sum_probs=70.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .||
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~   78 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAG-----------PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMD   78 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSS
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhC
Confidence            3445678999999999999999999999999           677766654      4689999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      +..|.|+.|+|.+++...
T Consensus        79 g~~~~g~~l~v~~a~~~~   96 (105)
T 1x5u_A           79 MIKLYGKPIRVNKASAHN   96 (105)
T ss_dssp             SCBCSSCBCEEEETTTTS
T ss_pred             CCeECCeEEEEEECCCCC
Confidence            999999999999887543

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.74  E-value=7.1e-18  Score=122.09  Aligned_cols=80  Identities=21%  Similarity=0.329  Sum_probs=70.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .||
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   76 (103)
T 2dnm_A            8 PDVDGMITLKVDNLTYRTSPDSLRRVFEKYG-----------RVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMD   76 (103)
T ss_dssp             SCCSCCCEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHS
T ss_pred             CCCCCCeEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcC
Confidence            3445678999999999999999999999999           677776643      4799999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      |..|.|+.|+|.+++...
T Consensus        77 g~~~~g~~l~V~~a~~~~   94 (103)
T 2dnm_A           77 GAELDGRELRVQVARYGR   94 (103)
T ss_dssp             SCCBTTBCCEEEECSSCC
T ss_pred             CCEECCcEEEEEECCcCC
Confidence            999999999999887543

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.74  E-value=1.7e-17  Score=117.73  Aligned_cols=78  Identities=24%  Similarity=0.517  Sum_probs=70.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.  ++||||+|.+.++|.+|+ .||+..+.|
T Consensus         5 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~v~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g   71 (92)
T 2dgt_A            5 SSGKASTKLHVGNISPTCTNQELRAKFEEYG-----------PVIECDIV--KDYAFVHMERAEDAVEAIRGLDNTEFQG   71 (92)
T ss_dssp             CCCCSSEEEEEESCCSSCCHHHHHHHHHTTS-----------CCCEEEEC--SSEEEEEESCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEE--CCEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            3456778999999999999999999999999           78888887  569999999999999999 999999999


Q ss_pred             ceEEEeCCCCCC
Q psy2204         120 QSLKIRRPHDYQ  131 (231)
Q Consensus       120 r~i~V~~~~~~~  131 (231)
                      +.|+|.+++...
T Consensus        72 ~~l~V~~a~~~~   83 (92)
T 2dgt_A           72 KRMHVQLSTSRL   83 (92)
T ss_dssp             EEEEEEESSCCC
T ss_pred             cEEEEEEccCCC
Confidence            999999887544

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.74  E-value=2.7e-18  Score=129.98  Aligned_cols=87  Identities=16%  Similarity=0.310  Sum_probs=71.1

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhh--ccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG--LAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~--~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .+......++|||+|||+++|+++|+++|++||.|..  +.     .+.+....++||||||+|.+. +|.+|+ .|||.
T Consensus        16 ~~~~~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~-----i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~   89 (131)
T 2m2b_A           16 EPSSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVR-----VIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQAL   89 (131)
T ss_dssp             CCCCSCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEE-----CCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTC
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEE-----EEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCC
Confidence            3445567789999999999999999999999995533  21     223333456689999999999 999999 99999


Q ss_pred             ----eecCceEEEeCCCCCC
Q psy2204         116 ----NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ----~l~gr~i~V~~~~~~~  131 (231)
                          .+.||.|+|.++++..
T Consensus        90 ~~~~~~~gr~l~V~~a~~~~  109 (131)
T 2m2b_A           90 HPPLTIDGKTINVEFAKGSK  109 (131)
T ss_dssp             CCSCCGGGCCCCCEECCCSC
T ss_pred             CCCccCCCEEEEEEECCCCC
Confidence                9999999999887654

>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=99.73  E-value=7.7e-19  Score=124.33  Aligned_cols=79  Identities=16%  Similarity=0.240  Sum_probs=62.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhh--hhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQM--HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G--~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      .+|||+|||+++|+++|+++|++||  .+.++.     .+.+...+++||||||+|.+.++|.+|+ .|||..+.||.|+
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~-----i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~   76 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIK-----FFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPV   76 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEE-----EEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEE-----EEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEE
Confidence            4899999999999999999999999  555432     1122224556899999999999999999 9999999999999


Q ss_pred             EeCCCCC
Q psy2204         124 IRRPHDY  130 (231)
Q Consensus       124 V~~~~~~  130 (231)
                      |.++.+.
T Consensus        77 V~~~~~~   83 (90)
T 3p5t_L           77 VTPSNKL   83 (90)
T ss_dssp             ECCC---
T ss_pred             EEECCCC
Confidence            9988754

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.73  E-value=1.7e-17  Score=125.16  Aligned_cols=77  Identities=19%  Similarity=0.318  Sum_probs=67.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHH----HHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMM----EFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~----~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ..++++|||+|||+.+++++|+    ++|++||           .|.++.+.   +.||||||+|.+.++|.+|+ .|||
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G-----------~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng   94 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALASSQG-----------DILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQG   94 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHS-----------CEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCC-----------CeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCC
Confidence            3457899999999999999876    6999999           66666663   56899999999999999999 9999


Q ss_pred             CeecCceEEEeCCCCC
Q psy2204         115 INFKGQSLKIRRPHDY  130 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~  130 (231)
                      ..|.|++|+|.+++..
T Consensus        95 ~~l~gr~l~V~~a~~~  110 (127)
T 2a3j_A           95 YPFQGNPLVITFSETP  110 (127)
T ss_dssp             CCCTTSCCEEEECCCC
T ss_pred             CEeCCCEEEEEEccCc
Confidence            9999999999988754

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

Probab=99.73  E-value=1.8e-17  Score=122.01  Aligned_cols=80  Identities=19%  Similarity=0.289  Sum_probs=69.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ...+..++|||+|||+++++++|+++|++||           .|.++++.++     +|||||+|.+.++|.+|+ .||+
T Consensus        10 ~~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G-----------~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g   78 (114)
T 2do0_A           10 QAGRLGSTVFVANLDYKVGWKKLKEVFSMAG-----------VVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNG   78 (114)
T ss_dssp             CCCCCCSCEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCC
Confidence            3445678999999999999999999999999           6766666544     799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.+++...
T Consensus        79 ~~~~g~~l~v~~a~~~~   95 (114)
T 2do0_A           79 QLLFDRPMHVKMDERAL   95 (114)
T ss_dssp             CEETTEECEEEECSCCC
T ss_pred             CEeCCCEEEEEEcccCC
Confidence            99999999999876443

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

Probab=99.73  E-value=7.4e-18  Score=121.98  Aligned_cols=80  Identities=21%  Similarity=0.342  Sum_probs=70.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec----CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN----LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~----~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .....++|||+|||+++|+++|+++|++||           .|.++++.    +.+|||||+|.+.++|.+|+ .||+..
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~   79 (103)
T 2d9p_A           11 TRYQVVNLYVKNLDDGIDDERLRKAFSPFG-----------TITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRI   79 (103)
T ss_dssp             CCSSCCCEEEECCCTTCCHHHHHHTTTTTS-----------CEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCE
Confidence            445778999999999999999999999999           67776665    44899999999999999999 899999


Q ss_pred             ecCceEEEeCCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQP  132 (231)
Q Consensus       117 l~gr~i~V~~~~~~~~  132 (231)
                      |.|+.|+|.+++....
T Consensus        80 ~~g~~l~V~~a~~~~~   95 (103)
T 2d9p_A           80 VATKPLYVALAQRKEE   95 (103)
T ss_dssp             SSSSBCEEEECSSCCC
T ss_pred             eCCcEEEEEEeccccc
Confidence            9999999998876543

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.73  E-value=9.4e-18  Score=120.65  Aligned_cols=77  Identities=19%  Similarity=0.286  Sum_probs=66.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeee--------eEec------CCCcEEEEEecCHHHH
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLA--------CQIN------LDKNFAFLEFRSIDET  106 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~--------~~~~------~~kg~aFV~F~~~~~a  106 (231)
                      ......++|||+|||+++++++|+++|++||           .|.+        +++.      +.+|||||+|.+.++|
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a   76 (99)
T 2la6_A            8 HSHSDNNTIFVQGLGENVTIESVADYFKQIG-----------IIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSA   76 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTS-----------CBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHH
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhC-----------CEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHH
Confidence            3445678999999999999999999999999           4444        4443      3378999999999999


Q ss_pred             HHHH-HhCCCeecCceEEEeCCC
Q psy2204         107 TQAM-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       107 ~~Al-~lng~~l~gr~i~V~~~~  128 (231)
                      .+|+ .|||..+.|+.|+|.+++
T Consensus        77 ~~Ai~~l~g~~~~g~~l~V~~A~   99 (99)
T 2la6_A           77 KAAIDWFDGKEFSGNPIKVSFAT   99 (99)
T ss_dssp             HHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHhCCCEeCCcEEEEEecC
Confidence            9999 899999999999998763

>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=99.73  E-value=1.4e-17  Score=123.03  Aligned_cols=75  Identities=19%  Similarity=0.343  Sum_probs=69.0

Q ss_pred             CCCCeEEE--cCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCee---
Q psy2204          44 RQARRLYV--GNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINF---  117 (231)
Q Consensus        44 ~~~r~lfV--gNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l---  117 (231)
                      .++++|||  |||++++|+++|+++|++||           .|.++.+..+||||||+|.+.++|.+|+ .|||.++   
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG-----------~v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~   91 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCG-----------LVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDD   91 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHS-----------CEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECT
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEccc
Confidence            45789999  77999999999999999999           8888888888999999999999999999 9999998   


Q ss_pred             --cCceEEEeCCCC
Q psy2204         118 --KGQSLKIRRPHD  129 (231)
Q Consensus       118 --~gr~i~V~~~~~  129 (231)
                        .|++|.|.+.+.
T Consensus        92 lg~g~~l~v~~a~~  105 (114)
T 2cq2_A           92 LGQKITLYLNFVEK  105 (114)
T ss_dssp             TSCEEECEEEEESC
T ss_pred             cCCCcEEEEEeccc
Confidence              689999997763

>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=99.73  E-value=7.6e-18  Score=118.14  Aligned_cols=76  Identities=14%  Similarity=0.492  Sum_probs=66.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng  114 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+.+++
T Consensus         6 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~   74 (87)
T 3s7r_A            6 KNEEDAGKMFVGGLSWDTSKKDLKDYFTKFG-----------EVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKE   74 (87)
T ss_dssp             -CCSCTTEEEEECCCTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCC
Confidence            3456778999999999999999999999999           666666643      37899999999999999997799


Q ss_pred             CeecCceEEEeCC
Q psy2204         115 INFKGQSLKIRRP  127 (231)
Q Consensus       115 ~~l~gr~i~V~~~  127 (231)
                      ..+.|+.|+|+++
T Consensus        75 ~~~~g~~i~v~~A   87 (87)
T 3s7r_A           75 HRLDGRVIDPKKA   87 (87)
T ss_dssp             EEETTEEEEEEEC
T ss_pred             CEECCEEEEEEeC
Confidence            9999999999853

>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=99.73  E-value=9.6e-18  Score=122.88  Aligned_cols=80  Identities=23%  Similarity=0.473  Sum_probs=70.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +.....+++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus        20 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l   88 (108)
T 2jrs_A           20 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFG-----------RIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL   88 (108)
T ss_dssp             CCSCSSCEEEEEECCCSSCCHHHHHHHHTTTS-----------CEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHH
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHc
Confidence            33445678999999999999999999999999           676666643      3689999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~  130 (231)
                      ||..+.|+.|+|.+++++
T Consensus        89 ~g~~i~g~~l~V~~a~~k  106 (108)
T 2jrs_A           89 NGFELAGRPMKVGHVTER  106 (108)
T ss_dssp             TTCCSSSSCCEEECSCSS
T ss_pred             CCCEECCEEEEEEEcccC
Confidence            999999999999988754

>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=99.73  E-value=1.1e-17  Score=122.54  Aligned_cols=79  Identities=24%  Similarity=0.350  Sum_probs=69.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .....+++|||+|||+++|+++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|+ .||
T Consensus        21 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~   89 (110)
T 1oo0_B           21 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYG-----------EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN   89 (110)
T ss_dssp             CCBTTBEEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC
Confidence            3445678999999999999999999999999           6777777543      699999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDY  130 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~  130 (231)
                      |..|.|+.|+|.+++..
T Consensus        90 g~~~~g~~l~V~~a~~~  106 (110)
T 1oo0_B           90 GAEIMGQTIQVDWCFVK  106 (110)
T ss_dssp             TCEETTEECEEEESEES
T ss_pred             CCEECCcEEEEEEcccC
Confidence            99999999999987643

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=6.3e-18  Score=122.91  Aligned_cols=78  Identities=19%  Similarity=0.339  Sum_probs=69.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ....+++|||+|||+++++++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||
T Consensus        19 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g   87 (106)
T 1p27_B           19 RSVEGWILFVTGVHEEATEEDIHDKFAEYG-----------EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG   87 (106)
T ss_dssp             CBTTBEEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccC-----------CeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcC
Confidence            345678999999999999999999999999           677777643      3799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCC
Q psy2204         115 INFKGQSLKIRRPHDY  130 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~  130 (231)
                      ..+.|+.|+|.+++..
T Consensus        88 ~~~~g~~l~V~~a~~~  103 (106)
T 1p27_B           88 QDLMGQPISVDWCFVR  103 (106)
T ss_dssp             CBSSSSBCEEEESEES
T ss_pred             CEECCcEEEEEeecCC
Confidence            9999999999987643

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

Probab=99.73  E-value=1.8e-17  Score=120.61  Aligned_cols=79  Identities=18%  Similarity=0.262  Sum_probs=69.3

Q ss_pred             CCCCCCeEEEcCCCCCC------CHHHHHHHHHHhhhhhhccccCCCCeeeeEec----CCCcEEEEEecCHHHHHHHH-
Q psy2204          42 ITRQARRLYVGNIPFGV------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN----LDKNFAFLEFRSIDETTQAM-  110 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~----~~kg~aFV~F~~~~~a~~Al-  110 (231)
                      ....+++|||+|||+.+      |+++|+++|++||           .|.++++.    +++|||||+|.+.++|.+|+ 
T Consensus        11 ~~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~   79 (105)
T 2nlw_A           11 ADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG-----------KITNDFYPEEDGKTKGYIFLEYASPAHAVDAVK   79 (105)
T ss_dssp             CCSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGS-----------CEEEEECCCBTTBSCCEEEEEECSSSHHHHHHH
T ss_pred             CCCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCC-----------CEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHH
Confidence            44567899999999999      7899999999999           66666665    45899999999999999999 


Q ss_pred             HhCCCeecCc-eEEEeCCCCCC
Q psy2204         111 AFDGINFKGQ-SLKIRRPHDYQ  131 (231)
Q Consensus       111 ~lng~~l~gr-~i~V~~~~~~~  131 (231)
                      .|||..|.|+ .|+|.++....
T Consensus        80 ~l~g~~~~g~~~l~V~~a~~~~  101 (105)
T 2nlw_A           80 NADGYKLDKQHTFRVNLFTDFD  101 (105)
T ss_dssp             HCSSEECSTTCEEEEECSCCCC
T ss_pred             HhCCcccCCCceEEEEEcchHh
Confidence            8999999999 99999887543

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=4.6e-17  Score=116.62  Aligned_cols=77  Identities=18%  Similarity=0.325  Sum_probs=70.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .....++|||+||  ++|+++|+++|++||           .|.++++.+++|||||+|.+.++|.+|| .||+..|.|+
T Consensus        11 ~~~~~~~l~V~n~--~~t~~~l~~~F~~~G-----------~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   77 (97)
T 1x5p_A           11 APRKGNTLYVYGE--DMTPTLLRGAFSPFG-----------NIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESV   77 (97)
T ss_dssp             CCCCCSEEEEECS--SCCHHHHHHHHTTTS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTE
T ss_pred             CCCCCCEEEEcCC--CCCHHHHHHHHhhCC-----------CEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            3456789999996  999999999999999           8999999999999999999999999999 9999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|.+++...
T Consensus        78 ~l~v~~a~~~~   88 (97)
T 1x5p_A           78 QLKVNIARKQP   88 (97)
T ss_dssp             EEEEECCSSCC
T ss_pred             EEEEEECCCCC
Confidence            99999887544

>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=99.73  E-value=1.2e-17  Score=117.45  Aligned_cols=75  Identities=29%  Similarity=0.525  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      ..++|||+|||+++++++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+.+||..+.
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~   73 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCG-----------SVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFR   73 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGC-----------CEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEET
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEEC
Confidence            468999999999999999999999999           56666554      3479999999999999999999999999


Q ss_pred             CceEEEeCCCCC
Q psy2204         119 GQSLKIRRPHDY  130 (231)
Q Consensus       119 gr~i~V~~~~~~  130 (231)
                      |+.|+|.++++.
T Consensus        74 g~~l~V~~a~~~   85 (89)
T 3ucg_A           74 GRQIKVIPKRTN   85 (89)
T ss_dssp             TEECEEEETTTT
T ss_pred             CcEEEEEEccCC
Confidence            999999988753

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=8.1e-18  Score=122.36  Aligned_cols=76  Identities=25%  Similarity=0.369  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ....++|||||||+++|+++|+++|++||           .|.++++.+     +||||||+|.+.++|.+||.+|+..+
T Consensus         8 ~~~~~~lfV~~Lp~~~te~~L~~~F~~~G-----------~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~   76 (103)
T 1s79_A            8 DVKNRSVYIKGFPTDATLDDIKEWLEDKG-----------QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKY   76 (103)
T ss_dssp             CSGGGCEEEECCCTTCCHHHHHHHHHTSS-----------CEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCC
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcC-----------CEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEE
Confidence            34568999999999999999999999999           677666654     58999999999999999999999999


Q ss_pred             cCceEEEeCCCC
Q psy2204         118 KGQSLKIRRPHD  129 (231)
Q Consensus       118 ~gr~i~V~~~~~  129 (231)
                      .|+.|.|.+...
T Consensus        77 ~gr~l~V~~~~~   88 (103)
T 1s79_A           77 KETDLLILFKDD   88 (103)
T ss_dssp             TTTTCEEEEHHH
T ss_pred             CCEEEEEEEchH
Confidence            999999986553

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.73  E-value=2.1e-17  Score=119.73  Aligned_cols=79  Identities=18%  Similarity=0.328  Sum_probs=69.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHH-hhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQ-QMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~-~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|+. ||           .|.++++.+     ++|||||+|.+.++|.+|+ .||+
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G-----------~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g   73 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTPDVDDGMLYEFFVKVYP-----------SCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQG   73 (104)
T ss_dssp             CSSCCCCEEEECCCTTCCHHHHHHHHHHHCT-----------TEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCC-----------CeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccC
Confidence            3456789999999999999999999999 99           666666644     4799999999999999999 8999


Q ss_pred             Ce-ecCceEEEeCCCCCC
Q psy2204         115 IN-FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~-l~gr~i~V~~~~~~~  131 (231)
                      .. +.|+.|+|.++....
T Consensus        74 ~~~~~g~~l~v~~a~~~~   91 (104)
T 2dhg_A           74 AVGLGSKPVRLSVAIPKA   91 (104)
T ss_dssp             CCSSSSSCCCCCBCCCCC
T ss_pred             CcccCCEeEEEEEccCCC
Confidence            99 999999999886544

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.72  E-value=1.9e-17  Score=122.07  Aligned_cols=75  Identities=17%  Similarity=0.324  Sum_probs=65.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhh-hhhhccccCCCCeeeeEe--cCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQM-HLSGLAQAAGNPVLACQI--NLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G-~~~~~~~~~~~~i~~~~~--~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ....+|||+|||+++++++|+++|++|| .           |..+++  .+++|||||+|.+.++|.+|| .|||..|.|
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~-----------v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLE-----------TTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCC-----------CSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCe-----------eEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4567999999999999999999999999 3           444444  246899999999999999999 999999999


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      |.|+|.+++.
T Consensus        95 r~i~V~~a~~  104 (111)
T 2jvr_A           95 SVITVERDDN  104 (111)
T ss_dssp             EEEEEEESCC
T ss_pred             eEEEEEECCC
Confidence            9999998764

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.72  E-value=1.8e-17  Score=121.54  Aligned_cols=82  Identities=16%  Similarity=0.389  Sum_probs=65.5

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHh
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAF  112 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~l  112 (231)
                      ...+....++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+||..
T Consensus        18 ~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G-----------~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~   86 (109)
T 2rs2_A           18 GSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFG-----------EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ   86 (109)
T ss_dssp             --------CCEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHS
T ss_pred             ccccCCCCCEEEEeCCCCCCCHHHHHHHHHccC-----------CeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHH
Confidence            345556789999999999999999999999999           677777644      479999999999999999955


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      ++..|.|+.|+|.++....
T Consensus        87 ~~~~l~g~~l~V~~a~~~~  105 (109)
T 2rs2_A           87 SRHELDSKTIDPKVAFPRR  105 (109)
T ss_dssp             SCEEETTEEEEEEECCCCC
T ss_pred             CCCcCCCEEEEEEEccCCC
Confidence            5699999999999887543

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

Probab=99.72  E-value=1e-17  Score=121.23  Aligned_cols=79  Identities=18%  Similarity=0.329  Sum_probs=69.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|| .||+
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g   79 (103)
T 2cq0_A           11 RADDNATIRVTNLSEDTRETDLQELFRPFG-----------SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG   79 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTC-----------CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCC
Confidence            445678999999999999999999999999           6777766543      689999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.++++..
T Consensus        80 ~~~~g~~l~v~~a~~~~   96 (103)
T 2cq0_A           80 FGYDHLILNVEWAKPST   96 (103)
T ss_dssp             CEETTEECEEEESSCCC
T ss_pred             CeeCCcEEEEEECCCCC
Confidence            99999999999887544

>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=99.72  E-value=2.5e-17  Score=127.29  Aligned_cols=80  Identities=20%  Similarity=0.342  Sum_probs=73.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .......++|||+|||+++|+++|+++|++||           .|.++++.++ +|||||+|.+.++|.+|+ .|||..+
T Consensus        67 ~~~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~  135 (150)
T 2i2y_A           67 RDSCPLDCKVYVGNLGNNGNKTELERAFGYYG-----------PLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTL  135 (150)
T ss_dssp             SSSSTTSCEEEEESCCSCCSCHHHHHHHHHHS-----------CEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCS
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhhC-----------CEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEE
Confidence            44556779999999999999999999999999           8888888876 999999999999999999 8999999


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .|++|+|.++++.
T Consensus       136 ~g~~l~v~~a~~~  148 (150)
T 2i2y_A          136 CGCRVRVELSNGE  148 (150)
T ss_dssp             SSSCCEEEECCCC
T ss_pred             CCeEEEEEEcCCC
Confidence            9999999988653

>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=99.72  E-value=8.3e-18  Score=120.55  Aligned_cols=82  Identities=22%  Similarity=0.310  Sum_probs=68.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ....++|||+|||+++++++|+++|++||.|..+.     .+.+....+.+|||||+|.+.++|.+|+ .|||..|.|+.
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~-----~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   86 (98)
T 2cqp_A           12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSV-----CLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRK   86 (98)
T ss_dssp             CCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTC-----EEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceE-----EEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            34567999999999999999999999999665432     2333334556899999999999999999 99999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |+|.+++.
T Consensus        87 l~V~~a~~   94 (98)
T 2cqp_A           87 VKLVLGSG   94 (98)
T ss_dssp             CEEEESSC
T ss_pred             EEEEEcCC
Confidence            99998763

>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=99.72  E-value=1.5e-17  Score=118.87  Aligned_cols=77  Identities=21%  Similarity=0.431  Sum_probs=69.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHH----HHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMM----EFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~----~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ..++++|||+|||+++++++|+    ++|++||           .|.++++.   +++|||||+|.+.++|.+|+ .|||
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G-----------~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g   73 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFG-----------QILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQG   73 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGS-----------CEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCC-----------CEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCC
Confidence            3567899999999999999999    9999999           77777665   55899999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCC
Q psy2204         115 INFKGQSLKIRRPHDY  130 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~  130 (231)
                      ..+.|+.|+|.++++.
T Consensus        74 ~~~~g~~l~v~~a~~~   89 (97)
T 1nu4_A           74 FPFYDKPMRIQYAKTD   89 (97)
T ss_dssp             CEETTEECEEEECSSC
T ss_pred             CEECCcEEEEEEccCC
Confidence            9999999999988753

>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=99.72  E-value=1.5e-17  Score=125.78  Aligned_cols=80  Identities=20%  Similarity=0.346  Sum_probs=70.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ....++++|||+|||+++++++|+++|++||           .|.++++.      +.+|||||+|.+.++|.+|| .||
T Consensus        41 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G-----------~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~ln  109 (129)
T 2kxn_B           41 ANPDPNCCLGVFGLSLYTTERDLREVFSKYG-----------PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN  109 (129)
T ss_dssp             SCCCCSSCBCEETCTTSCCHHHHHHHHTTTS-----------CEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence            3445678999999999999999999999999           67777664      45799999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      |..|.|++|+|.+++...
T Consensus       110 g~~i~g~~l~V~~a~~~~  127 (129)
T 2kxn_B          110 GMELDGRRIRVDFSITKR  127 (129)
T ss_dssp             TCCSSSSCCEESCCSSSS
T ss_pred             CCEECCEEEEEEEecCCC
Confidence            999999999999887543

>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=99.72  E-value=2.9e-18  Score=124.16  Aligned_cols=79  Identities=28%  Similarity=0.648  Sum_probs=68.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++++++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+|+ .||
T Consensus         3 ~~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G-----------~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~   71 (104)
T 1p1t_A            3 AVDRSLRSVFVGNIPYEATEEQLKDIFSEVG-----------PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLN   71 (104)
T ss_dssp             CSHHHHSCEEEESCCTTSCHHHHHHHHHTTS-----------CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSS
T ss_pred             CcCCCccEEEEeCCCCcCCHHHHHHHHHhcC-----------CeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence            3445678999999999999999999999999           5666655433      799999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDY  130 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~  130 (231)
                      |..+.|+.|+|.++...
T Consensus        72 g~~~~g~~l~v~~a~~~   88 (104)
T 1p1t_A           72 GREFSGRALRVDNAASE   88 (104)
T ss_dssp             SBSCSSSCBEEEETTCT
T ss_pred             CCeeCCcEEEEEeCCCc
Confidence            99999999999988754

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=5.8e-17  Score=119.78  Aligned_cols=80  Identities=14%  Similarity=0.288  Sum_probs=69.9

Q ss_pred             CCCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-H
Q psy2204          39 GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-A  111 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~  111 (231)
                      .+......++|||+|||+++|+++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|| .
T Consensus        10 ~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~   78 (116)
T 2cqd_A           10 GSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFG-----------DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD   78 (116)
T ss_dssp             CCCCSCSSSEEEEECCCSSCCHHHHHHHHHTTS-----------CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTC
T ss_pred             CCcCCCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHh
Confidence            345556789999999999999999999999999           6777777553      689999999999999999 8


Q ss_pred             hCCCeecCceEEEeCCCCC
Q psy2204         112 FDGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       112 lng~~l~gr~i~V~~~~~~  130 (231)
                      +|+ .|.|+.|+|.++...
T Consensus        79 ~~~-~~~g~~l~V~~a~~~   96 (116)
T 2cqd_A           79 PNP-IIDGRKANVNLAYLG   96 (116)
T ss_dssp             SSC-EETTEECEEEESTTT
T ss_pred             CCC-cCCCEEEEEEEcccC
Confidence            888 899999999988643

>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=99.72  E-value=5.2e-18  Score=120.84  Aligned_cols=79  Identities=24%  Similarity=0.378  Sum_probs=66.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ..++|||+|||+++|+++|+++|++||.|..+.     .+.+....+.+|||||+|.+.++|.+|+ .||+..|.||.|+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~-----~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~   88 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSV-----CLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVK   88 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCC-----EEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceE-----EEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEE
Confidence            457999999999999999999999999655432     2223233455799999999999999999 8999999999999


Q ss_pred             EeCCC
Q psy2204         124 IRRPH  128 (231)
Q Consensus       124 V~~~~  128 (231)
                      |.++.
T Consensus        89 v~~a~   93 (95)
T 2ek1_A           89 LSGPS   93 (95)
T ss_dssp             EECCC
T ss_pred             EEecc
Confidence            99765

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.72  E-value=6.6e-18  Score=115.18  Aligned_cols=69  Identities=17%  Similarity=0.375  Sum_probs=61.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      +|||+|||+++++++|+++|++||           .|.++++      .+++|||||+|.+.++|.+|+++|+..+.|+.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~   69 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFG-----------KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKM   69 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTS-----------CCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEE
Confidence            599999999999999999999999           4555544      44579999999999999999999999999999


Q ss_pred             EEEeCC
Q psy2204         122 LKIRRP  127 (231)
Q Consensus       122 i~V~~~  127 (231)
                      |+|+++
T Consensus        70 l~v~~A   75 (75)
T 2mss_A           70 VECKKA   75 (75)
T ss_dssp             CEEECC
T ss_pred             EEEEeC
Confidence            999864

>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=99.72  E-value=1.7e-17  Score=124.37  Aligned_cols=81  Identities=20%  Similarity=0.360  Sum_probs=71.2

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +......++|||+|||+++|+++|+++|++||           .|.++.+..+      +|||||+|.+.++|.+|+ .|
T Consensus        16 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l   84 (126)
T 3ex7_B           16 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYG-----------EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL   84 (126)
T ss_dssp             BCCCSSSEEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHh
Confidence            34455678999999999999999999999999           7777777544      799999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      ||..|.|+.|.|.++....
T Consensus        85 ~g~~~~g~~l~v~~a~~~~  103 (126)
T 3ex7_B           85 NGQDLMGQPISVDWCFVRG  103 (126)
T ss_dssp             TTCBSSSSBCEEEESEESS
T ss_pred             CCCeeCCeEEEEEEecCCC
Confidence            9999999999999876543

>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=99.72  E-value=1.8e-17  Score=120.69  Aligned_cols=77  Identities=19%  Similarity=0.393  Sum_probs=68.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ......++|||+|||+++|+++|+++|++||           .|.++++.     +.+|||||+|.+.++|.+|+ .|||
T Consensus        24 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g   92 (107)
T 3ulh_A           24 AGVETGGKLLVSNLDFGVSDADIQELFAEFG-----------TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNG   92 (107)
T ss_dssp             CCCCCSEEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence            3446678999999999999999999999999           67666665     34799999999999999999 8999


Q ss_pred             CeecCceEEEeCCC
Q psy2204         115 INFKGQSLKIRRPH  128 (231)
Q Consensus       115 ~~l~gr~i~V~~~~  128 (231)
                      ..+.|+.|+|.++.
T Consensus        93 ~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           93 VPLDGRPMNIQLVT  106 (107)
T ss_dssp             CEETTEECEEEEEC
T ss_pred             CEeCCcEEEEEEeC
Confidence            99999999998764

>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=99.72  E-value=1.5e-18  Score=125.26  Aligned_cols=84  Identities=19%  Similarity=0.360  Sum_probs=65.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ......++|||+|||+++++++|+++|+.|| |.++.     .+.+. ...+.+|||||+|.+.++|.+|+.|||..|.|
T Consensus        14 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~-----i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g   87 (100)
T 2j76_E           14 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR-----LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGN   87 (100)
T ss_dssp             ------CEEEESCCSSCCSSSHHHHHSCSSC-EEEEE-----CSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTT
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEE-----EEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECC
Confidence            3446678999999999999999999999998 55442     11111 13456899999999999999999999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      +.|+|.++++.
T Consensus        88 ~~l~V~~a~~~   98 (100)
T 2j76_E           88 RRIRVDVADQA   98 (100)
T ss_dssp             BCCCCEECCCS
T ss_pred             eEEEEEeccCC
Confidence            99999987643

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.72  E-value=1.6e-17  Score=119.78  Aligned_cols=81  Identities=19%  Similarity=0.414  Sum_probs=68.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .....++|||+|||+++|+++|+++|++||.|.        .+.+ ...+.+|||||+|.+.++|.+|+ .||+..|.|+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~--------~~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   81 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFIK--------VPQN-QNGKSKGYAFIEFASFEDAKEALNSCNKREIEGR   81 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEEE--------CCBC-SSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEEE--------EEEC-CCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence            455789999999999999999999999999441        1112 34566899999999999999999 8999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|.++++..
T Consensus        82 ~l~v~~a~~~~   92 (101)
T 2fc9_A           82 AIRLELQGPRG   92 (101)
T ss_dssp             EEEEEECSSCC
T ss_pred             EEEEEEcCCCC
Confidence            99999887543

>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=99.71  E-value=1.1e-17  Score=121.44  Aligned_cols=82  Identities=21%  Similarity=0.393  Sum_probs=67.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCCCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      ...++|||+|||+++++++|+++|+.|| |..+.     .+.+... .+.+|||||+|.+.++|.+||.||+..|.|+.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~-----i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l   86 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR-----LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRI   86 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEE-----CCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEE-----EecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEE
Confidence            4568999999999999999999999998 54432     1122222 455899999999999999999999999999999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.+++...
T Consensus        87 ~V~~a~~~~   95 (104)
T 1wi8_A           87 RVDVADQAQ   95 (104)
T ss_dssp             EEEECCCCC
T ss_pred             EEEEccCCC
Confidence            999887654

>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=99.71  E-value=2.9e-17  Score=120.38  Aligned_cols=74  Identities=22%  Similarity=0.452  Sum_probs=67.9

Q ss_pred             CCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          44 RQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        44 ~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ..+++|||+|||++ +|+++|+++|++||           .|.++++  .+|||||+|.+.++|.+|+ .||+..|.|+.
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F~~~G-----------~v~~v~i--~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   91 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIFSKYG-----------RVAGCSV--HKGYAFVQYSNERHARAAVLGENGRVLAGQT   91 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGS-----------CCSEEEE--ETTEEEEECSSSHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCC-----------CeEEEEE--eCCEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            44689999999999 99999999999999           7777777  5899999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.+++..
T Consensus        92 l~V~~a~~~  100 (110)
T 1wf1_A           92 LDINMAGEP  100 (110)
T ss_dssp             CCEEESCCC
T ss_pred             EEEEECCCC
Confidence            999988643

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

Probab=99.71  E-value=1e-17  Score=116.11  Aligned_cols=69  Identities=19%  Similarity=0.296  Sum_probs=61.5

Q ss_pred             CCeEEEcCCCCCC------CHHHHHHHHHHhhhhhhccccCCCCeeeeEec----CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          46 ARRLYVGNIPFGV------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN----LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        46 ~r~lfVgNLp~~~------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~----~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      +++|||+|||+++      ++++|+++|++||           .|.++++.    +++|||||+|.+.++|.+|+ .|||
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng   69 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG-----------KITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADG   69 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTC-----------CEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSS
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcC-----------CeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcC
Confidence            4799999999999      7799999999999           66666665    45899999999999999999 8999


Q ss_pred             CeecCc-eEEEe
Q psy2204         115 INFKGQ-SLKIR  125 (231)
Q Consensus       115 ~~l~gr-~i~V~  125 (231)
                      ..+.|+ +|+|.
T Consensus        70 ~~~~g~~~l~V~   81 (81)
T 2krb_A           70 YKLDKQHTFRVN   81 (81)
T ss_dssp             CCCSSSSCCCCC
T ss_pred             cccCCceeEEeC
Confidence            999999 88763

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.71  E-value=5.6e-17  Score=115.52  Aligned_cols=79  Identities=22%  Similarity=0.409  Sum_probs=67.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCc-EEEEEecCHHHHHHHHHhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-FAFLEFRSIDETTQAMAFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg-~aFV~F~~~~~a~~Al~lng~~l~gr  120 (231)
                      .....++|||+|||+++|+++|+++|+.||           .|.++.+.+..+ ||||+|.+.++|.+||.|||..|.|+
T Consensus         4 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G-----------~v~~v~~~~~~g~~afV~f~~~~~a~~ai~l~g~~~~g~   72 (94)
T 2e5g_A            4 GSSGLRSVFVSGFPRGVDSAQLSEYFLAFG-----------PVASVVMDKDKGVFAIVEMGDVGAREAVLSQSQHSLGGH   72 (94)
T ss_dssp             CCTTCCEEEEECCCTTCCHHHHHHHGGGTS-----------CEEEEEECSSSCCEEEEEESSHHHHHHHHTCSCCEETTE
T ss_pred             ccCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CeEEEEEcCCCCcEEEEEECCHHHHHHHHhcCCeEECCE
Confidence            345678999999999999999999999999           677663333322 99999999999999999999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|.|.++....
T Consensus        73 ~l~V~~a~~~~   83 (94)
T 2e5g_A           73 RLRVRPREQKE   83 (94)
T ss_dssp             ECCCBCSCCSC
T ss_pred             EEEEEECCcCC
Confidence            99999776443

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=3.4e-18  Score=119.39  Aligned_cols=74  Identities=20%  Similarity=0.398  Sum_probs=66.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ..+++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~   71 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYG-----------KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASG   71 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTS-----------CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCe
Confidence            4678999999999999999999999999           6777766543      799999999999999999 899999


Q ss_pred             ecCceEEEeCCC
Q psy2204         117 FKGQSLKIRRPH  128 (231)
Q Consensus       117 l~gr~i~V~~~~  128 (231)
                      +.|+.|++.+++
T Consensus        72 ~~g~~~~~~~~~   83 (85)
T 1x4e_A           72 VQAQMAKQSGPS   83 (85)
T ss_dssp             CCEESCCSSCCC
T ss_pred             EeeEEEeecCCC
Confidence            999999988765

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.71  E-value=1.1e-17  Score=121.16  Aligned_cols=78  Identities=23%  Similarity=0.482  Sum_probs=67.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGI  115 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~  115 (231)
                      .....++|||+|||+++++++|+++|++||            |.++++.      +.+|||||+|.+.++|.+||.||+.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g------------i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~   78 (103)
T 2dng_A           11 PTEPPYTAYVGNLPFNTVQGDIDAIFKDLS------------IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGA   78 (103)
T ss_dssp             CSSSCEEEEEESCCTTCCHHHHHHHTTTSC------------EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTC
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhCC------------ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCC
Confidence            334578999999999999999999999996            4444443      4478999999999999999999999


Q ss_pred             eecCceEEEeCCCCCC
Q psy2204         116 NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~  131 (231)
                      .|.|+.|+|.+++...
T Consensus        79 ~~~g~~l~V~~a~~~~   94 (103)
T 2dng_A           79 LLGDRSLRVDIAEGRK   94 (103)
T ss_dssp             EETTEECEEEECCCCC
T ss_pred             eECCeEEEEEEecCCC
Confidence            9999999999887544

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

Probab=99.71  E-value=8.9e-18  Score=121.28  Aligned_cols=75  Identities=19%  Similarity=0.350  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCC------CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-
Q psy2204          44 RQARRLYVGNIPF------GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-  110 (231)
Q Consensus        44 ~~~r~lfVgNLp~------~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-  110 (231)
                      ..+++|||+|||+      ++++++|+++|++||           .|.++++      .++||||||+|.+.++|.+|| 
T Consensus         4 ~~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G-----------~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~   72 (100)
T 3ns6_A            4 GSDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAG-----------KVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIK   72 (100)
T ss_dssp             CGGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTS-----------CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHH
T ss_pred             CcCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcC-----------CEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHH
Confidence            4568999999999      999999999999999           6666665      445799999999999999999 


Q ss_pred             HhCCCeecC-ceEEEeCCCC
Q psy2204         111 AFDGINFKG-QSLKIRRPHD  129 (231)
Q Consensus       111 ~lng~~l~g-r~i~V~~~~~  129 (231)
                      .|||..|.| |.|+|.++.+
T Consensus        73 ~lng~~~~g~r~l~V~~a~~   92 (100)
T 3ns6_A           73 SFHGKRLDLKHRLFLYTMKD   92 (100)
T ss_dssp             HHTTCBSSSSCBCEEEESHH
T ss_pred             HhCCcccCCCeEEEEEECch
Confidence            999999999 9999997753

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

Probab=99.71  E-value=1.4e-17  Score=119.16  Aligned_cols=75  Identities=19%  Similarity=0.415  Sum_probs=67.4

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          43 TRQARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        43 ~~~~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ..++++|||+|||+ ++++++|+++|++||           .|.++++.  +|||||+|.+.++|.+|+ .|||..+.|+
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G-----------~v~~v~i~--~g~afV~f~~~~~A~~A~~~l~g~~~~g~   73 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYG-----------HIMQINIK--NAFGFIQFDNPQSVRDAIECESQEMNFGK   73 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTC-----------CCCEEEEE--TTEEEEEESCHHHHHHHHHHHTCSSCBTT
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcC-----------CEEEEEEe--CCEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            45678999999999 999999999999999           78887775  899999999999999999 8999999999


Q ss_pred             eEEEeCCCCC
Q psy2204         121 SLKIRRPHDY  130 (231)
Q Consensus       121 ~i~V~~~~~~  130 (231)
                      .|+|.+++..
T Consensus        74 ~l~V~~a~~~   83 (96)
T 2kvi_A           74 KLILEVSSSN   83 (96)
T ss_dssp             TBCEEEEECC
T ss_pred             EEEEEEcCcC
Confidence            9999987643

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.71  E-value=1.2e-17  Score=119.21  Aligned_cols=80  Identities=26%  Similarity=0.450  Sum_probs=68.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      ......++|||+|||+++++++|+++|+.||           .|..+ ...+++|||||+|.+.++|.+|+ .|||..+.
T Consensus        11 ~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~g-----------~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   79 (96)
T 1fjc_A           11 KKVRAARTLLAKNLSFNITEDELKEVFEDAL-----------EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEID   79 (96)
T ss_dssp             STTTGGGEEEEESCCSSCCHHHHHHHHCSEE-----------EECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEET
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHhhCC-----------cEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3445678999999999999999999999999           34333 44556899999999999999999 89999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|+|.++++..
T Consensus        80 g~~l~v~~a~~~~   92 (96)
T 1fjc_A           80 GRSVSLYYTGEKG   92 (96)
T ss_dssp             TEEEEEEECSSSC
T ss_pred             CeEEEEEEcCCCC
Confidence            9999999887543

>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=99.70  E-value=4.7e-17  Score=120.03  Aligned_cols=75  Identities=21%  Similarity=0.446  Sum_probs=68.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ..+++|||+|||+++|+++|+++|+.||           .|.++.+.   ..+|||||+|.+.++|.+|+ .|||..+.|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   74 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYG-----------PIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSN   74 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4568999999999999999999999999           77777774   34799999999999999999 899999999


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      +.|.|.++.+
T Consensus        75 ~~l~v~~a~~   84 (115)
T 3lqv_A           75 RYLVVLYYNA   84 (115)
T ss_dssp             CBCEEEECCH
T ss_pred             eEEEEEEecC
Confidence            9999998764

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.70  E-value=2.6e-17  Score=119.47  Aligned_cols=80  Identities=19%  Similarity=0.398  Sum_probs=69.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHHHhCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAMAFDG  114 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al~lng  114 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+||..|+
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~   79 (105)
T 2dh8_A           11 SGADEIGKLFVGGLDWSTTQETLRSYFSQYG-----------EVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRP   79 (105)
T ss_dssp             CCSSSSSEECCBSCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCC
Confidence            3456678999999999999999999999999           6766666543      5899999999999999994499


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.++++..
T Consensus        80 ~~~~g~~l~V~~a~~~~   96 (105)
T 2dh8_A           80 HTLDGRNIDPKPCTPRG   96 (105)
T ss_dssp             EEETTEEEBCCCSCCSS
T ss_pred             CeECCEEEEEEEccCCC
Confidence            99999999999887654

>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=99.70  E-value=1.3e-17  Score=123.27  Aligned_cols=82  Identities=15%  Similarity=0.231  Sum_probs=66.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhh-hhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHL-SGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~-~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr  120 (231)
                      .....++|||+|||+++|+++|+++|+.||.+ ..+.      |...+..+.+|||||+|.+.++|.+||.+|+..|.||
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~------i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr   84 (114)
T 2cpy_A           11 VNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVH------VLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGR   84 (114)
T ss_dssp             CCSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEE------ECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTE
T ss_pred             CCCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEE------EEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCCe
Confidence            34567899999999999999999999999944 2221      1111134568999999999999999996699999999


Q ss_pred             eEEEeCCCC
Q psy2204         121 SLKIRRPHD  129 (231)
Q Consensus       121 ~i~V~~~~~  129 (231)
                      .|+|.++..
T Consensus        85 ~i~v~~a~~   93 (114)
T 2cpy_A           85 EAFVHVVTL   93 (114)
T ss_dssp             EEEEEEECH
T ss_pred             EEEEEECCH
Confidence            999997653

>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=99.70  E-value=1.5e-17  Score=117.13  Aligned_cols=75  Identities=17%  Similarity=0.376  Sum_probs=66.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ++.+++|||+|||+++++++|+++|++| .           |.++++.+++|||||+|.+.++|.+|+ .|||..+.|+.
T Consensus         2 s~~~~~l~V~nLp~~~t~~~l~~~F~~~-~-----------v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   69 (88)
T 1wg1_A            2 SSGSSGILVKNLPQDSNCQEVHDLLKDY-D-----------LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKD   69 (88)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHTCSS-C-----------CCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhC-C-----------eEEEEEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcE
Confidence            3567899999999999999999999999 4           444444577999999999999999999 89999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |+|.++..
T Consensus        70 l~V~~a~~   77 (88)
T 1wg1_A           70 LIVQLQPT   77 (88)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEcCC
Confidence            99998754

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.70  E-value=1.6e-17  Score=123.55  Aligned_cols=80  Identities=14%  Similarity=0.275  Sum_probs=66.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhh---hhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMH---LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~---~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ....++|||+|||+++|+++|+++|+.||.   |..+      .|...+..+.+|||||+|.+.++|.+||.+|+..|.|
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v------~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~g   87 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGV------HFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGH   87 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGE------EEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEETT
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeE------EEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECC
Confidence            356789999999999999999999999996   3333      1222122556899999999999999999999999999


Q ss_pred             ceEEEeCCC
Q psy2204         120 QSLKIRRPH  128 (231)
Q Consensus       120 r~i~V~~~~  128 (231)
                      |.|+|.++.
T Consensus        88 r~i~V~~a~   96 (118)
T 2db1_A           88 RYIEVFKSH   96 (118)
T ss_dssp             EEEEEEEEC
T ss_pred             eEEEEEECC
Confidence            999998664

>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=99.70  E-value=2.3e-17  Score=121.25  Aligned_cols=77  Identities=16%  Similarity=0.278  Sum_probs=68.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH---HHHHHhhhhhhccccCCCCeeeeEecCC---------CcEEEEEecCHHHHHHHH-
Q psy2204          44 RQARRLYVGNIPFGVTEDEMM---EFFNQQMHLSGLAQAAGNPVLACQINLD---------KNFAFLEFRSIDETTQAM-  110 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~---~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------kg~aFV~F~~~~~a~~Al-  110 (231)
                      ...++|||+|||+++++++|+   ++|++||           .|.++++.++         +|||||+|.+.++|.+|| 
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G-----------~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~   81 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFG-----------KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQ   81 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTS-----------CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccC-----------CEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHH
Confidence            457899999999999999999   9999999           6777776543         479999999999999999 


Q ss_pred             HhCCCeecCceEEEeCCCCCC
Q psy2204         111 AFDGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       111 ~lng~~l~gr~i~V~~~~~~~  131 (231)
                      .|||..|.|+.|+|.++++..
T Consensus        82 ~lng~~~~gr~l~V~~a~~k~  102 (111)
T 2cpi_A           82 CVNNVVVDGRTLKASLGTTKY  102 (111)
T ss_dssp             HHTTEEETTEEEEEESCCCCS
T ss_pred             HhCCCEECCEEEEEEeccccc
Confidence            899999999999999887543

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.70  E-value=2.3e-16  Score=117.93  Aligned_cols=79  Identities=19%  Similarity=0.371  Sum_probs=69.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ....+++|||+|||+++++++|+++|++||           .|.++++.+     .+|||||+|.+.++|.+|+ .|||.
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~   99 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFG-----------TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGV   99 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTS-----------CCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCC
Confidence            445678999999999999999999999999           555555543     5899999999999999999 89999


Q ss_pred             eecCceEEEeCCCCCC
Q psy2204         116 NFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~~  131 (231)
                      .+.|+.|+|.++....
T Consensus       100 ~~~g~~l~V~~a~~~~  115 (124)
T 2kt5_A          100 PLDGRPMDIQLVASQI  115 (124)
T ss_dssp             ESSSCEEEEEEECCTT
T ss_pred             EECCcEEEEEEeCCCC
Confidence            9999999999876543

>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=99.70  E-value=2.4e-17  Score=122.02  Aligned_cols=77  Identities=16%  Similarity=0.293  Sum_probs=65.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ...+..++|||+|||+++|+++|+++|++||           .|.++++..+ |||||+|.+.++|.+|| .|||..|.|
T Consensus        11 p~~r~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~g   78 (115)
T 3beg_B           11 PSRRSENRVVVSGLPPSGSWQDLKDHMREAG-----------DVCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRS   78 (115)
T ss_dssp             ------CCEEEEECCSSCCTTHHHHHHGGGS-----------CEEEEEECTT-SEEEEEESSHHHHHHHHHHHTTCBCCC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEecC-CEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3345678999999999999999999999999           8999988877 99999999999999999 899999999


Q ss_pred             ce-----EEEeCCCC
Q psy2204         120 QS-----LKIRRPHD  129 (231)
Q Consensus       120 r~-----i~V~~~~~  129 (231)
                      +.     |+|.....
T Consensus        79 r~~~~~~i~v~~~~~   93 (115)
T 3beg_B           79 HEGETAYIRVKVDGP   93 (115)
T ss_dssp             TTSCCCBCEEEECC-
T ss_pred             cEeeeEEEEeccCCC
Confidence            98     67765544

>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=99.70  E-value=1.8e-16  Score=123.27  Aligned_cols=80  Identities=24%  Similarity=0.392  Sum_probs=70.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|| .|||
T Consensus        66 ~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G-----------~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g  134 (158)
T 2kn4_A           66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYG-----------RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG  134 (158)
T ss_dssp             CCCBCCEEEEESCCTTCCHHHHHHHHHHHS-----------CEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC
Confidence            345578999999999999999999999999           666666644      4799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~~  132 (231)
                      ..|.|+.|+|.++++..+
T Consensus       135 ~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A          135 AVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             EESSSSEEEEEEECCSSC
T ss_pred             CEECCeEEEEEECCCCCC
Confidence            999999999998876543

>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=99.70  E-value=1.5e-17  Score=126.96  Aligned_cols=82  Identities=13%  Similarity=0.241  Sum_probs=67.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhh---hhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMH---LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~---~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ......++|||+|||+++|+++|+++|+.||.   +.++.      |...+..++||||||+|.+.++|.+||.+|+..|
T Consensus        39 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~------i~~d~~g~srG~aFV~F~~~e~a~~Al~~~g~~l  112 (136)
T 2hgl_A           39 PEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVH------FIYTREGRQSGEAFVELGSEDDVKMALKKDRESM  112 (136)
T ss_dssp             SSCCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEE------EEECSSSCEEEEEEEECSSHHHHHHHHTTTEEES
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEE------EEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEE
Confidence            44567789999999999999999999999995   33331      2211225568999999999999999999999999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .||.|+|.++.
T Consensus       113 ~gr~i~V~~a~  123 (136)
T 2hgl_A          113 GHRYIEVFKSH  123 (136)
T ss_dssp             SSSEEEEEECC
T ss_pred             CCEEEEEEECC
Confidence            99999998764

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.70  E-value=1e-16  Score=121.87  Aligned_cols=77  Identities=22%  Similarity=0.392  Sum_probs=68.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      .......++|||+|||+++++++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|+ .|
T Consensus        57 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l  125 (140)
T 2ku7_A           57 GGSATTKRVLYVGGLAEEVDDKVLHAAFIPFG-----------DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM  125 (140)
T ss_dssp             CSSCSSCCEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHS
T ss_pred             CCCCCCCcEEEEEeCCCCCCHHHHHHHHHhcC-----------CEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHh
Confidence            34455789999999999999999999999999           677777744      4799999999999999999 99


Q ss_pred             CCCeecCceEEEeCC
Q psy2204         113 DGINFKGQSLKIRRP  127 (231)
Q Consensus       113 ng~~l~gr~i~V~~~  127 (231)
                      ||..|.|+.|+|.++
T Consensus       126 ~g~~~~g~~l~v~~A  140 (140)
T 2ku7_A          126 NESELFGRTIRVNLA  140 (140)
T ss_dssp             TEEEETTEEEEEEC-
T ss_pred             CCCEECCEEEEEEeC
Confidence            999999999999864

>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=99.69  E-value=7.4e-18  Score=126.28  Aligned_cols=82  Identities=12%  Similarity=0.200  Sum_probs=69.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      .....++|||+|||+++|+++|+++|+.||.|..+.     .+.+....+.+|||||+|.+.++|.+||.+|+..|.||.
T Consensus        21 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~-----~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~   95 (124)
T 1wel_A           21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSI-----YIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRF   95 (124)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTC-----EEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceE-----EEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcE
Confidence            345668999999999999999999999999665432     333444556689999999999999999999999999999


Q ss_pred             EEEeCCC
Q psy2204         122 LKIRRPH  128 (231)
Q Consensus       122 i~V~~~~  128 (231)
                      |.|.++.
T Consensus        96 i~V~~a~  102 (124)
T 1wel_A           96 IQVHPIT  102 (124)
T ss_dssp             BEEEEEC
T ss_pred             EEEEECC
Confidence            9999765

>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=99.69  E-value=1.1e-17  Score=123.26  Aligned_cols=75  Identities=20%  Similarity=0.383  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCe
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGIN  116 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~  116 (231)
                      ....++|||+|||+++++++|+++|+.||           .|.++++.      +.+|||||+|.+.++|.+||.||+..
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~   90 (114)
T 2cq4_A           22 ERDARTVFCMQLAARIRPRDLEDFFSAVG-----------KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQR   90 (114)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCE
Confidence            34668999999999999999999999999           67777764      45799999999999999999999999


Q ss_pred             ecCceEEEeCCC
Q psy2204         117 FKGQSLKIRRPH  128 (231)
Q Consensus       117 l~gr~i~V~~~~  128 (231)
                      |.|+.|+|.+++
T Consensus        91 ~~g~~l~V~~a~  102 (114)
T 2cq4_A           91 LLGVPIIVQASQ  102 (114)
T ss_dssp             ETTEEEEEEEHH
T ss_pred             eCCeEEEEEecC
Confidence            999999999765

>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=99.69  E-value=7.7e-17  Score=125.29  Aligned_cols=81  Identities=22%  Similarity=0.464  Sum_probs=70.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ......++|||+|||+++|+++|+++|++||           .|.++++.+      .+|||||+|.+.++|.+|| .||
T Consensus        34 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~  102 (156)
T 1h2v_Z           34 KLLKKSCTLYVGNLSFYTTEEQIYELFSKSG-----------DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYIN  102 (156)
T ss_dssp             TTTTTCCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTT
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence            3445678999999999999999999999999           677777643      3689999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQP  132 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~~  132 (231)
                      +..|.|+.|+|.++++...
T Consensus       103 g~~~~g~~l~V~~a~~~~~  121 (156)
T 1h2v_Z          103 GTRLDDRIIRTDWDAGFKE  121 (156)
T ss_dssp             TSEETTEECEEEEESCCCT
T ss_pred             CCEECCeEEEEEECCCCCC
Confidence            9999999999998876543

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.69  E-value=3.4e-17  Score=115.80  Aligned_cols=82  Identities=18%  Similarity=0.333  Sum_probs=67.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      .....++|||+|||+++++++|+++|+.| .+..+.      +......+.+|||||+|.+.++|.+||.||+..|.||.
T Consensus         6 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~------i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~   78 (91)
T 2dgw_A            6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIR------IVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRY   78 (91)
T ss_dssp             CCCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEE------EEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEE
T ss_pred             CCCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEE------EEECCCCCCceEEEEEECCHHHHHHHHHhCCceeCCcE
Confidence            34567899999999999999999999999 544331      21113344589999999999999999999999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.+++..
T Consensus        79 i~v~~a~~~   87 (91)
T 2dgw_A           79 IEVFREKSG   87 (91)
T ss_dssp             EEEEEESSC
T ss_pred             EEEEECCcC
Confidence            999987654

>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=99.69  E-value=2.3e-17  Score=119.87  Aligned_cols=81  Identities=16%  Similarity=0.273  Sum_probs=65.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhh-ccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG-LAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~-~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      ....++|||+|||+++|+++|+++|+.||.|.. +.     .+.+ ...+.+|||||+|.+.++|.+||..|+..+.||.
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~-----i~~~-~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~   85 (104)
T 1wg5_A           12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMT-----LPVD-FQGRSTGEAFVQFASQEIAEKALKKHKERIGHRY   85 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEE-----CCBC-SSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEE-----EEEC-CCCCcceEEEEEECCHHHHHHHHHhCcchhCCcE
Confidence            356789999999999999999999999994332 11     1111 3345689999999999999999955999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |+|..+..
T Consensus        86 i~v~~~~~   93 (104)
T 1wg5_A           86 IEIFKSSR   93 (104)
T ss_dssp             CEEEEECT
T ss_pred             EEEEECCH
Confidence            99987653

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.69  E-value=1.8e-17  Score=119.62  Aligned_cols=82  Identities=18%  Similarity=0.329  Sum_probs=66.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      .....++|||+|||+++|+++|+++|+.|+.+.        .+.+....+.+|||||+|.+.++|.+|| .||+..|.|+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~--------~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   82 (102)
T 2fc8_A           11 RSQPSKTLFVKGLSEDTTEETLKESFDGSVRAR--------IVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGN   82 (102)
T ss_dssp             SSCCCSSEEEECCCTTCCHHHHHHTSTTCSEEE--------EEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCCEEEEeCCCCccCHHHHHHHhcCCeEEE--------EEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            345678999999999999999999999875211        1222223455799999999999999999 8999999999


Q ss_pred             eEEEeCCCCCC
Q psy2204         121 SLKIRRPHDYQ  131 (231)
Q Consensus       121 ~i~V~~~~~~~  131 (231)
                      .|+|.++++..
T Consensus        83 ~l~V~~a~~~~   93 (102)
T 2fc8_A           83 KVTLDWAKPKG   93 (102)
T ss_dssp             ECEEEECCCCC
T ss_pred             EEEEEEecCCC
Confidence            99999887654

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.69  E-value=1.8e-17  Score=126.26  Aligned_cols=79  Identities=23%  Similarity=0.362  Sum_probs=69.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|++||           .|.++++.      +.+|||||+|.+.++|.+|+ .|||
T Consensus        43 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G-----------~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g  111 (135)
T 2lea_A           43 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYG-----------RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG  111 (135)
T ss_dssp             SGGGCCCEEEECCCSSCHHHHHHHHHGGGS-----------CCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCC
Confidence            345678999999999999999999999999           55555554      44799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~  131 (231)
                      ..|.|+.|+|.+++...
T Consensus       112 ~~i~g~~l~V~~a~~~~  128 (135)
T 2lea_A          112 AVLDGRELRVQMARYGR  128 (135)
T ss_dssp             CCSSSSCCEEEECCCCC
T ss_pred             CEECCEEEEEEECCCCC
Confidence            99999999999887644

>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=99.69  E-value=2.3e-16  Score=114.04  Aligned_cols=80  Identities=24%  Similarity=0.422  Sum_probs=68.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHHHhC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAMAFD  113 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al~ln  113 (231)
                      .......++|||+|||+++++++|+++|+.||           .|.++++.++      +|||||+|.+.++|.+||. +
T Consensus         9 ~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~   76 (103)
T 2cqg_A            9 KRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFG-----------EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-Q   76 (103)
T ss_dssp             SCCCCCCCCEEEESCCSSCCHHHHHHHHGGGS-----------CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-S
T ss_pred             CCccCCCCEEEEEcCCCcCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH-c
Confidence            33445678999999999999999999999999           6766666443      6899999999999999996 4


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      +..+.|+.|.|.++....
T Consensus        77 ~~~~~g~~l~v~~a~~~~   94 (103)
T 2cqg_A           77 RHMIDGRWCDCKLPNSKQ   94 (103)
T ss_dssp             CEEETTEEEEEECCCTTC
T ss_pred             CCeeCCeEEEEEecCCCC
Confidence            789999999999887654

>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=99.69  E-value=1.7e-16  Score=124.15  Aligned_cols=76  Identities=22%  Similarity=0.228  Sum_probs=66.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec--CCCcEEEEEecCHHHHHHHH-HhCCCeecC-
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN--LDKNFAFLEFRSIDETTQAM-AFDGINFKG-  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~--~~kg~aFV~F~~~~~a~~Al-~lng~~l~g-  119 (231)
                      ..-.+|||+||++.+|+++|+++|++||           .|.++++.  +.+|||||+|.+.++|.+|+ .|||..|.| 
T Consensus        44 s~vl~l~VgNL~~~vted~L~~~Fs~fG-----------~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~  112 (164)
T 1sjr_A           44 SPVLRIIVENLFYPVTLDVLHQIFSKFG-----------TVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNA  112 (164)
T ss_dssp             CCEEEEEECSCCSCCCHHHHHHHHHHHS-----------CEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSS
T ss_pred             CceEEEEEeCcCCCCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCC
Confidence            3345799999999999999999999999           67777663  34689999999999999999 999999976 


Q ss_pred             -ceEEEeCCCCC
Q psy2204         120 -QSLKIRRPHDY  130 (231)
Q Consensus       120 -r~i~V~~~~~~  130 (231)
                       +.|+|.+++..
T Consensus       113 g~~L~V~~Ak~~  124 (164)
T 1sjr_A          113 CCTLRIDFSKLT  124 (164)
T ss_dssp             CSCEEEEECSSS
T ss_pred             CcEEEEEEecCC
Confidence             99999988764

>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=99.69  E-value=2e-17  Score=112.70  Aligned_cols=69  Identities=19%  Similarity=0.354  Sum_probs=60.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      +|||+|||+++++++|+++|++||           .|.++++      .+++|||||+|.+.++|.+|+.+++..+.|+.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~   69 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFG-----------EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK   69 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHS-----------CCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEE
Confidence            699999999999999999999999           5555555      44589999999999999999977999999999


Q ss_pred             EEEeCC
Q psy2204         122 LKIRRP  127 (231)
Q Consensus       122 i~V~~~  127 (231)
                      |+|+++
T Consensus        70 l~v~~a   75 (75)
T 1iqt_A           70 CEIKVA   75 (75)
T ss_dssp             CCEEEC
T ss_pred             EEEEEC
Confidence            998753

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.69  E-value=5.7e-17  Score=121.14  Aligned_cols=76  Identities=25%  Similarity=0.478  Sum_probs=67.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      ..++|||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+.|||..|.
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~  103 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCG-----------SINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFR  103 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTS-----------CEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeEC
Confidence            468999999999999999999999999           66666554      4479999999999999999999999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|+|.+++...
T Consensus       104 g~~l~V~~a~~~~  116 (124)
T 2jwn_A          104 GRTIKVLPKRTNM  116 (124)
T ss_dssp             TEECEEEESSCCC
T ss_pred             CeEEEEEECCCCC
Confidence            9999999887543

>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=99.69  E-value=6.2e-17  Score=124.05  Aligned_cols=91  Identities=18%  Similarity=0.235  Sum_probs=72.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ....+++|||+|||+++|+++|+++|+.||.|..+....-..+......+.+|||||+|.+.++|.+|| .|||..|.|+
T Consensus        41 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~  120 (143)
T 3egn_A           41 PGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGK  120 (143)
T ss_dssp             CCSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCc
Confidence            345678999999999999999999999999765430000001333456788999999999999999999 8999999999


Q ss_pred             eEEEeCCCCCCC
Q psy2204         121 SLKIRRPHDYQP  132 (231)
Q Consensus       121 ~i~V~~~~~~~~  132 (231)
                      .|.|.+++....
T Consensus       121 ~l~V~~a~~~~~  132 (143)
T 3egn_A          121 PMVVQFARSARP  132 (143)
T ss_dssp             ECEEEECCCSCC
T ss_pred             EEEEEECCCCCC
Confidence            999998876543

>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=99.68  E-value=2.4e-17  Score=120.36  Aligned_cols=82  Identities=12%  Similarity=0.221  Sum_probs=67.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhh---hhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMH---LSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~---~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ......++|||+|||+++|+++|+++|+.||.   +.++.     .+.+.. ++++|||||+|.+.++|.+||.+|+..+
T Consensus         6 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~-----i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~~~~~   79 (107)
T 2lmi_A            6 EEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIH-----FLLNRD-GKRRGDALIEMESEQDVQKALEKHRMYM   79 (107)
T ss_dssp             CCCSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEE-----CCCCTT-STTCSEEEEEBSSHHHHHHHHTTTTCCS
T ss_pred             CCCCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEE-----EEECCC-CCEeeEEEEEECCHHHHHHHHHhCccee
Confidence            34457789999999999999999999999985   33331     111222 5568999999999999999999999999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .||.|+|.++.
T Consensus        80 ~gr~i~V~~a~   90 (107)
T 2lmi_A           80 GQRYVEVYEIN   90 (107)
T ss_dssp             SSSCCCCEECC
T ss_pred             CCeEEEEEECC
Confidence            99999998765

>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=99.68  E-value=1.5e-17  Score=120.65  Aligned_cols=80  Identities=16%  Similarity=0.214  Sum_probs=65.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      ....++|||+|||+++|+++|+++|+.||. ..+      .|...+..++||||||+|.+.++|.+||++|+..|.||.|
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~v------~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i   84 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLNP-MRV------HIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV   84 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEE------EEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eEE------EEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEE
Confidence            345689999999999999999999999992 222      1221123455899999999999999999889999999999


Q ss_pred             EEeCCCC
Q psy2204         123 KIRRPHD  129 (231)
Q Consensus       123 ~V~~~~~  129 (231)
                      +|..+..
T Consensus        85 ~V~~~~~   91 (102)
T 1wez_A           85 ELFLNST   91 (102)
T ss_dssp             EEEEECC
T ss_pred             EEEECCC
Confidence            9987654

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=2.4e-16  Score=111.65  Aligned_cols=73  Identities=18%  Similarity=0.215  Sum_probs=63.5

Q ss_pred             CCCCe-EEEcCCCCCCCHHH----HHHHHHHh-hhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARR-LYVGNIPFGVTEDE----MMEFFNQQ-MHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~-lfVgNLp~~~te~~----L~~~F~~~-G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++.+ |||+|||+++++++    |+++|++| |           .|+++ +   .|+|||+|.+.++|.+|+ .|||..
T Consensus         6 ~p~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG-----------~Vl~V-t---gG~AfV~F~~~esA~~A~~~l~G~~   70 (96)
T 2diu_A            6 SGCHTLLYVYNLPANKDGKSVSNRLRRLSDNCGG-----------KVLSI-T---GCSAILRFINQDSAERAQKRMENED   70 (96)
T ss_dssp             CCSSEEEEEESCCTTSCHHHHHHHHHHHHHTTTC-----------CEEEC-C---TTCEEEEESSHHHHHHHHHHHTTCC
T ss_pred             CCcceEEEEeCCCCcCCHHHHHHHHHHHHHHcCC-----------eeEEE-e---cCEEEEEECCHHHHHHHHHHhcCCc
Confidence            34566 99999999999988    56899999 6           56666 2   399999999999999999 999999


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      +.||+|+|.+++...
T Consensus        71 l~gr~i~v~~A~~~s   85 (96)
T 2diu_A           71 VFGNRIIVSFTPKNR   85 (96)
T ss_dssp             SSSSCCEEESSCCSC
T ss_pred             cCCceEEEEecCCCc
Confidence            999999999998654

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=2.6e-17  Score=120.91  Aligned_cols=73  Identities=16%  Similarity=0.296  Sum_probs=63.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      ...++|||+|||+++|+++|+++|+.| .           |.++++     .+++|||||+|.+.++|.+||.+|+..|.
T Consensus        14 ~~~~~v~V~nLp~~~te~dl~~~F~~~-~-----------v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~   81 (109)
T 2dnn_A           14 PDDLYVSVHGMPFSAMENDVRDFFHGL-R-----------VDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMI   81 (109)
T ss_dssp             HHHHEEEEECCCSSCCHHHHHHHTTTS-C-----------CCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhccC-C-----------eeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeEC
Confidence            345799999999999999999999999 3           344444     45689999999999999999999999999


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      ||.|.|..+.
T Consensus        82 gr~i~V~~a~   91 (109)
T 2dnn_A           82 QRYVEVSPAT   91 (109)
T ss_dssp             TEEEEEEECC
T ss_pred             CeEEEEEECC
Confidence            9999998664

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

Probab=99.67  E-value=3.4e-16  Score=111.61  Aligned_cols=76  Identities=24%  Similarity=0.371  Sum_probs=67.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeE-ecCC--CcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ-INLD--KNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~-~~~~--kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ..+++|||+|||+++++++|+++|++||           .|.+++ +..+  .+.|||+|.+.++|.+|+ .|||..+.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g   81 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYG-----------VVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLEN   81 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHS-----------CEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcC-----------CeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            4568999999999999999999999999           788884 6554  456999999999999999 899999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      +.|+|.++.+.
T Consensus        82 ~~l~V~~a~~~   92 (96)
T 2e44_A           82 FTLKVAYIPDE   92 (96)
T ss_dssp             CBCEEEECCCC
T ss_pred             cEEEEEEcCcc
Confidence            99999988754

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.67  E-value=1.9e-16  Score=116.99  Aligned_cols=78  Identities=24%  Similarity=0.494  Sum_probs=67.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ...++|||+|||+++|+++|+++|+.||           .|.++++.+      .+|||||+|.+.++|.+||..|+..|
T Consensus        25 ~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~   93 (116)
T 1x4b_A           25 EQFRKLFIGGLSFETTEESLRNYYEQWG-----------KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSI   93 (116)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHHTSSC-----------CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEE
Confidence            3458999999999999999999999999           566666644      47999999999999999994499999


Q ss_pred             cCceEEEeCCCCCCC
Q psy2204         118 KGQSLKIRRPHDYQP  132 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~  132 (231)
                      .|+.|+|.++.....
T Consensus        94 ~g~~l~V~~a~~~~~  108 (116)
T 1x4b_A           94 DGRVVEPKRAVAREE  108 (116)
T ss_dssp             TTEEEEEECCSSCCC
T ss_pred             CCEEEEEEECCCCcc
Confidence            999999998876543

>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=99.67  E-value=1.4e-16  Score=117.33  Aligned_cols=79  Identities=16%  Similarity=0.334  Sum_probs=67.3

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .......++|||+|||+++|+++|+++|+.||           .|.++++.+     .+|||||+|.+.++|.+|+ .||
T Consensus        19 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~   87 (114)
T 1x5o_A           19 KQQEQDPTNLYISNLPLSMDEQELENMLKPFG-----------QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN   87 (114)
T ss_dssp             SCCCCCTTEEEEESCCTTCCHHHHHHTTTTTS-----------CEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHB
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence            34455678999999999999999999999999           666666644     3799999999999999999 899


Q ss_pred             CCee--------cCceEEEeCCCC
Q psy2204         114 GINF--------KGQSLKIRRPHD  129 (231)
Q Consensus       114 g~~l--------~gr~i~V~~~~~  129 (231)
                      |..+        .+++|.|.++.+
T Consensus        88 g~~~~~~~~~~~~~~~l~v~~a~p  111 (114)
T 1x5o_A           88 GKFIKTPPGVSAPTEPLLCKFSGP  111 (114)
T ss_dssp             TCCCCCCTTSCCCSSCBEEEECCC
T ss_pred             CCEEcCCccccCCCCceeEEccCC
Confidence            9999        567788887763

>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=99.67  E-value=2.8e-17  Score=115.98  Aligned_cols=72  Identities=25%  Similarity=0.558  Sum_probs=62.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ++|||+|||+++++++|+++|++||           .|.++++.      +++|||||+|.+.+ |.+|+ .|||..+.|
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g   69 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFG-----------KVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMG   69 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHT-----------CCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSS
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcC-----------CEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECC
Confidence            6899999999999999999999999           56666664      44799999999999 99999 999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      +.|+|.++...
T Consensus        70 ~~l~V~~a~~~   80 (90)
T 2ki2_A           70 RTIRVTEANPK   80 (90)
T ss_dssp             SSCSEEEC---
T ss_pred             eEEEEEEcCCC
Confidence            99999987654

>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=99.66  E-value=3e-17  Score=123.53  Aligned_cols=74  Identities=16%  Similarity=0.327  Sum_probs=63.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCee--eeEe-----cCCCcEEEEEecCHHHHHHHHHhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVL--ACQI-----NLDKNFAFLEFRSIDETTQAMAFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~--~~~~-----~~~kg~aFV~F~~~~~a~~Al~lng~  115 (231)
                      ....++|||+|||+++|+++|+++|+.|+            |+  ++++     +++||||||+|.+.++|.+||.+++.
T Consensus        39 ~~~~~~lfVgnLp~~~te~dL~~~F~~~~------------i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~  106 (126)
T 2hgm_A           39 SANDGFVRLRGLPFGCTKEEIVQFFSGLE------------IVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKE  106 (126)
T ss_dssp             SSSCCEEEEECCCTTCCHHHHHHHTTTSC------------EEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcCC------------ceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCC
Confidence            34568999999999999999999999995            33  4444     45589999999999999999966889


Q ss_pred             eecCceEEEeCCC
Q psy2204         116 NFKGQSLKIRRPH  128 (231)
Q Consensus       116 ~l~gr~i~V~~~~  128 (231)
                      .|.||.|+|..+.
T Consensus       107 ~l~gR~I~V~~a~  119 (126)
T 2hgm_A          107 RIGHRYIEVFKSS  119 (126)
T ss_dssp             CBTTBCCCCEEEC
T ss_pred             EECCEEEEEEECC
Confidence            9999999998654

>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=99.66  E-value=3e-17  Score=135.82  Aligned_cols=79  Identities=16%  Similarity=0.232  Sum_probs=64.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhh--hhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQM--HLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G--~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ..++|||+||++++|+++|+++|++||  .|.++.     .+.+....++||||||+|.+.++|.+|| .||++.|.|+.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~-----i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~  141 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIK-----FFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQN  141 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEE-----EEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEE-----EEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEE
Confidence            667999999999999999999999999  554432     1222233455799999999999999999 89999999999


Q ss_pred             EEEeCCC
Q psy2204         122 LKIRRPH  128 (231)
Q Consensus       122 i~V~~~~  128 (231)
                      |+|.+++
T Consensus       142 l~V~~a~  148 (229)
T 3q2s_C          142 PVVTPVN  148 (229)
T ss_dssp             CEEEECC
T ss_pred             eEEEECC
Confidence            9999775

>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=99.66  E-value=1.8e-16  Score=124.51  Aligned_cols=80  Identities=24%  Similarity=0.348  Sum_probs=69.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +......++|||+|||+++++++|+++|++||           .|..+.+.++      +|||||+|.+.++|.+|| .|
T Consensus        66 ~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l  134 (165)
T 1rk8_A           66 PQRSVEGWILFVTSIHEEAQEDEIQEKFCDYG-----------EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL  134 (165)
T ss_dssp             CCCCC-CEEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHhhcCC-----------CEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHh
Confidence            34456678999999999999999999999999           6777777554      699999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~  130 (231)
                      ||..|.|+.|.|.++...
T Consensus       135 ~g~~~~g~~l~V~~a~~~  152 (165)
T 1rk8_A          135 NGAEIMGQTIQVDWCFVK  152 (165)
T ss_dssp             TTCEETTEECEEEESEEC
T ss_pred             CCCEECCEEEEEEEecCC
Confidence            999999999999987644

>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=99.66  E-value=3.6e-16  Score=110.51  Aligned_cols=74  Identities=24%  Similarity=0.371  Sum_probs=60.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-CCcEEEEEecCHHHHHHHHHhCCCe--ecC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-DKNFAFLEFRSIDETTQAMAFDGIN--FKG  119 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-~kg~aFV~F~~~~~a~~Al~lng~~--l~g  119 (231)
                      ..+..+|||||||+++|+++|+++|++||           .|.++++.+ +||||||+|.+.++|.+   +++..  +.|
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G-----------~i~~v~i~~~srGfaFV~F~~~~~A~~---~~~~~~~~~g   73 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYG-----------EVVDVFIPKPFRAFAFVTFADDKVAQS---LCGEDLIIKG   73 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEECCSSCCSEEEEEESCHHHHHH---HTTCEEEETT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccC-----------CEEEEEEeeCCCCEEEEEECCHHHHHH---HcCCCcccCC
Confidence            34567999999999999999999999999           788888875 48999999999999984   44554  459


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      +.|.|.++.++
T Consensus        74 ~~v~v~~a~~k   84 (89)
T 3d2w_A           74 ISVHISNAEPK   84 (89)
T ss_dssp             EEEEEEECC--
T ss_pred             EEEEEEEcCCC
Confidence            99999987654

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.47  E-value=7.2e-18  Score=124.79  Aligned_cols=85  Identities=18%  Similarity=0.233  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhh--------ccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSG--------LAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~--------~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ...+.++|||+|||+++++++|+++|++||.|..        +.     .+.+....+.+|||||+|.+.++|.+|+ .|
T Consensus         3 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~-----i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l   77 (116)
T 2lcw_A            3 DNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMIN-----LYTDRETGKLKGEATVSFDDPPSAKAAIDWF   77 (116)
Confidence            3456789999999999999999999999996544        21     1122233455899999999999999999 89


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      ||..|.|+.|+|.+++...
T Consensus        78 ~g~~~~g~~l~V~~a~~~~   96 (116)
T 2lcw_A           78 DGKEFSGNPIKVSFATRRA   96 (116)
Confidence            9999999999999887544

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.65  E-value=7.1e-17  Score=121.06  Aligned_cols=79  Identities=16%  Similarity=0.250  Sum_probs=64.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhh----hhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHL----SGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~----~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ...++|||+|||+++|+++|+++|++||.|    ..+      .|......+++|||||+|.+.++|.+||..|+..|.|
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v------~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~g   94 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGI------LFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGK   94 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGE------EEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceE------EEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCC
Confidence            456899999999999999999999999854    222      1222234556899999999999999999669999999


Q ss_pred             ceEEEeCCC
Q psy2204         120 QSLKIRRPH  128 (231)
Q Consensus       120 r~i~V~~~~  128 (231)
                      |.|+|..+.
T Consensus        95 R~i~V~~a~  103 (123)
T 2dha_A           95 RYIELFRST  103 (123)
T ss_dssp             CEECCEEEC
T ss_pred             eEEEEEECC
Confidence            999997654

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.65  E-value=7.8e-17  Score=110.18  Aligned_cols=69  Identities=14%  Similarity=0.419  Sum_probs=60.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ++|||+|||+++++++|+++|++||           .|.++++      .+++|||||+|.+.++|.+|+ .++ ..+.|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g   68 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFG-----------EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDS   68 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTS-----------CCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC-----------CEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCC
Confidence            4799999999999999999999999           4555554      344799999999999999999 788 99999


Q ss_pred             ceEEEeCC
Q psy2204         120 QSLKIRRP  127 (231)
Q Consensus       120 r~i~V~~~  127 (231)
                      ++|+|+++
T Consensus        69 ~~l~v~~a   76 (77)
T 1uaw_A           69 KTIDPKVA   76 (77)
T ss_dssp             CCCEEEEC
T ss_pred             EEEEEEec
Confidence            99999865

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.64  E-value=6.3e-16  Score=115.93  Aligned_cols=73  Identities=23%  Similarity=0.234  Sum_probs=64.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcE-EEEEecCHHHHHHHH-HhCCCeecC--ceEE
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNF-AFLEFRSIDETTQAM-AFDGINFKG--QSLK  123 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~-aFV~F~~~~~a~~Al-~lng~~l~g--r~i~  123 (231)
                      .|||+||++.+|+++|+++|++||           .|.++++.+..|| |||+|.+.++|.+|+ .|||..|.|  +.|+
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG-----------~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~   95 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVG-----------KVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLK   95 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTS-----------CEEEEEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEE
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcC-----------CEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEE
Confidence            478999999999999999999999           6777766544696 999999999999999 999999988  6899


Q ss_pred             EeCCCCCC
Q psy2204         124 IRRPHDYQ  131 (231)
Q Consensus       124 V~~~~~~~  131 (231)
                      |.+++...
T Consensus        96 V~~Ak~~~  103 (124)
T 2e5i_A           96 IEYARPTR  103 (124)
T ss_dssp             EECCSCSC
T ss_pred             EEEecCCc
Confidence            99887543

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=2.5e-16  Score=110.66  Aligned_cols=76  Identities=26%  Similarity=0.351  Sum_probs=64.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      ..+++|||+|||+++|+++|+++|++||           .|.++++.++ ||||||+|.+.++|++++.. ...+.|+.|
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l   70 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYG-----------DVMDVFIPKPFRAFAFVTFADDQIAQSLCGE-DLIIKGISV   70 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTS-----------CCCEEECCSSCCSCCEEECSCHHHHHHTTTC-EEEETTEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcC-----------CeeEEEEecCCCCEEEEEECCHHHHHHHhcC-CceeCCEEE
Confidence            4578999999999999999999999999           7888887654 89999999999999876532 456689999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.++.+..
T Consensus        71 ~v~~a~~~~   79 (88)
T 1wf0_A           71 HISNAEPKH   79 (88)
T ss_dssp             EEECCCCCC
T ss_pred             EEEecCCCC
Confidence            999887544

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.63  E-value=7.1e-16  Score=116.36  Aligned_cols=73  Identities=25%  Similarity=0.301  Sum_probs=64.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-CCCcE-EEEEecCHHHHHHHH-HhCCCeecC--ce
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-LDKNF-AFLEFRSIDETTQAM-AFDGINFKG--QS  121 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-~~kg~-aFV~F~~~~~a~~Al-~lng~~l~g--r~  121 (231)
                      -+|||+||++.+|+++|+++|++||           .|.++.+. +.+|| |||+|.+.++|.+|+ .|||..|.|  +.
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG-----------~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~   97 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFG-----------TVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCT   97 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSS-----------CEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEE
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcC-----------CEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcE
Confidence            4688999999999999999999999           66666553 34687 999999999999999 999999998  89


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.+++..
T Consensus        98 LrI~~ak~~  106 (130)
T 3zzy_A           98 LRIDFSKLT  106 (130)
T ss_dssp             EEEEECSCS
T ss_pred             EEEEecCCC
Confidence            999988754

>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=99.63  E-value=4.8e-17  Score=124.53  Aligned_cols=82  Identities=16%  Similarity=0.187  Sum_probs=65.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      .....++|||+|||+++|+++|+++|++|| +..+.     .+.+. ..++||||||+|.+.++|.+||.+|+..|.||.
T Consensus        42 ~~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~-----i~~d~-~g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~  114 (139)
T 2hgn_A           42 QSTTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVH-----IEIGP-DGRVTGEADVEFATHEEAVAAMSKDRANMQHRY  114 (139)
T ss_dssp             ---CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEE-----CCCSS-SSCSSCCCEEECSHHHHHHHHTTCCSCSSSSCC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEE-----EEECC-CCCCceEEEEEeCCHHHHHHHHhhCCCEECCEE
Confidence            345678999999999999999999999999 33332     12222 256689999999999999999999999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|..+...
T Consensus       115 i~V~~a~~~  123 (139)
T 2hgn_A          115 IELFLNSTT  123 (139)
T ss_dssp             CCCEECCCS
T ss_pred             EEEEECCCC
Confidence            999876543

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.62  E-value=1e-16  Score=115.71  Aligned_cols=76  Identities=24%  Similarity=0.395  Sum_probs=66.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ...+++|||+|||+++++++|+++|+.||           .|.++++.+     .+|||||+|.+.++|.+|+. ++..+
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~   73 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYG-----------SVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINF   73 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCC-----------CeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeE
Confidence            34568999999999999999999999999           666666644     47999999999999999999 99999


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .|+.|.|.++...
T Consensus        74 ~g~~l~v~~a~~~   86 (102)
T 2xs2_A           74 HGKKLKLGPAIRK   86 (102)
T ss_dssp             TTEECEEEEEEEC
T ss_pred             CCEEEEEEECCcC
Confidence            9999999877543

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.62  E-value=1.3e-15  Score=121.18  Aligned_cols=77  Identities=19%  Similarity=0.387  Sum_probs=68.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ....+++|||+|||+++++++|+++|++||           .|.++.+.     +++|||||+|.+.++|.+|+ .|||.
T Consensus        84 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G-----------~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~  152 (177)
T 2f3j_A           84 GVETGAKLLVSNLDFGVSDADIQELFAEFG-----------TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGV  152 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTS-----------CCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-----------CeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCC
Confidence            445678999999999999999999999999           66666664     45799999999999999999 89999


Q ss_pred             eecCceEEEeCCCC
Q psy2204         116 NFKGQSLKIRRPHD  129 (231)
Q Consensus       116 ~l~gr~i~V~~~~~  129 (231)
                      .|.|+.|+|.++..
T Consensus       153 ~l~Gr~l~V~~a~~  166 (177)
T 2f3j_A          153 PLDGRPMDIQLVAS  166 (177)
T ss_dssp             BCSSSBCEEEEESS
T ss_pred             EECCEEEEEEEecC
Confidence            99999999998764

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.61  E-value=2.8e-15  Score=110.53  Aligned_cols=78  Identities=21%  Similarity=0.250  Sum_probs=58.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe---cCCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI---NLDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~---~~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .....+++|||+|||+++|+++|+++|++||.|. +.     .+.+...   +++||||||+|.+.++|.+|| .|+  .
T Consensus         3 ~~~~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~-----~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~   74 (114)
T 2dnl_A            3 SGSSGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VD-----WPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--E   74 (114)
T ss_dssp             CSSSCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EE-----CTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--E
T ss_pred             CCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EE-----EeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--h
Confidence            3456789999999999999999999999999443 11     1111111   366899999999999999999 773  3


Q ss_pred             ecCceEEEeC
Q psy2204         117 FKGQSLKIRR  126 (231)
Q Consensus       117 l~gr~i~V~~  126 (231)
                      ++|+.|.+..
T Consensus        75 ~~G~~~~~~~   84 (114)
T 2dnl_A           75 EDGKLYLCVS   84 (114)
T ss_dssp             ETTEEEEEEC
T ss_pred             cCCcEEEecc
Confidence            6666666653

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.61  E-value=7.6e-16  Score=127.76  Aligned_cols=77  Identities=19%  Similarity=0.306  Sum_probs=71.2

Q ss_pred             CCCCCeEEEcCCCCCC---------CHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          43 TRQARRLYVGNIPFGV---------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~---------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      ....++||||||++.+         ++++|+++|++||           .|.++++..+||||||+|.+.++|+.|+ .|
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG-----------~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am  199 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLG-----------DIDRIRYVESKNCGFVKFKYQANAEFAKEAM  199 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTS-----------CEEEEEEEGGGTEEEEEESSHHHHHHHHHHH
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccC-----------CEEEEEEECCCCEEEEEeCCHHHHHHHHHHh
Confidence            4578999999999998         7999999999999           8999999999999999999999999999 99


Q ss_pred             CCCee------------cCceEEEeCCCCC
Q psy2204         113 DGINF------------KGQSLKIRRPHDY  130 (231)
Q Consensus       113 ng~~l------------~gr~i~V~~~~~~  130 (231)
                      +|..|            .|+.|.|++++..
T Consensus       200 ~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          200 SNQTLLLPSDKEWDDRREGTGLLVKWANED  229 (240)
T ss_dssp             TTCCCCCTTSTTGGGGGGSCCCEEEECC--
T ss_pred             CCCEEeccccccccccCCCCEEEEEEccCC
Confidence            99999            8999999998754

>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=99.61  E-value=4.4e-15  Score=125.45  Aligned_cols=76  Identities=21%  Similarity=0.296  Sum_probs=69.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCC-cEEEEEecCHHHHHHHH-HhCCCeec-
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDK-NFAFLEFRSIDETTQAM-AFDGINFK-  118 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~k-g~aFV~F~~~~~a~~Al-~lng~~l~-  118 (231)
                      .....++|||+|||+++++++|+++|++||           .|.++++.+++ |||||+|.+.++|.+|+ .|||..|. 
T Consensus       203 ~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G-----------~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~  271 (282)
T 3pgw_A          203 ENPPNHILFLTNLPEETNELMLSMLFNQFP-----------GFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKITQ  271 (282)
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHhcC-----------CeEEEEEecCCCcEEEEEeCCHHHHHHHHHHcCCcEeCC
Confidence            344678999999999999999999999999           78888887765 99999999999999999 89999999 


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      |+.|+|.+++
T Consensus       272 g~~l~v~~ak  281 (282)
T 3pgw_A          272 NNAMKISFAK  281 (282)
T ss_pred             CCEEEEEEec
Confidence            9999999875

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

Probab=99.59  E-value=2.3e-15  Score=122.66  Aligned_cols=75  Identities=13%  Similarity=0.403  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----CCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----DKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ..++|||+|||+++|+++|+++|+.||           .|.++++.+    +||||||+|.+.++|.+|| .|||..|.|
T Consensus       102 ~~~~l~v~nl~~~~t~~~l~~~F~~~G-----------~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g  170 (213)
T 4f02_A          102 GVGNIFIKNLDKSIDNKALYDTFSAFG-----------NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLND  170 (213)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             ccccceECCcccccHHHHHHHHHhhcC-----------CeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECC
Confidence            346899999999999999999999999           677766643    3799999999999999999 999999999


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      ++|.|.+++++
T Consensus       171 ~~i~V~~a~~~  181 (213)
T 4f02_A          171 RKVFVGRFKSR  181 (213)
T ss_dssp             EECEEEECCCH
T ss_pred             EEEEEEEcCCC
Confidence            99999987643

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

Probab=99.58  E-value=5e-15  Score=114.62  Aligned_cols=76  Identities=21%  Similarity=0.479  Sum_probs=67.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||
T Consensus        83 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g  151 (166)
T 3md3_A           83 SSDDTFNLFVGDLNVNVDDETLRNAFKDFP-----------SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG  151 (166)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHTTST-----------TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             CCCCCceEEECCCCCCCCHHHHHHHHhccC-----------CeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Confidence            445678999999999999999999999999           666666643      3789999999999999999 8999


Q ss_pred             CeecCceEEEeCCC
Q psy2204         115 INFKGQSLKIRRPH  128 (231)
Q Consensus       115 ~~l~gr~i~V~~~~  128 (231)
                      ..+.|+.|+|.+++
T Consensus       152 ~~~~g~~i~v~~a~  165 (166)
T 3md3_A          152 QDLNGRPLRINWAA  165 (166)
T ss_dssp             CEETTEECEEEESC
T ss_pred             CccCCcEEEEEecC
Confidence            99999999999875

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

Probab=99.57  E-value=5.2e-15  Score=119.74  Aligned_cols=76  Identities=18%  Similarity=0.436  Sum_probs=68.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++|+++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~  191 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAFG-----------KIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFD  191 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTSS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhccC-----------CeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCE
Confidence            4568999999999999999999999999           6777777544      799999999999999999 899999


Q ss_pred             ecCceEEEeCCCCC
Q psy2204         117 FKGQSLKIRRPHDY  130 (231)
Q Consensus       117 l~gr~i~V~~~~~~  130 (231)
                      |.|+.|.|.++...
T Consensus       192 ~~g~~i~V~~a~~~  205 (216)
T 2qfj_A          192 LGGQYLRVGKAVTP  205 (216)
T ss_dssp             CSSSBCEEEECSSC
T ss_pred             eCCcEEEEEEecCC
Confidence            99999999988754

>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=99.56  E-value=7e-15  Score=114.82  Aligned_cols=73  Identities=27%  Similarity=0.547  Sum_probs=65.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++|+++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..
T Consensus        92 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G-----------~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~  160 (172)
T 2g4b_A           92 PGAHKLFIGGLPNYLNDDQVKELLTSFG-----------PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQ  160 (172)
T ss_dssp             TTTTCEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCE
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcC-----------CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCE
Confidence            3478999999999999999999999999           6777766544      699999999999999999 899999


Q ss_pred             ecCceEEEeCC
Q psy2204         117 FKGQSLKIRRP  127 (231)
Q Consensus       117 l~gr~i~V~~~  127 (231)
                      +.|+.|.|.++
T Consensus       161 ~~g~~l~V~~A  171 (172)
T 2g4b_A          161 LGDKKLLVQRA  171 (172)
T ss_dssp             ETTEECEEEEC
T ss_pred             ECCeEEEEEeC
Confidence            99999999875

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

Probab=99.56  E-value=8.6e-15  Score=116.86  Aligned_cols=78  Identities=26%  Similarity=0.503  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||
T Consensus       110 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G-----------~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g  178 (198)
T 2yh0_A          110 VPDSAHKLFIGGLPNYLNDDQVKELLTSFG-----------PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG  178 (198)
T ss_dssp             SSCCCCEEEEECCCTTCCHHHHHHHHHTBS-----------CEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcC-----------CccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCC
Confidence            346779999999999999999999999999           6777766544      799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCC
Q psy2204         115 INFKGQSLKIRRPHDY  130 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~  130 (231)
                      ..+.|+.|+|.++++.
T Consensus       179 ~~~~g~~l~v~~a~~~  194 (198)
T 2yh0_A          179 MQLGDKKLLVQRASVG  194 (198)
T ss_dssp             CEETTEECEEEESCCC
T ss_pred             CEECCEEEEEEECCCC
Confidence            9999999999988754

>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=99.56  E-value=1.2e-14  Score=130.83  Aligned_cols=76  Identities=17%  Similarity=0.345  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++|+++|+++|++||           .|..+.+.      +.+|||||+|.+.++|.+|| .|||..
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G-----------~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~  168 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYG-----------PIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKK  168 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC-----------CeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCE
Confidence            4568999999999999999999999999           55555554      44899999999999999999 999999


Q ss_pred             ecCceEEEeCCCCC
Q psy2204         117 FKGQSLKIRRPHDY  130 (231)
Q Consensus       117 l~gr~i~V~~~~~~  130 (231)
                      |.|+.|.|.++...
T Consensus       169 i~gr~i~V~~a~~~  182 (437)
T 3pgw_S          169 IDGRRVLVDVERGR  182 (437)
T ss_pred             ECCEEEEEEEeCCC
Confidence            99999999987643

>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=99.55  E-value=6.9e-15  Score=118.47  Aligned_cols=76  Identities=26%  Similarity=0.401  Sum_probs=66.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ..++|||+|||+++|+++|+++|++||           .|.++++.+     .+|||||+|.+.++|.+|+...+..+.|
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G-----------~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~G  176 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKG-----------QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKE  176 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSC-----------CEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETT
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCC-----------CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECC
Confidence            458999999999999999999999999           676666643     4799999999999999999655679999


Q ss_pred             ceEEEeCCCCCC
Q psy2204         120 QSLKIRRPHDYQ  131 (231)
Q Consensus       120 r~i~V~~~~~~~  131 (231)
                      +.|.|.+.+.|.
T Consensus       177 r~l~V~~~~~y~  188 (193)
T 2voo_A          177 TDLLILFKDDYF  188 (193)
T ss_dssp             EECEEEETTTC-
T ss_pred             EEEEEEEhHHHH
Confidence            999999887764

>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=99.54  E-value=6.6e-15  Score=115.53  Aligned_cols=77  Identities=27%  Similarity=0.481  Sum_probs=67.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .....++|||+|||+++|+++|+++|++||           .|..+ ...+++|||||+|.+.++|.+|+ .|||..+.|
T Consensus        95 ~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g-----------~v~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  163 (175)
T 1fje_B           95 KVRAARTLLAKNLSFNITEDELKEVFEDAL-----------EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG  163 (175)
T ss_dssp             TTGGGGEEEEESCCSSCCHHHHHHHCTTCS-----------EEEEECSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETT
T ss_pred             ccccCCEEEEeCCCCCCCHHHHHHHHHhcC-----------eEEEecCCCCCceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            334678999999999999999999999999           45544 33566899999999999999999 899999999


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      +.|+|.++++
T Consensus       164 ~~i~v~~a~~  173 (175)
T 1fje_B          164 RSVSLYYTGE  173 (175)
T ss_dssp             EEEEEEECSS
T ss_pred             eEEEEEecCC
Confidence            9999998764

>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=99.54  E-value=8e-15  Score=113.96  Aligned_cols=75  Identities=25%  Similarity=0.468  Sum_probs=66.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      ..++|||+|||+++++++|+++|+.||           .|.++++.      +++|||||+|.+.++|.+|+.+|+..+.
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-----------~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~  154 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWG-----------TIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFK  154 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTS-----------CCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHHCSEECSS
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCc-----------cEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHhCCCEEeC
Confidence            357999999999999999999999999           56666554      4468999999999999999999999999


Q ss_pred             CceEEEeCCCCC
Q psy2204         119 GQSLKIRRPHDY  130 (231)
Q Consensus       119 gr~i~V~~~~~~  130 (231)
                      |++|+|.++.++
T Consensus       155 g~~i~V~~a~pk  166 (167)
T 2cjk_A          155 DRKIEIKRAEPR  166 (167)
T ss_dssp             SSCEEEEECCCC
T ss_pred             CeEEEEeecCCC
Confidence            999999988653

>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=99.54  E-value=1.2e-14  Score=115.80  Aligned_cols=78  Identities=19%  Similarity=0.364  Sum_probs=65.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ...++|||+|||+++|+++|+++|+.||           .|.++++.+      ++|||||+|.+.++|.+|+..++..|
T Consensus       102 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~~~~~~  170 (196)
T 1l3k_A          102 LTVKKIFVGGIKEDTEEHHLRDYFEQYG-----------KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTV  170 (196)
T ss_dssp             -CCSEEEEECCTTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCC-----------CeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHhCCcEE
Confidence            4568999999999999999999999999           676666643      37999999999999999996689999


Q ss_pred             cCceEEEeCCCCCCC
Q psy2204         118 KGQSLKIRRPHDYQP  132 (231)
Q Consensus       118 ~gr~i~V~~~~~~~~  132 (231)
                      .|+.|.|.++.+...
T Consensus       171 ~G~~i~v~~a~~k~~  185 (196)
T 1l3k_A          171 NGHNCEVRKALSKQE  185 (196)
T ss_dssp             TTEECEEEECC----
T ss_pred             CCEEEEEEecCChhH
Confidence            999999998876543

>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=99.52  E-value=2.1e-14  Score=112.19  Aligned_cols=73  Identities=19%  Similarity=0.349  Sum_probs=64.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ...++|||+|||+++|+++|+++|++||           .|.++++.++     +|||||+|.+.++|.+|+ .|||..+
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G-----------~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~  161 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSFG-----------QIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT  161 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCC
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhCC-----------CEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcc
Confidence            3568999999999999999999999999           6777666544     799999999999999999 9999888


Q ss_pred             c---CceEEEeCC
Q psy2204         118 K---GQSLKIRRP  127 (231)
Q Consensus       118 ~---gr~i~V~~~  127 (231)
                      .   +++|.|.++
T Consensus       162 ~~g~~~~l~V~~a  174 (175)
T 3nmr_A          162 MEGCSSPMVVKFA  174 (175)
T ss_dssp             CTTCSSCCEEEEC
T ss_pred             cCCCCCCeEEEec
Confidence            6   499999875

>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=99.51  E-value=3.7e-14  Score=110.14  Aligned_cols=74  Identities=26%  Similarity=0.477  Sum_probs=65.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ....++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||.
T Consensus        86 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~  154 (168)
T 1b7f_A           86 SIKDTNLYVTNLPRTITDDQLDTIFGKYG-----------SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNV  154 (168)
T ss_dssp             TTTTCEEEEESCCTTCCHHHHHHHHTSSS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             cCCCCCEEEeCCCCCCCHHHHHHhhhcCC-----------cEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCC
Confidence            35678999999999999999999999999           6777766544      589999999999999999 89999


Q ss_pred             eecC--ceEEEeCC
Q psy2204         116 NFKG--QSLKIRRP  127 (231)
Q Consensus       116 ~l~g--r~i~V~~~  127 (231)
                      .+.|  ++|+|.++
T Consensus       155 ~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          155 IPEGGSQPLSVRLA  168 (168)
T ss_dssp             CCTTCSSCCEEEEC
T ss_pred             EecCCCeEEEEEeC
Confidence            9988  99998763

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

Probab=99.50  E-value=5.1e-14  Score=102.52  Aligned_cols=75  Identities=21%  Similarity=0.203  Sum_probs=63.6

Q ss_pred             CCCCCeEEEcCCCC-----CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-------CCCcEEEEEecCHHHHHHHH
Q psy2204          43 TRQARRLYVGNIPF-----GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-------LDKNFAFLEFRSIDETTQAM  110 (231)
Q Consensus        43 ~~~~r~lfVgNLp~-----~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-------~~kg~aFV~F~~~~~a~~Al  110 (231)
                      ..++++|+|+||..     +-++++|+++|++||           .|.++.+.       +++|||||+|.+.++|.+|+
T Consensus         5 ~~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G-----------~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai   73 (105)
T 2pe8_A            5 KCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYG-----------KVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAV   73 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC---CHHHHHHHGGGGS-----------CEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHH
T ss_pred             CCCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcC-----------CEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHH
Confidence            35688999999963     237899999999999           56666553       34799999999999999999


Q ss_pred             -HhCCCeecCceEEEeCCC
Q psy2204         111 -AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       111 -~lng~~l~gr~i~V~~~~  128 (231)
                       .|||..|.||.|.|.++.
T Consensus        74 ~~lnG~~~~Gr~i~v~~a~   92 (105)
T 2pe8_A           74 VDLNGRYFGGRVVKACFYN   92 (105)
T ss_dssp             HHHTTCEETTEECEEEECC
T ss_pred             HHHCCCEECCcEEEEEEcC
Confidence             999999999999999765

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.49  E-value=1.1e-14  Score=108.92  Aligned_cols=77  Identities=12%  Similarity=0.165  Sum_probs=61.3

Q ss_pred             CeEEEcCC----CCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecC----HHH----HHHHH---H
Q psy2204          47 RRLYVGNI----PFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS----IDE----TTQAM---A  111 (231)
Q Consensus        47 r~lfVgNL----p~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~----~~~----a~~Al---~  111 (231)
                      .+|||+||    |+.+++++|+++|+.||.|.++.     .+.+-.+++++|||||+|.+    .++    |.+|+   .
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~-----li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~   77 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFE-----AFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHE   77 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEE-----EEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEE-----EEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhh
Confidence            68999999    99999999999999999555543     34444456668999999996    333    77887   3


Q ss_pred             hCCCeecCceEEEeCCC
Q psy2204         112 FDGINFKGQSLKIRRPH  128 (231)
Q Consensus       112 lng~~l~gr~i~V~~~~  128 (231)
                      +||..|.||.|+|...+
T Consensus        78 lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           78 SSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             TTCEEETTEEEEEEECC
T ss_pred             hcCCeecCcEEEEEECc
Confidence            79999999999999544

>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=99.49  E-value=6.2e-14  Score=108.49  Aligned_cols=73  Identities=22%  Similarity=0.459  Sum_probs=63.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC------CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~------kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++++++|+++|++||           .|.++++.++      +|||||+|.+.++|.+|+ .|||..
T Consensus        86 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G-----------~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~  154 (167)
T 1fxl_A           86 IRDANLYVSGLPKTMTQKELEQLFSQYG-----------RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQK  154 (167)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCC
T ss_pred             CCCCcEEECCCCCcCCHHHHHHHHHhcC-----------CEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCc
Confidence            4567999999999999999999999999           6777666433      699999999999999999 899999


Q ss_pred             ecCce--EEEeCC
Q psy2204         117 FKGQS--LKIRRP  127 (231)
Q Consensus       117 l~gr~--i~V~~~  127 (231)
                      +.|+.  |+|.++
T Consensus       155 ~~g~~~~i~v~~A  167 (167)
T 1fxl_A          155 PSGATEPITVKFA  167 (167)
T ss_dssp             CTTCSSCCEEEEC
T ss_pred             cCCCccceEEEeC
Confidence            99975  777653

>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=99.48  E-value=9.6e-14  Score=120.84  Aligned_cols=75  Identities=21%  Similarity=0.388  Sum_probs=66.1

Q ss_pred             CCCCCCeEEEcC--CCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          42 ITRQARRLYVGN--IPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgN--Lp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .+.++++|||||  |++++|+++|+++|++||           .|.++.+..+||||||+|++.++|++|+ .|||+++.
T Consensus        14 ~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G-----------~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~   82 (345)
T 3tht_A           14 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCG-----------LVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (345)
T ss_dssp             CSSCCSEEEEETCSGGGTCCHHHHHHHHHTTS-----------CEEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             cCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcC-----------CeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCccc
Confidence            356788999999  578999999999999999           7888888889999999999999999999 99999884


Q ss_pred             ---Cc--eEEEeCC
Q psy2204         119 ---GQ--SLKIRRP  127 (231)
Q Consensus       119 ---gr--~i~V~~~  127 (231)
                         |+  .|.+.+.
T Consensus        83 ~~~g~~~~ly~~~~   96 (345)
T 3tht_A           83 DDLGQKITLYLNFV   96 (345)
T ss_dssp             CTTSCEEECEEEEC
T ss_pred             cccCCceEEEEEEe
Confidence               45  5677655

>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=99.47  E-value=1.5e-13  Score=112.98  Aligned_cols=76  Identities=20%  Similarity=0.382  Sum_probs=67.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-cCCCcEEEEEecCHHHHHHHH-HhCCCeec-Cc
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSIDETTQAM-AFDGINFK-GQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-~~~kg~aFV~F~~~~~a~~Al-~lng~~l~-gr  120 (231)
                      .++++|||+|||+++++++|+++|+.||.          .|.++++ .+++|||||+|.+.++|.+|+ .|||..+. |+
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~----------~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~  218 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGG----------VVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENH  218 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSC----------CEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCC----------CeeEEEEEECCCcEEEEEECCHHHHHHHHHHHCCCccCCCC
Confidence            45789999999999999999999999981          3666667 447899999999999999999 89999999 99


Q ss_pred             eEEEeCCCC
Q psy2204         121 SLKIRRPHD  129 (231)
Q Consensus       121 ~i~V~~~~~  129 (231)
                      .|+|.++++
T Consensus       219 ~l~v~~a~~  227 (229)
T 2adc_A          219 HLRVSFSKS  227 (229)
T ss_dssp             BCEEEECSS
T ss_pred             eEEEEEecC
Confidence            999998864

>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=99.47  E-value=1.9e-13  Score=100.40  Aligned_cols=78  Identities=14%  Similarity=0.178  Sum_probs=64.4

Q ss_pred             CCCCCCeEEEcCCCCCCC-----------HHHHHHHHHHhhhhhhccccCCCCeeeeEec--CCCcEEEEEecCHHHHHH
Q psy2204          42 ITRQARRLYVGNIPFGVT-----------EDEMMEFFNQQMHLSGLAQAAGNPVLACQIN--LDKNFAFLEFRSIDETTQ  108 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~t-----------e~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~--~~kg~aFV~F~~~~~a~~  108 (231)
                      ....+++|+|.||....+           +++|+++|++||           .|.++.+.  ..+|||||+|.+.++|.+
T Consensus        11 ~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G-----------~v~~v~i~~~~~~G~afV~f~~~~~A~~   79 (112)
T 2dit_A           11 RMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG-----------QIRKLLLFDRHPDGVASVSFRDPEEADY   79 (112)
T ss_dssp             CCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS-----------CCSEEEEETTCTTCEEEEECSCHHHHHH
T ss_pred             CCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccC-----------CEeEEEEecCCCCEEEEEEECCHHHHHH
Confidence            335688999999944332           589999999999           56555442  358999999999999999


Q ss_pred             HH-HhCCCeecCceEEEeCCCCC
Q psy2204         109 AM-AFDGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       109 Al-~lng~~l~gr~i~V~~~~~~  130 (231)
                      |+ .|||..|.||.|+|.++.+.
T Consensus        80 Ai~~lng~~~~gr~l~v~~a~~~  102 (112)
T 2dit_A           80 CIQTLDGRWFGGRQITAQAWDGT  102 (112)
T ss_dssp             HHHHSTTCEETTEECEEEECCSC
T ss_pred             HHHHcCCCEECCcEEEEEEeCCC
Confidence            99 99999999999999987653

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.46  E-value=2e-13  Score=109.32  Aligned_cols=76  Identities=20%  Similarity=0.366  Sum_probs=66.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-CCCcEEEEEecCHHHHHHHH-HhCCCeec-Cc
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-LDKNFAFLEFRSIDETTQAM-AFDGINFK-GQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-~~kg~aFV~F~~~~~a~~Al-~lng~~l~-gr  120 (231)
                      .++++|||+|||+++++++|+++|+.||.          .|.++++. .++|||||+|.+.++|.+|+ .|||..+. |+
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~----------~v~~v~i~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~  187 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGG----------VVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENH  187 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTS----------CCCEEEESSTTSSCEEEECSSHHHHHHHHHHHTSSCCSSCC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCC----------CceEEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCCC
Confidence            45789999999999999999999999981          35566663 46899999999999999999 89999999 99


Q ss_pred             eEEEeCCCC
Q psy2204         121 SLKIRRPHD  129 (231)
Q Consensus       121 ~i~V~~~~~  129 (231)
                      .|+|.++++
T Consensus       188 ~l~v~~a~~  196 (198)
T 1qm9_A          188 HLRVSFSKS  196 (198)
T ss_dssp             SCCEEEECC
T ss_pred             eEEEEeecc
Confidence            999998764

>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=99.46  E-value=1.1e-13  Score=112.29  Aligned_cols=66  Identities=17%  Similarity=0.243  Sum_probs=58.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCe--eeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPV--LACQINLD----KNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i--~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++++|||+|||+++|+++|+++|++||           .|  .++++..+    +|||||+|.+.++|.+|| .|||..
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G-----------~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~  189 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELG-----------VKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQ  189 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHT-----------CCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcC-----------CcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCC
Confidence            4568999999999999999999999999           45  55655443    589999999999999999 999999


Q ss_pred             ecCc
Q psy2204         117 FKGQ  120 (231)
Q Consensus       117 l~gr  120 (231)
                      |.|+
T Consensus       190 ~~g~  193 (205)
T 3tyt_A          190 MKNP  193 (205)
T ss_dssp             ECCS
T ss_pred             ccCC
Confidence            9886

>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=99.36  E-value=2.2e-12  Score=93.85  Aligned_cols=74  Identities=16%  Similarity=0.175  Sum_probs=62.2

Q ss_pred             CCCCeEEEcCCC--CCCC--------HHHHHHHHHHhhhhhhccccCCCCeeeeEecC--------CCcEEEEEecCHHH
Q psy2204          44 RQARRLYVGNIP--FGVT--------EDEMMEFFNQQMHLSGLAQAAGNPVLACQINL--------DKNFAFLEFRSIDE  105 (231)
Q Consensus        44 ~~~r~lfVgNLp--~~~t--------e~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~--------~kg~aFV~F~~~~~  105 (231)
                      .+++.|.+.|+=  .++.        +++|++.|++||           .|.++++.+        .+|++||+|.+.++
T Consensus         3 ~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G-----------~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~   71 (105)
T 3v4m_A            3 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG-----------LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFD   71 (105)
T ss_dssp             SCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTS-----------CEEEEECCCCBTTBCCTTTTEEEEEESSHHH
T ss_pred             CCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccC-----------CEEEEEEeccCCCCCcCCcEEEEEEECCHHH
Confidence            467899999983  3333        369999999999           777777754        47999999999999


Q ss_pred             HHHHH-HhCCCeecCceEEEeCCC
Q psy2204         106 TTQAM-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       106 a~~Al-~lng~~l~gr~i~V~~~~  128 (231)
                      |.+|+ .|||..|.||.|.|.+..
T Consensus        72 A~~Ai~~lnG~~f~GR~i~v~~~~   95 (105)
T 3v4m_A           72 CQKAMQGLTGRKFANRVVVTKYCD   95 (105)
T ss_dssp             HHHHHHHHTTCEETTEECEEEEEC
T ss_pred             HHHHHHHhCCCEeCCCEEEEEEeC
Confidence            99999 999999999999998653

>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=99.33  E-value=1.8e-12  Score=108.60  Aligned_cols=77  Identities=18%  Similarity=0.240  Sum_probs=64.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHH-Hh-CCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAM-AF-DGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al-~l-ng~~  116 (231)
                      .++++|||+|||+++|+++|+++|+.||           .|.++++.     +++|||||+|.+.++|.+|+ .| ++..
T Consensus        94 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G-----------~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~  162 (261)
T 3sde_A           94 THGAALTVKNLSPVVSNELLEQAFSQFG-----------PVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAF  162 (261)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCE
T ss_pred             ccCCcccccCCCCCCCHHHHHHHHHhcC-----------CeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeE
Confidence            3567999999999999999999999999           55555553     44899999999999999999 88 5555


Q ss_pred             ec---CceEEEeCCCCCC
Q psy2204         117 FK---GQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~---gr~i~V~~~~~~~  131 (231)
                      +.   +|+|.|.+.....
T Consensus       163 ~~~~~~r~i~v~~~~~~~  180 (261)
T 3sde_A          163 LLTTTPRPVIVEPMEQFD  180 (261)
T ss_dssp             ESSSSCCBCEEEECCCEE
T ss_pred             EecCCCceEEEeeccccC
Confidence            54   8999999776543

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.33  E-value=1.8e-11  Score=88.15  Aligned_cols=73  Identities=16%  Similarity=0.162  Sum_probs=59.9

Q ss_pred             CCeEEEcCCC-------CCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          46 ARRLYVGNIP-------FGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        46 ~r~lfVgNLp-------~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++|-|.-..       .++++++|+++|++||           .|.++.+. +.||||||+|.+.++|.+|+ .++  .
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G-----------~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~~--~   76 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYG-----------EVLNLVLSSKKPGTAVVEFATVKAAELAVQNEV--G   76 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTS-----------CEEEEEEESSSSSEEEEEESCHHHHHHHHHTCC--B
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcC-----------CEEEEEEccCCCCEEEEEECCHHHHHHHHHhcC--C
Confidence            5567666543       4689999999999999           78888775 66899999999999999999 644  4


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      +.|++|+|.+++...
T Consensus        77 ~~g~~l~V~~a~~~~   91 (100)
T 2d9o_A           77 LVDNPLKISWLEGQP   91 (100)
T ss_dssp             CSSSBCEEECSSCCC
T ss_pred             CCCCeEEEEEccCCC
Confidence            689999999887543

>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=99.33  E-value=4.1e-13  Score=97.53  Aligned_cols=66  Identities=17%  Similarity=0.294  Sum_probs=56.0

Q ss_pred             EcCCCCCCCHHHHHHHH------------HHhhhhhhccccCCCCeeeeEecCC-----CcEEEEEecCHHHHHHHH-Hh
Q psy2204          51 VGNIPFGVTEDEMMEFF------------NQQMHLSGLAQAAGNPVLACQINLD-----KNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        51 VgNLp~~~te~~L~~~F------------~~~G~~~~~~~~~~~~i~~~~~~~~-----kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +.||++.+++++|++.|            ++||           .|.++++.++     +|||||+|.+.++|.+|+ .|
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G-----------~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~l   88 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYG-----------EVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDL   88 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-----------CEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHH
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCC-----------ceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHH
Confidence            56777778888777766            9999           7777777654     799999999999999999 99


Q ss_pred             CCCeecCceEEEeCC
Q psy2204         113 DGINFKGQSLKIRRP  127 (231)
Q Consensus       113 ng~~l~gr~i~V~~~  127 (231)
                      ||..+.||.|+|.++
T Consensus        89 ng~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           89 NNRWFNGQPIHAELS  103 (104)
T ss_dssp             TTCEETTEECCEEEC
T ss_pred             CCCEECCEEEEEEEc
Confidence            999999999999864

>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=99.26  E-value=7.1e-12  Score=93.01  Aligned_cols=73  Identities=22%  Similarity=0.163  Sum_probs=60.1

Q ss_pred             CCCeEEEcCCCC--C---CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC----------CCcEEEEEecCHHHHHHH
Q psy2204          45 QARRLYVGNIPF--G---VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL----------DKNFAFLEFRSIDETTQA  109 (231)
Q Consensus        45 ~~r~lfVgNLp~--~---~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~----------~kg~aFV~F~~~~~a~~A  109 (231)
                      +++.|++.|+-.  +   -.+++|++.|++||           .|.++.+.+          .+|++||+|.+.++|.+|
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G-----------~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~A   87 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFG-----------AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKA   87 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTS-----------CEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHH
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccC-----------CEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHH
Confidence            578999999942  1   23689999999999           555555432          358999999999999999


Q ss_pred             H-HhCCCeecCceEEEeCCC
Q psy2204         110 M-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       110 l-~lng~~l~gr~i~V~~~~  128 (231)
                      + .|||..|.||.|.|.+..
T Consensus        88 i~~LnGr~f~GR~i~v~~~~  107 (118)
T 3ue2_A           88 IQALNGRWFAGRKVVAEVYD  107 (118)
T ss_dssp             HHHHTTCEETTEECEEEEEC
T ss_pred             HHHHCCCEECCcEEEEEEcC
Confidence            9 999999999999998654

>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=99.25  E-value=2.2e-11  Score=94.21  Aligned_cols=99  Identities=13%  Similarity=0.066  Sum_probs=66.9

Q ss_pred             CCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCC
Q psy2204          91 LDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYL  169 (231)
Q Consensus        91 ~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~  169 (231)
                      +.+|||||+|.+.++|++|+ .+++....+..+.+..............        ...........++|||+|||+++
T Consensus        11 ~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~l~v~nl~~~~   82 (158)
T 2kn4_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSH--------HHHHHMDVEGMTSLKVDNLTYRT   82 (158)
T ss_dssp             SCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCCC--------CSSCCCCCCBCCEEEEESCCTTC
T ss_pred             cccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCcccccccccccc--------ccccccCCCCCCEEEEeCCCCCC
Confidence            45899999999999999999 8776443333333332211000000000        00111112345899999999999


Q ss_pred             CHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         170 NED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       170 tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      |++                                         +|+..|||..|.|+.|+|++|.+..
T Consensus        83 ~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  151 (158)
T 2kn4_A           83 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGR  151 (158)
T ss_dssp             CHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECCSS
T ss_pred             CHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCC
Confidence            998                                         8999999999999999999998653

>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=99.23  E-value=7.1e-12  Score=96.39  Aligned_cols=99  Identities=13%  Similarity=0.106  Sum_probs=74.9

Q ss_pred             CCcEEEEEecCHHHHHHHH-Hh-CCCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCC
Q psy2204          92 DKNFAFLEFRSIDETTQAM-AF-DGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYL  169 (231)
Q Consensus        92 ~kg~aFV~F~~~~~a~~Al-~l-ng~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~  169 (231)
                      -+|+++|+|.+.++|++|+ .+ ||..++| .|.+.++............     .............++|||+|||+++
T Consensus        12 l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~l~V~nl~~~~   85 (150)
T 2i2y_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHH-----HHHHMHRDSCPLDCKVYVGNLGNNG   85 (150)
T ss_dssp             SCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSS-----CCCCSCSSSSTTSCEEEEESCCSCC
T ss_pred             ccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcccccccccc-----ccccccccCCCCCCEEEEeCCCCCC
Confidence            3799999999999999999 99 9999999 9999977542211000000     0000111223456899999999999


Q ss_pred             CHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         170 NED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       170 tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      |++                                    .|+..|||..|.|+.|+|+++.+.
T Consensus        86 t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  148 (150)
T 2i2y_A           86 NKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGE  148 (150)
T ss_dssp             SCHHHHHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCC
T ss_pred             CHHHHHHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCC
Confidence            998                                    899999999999999999999865

>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=99.22  E-value=3.6e-11  Score=88.65  Aligned_cols=74  Identities=16%  Similarity=0.214  Sum_probs=61.2

Q ss_pred             CCCCeEEEcCCCCCC----------CHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--CcEEEEEecCHHHHHHHH-
Q psy2204          44 RQARRLYVGNIPFGV----------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--KNFAFLEFRSIDETTQAM-  110 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~----------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--kg~aFV~F~~~~~a~~Al-  110 (231)
                      .+++.|.+.|+=..-          .+++|++.|++||           .|.++.+.++  +|++||+|.+.++|.+|+ 
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG-----------~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~   73 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHG-----------GVIHIYVDKNSAQGNVYVKCPSIAAAIAAVN   73 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTT-----------CCSEEEECTTCTTCCEEEECSSHHHHHHHHH
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccC-----------CEEEEEEecCCCcEEEEEEECCHHHHHHHHH
Confidence            357788888884322          2358899999999           6777777655  799999999999999999 


Q ss_pred             HhCCCeecCceEEEeCCC
Q psy2204         111 AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       111 ~lng~~l~gr~i~V~~~~  128 (231)
                      .|||..|.||.|.|.+..
T Consensus        74 ~lnG~~f~GR~i~v~~~~   91 (114)
T 3s6e_A           74 ALHGRWFAGKMITAAYVP   91 (114)
T ss_dssp             HHTTCEETTEECEEEEEC
T ss_pred             HhCCCEECCEEEEEEEEc
Confidence            999999999999998653

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.08  E-value=4e-10  Score=83.62  Aligned_cols=76  Identities=8%  Similarity=0.076  Sum_probs=66.8

Q ss_pred             CCCCCCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecC-HHHHHHHH-Hh--C
Q psy2204          39 GSTITRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS-IDETTQAM-AF--D  113 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~-~~~a~~Al-~l--n  113 (231)
                      ++-.-....-|||+||+++ +++++|+++|++||           .|..|++.++...|||+|.+ .++|..|+ .+  +
T Consensus        11 ~~~~~~~G~il~v~~l~~~~~sredLke~F~~~G-----------~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~   79 (121)
T 1owx_A           11 GSLEEKIGCLLKFSGDLDDQTCREDLHILFSNHG-----------EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNG   79 (121)
T ss_dssp             CCCSCCCCCEEEEEESCCSSCCHHHHHHHTCSSC-----------CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTS
T ss_pred             CcccccCCeEEEEecCCCCcCCHHHHHHHHHhcC-----------CEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcC
Confidence            3444456779999999999 99999999999999           89999999999999999999 89999999 88  4


Q ss_pred             CCeecCceEEEe
Q psy2204         114 GINFKGQSLKIR  125 (231)
Q Consensus       114 g~~l~gr~i~V~  125 (231)
                      +..|.|..+++.
T Consensus        80 ~~~i~g~~~~~e   91 (121)
T 1owx_A           80 NLQLRNKEVTWE   91 (121)
T ss_dssp             CBCTTSSSEEEE
T ss_pred             CcEEeCcEEEEE
Confidence            778888877775

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.07  E-value=5.4e-10  Score=78.26  Aligned_cols=70  Identities=14%  Similarity=0.219  Sum_probs=59.6

Q ss_pred             CeEEEcCCC----CCCCH----HHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          47 RRLYVGNIP----FGVTE----DEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        47 r~lfVgNLp----~~~te----~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      -||+|.-.+    .+.-.    .+|.+.|++||           .|+.+++..++  +||+|.+.++|.+||.|||..+.
T Consensus         8 ~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G-----------~Vi~vr~~~d~--~fVtF~d~~sAlaAi~mnG~~v~   74 (91)
T 2dnr_A            8 GTVLVSIKSSLPENNFFDDALIDELLQQFASFG-----------EVILIRFVEDK--MWVTFLEGSSALNVLSLNGKELL   74 (91)
T ss_dssp             CEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTC-----------CEEEEEECSSS--EEEEESSHHHHHHGGGGTTCEET
T ss_pred             CeEEEEeccCccccccCCHHHHHHHHHHHHhCC-----------CeEEEEEecCC--EEEEECChHHHHHHHhcCCeEeC
Confidence            388888766    23333    57899999999           89999998776  89999999999999999999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      ||.|+|+..++
T Consensus        75 Gr~LkV~lkt~   85 (91)
T 2dnr_A           75 NRTITIALKSP   85 (91)
T ss_dssp             TEEEEEEECCC
T ss_pred             CeEEEEEeCCC
Confidence            99999997653

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.94  E-value=2.8e-09  Score=75.05  Aligned_cols=69  Identities=19%  Similarity=0.309  Sum_probs=59.2

Q ss_pred             CeEEEcCCCCC-----CCH----HHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          47 RRLYVGNIPFG-----VTE----DEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        47 r~lfVgNLp~~-----~te----~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      -||+|.-++.+     +-.    .+|.+.|++||           .+..+++..++  +||+|.+.++|.+||.|||..+
T Consensus        16 ~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G-----------~Vilvr~v~d~--~fVtF~d~~sAl~AI~ldG~~v   82 (95)
T 1ufw_A           16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYG-----------TIVLVRINQGQ--MLVTFADSHSALSVLDVDGMKV   82 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHS-----------CCSEEEEETTE--EEEECSCSHHHHHHHHGGGSEE
T ss_pred             CeEEEEecCCcccccccCCHHHHHHHHHHHHHCC-----------CEEEEEEecCc--EEEEEcChHHHHHHHhcCCeee
Confidence            49999988643     222    56899999999           78888888777  9999999999999999999999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .||.|+|+...
T Consensus        83 ~Gr~L~V~~k~   93 (95)
T 1ufw_A           83 KGRAVKISGPS   93 (95)
T ss_dssp             TTEEEEEECCC
T ss_pred             CCeEEEEeccC
Confidence            99999999654

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.67  E-value=2.3e-07  Score=66.70  Aligned_cols=77  Identities=14%  Similarity=0.265  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ....|+|-+=|||-.+++..|+.+++.+-.+..      ..++.+.+..+-+-|+|+|.+..+|-+|. .|||.+|.||+
T Consensus        18 ~~~~rtiaL~~ipDtvndarIr~lve~~~~i~~------g~i~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~   91 (117)
T 2l9w_A           18 KELETLICLFPLSDKVSPSLICQFLQEEIHINE------KDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKV   91 (117)
T ss_dssp             TTTTSCEEEECCCTTCCHHHHHHHHHHHTCCCT------TTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEE
T ss_pred             ccCCcEEEEecCCCCCCHHHHHHHHhhhhccCc------cceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeE
Confidence            345789999999999999999999999921110      07899999899999999999999999998 99999999999


Q ss_pred             EEEe
Q psy2204         122 LKIR  125 (231)
Q Consensus       122 i~V~  125 (231)
                      |++.
T Consensus        92 Lr~g   95 (117)
T 2l9w_A           92 IRSG   95 (117)
T ss_dssp             EEEE
T ss_pred             EEec
Confidence            9987

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.65  E-value=2.4e-08  Score=81.31  Aligned_cols=60  Identities=25%  Similarity=0.174  Sum_probs=51.6

Q ss_pred             CCHHHHHHHHHHhhhhhhccccCCCCeeeeEec----------CCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeC
Q psy2204          58 VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN----------LDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRR  126 (231)
Q Consensus        58 ~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~----------~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~  126 (231)
                      -.+++|++.|++||           .|.++.+.          +.+|++||+|.+.++|.+|+ .|||..+.||.|.+.+
T Consensus       141 e~~~dl~~e~~~~G-----------~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~  209 (222)
T 3dxb_A          141 DLEGEVTEECGKFG-----------AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV  209 (222)
T ss_dssp             THHHHHHHHHTTTS-----------CEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             HHHHHHHHHHHccC-----------CeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEE
Confidence            45679999999999           56666553          45799999999999999999 9999999999999986


Q ss_pred             CC
Q psy2204         127 PH  128 (231)
Q Consensus       127 ~~  128 (231)
                      ..
T Consensus       210 ~~  211 (222)
T 3dxb_A          210 YD  211 (222)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=5.5e-07  Score=64.11  Aligned_cols=92  Identities=23%  Similarity=0.389  Sum_probs=75.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHH---hhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQ---QMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~---~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      +.-.++|.|.|||.++.++.|.-+|++   .|         |..|.+++...  +-|+|+|.+.+.+++.|+...+.|.+
T Consensus         5 ~~~~~~I~V~~lPp~~~~e~L~LYFEn~rrsG---------GG~V~~v~~~~--~~AvItF~d~~va~rVL~k~~H~L~~   73 (104)
T 2dhx_A            5 SSGGVAVEVRGLPPAVPDELLTLYFENRRRSG---------GGPVLSWQRLG--CGGVLTFREPADAERVLAQADHELHG   73 (104)
T ss_dssp             CCCCCEEEEESCCTTSCHHHHHHHHHCTTTTC---------CCCEEEEEEET--TEEEEEESSHHHHHHHHTCSCCBSSS
T ss_pred             ccCccEEEEECCCCCCChhHheEEEeCCCcCC---------CceeeEEEEcC--CcEEEEEcChHHHHHHhcCCcceecC
Confidence            345679999999999999999999997   34         56899998866  88999999999999999877789999


Q ss_pred             ceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCC
Q psy2204         120 QSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLN  170 (231)
Q Consensus       120 r~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~t  170 (231)
                      ..|.|....                         ...++++++.+|+..++
T Consensus        74 ~~LsV~P~~-------------------------~~~~~r~ll~gl~~~t~   99 (104)
T 2dhx_A           74 AQLSLRPAP-------------------------PRAPARLLLQGLPPGTS   99 (104)
T ss_dssp             SBCEEEECC-------------------------CCCCCCCCCCSCCCCCC
T ss_pred             eEEEEEcCC-------------------------CCCcceEeeecCCCCCC
Confidence            999997432                         12346788888888764

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=98.55  E-value=3.6e-08  Score=74.44  Aligned_cols=85  Identities=15%  Similarity=0.173  Sum_probs=41.1

Q ss_pred             cEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH
Q psy2204          94 NFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED  172 (231)
Q Consensus        94 g~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee  172 (231)
                      -|.|++|++...+..|+ .++|....|+. ...+..+                     .......++|||+|||+++|++
T Consensus         5 ~~~~~~~~~~~~~~~a~~~~~g~~~~g~~-~~~~~~~---------------------~~~~~~~~~l~V~nLp~~~te~   62 (135)
T 2lea_A            5 HHHHHHSSGLVPRGSHMASMTGGQQMGRG-SMSYGRP---------------------PPDVEGMTSLKVDNLTYRTSPD   62 (135)
T ss_dssp             -------------------------------CCSCCS---------------------CSSGGGCCCEEEECCCSSCHHH
T ss_pred             ccccccccCCCchhhhhhhccCCCCCCCC-CCCcCCC---------------------CCCCCCCCEEEEeCCCCCCCHH
Confidence            36788899999999999 89887766653 1111110                     0112335899999999999998


Q ss_pred             -----------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcccc
Q psy2204         173 -----------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAKNA  200 (231)
Q Consensus       173 -----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~~  200 (231)
                                                               +|+..|||..|.|+.|+|+++.......
T Consensus        63 ~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~~~~~  131 (135)
T 2lea_A           63 TLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRPPD  131 (135)
T ss_dssp             HHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCCCCCT
T ss_pred             HHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCCCc
Confidence                                                     8899999999999999999998664433

>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=98.46  E-value=2.3e-07  Score=66.16  Aligned_cols=39  Identities=31%  Similarity=0.494  Sum_probs=36.6

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         +|++.|||..|.||.|+|++|.|
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP   98 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            4789999999999999                                         89999999999999999999975

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=98.34  E-value=5.2e-07  Score=70.09  Aligned_cols=100  Identities=13%  Similarity=0.076  Sum_probs=38.8

Q ss_pred             EEecCHHHHHHHH-HhCCCeec--CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--
Q psy2204          98 LEFRSIDETTQAM-AFDGINFK--GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--  172 (231)
Q Consensus        98 V~F~~~~~a~~Al-~lng~~l~--gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--  172 (231)
                      .+|++.+++..++ .+++....  |+.+......... .........................++|||+|||+.++++  
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~-~~~~~~~~~s~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~L   89 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREA-IHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEI   89 (165)
T ss_dssp             --------------------------------------------------------CCCCC-CEEEEEESCCTTCCHHHH
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCcccccc-ccCccccccCCCCCCCCCCCCCCCCCEEEEeCCCCCCCHHHH
Confidence            7899999999999 88887665  5554444322110 0000000000000000011112334689999999999998  


Q ss_pred             ---------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 ---------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                                                             .||..|||..|.|+.|+|.+|.....
T Consensus        90 ~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  154 (165)
T 1rk8_A           90 QEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGP  154 (165)
T ss_dssp             HHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEECC-
T ss_pred             HHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCCC
Confidence                                                   89999999999999999999986543

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

Probab=98.30  E-value=2.1e-06  Score=59.54  Aligned_cols=44  Identities=32%  Similarity=0.507  Sum_probs=39.4

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+|||+++|++                                 +|+..|||..+.|+.|+|+++.....
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   83 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQK   83 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCCCCC
Confidence            345899999999999998                                 89999999999999999999986644

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.24  E-value=2.5e-06  Score=59.40  Aligned_cols=44  Identities=20%  Similarity=0.413  Sum_probs=39.3

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+|||+++|++                                 +|+..|||..+.|+.|+|+++.....
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   84 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR   84 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSCCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccCCCC
Confidence            345899999999999998                                 89999999999999999999986643

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.21  E-value=4.4e-06  Score=58.21  Aligned_cols=44  Identities=27%  Similarity=0.407  Sum_probs=39.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCC-CeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNG-MQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG-~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+|||+++|++                                   +|+..||| ..+.|+.|+|+++.+...
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~~~   85 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKKL   85 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEcCCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccCccc
Confidence            345899999999999998                                   89999999 999999999999986543

>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=98.20  E-value=1.9e-06  Score=62.83  Aligned_cols=42  Identities=33%  Similarity=0.525  Sum_probs=37.6

Q ss_pred             CCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...+|||+|||+++|++                                       +|++.|||+.|.|+.|+|+++...
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~   83 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   83 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCC
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCc
Confidence            34689999999999999                                       899999999999999999999765


Q ss_pred             c
Q psy2204         197 A  197 (231)
Q Consensus       197 ~  197 (231)
                      .
T Consensus        84 ~   84 (115)
T 4f25_A           84 K   84 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.20  E-value=4.5e-06  Score=59.12  Aligned_cols=45  Identities=20%  Similarity=0.338  Sum_probs=39.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|++.|||..|.|+.|+|+++
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   89 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   89 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeC
Confidence            456899999999999998                                         899999999999999999999


Q ss_pred             ecCccc
Q psy2204         194 SVGAKN  199 (231)
Q Consensus       194 ~~~~~~  199 (231)
                      .+....
T Consensus        90 ~~~~~~   95 (102)
T 2cqb_A           90 KPMRIK   95 (102)
T ss_dssp             CCCCCC
T ss_pred             CCCCCC
Confidence            866443

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.20  E-value=3.8e-06  Score=59.49  Aligned_cols=44  Identities=16%  Similarity=0.320  Sum_probs=39.4

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+++|++                                      +|+..|||+.|.|+.|+|++|.+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   92 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPK   92 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCeEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCC
Confidence            456899999999999998                                      899999999999999999999866


Q ss_pred             cc
Q psy2204         197 AK  198 (231)
Q Consensus       197 ~~  198 (231)
                      ..
T Consensus        93 ~~   94 (102)
T 2fc8_A           93 GE   94 (102)
T ss_dssp             CS
T ss_pred             CC
Confidence            43

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

Probab=98.19  E-value=5.1e-06  Score=60.21  Aligned_cols=46  Identities=20%  Similarity=0.395  Sum_probs=40.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||.+++++                                         +|++.|||..|.|+.|+|+++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   92 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            345899999999999998                                         899999999999999999999


Q ss_pred             ecCcccc
Q psy2204         194 SVGAKNA  200 (231)
Q Consensus       194 ~~~~~~~  200 (231)
                      .......
T Consensus        93 ~~~~~~~   99 (115)
T 2dgo_A           93 TRKPPAP   99 (115)
T ss_dssp             SCCCCCS
T ss_pred             cCCCCCC
Confidence            8664433

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

Probab=98.18  E-value=2.5e-06  Score=61.90  Aligned_cols=41  Identities=12%  Similarity=0.147  Sum_probs=37.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|++.|||..+.|+.|+|++|.
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~   84 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            45899999999999999                                         8999999999999999999997


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      .+
T Consensus        85 ~~   86 (110)
T 3s8s_A           85 KG   86 (110)
T ss_dssp             TT
T ss_pred             CC
Confidence            55

>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=98.17  E-value=6.8e-06  Score=58.34  Aligned_cols=46  Identities=17%  Similarity=0.382  Sum_probs=40.4

Q ss_pred             CCCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         154 PDSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ....++|||+|||+++|++                                       +|+..|||..|.|+.|+|+++.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            3456899999999999999                                       8999999999999999999998


Q ss_pred             cCccc
Q psy2204         195 VGAKN  199 (231)
Q Consensus       195 ~~~~~  199 (231)
                      .....
T Consensus        92 ~~~~~   96 (103)
T 2cq3_A           92 ARVMT   96 (103)
T ss_dssp             SSCCC
T ss_pred             cCCCC
Confidence            66443

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.17  E-value=4.5e-06  Score=59.09  Aligned_cols=44  Identities=9%  Similarity=0.206  Sum_probs=39.5

Q ss_pred             CCCCcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         155 DSPHKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      ...++|||+|||+++|++                                     +|+..|||..|.|+.|+|+++....
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRG   92 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSEEECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCCCC
Confidence            456899999999999998                                     8999999999999999999998664


Q ss_pred             c
Q psy2204         198 K  198 (231)
Q Consensus       198 ~  198 (231)
                      .
T Consensus        93 ~   93 (101)
T 2fc9_A           93 S   93 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=98.16  E-value=1e-05  Score=57.56  Aligned_cols=44  Identities=20%  Similarity=0.361  Sum_probs=39.2

Q ss_pred             CCCcEEEcCCCCCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCccc
Q psy2204         156 SPHKIFIGGLPNYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAKN  199 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~  199 (231)
                      ..++|||+|||+++|++                                 +|+..|||..|.|+.|+|+++.+....
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~   86 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQK   86 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECSSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCCCccc
Confidence            35899999999999998                                 899999999999999999999866443

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

Probab=98.16  E-value=4.5e-06  Score=58.18  Aligned_cols=41  Identities=20%  Similarity=0.289  Sum_probs=37.1

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||++++++                                         +|++.|||..|.|+.|+|++
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            3456899999999999999                                         89999999999999999999


Q ss_pred             ee
Q psy2204         193 AS  194 (231)
Q Consensus       193 a~  194 (231)
                      |.
T Consensus        93 ak   94 (94)
T 2e5h_A           93 AI   94 (94)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

>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=98.15  E-value=3.4e-06  Score=57.60  Aligned_cols=39  Identities=23%  Similarity=0.451  Sum_probs=36.1

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         +|++.|||..+.|+.|+|++|.
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~ak   85 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   85 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            45899999999999998                                         8999999999999999999974

>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=98.14  E-value=3.2e-06  Score=57.49  Aligned_cols=39  Identities=21%  Similarity=0.451  Sum_probs=36.2

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .+|||+|||.+++++                                         +|+..|||..+.|+.|+|++|.+.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~   81 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAKL   81 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCcC
Confidence            579999999999998                                         899999999999999999999865

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

Probab=98.14  E-value=6.3e-06  Score=58.19  Aligned_cols=43  Identities=30%  Similarity=0.543  Sum_probs=38.9

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+++|++                                        +|++.|||..+.|+.|+|+++.
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   94 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISN   94 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            345899999999999998                                        8899999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus        95 ~~~   97 (100)
T 2do4_A           95 SGP   97 (100)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            664

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

Probab=98.14  E-value=3.7e-06  Score=58.75  Aligned_cols=43  Identities=23%  Similarity=0.458  Sum_probs=38.8

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+++|||+|||.+++++                                         +|+..|||..|.|+.|+|+++.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   83 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVT   83 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            45899999999999998                                         8999999999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      ....
T Consensus        84 ~~~~   87 (95)
T 2dnz_A           84 ERLD   87 (95)
T ss_dssp             CCCC
T ss_pred             cccC
Confidence            6643

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

Probab=98.14  E-value=7.4e-06  Score=57.78  Aligned_cols=44  Identities=25%  Similarity=0.274  Sum_probs=39.3

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+|||+++|++                                   +|+..|||..|.|+.|+|+++.+..+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK   91 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCCC
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCC
Confidence            345899999999999998                                   88999999999999999999986644

>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=98.13  E-value=5.9e-06  Score=59.34  Aligned_cols=44  Identities=23%  Similarity=0.462  Sum_probs=39.4

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+++|++                                      +|++.|||..|.|+.|+|+++...
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   99 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSG   99 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcccC
Confidence            345899999999999998                                      899999999999999999999866


Q ss_pred             cc
Q psy2204         197 AK  198 (231)
Q Consensus       197 ~~  198 (231)
                      ..
T Consensus       100 ~~  101 (109)
T 1x4a_A          100 RG  101 (109)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

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

Probab=98.13  E-value=4.9e-06  Score=59.12  Aligned_cols=44  Identities=27%  Similarity=0.321  Sum_probs=39.4

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||.+++++                                         +|+..|||..|.|+.|+|+++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   92 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEC
Confidence            345899999999999998                                         899999999999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .+...
T Consensus        93 ~~~~~   97 (103)
T 2cq0_A           93 KPSTN   97 (103)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            86644

>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=98.13  E-value=9.2e-06  Score=57.63  Aligned_cols=44  Identities=25%  Similarity=0.463  Sum_probs=39.4

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...++|||+|||+.++++                                       +|+..|||..|.|+.|+|+++..
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   92 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCC
Confidence            456899999999999998                                       89999999999999999999986


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus        93 ~~~   95 (103)
T 2cqi_A           93 PSS   95 (103)
T ss_dssp             TTC
T ss_pred             Ccc
Confidence            543

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

Probab=98.13  E-value=3.2e-06  Score=59.00  Aligned_cols=42  Identities=31%  Similarity=0.404  Sum_probs=37.8

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+..|||..+.|+.|+|++|
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGP   92 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            345799999999999998                                         899999999999999999998


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ..+
T Consensus        93 ~~g   95 (95)
T 2cqc_A           93 SSG   95 (95)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            753

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.13  E-value=4.6e-06  Score=59.26  Aligned_cols=44  Identities=27%  Similarity=0.366  Sum_probs=39.3

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+..|||..|.|+.|+|++|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVA   90 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEC
Confidence            345899999999999998                                         899999999999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .....
T Consensus        91 ~~~~~   95 (103)
T 2dnm_A           91 RYGRR   95 (103)
T ss_dssp             SSCCS
T ss_pred             CcCCC
Confidence            86543

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.12  E-value=4e-06  Score=59.43  Aligned_cols=45  Identities=29%  Similarity=0.525  Sum_probs=39.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|++.|||..|.|+.|+|+++
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   89 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   89 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            346899999999999998                                         899999999999999999999


Q ss_pred             ecCccc
Q psy2204         194 SVGAKN  199 (231)
Q Consensus       194 ~~~~~~  199 (231)
                      ......
T Consensus        90 ~~~~~~   95 (102)
T 1x5s_A           90 GKSSDN   95 (102)
T ss_dssp             ECCCCC
T ss_pred             CCCCCC
Confidence            866443

>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=98.12  E-value=9.5e-06  Score=58.81  Aligned_cols=44  Identities=32%  Similarity=0.466  Sum_probs=39.3

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|++.|||..|.|+.|+|+++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  102 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK  102 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            345899999999999998                                         899999999999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .+...
T Consensus       103 ~~~~~  107 (115)
T 2cpz_A          103 RSKND  107 (115)
T ss_dssp             CCSCC
T ss_pred             CCCCc
Confidence            86643

>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=98.12  E-value=5.8e-06  Score=58.21  Aligned_cols=43  Identities=19%  Similarity=0.342  Sum_probs=38.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.++|++                                         +|+..|||..|.|+.|+|+++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            45899999999999998                                         8899999999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      ....
T Consensus        87 ~~~~   90 (99)
T 1whw_A           87 IKKE   90 (99)
T ss_dssp             CCST
T ss_pred             CCcc
Confidence            6643

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.11  E-value=7.3e-06  Score=57.64  Aligned_cols=42  Identities=29%  Similarity=0.467  Sum_probs=38.4

Q ss_pred             CCCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+++|++                                    +|+..|||..|.|+.|+|+++.+.
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   94 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ   94 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCCC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEEEEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            345899999999999998                                    899999999999999999999865

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=98.11  E-value=2.6e-06  Score=59.57  Aligned_cols=40  Identities=25%  Similarity=0.400  Sum_probs=35.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+++|||+|||+++|++                                         +|++.|||+.|.||.|+|++++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            35799999999999998                                         8999999999999999999987


Q ss_pred             c
Q psy2204         195 V  195 (231)
Q Consensus       195 ~  195 (231)
                      .
T Consensus        94 s   94 (95)
T 2ek1_A           94 S   94 (95)
T ss_dssp             -
T ss_pred             C
Confidence            4

>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=98.10  E-value=4.8e-06  Score=58.44  Aligned_cols=41  Identities=29%  Similarity=0.504  Sum_probs=37.6

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||.+++++                                         +|++.|||..++|+.|+|++|..
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   81 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSN   81 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCC
Confidence            4789999999999998                                         89999999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        82 ~~   83 (96)
T 2x1f_A           82 SD   83 (96)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>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=98.10  E-value=5.8e-06  Score=58.88  Aligned_cols=45  Identities=27%  Similarity=0.399  Sum_probs=40.0

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||+++|++                                         +|+..|||..|.|+.|+|++
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           12 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            3456899999999999998                                         89999999999999999999


Q ss_pred             eecCcc
Q psy2204         193 ASVGAK  198 (231)
Q Consensus       193 a~~~~~  198 (231)
                      +....+
T Consensus        92 a~~~~~   97 (105)
T 1x5u_A           92 ASAHNK   97 (105)
T ss_dssp             TTTTSC
T ss_pred             CCCCCc
Confidence            986644

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

Probab=98.10  E-value=5.9e-06  Score=59.41  Aligned_cols=45  Identities=16%  Similarity=0.321  Sum_probs=39.8

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ....++|||+|||.+++++                                   +|+..|||..|.|+.|+|+++.....
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  101 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPD  101 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCCS
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCCCCC
Confidence            3446899999999999998                                   89999999999999999999986643

>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=98.09  E-value=6.2e-06  Score=56.58  Aligned_cols=40  Identities=23%  Similarity=0.450  Sum_probs=37.1

Q ss_pred             CCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      +++|||+|||+++|++                                          +|+..|||..+.|+.|+|+++.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   83 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAVL   83 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEECC
Confidence            4799999999999999                                          8999999999999999999997


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      +.
T Consensus        84 ~~   85 (88)
T 4a8x_A           84 AP   85 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.09  E-value=4e-06  Score=58.11  Aligned_cols=45  Identities=29%  Similarity=0.400  Sum_probs=39.7

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCccc
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAKN  199 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~~  199 (231)
                      ...++|||+|||.++|++                                 +|+..|||..+.|+.|+|+++....+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~~   83 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSKA   83 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEETTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSCCCCC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCCCCCC
Confidence            345899999999999998                                 889999999999999999999866443

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.09  E-value=5.7e-06  Score=58.13  Aligned_cols=42  Identities=24%  Similarity=0.321  Sum_probs=38.0

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|++.|||..|.|+.|+|+++
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            345789999999999998                                         899999999999999999998


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ...
T Consensus        93 ~~~   95 (98)
T 2cqp_A           93 SGP   95 (98)
T ss_dssp             SCS
T ss_pred             CCC
Confidence            754

>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=98.08  E-value=4e-06  Score=57.51  Aligned_cols=41  Identities=24%  Similarity=0.427  Sum_probs=36.0

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         +|+..|||..+.|+.|+|++|.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            34789999999999998                                         8999999999999999999997


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      +.
T Consensus        85 ~k   86 (87)
T 3bs9_A           85 RK   86 (87)
T ss_dssp             --
T ss_pred             CC
Confidence            53

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=98.08  E-value=5.9e-07  Score=80.60  Aligned_cols=42  Identities=14%  Similarity=0.269  Sum_probs=38.1

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+.+|++                                         .||..|||..|.|+.|+|.+|
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a  179 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVE  179 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            345799999999999998                                         899999999999999999999


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ...
T Consensus       180 ~~~  182 (437)
T 3pgw_S          180 RGR  182 (437)
T ss_pred             CCC
Confidence            854

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=98.07  E-value=4.1e-06  Score=58.50  Aligned_cols=41  Identities=15%  Similarity=0.239  Sum_probs=35.4

Q ss_pred             CcEEEcCCCCCCCHH------------------------------------------HHHHHh-CCCeeCCeEEEEEEee
Q psy2204         158 HKIFIGGLPNYLNED------------------------------------------QAIAGL-NGMQLGDKKLIVQRAS  194 (231)
Q Consensus       158 ~~ifV~nLp~~~tee------------------------------------------~Ai~~l-nG~~i~gr~l~V~~a~  194 (231)
                      ++|||+|||+++|++                                          +|++.| |+..++||.|+|++|.
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            689999999999999                                          778777 4678999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      +..+
T Consensus        82 ~~~~   85 (91)
T 2lxi_A           82 PKPK   85 (91)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            6644

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

Probab=98.07  E-value=6.9e-06  Score=57.97  Aligned_cols=42  Identities=29%  Similarity=0.371  Sum_probs=38.0

Q ss_pred             CCCCcEEEcCCCC-CCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPN-YLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~-~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+ +++++                                 +|+..|||..+.|+.|+|+++...
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSSN   95 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEECSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCCC
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCCC
Confidence            3458999999998 99998                                 899999999999999999999754

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.06  E-value=8e-06  Score=57.39  Aligned_cols=41  Identities=20%  Similarity=0.349  Sum_probs=37.4

Q ss_pred             CCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .++|||+|||++++++                                          +|+..|||..+.||.|+|++|.
T Consensus         9 ~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   88 (96)
T 2dgx_A            9 GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   88 (96)
T ss_dssp             CEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            4789999999999987                                          8999999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus        89 ~~~   91 (96)
T 2dgx_A           89 GAS   91 (96)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            653

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

Probab=98.06  E-value=1.1e-05  Score=57.98  Aligned_cols=40  Identities=28%  Similarity=0.429  Sum_probs=36.8

Q ss_pred             CCcEEEcCCCCC-CCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNY-LNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~-~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||++ ++++                                 +|+..|||..|.|+.|+|+++...
T Consensus        27 ~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~  100 (110)
T 1wf1_A           27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEP  100 (110)
T ss_dssp             SSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEEETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCC
Confidence            479999999999 9998                                 889999999999999999999754

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.05  E-value=1e-05  Score=57.07  Aligned_cols=43  Identities=33%  Similarity=0.482  Sum_probs=38.6

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      ...++|||+|||.++|++                                   +|++.|||..|.|+.|+|+++....
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~   90 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA   90 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCCCC
Confidence            345899999999999998                                   8999999999999999999998653

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.05  E-value=1.1e-05  Score=55.92  Aligned_cols=42  Identities=26%  Similarity=0.381  Sum_probs=37.6

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...++|||+|||++++++                                       +|+. |||..|+|+.|+|.+|..
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~~   86 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREKS   86 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTSCCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEESS
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhCCceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECCc
Confidence            345899999999999998                                       8888 999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        87 ~~   88 (91)
T 2dgw_A           87 GP   88 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.05  E-value=6.7e-06  Score=57.55  Aligned_cols=43  Identities=9%  Similarity=0.217  Sum_probs=38.8

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+.++++                                    +|+..|||..|.|+.|+|+++.+...
T Consensus        15 ~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   93 (96)
T 1fjc_A           15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCCCC
Confidence            45799999999999998                                    89999999999999999999986644

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

Probab=98.05  E-value=1.5e-05  Score=57.49  Aligned_cols=44  Identities=23%  Similarity=0.234  Sum_probs=38.7

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||++++++                                        +|+..|||+.|.|+.|+|+++.
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            345899999999999998                                        8999999999999999999997


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      ....
T Consensus        93 ~~~~   96 (114)
T 2do0_A           93 RALP   96 (114)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            5433

>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=98.05  E-value=8.6e-06  Score=59.47  Aligned_cols=45  Identities=38%  Similarity=0.539  Sum_probs=39.8

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      +..++|||+|||+++|++                                        +|++.|||..|.|+.|+|+++.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            345899999999999998                                        8999999999999999999998


Q ss_pred             cCccc
Q psy2204         195 VGAKN  199 (231)
Q Consensus       195 ~~~~~  199 (231)
                      .....
T Consensus        85 ~~~~~   89 (116)
T 2fy1_A           85 KPSFQ   89 (116)
T ss_dssp             CSSCS
T ss_pred             CCCCC
Confidence            66443

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=98.05  E-value=7.2e-06  Score=57.92  Aligned_cols=40  Identities=18%  Similarity=0.174  Sum_probs=36.0

Q ss_pred             CCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCC----eeCCeEE
Q psy2204         156 SPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGM----QLGDKKL  188 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~----~i~gr~l  188 (231)
                      .-++|||+|||+++|++                                           +|++.|||.    .|+||.|
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i   87 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI   87 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEE
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEE
Confidence            45799999999999999                                           899999997    5899999


Q ss_pred             EEEEeec
Q psy2204         189 IVQRASV  195 (231)
Q Consensus       189 ~V~~a~~  195 (231)
                      +|++|..
T Consensus        88 ~V~~Aks   94 (95)
T 2lkz_A           88 GVDFAKS   94 (95)
T ss_dssp             EEEECCC
T ss_pred             EEEEccC
Confidence            9999973

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.04  E-value=9.2e-06  Score=58.55  Aligned_cols=43  Identities=19%  Similarity=0.404  Sum_probs=38.7

Q ss_pred             CCCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         154 PDSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ....++|||+|||.++|++                                       +|+..|||..++|+.|+|++|.
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            3456899999999999999                                       8999999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      .+
T Consensus       106 ~~  107 (109)
T 2err_A          106 AR  107 (109)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

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

Probab=98.04  E-value=1e-05  Score=56.53  Aligned_cols=43  Identities=30%  Similarity=0.423  Sum_probs=38.5

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ..++|||+|||++++++                                          +|+..|||..|.|+.|+|+++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            35899999999999998                                          899999999999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .+...
T Consensus        84 ~~~~~   88 (96)
T 1x5t_A           84 FKKDS   88 (96)
T ss_dssp             CCCCC
T ss_pred             cccCC
Confidence            86644

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=98.04  E-value=5.4e-06  Score=57.52  Aligned_cols=43  Identities=23%  Similarity=0.344  Sum_probs=38.8

Q ss_pred             CCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||++++++                                       +|+..|||..+.|+.|+|+++...
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~   86 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRNA   86 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            45899999999999998                                       899999999999999999999866


Q ss_pred             cc
Q psy2204         197 AK  198 (231)
Q Consensus       197 ~~  198 (231)
                      ..
T Consensus        87 ~~   88 (92)
T 2dgv_A           87 SG   88 (92)
T ss_dssp             SS
T ss_pred             CC
Confidence            43

>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=98.04  E-value=4.7e-06  Score=58.17  Aligned_cols=41  Identities=32%  Similarity=0.498  Sum_probs=37.3

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+.++++                                        +|++.|||..+.|+.|+|++|.
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            345799999999999998                                        8999999999999999999987


Q ss_pred             c
Q psy2204         195 V  195 (231)
Q Consensus       195 ~  195 (231)
                      .
T Consensus        94 ~   94 (95)
T 2ywk_A           94 S   94 (95)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=98.04  E-value=1.2e-05  Score=57.05  Aligned_cols=44  Identities=18%  Similarity=0.326  Sum_probs=39.5

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...++|||+|||+++|++                                       +|+..|||..|.|+.|+|+++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQR   92 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEecc
Confidence            356899999999999999                                       89999999999999999999986


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus        93 ~~~   95 (103)
T 2d9p_A           93 KEE   95 (103)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            644

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.03  E-value=1.1e-05  Score=56.65  Aligned_cols=43  Identities=30%  Similarity=0.541  Sum_probs=38.6

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeC--CeEEEEEEeecCc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLG--DKKLIVQRASVGA  197 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~--gr~l~V~~a~~~~  197 (231)
                      ...++|||+|||+++|++                                   +|+..|||..+.  |+.|+|+++.+..
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~~~   94 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCCCC
Confidence            345899999999999998                                   899999999999  9999999998653

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

Probab=98.02  E-value=3.7e-06  Score=59.56  Aligned_cols=40  Identities=18%  Similarity=0.366  Sum_probs=36.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ..++|||+|||.+++++                                   +|+..|||..++|+.|+|++|.+
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  100 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE  100 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccC
Confidence            45799999999999998                                   89999999999999999999874

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=98.01  E-value=7.1e-06  Score=59.72  Aligned_cols=41  Identities=20%  Similarity=0.278  Sum_probs=36.9

Q ss_pred             CCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...+|||+|||++++++                                      +||+.|||.+|.||.|+|+++...
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~~~  105 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDNP  105 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC-
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCC
Confidence            45799999999999998                                      899999999999999999998744

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.01  E-value=1.1e-05  Score=56.72  Aligned_cols=44  Identities=25%  Similarity=0.333  Sum_probs=39.0

Q ss_pred             CCCcEEEcCCCCCCCHH--------------------------------------------HHHHHhCCCeeCCeEEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED--------------------------------------------QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee--------------------------------------------~Ai~~lnG~~i~gr~l~V~  191 (231)
                      ..++|||+|||++++++                                            +|+..|||..|.|+.|+|+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            45899999999999998                                            8999999999999999999


Q ss_pred             EeecCccc
Q psy2204         192 RASVGAKN  199 (231)
Q Consensus       192 ~a~~~~~~  199 (231)
                      ++......
T Consensus        84 ~a~~~~~~   91 (98)
T 2cpf_A           84 ISERATKP   91 (98)
T ss_dssp             CSSCSSCC
T ss_pred             EccCCCCC
Confidence            99866443

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=98.01  E-value=1.1e-05  Score=55.73  Aligned_cols=41  Identities=27%  Similarity=0.323  Sum_probs=37.2

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||++++++                                  +|++.|||..+.|+.|+|+++...
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~~v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   78 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSCCCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCeEEEEEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCC
Confidence            35799999999999987                                  899999999999999999999754

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.00  E-value=9.8e-06  Score=58.21  Aligned_cols=43  Identities=16%  Similarity=0.238  Sum_probs=38.8

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCC-----eEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGD-----KKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~g-----r~l~V~~a~~~  196 (231)
                      ..++|||+|||+++|++                                  +||+.|||+.|.|     +.|+|++|.+.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~~~   93 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPR   93 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETTTEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESSCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecCCEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCCCC
Confidence            45899999999999998                                  8999999999999     99999999865


Q ss_pred             cc
Q psy2204         197 AK  198 (231)
Q Consensus       197 ~~  198 (231)
                      ..
T Consensus        94 ~~   95 (108)
T 1x4c_A           94 SP   95 (108)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=98.00  E-value=3.4e-05  Score=57.69  Aligned_cols=46  Identities=37%  Similarity=0.597  Sum_probs=40.4

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||.+++++                                         +|+..|||..|.|+.|+|++
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  118 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            3456899999999999998                                         89999999999999999999


Q ss_pred             eecCccc
Q psy2204         193 ASVGAKN  199 (231)
Q Consensus       193 a~~~~~~  199 (231)
                      |......
T Consensus       119 a~~~~~~  125 (139)
T 1u6f_A          119 AASGHQR  125 (139)
T ss_dssp             SSCCCCC
T ss_pred             CCCCCCC
Confidence            9866443

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=98.00  E-value=2.3e-05  Score=57.00  Aligned_cols=40  Identities=35%  Similarity=0.525  Sum_probs=35.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|++.|||..|+|+.|+|+++
T Consensus        38 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             CCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            345799999999999998                                         899999999999999999987


Q ss_pred             e
Q psy2204         194 S  194 (231)
Q Consensus       194 ~  194 (231)
                      +
T Consensus       118 k  118 (118)
T 2khc_A          118 K  118 (118)
T ss_dssp             -
T ss_pred             C
Confidence            4

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.00  E-value=1.1e-05  Score=56.88  Aligned_cols=42  Identities=33%  Similarity=0.519  Sum_probs=37.5

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         +|++ |||..|.|+.|+|+++.
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a~   87 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRAE   87 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEECC
Confidence            45899999999999998                                         7887 99999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      +...
T Consensus        88 ~~~~   91 (99)
T 2dgs_A           88 PRDS   91 (99)
T ss_dssp             CCCC
T ss_pred             CCcc
Confidence            6644

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.00  E-value=9.6e-06  Score=57.60  Aligned_cols=43  Identities=28%  Similarity=0.479  Sum_probs=38.0

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||++++++                                        +|+ .|||..|.|+.|+|+++.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~gi~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   91 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAE   91 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEec
Confidence            345899999999999998                                        788 899999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      +...
T Consensus        92 ~~~~   95 (103)
T 2dng_A           92 GRKQ   95 (103)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6644

>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=97.99  E-value=9.1e-06  Score=55.46  Aligned_cols=40  Identities=20%  Similarity=0.385  Sum_probs=35.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHh-CCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGL-NGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~l-nG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||.+++++                                   +|+..| ||..+.|+.|+|+||.
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~ak   85 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGR   85 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEECC
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEecC
Confidence            345899999999999998                                   888888 9999999999999974

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

Probab=97.99  E-value=8.8e-06  Score=58.67  Aligned_cols=44  Identities=25%  Similarity=0.379  Sum_probs=38.9

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+|||+++|++                                 +|+..|||..+.|+.|+|+++....+
T Consensus        29 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  105 (108)
T 2jvo_A           29 LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPAK  105 (108)
T ss_dssp             CSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEETTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSCCC-
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEECCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCCCC
Confidence            345899999999999998                                 89999999999999999999986543

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.98  E-value=8.5e-06  Score=57.35  Aligned_cols=44  Identities=18%  Similarity=0.422  Sum_probs=39.1

Q ss_pred             CCCCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeE----E
Q psy2204         155 DSPHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKK----L  188 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~----l  188 (231)
                      ...++|||+|||++++++                                          +|+..|||..+.|+.    |
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l   86 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRF   86 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEEC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeE
Confidence            345899999999999998                                          899999999999999    9


Q ss_pred             EEEEeecCcc
Q psy2204         189 IVQRASVGAK  198 (231)
Q Consensus       189 ~V~~a~~~~~  198 (231)
                      +|++|..+..
T Consensus        87 ~v~~a~~~~~   96 (99)
T 2div_A           87 KLNYATYSGP   96 (99)
T ss_dssp             CEEETTCCSS
T ss_pred             EEeecCCCCC
Confidence            9999986643

>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=97.97  E-value=1.1e-05  Score=58.04  Aligned_cols=42  Identities=21%  Similarity=0.293  Sum_probs=38.0

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||..+|++                                         +|+..|||..|.|+.|+|+++.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  104 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  104 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEcc
Confidence            44789999999999998                                         8999999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus       105 ~~~  107 (110)
T 1oo0_B          105 VKG  107 (110)
T ss_dssp             ESS
T ss_pred             cCC
Confidence            653

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=97.97  E-value=9.5e-06  Score=57.37  Aligned_cols=42  Identities=19%  Similarity=0.401  Sum_probs=37.6

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ..++|||+|||+++|++                                        +|++ |||..|.|+.|+|+++..
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~   94 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   94 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCC
Confidence            45799999999999998                                        8888 999999999999999986


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus        95 ~~~   97 (101)
T 1fj7_A           95 RDG   97 (101)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=97.96  E-value=1.4e-05  Score=56.78  Aligned_cols=44  Identities=30%  Similarity=0.403  Sum_probs=39.1

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCC---eEEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGD---KKLIVQ  191 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~g---r~l~V~  191 (231)
                      ...++|||+|||++++++                                        +|+..|||..+.|   +.|+|+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~   92 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVK   92 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEE
Confidence            346899999999999998                                        8999999999998   999999


Q ss_pred             EeecCcc
Q psy2204         192 RASVGAK  198 (231)
Q Consensus       192 ~a~~~~~  198 (231)
                      +|.....
T Consensus        93 ~a~~~~~   99 (105)
T 2dnh_A           93 FADTDKE   99 (105)
T ss_dssp             ESCSSCC
T ss_pred             ECccCcc
Confidence            9986643

>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=97.96  E-value=1.3e-05  Score=57.92  Aligned_cols=43  Identities=21%  Similarity=0.313  Sum_probs=38.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|+..|||..|.|+.|+|++|.
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~  103 (115)
T 2cpx_A           24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK  103 (115)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEcc
Confidence            45899999999999998                                         8999999999999999999998


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      ....
T Consensus       104 ~~~~  107 (115)
T 2cpx_A          104 NKKQ  107 (115)
T ss_dssp             CCSC
T ss_pred             CCCC
Confidence            6643

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.96  E-value=8e-06  Score=58.86  Aligned_cols=47  Identities=15%  Similarity=0.113  Sum_probs=39.1

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhC--CCeeCCeEEEEEEeecCc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLN--GMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~ln--G~~i~gr~l~V~~a~~~~  197 (231)
                      ...++|||+|||+++|++                                   +|++.|+  |..|.||.|+|++|....
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~~   93 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKE   93 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCCC
Confidence            345899999999999998                                   8888886  479999999999998664


Q ss_pred             cccc
Q psy2204         198 KNAS  201 (231)
Q Consensus       198 ~~~~  201 (231)
                      ....
T Consensus        94 ~~~~   97 (105)
T 1sjq_A           94 LKTD   97 (105)
T ss_dssp             CCCT
T ss_pred             CCcc
Confidence            4443

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=97.95  E-value=8.3e-06  Score=56.81  Aligned_cols=38  Identities=16%  Similarity=0.279  Sum_probs=35.9

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...|||+||++.+|++                                   +|++.|||..+.||.|+|++|+
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            4679999999999999                                   9999999999999999999996

>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=97.94  E-value=1e-05  Score=58.26  Aligned_cols=43  Identities=26%  Similarity=0.543  Sum_probs=38.5

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ...+++|||+|||+.++++                                         +|++.|||..|.|+.|+|++
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  102 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGH  102 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3446899999999999998                                         88999999999999999999


Q ss_pred             eecC
Q psy2204         193 ASVG  196 (231)
Q Consensus       193 a~~~  196 (231)
                      +.+.
T Consensus       103 a~~k  106 (108)
T 2jrs_A          103 VTER  106 (108)
T ss_dssp             SCSS
T ss_pred             cccC
Confidence            9854

>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=97.94  E-value=2.4e-05  Score=56.08  Aligned_cols=44  Identities=23%  Similarity=0.368  Sum_probs=39.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhC------CCeeCCeE
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLN------GMQLGDKK  187 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~ln------G~~i~gr~  187 (231)
                      ...++|||+|||+++|++                                         +|+..||      |..|.|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~   92 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQ   92 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEE
Confidence            346899999999999998                                         8999999      99999999


Q ss_pred             EEEEEeecCcc
Q psy2204         188 LIVQRASVGAK  198 (231)
Q Consensus       188 l~V~~a~~~~~  198 (231)
                      |+|+++.+...
T Consensus        93 l~v~~a~~~~~  103 (111)
T 1x4h_A           93 LKVDLAVTRDE  103 (111)
T ss_dssp             EEEECCCCCCC
T ss_pred             EEEEECCCCcc
Confidence            99999986533

>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=97.93  E-value=1.2e-05  Score=57.40  Aligned_cols=40  Identities=18%  Similarity=0.357  Sum_probs=36.8

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+.+|++                                        +|+..|||..|.|+.|+|++|+
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            445899999999999998                                        8999999999999999999986

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.93  E-value=2.4e-05  Score=56.40  Aligned_cols=44  Identities=23%  Similarity=0.329  Sum_probs=39.0

Q ss_pred             CCCCcEEEcCCCCCCCHH-------------------------------------------------HHHHHhCCCeeCC
Q psy2204         155 DSPHKIFIGGLPNYLNED-------------------------------------------------QAIAGLNGMQLGD  185 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-------------------------------------------------~Ai~~lnG~~i~g  185 (231)
                      ...++|||+|||+++|++                                                 +|+..|||..|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   92 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCC
Confidence            456899999999999987                                                 8999999999999


Q ss_pred             eEEEEEEeecCcc
Q psy2204         186 KKLIVQRASVGAK  198 (231)
Q Consensus       186 r~l~V~~a~~~~~  198 (231)
                      +.|+|+++.....
T Consensus        93 ~~l~V~~a~~~~~  105 (113)
T 2cpe_A           93 SKLKVSLARKKPP  105 (113)
T ss_dssp             EECEEECSSCCCC
T ss_pred             CEEEEEECCCCCC
Confidence            9999999986644

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=97.92  E-value=1e-05  Score=57.68  Aligned_cols=41  Identities=27%  Similarity=0.404  Sum_probs=37.5

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         +|+..|||..|.|+.|+|++|.
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  101 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            34789999999999998                                         8999999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      +.
T Consensus       102 ~~  103 (106)
T 1p27_B          102 VR  103 (106)
T ss_dssp             ES
T ss_pred             CC
Confidence            65

>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=97.92  E-value=1.8e-05  Score=55.35  Aligned_cols=42  Identities=26%  Similarity=0.489  Sum_probs=37.9

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ..++|||+|||.+++++                                          +|+..|||..+.|+.|+|+++
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   86 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   86 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            45899999999999985                                          889999999999999999999


Q ss_pred             ecCc
Q psy2204         194 SVGA  197 (231)
Q Consensus       194 ~~~~  197 (231)
                      ....
T Consensus        87 ~~~~   90 (97)
T 1nu4_A           87 KTDS   90 (97)
T ss_dssp             SSCC
T ss_pred             cCCC
Confidence            8653

>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=97.91  E-value=1.9e-05  Score=56.27  Aligned_cols=44  Identities=25%  Similarity=0.448  Sum_probs=38.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCee---CCeEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQL---GDKKLIV  190 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i---~gr~l~V  190 (231)
                      ...++|||+|||.++|++                                         +|+..|||..+   .|+.|+|
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v   90 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQV   90 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEE
Confidence            345899999999999998                                         89999999998   8999999


Q ss_pred             EEeecCcc
Q psy2204         191 QRASVGAK  198 (231)
Q Consensus       191 ~~a~~~~~  198 (231)
                      +++.....
T Consensus        91 ~~a~~~~~   98 (106)
T 2dgp_A           91 KPADSESR   98 (106)
T ss_dssp             EECCCCSC
T ss_pred             EECCcccc
Confidence            99986644

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

Probab=97.90  E-value=1.3e-05  Score=56.09  Aligned_cols=41  Identities=32%  Similarity=0.340  Sum_probs=37.8

Q ss_pred             CCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||++++++                                      +|+..|||..|.|+.|+|++|.+.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCCC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCcc
Confidence            45899999999999998                                      889999999999999999999865

>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=97.90  E-value=8.8e-06  Score=58.94  Aligned_cols=40  Identities=20%  Similarity=0.199  Sum_probs=37.2

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||++++++                                   .|+..|||..|.|+.|+|+||...
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   84 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            4799999999999998                                   899999999999999999999854

>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=97.88  E-value=1.2e-05  Score=58.18  Aligned_cols=43  Identities=19%  Similarity=0.417  Sum_probs=38.7

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +..++|||+|||+.+|++                                      .|+..|||..+.|+.|+|.++.+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   85 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNAN   85 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCC
Confidence            345899999999999998                                      899999999999999999999865


Q ss_pred             c
Q psy2204         197 A  197 (231)
Q Consensus       197 ~  197 (231)
                      .
T Consensus        86 ~   86 (115)
T 3lqv_A           86 R   86 (115)
T ss_dssp             H
T ss_pred             h
Confidence            3

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

Probab=97.88  E-value=8.1e-06  Score=57.33  Aligned_cols=43  Identities=30%  Similarity=0.404  Sum_probs=38.5

Q ss_pred             CCCcEEEcCCCC-CCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPN-YLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~-~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+ .++++                                 .|+..|||..+.|+.|+|+++.....
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~~   85 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNAR   85 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEETTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEECCCC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCcCCC
Confidence            457999999998 99998                                 89999999999999999999986543

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=97.88  E-value=1.4e-05  Score=57.08  Aligned_cols=41  Identities=17%  Similarity=0.172  Sum_probs=36.3

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCe--eCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQ--LGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~--i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||+++|++                                   .|+..|||..  +.||.|+|++++..
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~~k   97 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQ   97 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecccc
Confidence            45789999999999998                                   8999999876  78999999999753

>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=97.86  E-value=3e-05  Score=59.27  Aligned_cols=42  Identities=21%  Similarity=0.389  Sum_probs=38.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+.+|++                                         +||..|||..|.|+.|+|++|
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  116 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD  116 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            345899999999999998                                         899999999999999999999


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ...
T Consensus       117 ~~~  119 (156)
T 1h2v_Z          117 AGF  119 (156)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            754

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.85  E-value=4.3e-05  Score=54.35  Aligned_cols=44  Identities=20%  Similarity=0.385  Sum_probs=39.1

Q ss_pred             CCCCcEEEcCCCCCCCHH------------------------------------------HHHHHh-CCCeeCCeEEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED------------------------------------------QAIAGL-NGMQLGDKKLIVQ  191 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee------------------------------------------~Ai~~l-nG~~i~gr~l~V~  191 (231)
                      ...++|||+|||+.+|++                                          +|+..| ||..|.|+.|+|+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~   92 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   92 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEE
Confidence            345899999999999998                                          899999 9999999999999


Q ss_pred             EeecCcc
Q psy2204         192 RASVGAK  198 (231)
Q Consensus       192 ~a~~~~~  198 (231)
                      ++.....
T Consensus        93 ~a~~~~~   99 (107)
T 2cph_A           93 WADSEVT   99 (107)
T ss_dssp             ECCCCCC
T ss_pred             eCCCCCC
Confidence            9986543

>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=97.85  E-value=1.8e-05  Score=54.37  Aligned_cols=39  Identities=10%  Similarity=0.267  Sum_probs=35.4

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||++++++                                         +|+ .|||..+.|+.|+|+++.+
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccC
Confidence            3789999999999998                                         788 9999999999999999975


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      .
T Consensus        85 ~   85 (89)
T 3ucg_A           85 N   85 (89)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=97.85  E-value=1.8e-05  Score=58.16  Aligned_cols=44  Identities=25%  Similarity=0.369  Sum_probs=38.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|+..|||..|.|+.|+|++|.
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  100 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  100 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEec
Confidence            34799999999999998                                         8999999999999999999998


Q ss_pred             cCccc
Q psy2204         195 VGAKN  199 (231)
Q Consensus       195 ~~~~~  199 (231)
                      .....
T Consensus       101 ~~~~~  105 (126)
T 3ex7_B          101 VRGPP  105 (126)
T ss_dssp             ESSSC
T ss_pred             CCCCC
Confidence            65443

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=97.85  E-value=1.9e-05  Score=58.81  Aligned_cols=42  Identities=7%  Similarity=0.237  Sum_probs=37.6

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ..++|||+|||+.++++                                          .|+..|||..|.|+.|+|+||
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a  107 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFS  107 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEc
Confidence            35789999999999975                                          899999999999999999999


Q ss_pred             ecCc
Q psy2204         194 SVGA  197 (231)
Q Consensus       194 ~~~~  197 (231)
                      ....
T Consensus       108 ~~~~  111 (127)
T 2a3j_A          108 ETPQ  111 (127)
T ss_dssp             CCCC
T ss_pred             cCcc
Confidence            8553

>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=97.85  E-value=9.1e-06  Score=60.58  Aligned_cols=43  Identities=28%  Similarity=0.366  Sum_probs=38.8

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      .+..++|||+|||++++++                                         +|+..|||..|.|+.|+|++
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3456899999999999999                                         89999999999999999999


Q ss_pred             eecC
Q psy2204         193 ASVG  196 (231)
Q Consensus       193 a~~~  196 (231)
                      +...
T Consensus       123 a~~~  126 (129)
T 2kxn_B          123 SITK  126 (129)
T ss_dssp             CSSS
T ss_pred             ecCC
Confidence            9865

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=97.84  E-value=2e-05  Score=55.68  Aligned_cols=41  Identities=20%  Similarity=0.381  Sum_probs=36.9

Q ss_pred             CcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         158 HKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       158 ~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ++|||+|||.++|++                                    +|+..|||..+.|+.|+|+++.....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            479999999999998                                    89999999999999999999986643

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.84  E-value=1.4e-05  Score=56.25  Aligned_cols=40  Identities=15%  Similarity=0.258  Sum_probs=36.5

Q ss_pred             CCc-EEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHK-IFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~-ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..+ |||+|||+.++++                                    +|++.|||.++.||.|+|++|..+
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~VtgG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~~~   84 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSITGCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTPKN   84 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECCTTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSCCS
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEecCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecCCC
Confidence            355 9999999999987                                    899999999999999999999865

>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=97.84  E-value=5.2e-05  Score=54.06  Aligned_cols=44  Identities=14%  Similarity=0.175  Sum_probs=37.1

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHh--CCCeeCCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGL--NGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~l--nG~~i~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+++|++                                   +|+..|  ++..+.||.|+|++|.....
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~~~   93 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKEL   93 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCcccC
Confidence            45789999999999998                                   788876  57889999999999986544


Q ss_pred             c
Q psy2204         199 N  199 (231)
Q Consensus       199 ~  199 (231)
                      .
T Consensus        94 ~   94 (101)
T 2cq1_A           94 K   94 (101)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=97.83  E-value=2.3e-05  Score=56.14  Aligned_cols=42  Identities=10%  Similarity=-0.058  Sum_probs=36.2

Q ss_pred             CCCCcEEEcCCCC-CCCHH-----------------------------------HHHHHhCCC--eeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPN-YLNED-----------------------------------QAIAGLNGM--QLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~-~~tee-----------------------------------~Ai~~lnG~--~i~gr~l~V~~a~~~  196 (231)
                      +..++|||+|||+ ++|++                                   .|++.|||.  .|.||.|+|.+|...
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   92 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   92 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCCC
Confidence            3568999999999 99998                                   888988864  599999999999854

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.83  E-value=3.7e-05  Score=55.69  Aligned_cols=42  Identities=31%  Similarity=0.422  Sum_probs=37.4

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||+++|++                                         +|+..||+ .|.|+.|+|++
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~   92 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   92 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEE
Confidence            3456899999999999998                                         89999998 89999999999


Q ss_pred             eecC
Q psy2204         193 ASVG  196 (231)
Q Consensus       193 a~~~  196 (231)
                      |...
T Consensus        93 a~~~   96 (116)
T 2cqd_A           93 AYLG   96 (116)
T ss_dssp             STTT
T ss_pred             cccC
Confidence            9755

>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=97.82  E-value=4.1e-05  Score=54.61  Aligned_cols=73  Identities=14%  Similarity=0.078  Sum_probs=62.5

Q ss_pred             CCCeEEEcCCCCCC-CH----HHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          45 QARRLYVGNIPFGV-TE----DEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~-te----~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      -.++|+|.||+.++ +.    +.++++|..|+           ++......++-+=..|.|.+.++|.+|- .|++..+.
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~-----------~~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh~~~f~   72 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYD-----------KDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFL   72 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC-----------SSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEET
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhC-----------cCcceeecCcceEEEEEeCChHHHHHHHHHhccceec
Confidence            45699999998866 32    57789999998           7777777787667799999999999998 99999999


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      |+.++|.+..
T Consensus        73 g~~~r~YFgq   82 (104)
T 1wey_A           73 GKEMKLYFAQ   82 (104)
T ss_dssp             TEECEEECCC
T ss_pred             CceeEEEecC
Confidence            9999999887

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=97.82  E-value=2.5e-05  Score=58.31  Aligned_cols=40  Identities=23%  Similarity=0.441  Sum_probs=35.6

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||+.++++                                         +|++.|||..|.|+.|+|++
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            3456899999999999998                                         89999999999999999998


Q ss_pred             e
Q psy2204         193 A  193 (231)
Q Consensus       193 a  193 (231)
                      |
T Consensus       140 A  140 (140)
T 2ku7_A          140 A  140 (140)
T ss_dssp             -
T ss_pred             C
Confidence            6

>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=97.82  E-value=1.2e-05  Score=56.96  Aligned_cols=41  Identities=27%  Similarity=0.506  Sum_probs=37.6

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+.++++                                         +|++.|||..+.|+.|+|++|..
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   87 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCC
Confidence            4799999999999998                                         89999999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        88 ~~   89 (104)
T 1p1t_A           88 EK   89 (104)
T ss_dssp             TT
T ss_pred             cc
Confidence            53

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=97.82  E-value=6.1e-05  Score=55.26  Aligned_cols=42  Identities=14%  Similarity=0.294  Sum_probs=38.1

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+.++++                                        +|+..|||..+.|+.|+|++|.
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  112 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  112 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeC
Confidence            445799999999999998                                        8999999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus       113 ~~  114 (124)
T 2kt5_A          113 SQ  114 (124)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>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=97.81  E-value=3.3e-05  Score=52.91  Aligned_cols=38  Identities=18%  Similarity=0.374  Sum_probs=32.5

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+ .++|..+.|+.|+|++|
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVL-DQKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHH-HSSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHH-HhCCCEECCEEEEEEeC
Confidence            456899999999999999                                         666 55888899999999886

>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=97.81  E-value=3.7e-05  Score=54.60  Aligned_cols=43  Identities=33%  Similarity=0.567  Sum_probs=37.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+ .|||..|.|+.|+|+++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~Gi~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSCEEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCCceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEc
Confidence            345899999999999998                                         788 99999999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .....
T Consensus        92 ~~~~~   96 (104)
T 1wi8_A           92 DQAQD   96 (104)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            86644

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=97.80  E-value=2.1e-05  Score=60.54  Aligned_cols=41  Identities=17%  Similarity=0.319  Sum_probs=36.7

Q ss_pred             CCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ..++|||+|||+++|++                                           +||..|||..|.|+.|+|++
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~  133 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRP  133 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEE
Confidence            45799999999999998                                           89999999999999999999


Q ss_pred             eecC
Q psy2204         193 ASVG  196 (231)
Q Consensus       193 a~~~  196 (231)
                      |.+.
T Consensus       134 a~~~  137 (156)
T 3n9u_C          134 ATRQ  137 (156)
T ss_dssp             CCHH
T ss_pred             cCCC
Confidence            9754

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=97.79  E-value=3.9e-05  Score=53.97  Aligned_cols=41  Identities=22%  Similarity=0.366  Sum_probs=35.2

Q ss_pred             CCCCCcEEEcCCCCCCCHH-------------------------------------------------HHHHHhCCCeeC
Q psy2204         154 PDSPHKIFIGGLPNYLNED-------------------------------------------------QAIAGLNGMQLG  184 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-------------------------------------------------~Ai~~lnG~~i~  184 (231)
                      +...++|||+|||++++++                                                 +|++.|||..+.
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3445899999999999998                                                 788889999999


Q ss_pred             CeEEEEEEee
Q psy2204         185 DKKLIVQRAS  194 (231)
Q Consensus       185 gr~l~V~~a~  194 (231)
                      |+.|+|++|+
T Consensus        90 g~~l~V~~A~   99 (99)
T 2la6_A           90 GNPIKVSFAT   99 (99)
T ss_dssp             SSBCEEEECC
T ss_pred             CcEEEEEecC
Confidence            9999998874

>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=97.79  E-value=2.2e-05  Score=57.72  Aligned_cols=41  Identities=15%  Similarity=0.302  Sum_probs=36.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+++|++                                         +||. |||..|+||.|+|.+|
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            345899999999999998                                         8888 9999999999999999


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ...
T Consensus       102 ~~~  104 (124)
T 1wel_A          102 TKK  104 (124)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            754

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.78  E-value=2.9e-05  Score=56.05  Aligned_cols=26  Identities=15%  Similarity=0.162  Sum_probs=23.6

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      +|++.|||..|.|+.|+|++|.+...
T Consensus        78 ~Ai~~lng~~~~gr~l~V~~a~~k~~  103 (111)
T 2cpi_A           78 RAIQCVNNVVVDGRTLKASLGTTKYC  103 (111)
T ss_dssp             HHHHHHTTEEETTEEEEEESCCCCSC
T ss_pred             HHHHHhCCCEECCEEEEEEecccccc
Confidence            89999999999999999999987643

>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=97.77  E-value=8e-06  Score=56.64  Aligned_cols=40  Identities=15%  Similarity=0.250  Sum_probs=31.9

Q ss_pred             CcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         158 HKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+|||+|||+++|++                                           +|++.|||..+.||.|+|+++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            478999999999887                                           8999999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus        82 ~~~   84 (90)
T 3p5t_L           82 KLE   84 (90)
T ss_dssp             ---
T ss_pred             CCc
Confidence            653

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.77  E-value=2.9e-05  Score=54.10  Aligned_cols=40  Identities=18%  Similarity=0.388  Sum_probs=35.9

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||+++|++                                    +|+. |||..|.|+.|+|+++...
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~~~~~~g~~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~   82 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQK   82 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEEEECSSSCCEEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEcCCCCcEEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcC
Confidence            35799999999999998                                    7888 9999999999999988754

>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=97.76  E-value=3.9e-05  Score=54.85  Aligned_cols=43  Identities=26%  Similarity=0.394  Sum_probs=37.3

Q ss_pred             CCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhC--CCeeCCeEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED-------------------------------------------QAIAGLN--GMQLGDKKLIV  190 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~ln--G~~i~gr~l~V  190 (231)
                      ..++|||+|||+++|++                                           +|+..||  +..+.|+.|+|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V   86 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   86 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEE
Confidence            34789999999999998                                           8889996  59999999999


Q ss_pred             EEeecCcc
Q psy2204         191 QRASVGAK  198 (231)
Q Consensus       191 ~~a~~~~~  198 (231)
                      ++|.+...
T Consensus        87 ~~a~~~~~   94 (109)
T 2dis_A           87 DWAEPEID   94 (109)
T ss_dssp             EESCSSCS
T ss_pred             EEcCCCCC
Confidence            99986643

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=97.76  E-value=4.6e-05  Score=56.61  Aligned_cols=45  Identities=18%  Similarity=0.232  Sum_probs=39.6

Q ss_pred             CCCCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCC----eeCCeEE
Q psy2204         155 DSPHKIFIGGLPNYLNED------------------------------------------QAIAGLNGM----QLGDKKL  188 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~----~i~gr~l  188 (231)
                      ...++|||+|||+++|++                                          +|+..|||.    .+.||.|
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~~a~~Ai~~l~g~~~~~~~~gr~l  100 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIEAAQLLQILQALHPPLTIDGKTI  100 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHHHHHHHHHHHTTCCCSCCGGGCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCHHHHHHHHHhcCCCCCccCCCEEE
Confidence            345899999999999998                                          799999999    9999999


Q ss_pred             EEEEeecCccc
Q psy2204         189 IVQRASVGAKN  199 (231)
Q Consensus       189 ~V~~a~~~~~~  199 (231)
                      +|++|.+....
T Consensus       101 ~V~~a~~~~~~  111 (131)
T 2m2b_A          101 NVEFAKGSKRD  111 (131)
T ss_dssp             CCEECCCSCCC
T ss_pred             EEEECCCCCCC
Confidence            99999866443

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.74  E-value=2.9e-05  Score=55.02  Aligned_cols=44  Identities=23%  Similarity=0.366  Sum_probs=38.8

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCe-eCCeEEEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQ-LGDKKLIVQR  192 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~-i~gr~l~V~~  192 (231)
                      ...++|||+|||+++|++                                         +|+..|||.. |.|+.|+|++
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~   86 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSV   86 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCB
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEE
Confidence            345899999999999998                                         8999999999 9999999999


Q ss_pred             eecCcc
Q psy2204         193 ASVGAK  198 (231)
Q Consensus       193 a~~~~~  198 (231)
                      +.....
T Consensus        87 a~~~~~   92 (104)
T 2dhg_A           87 AIPKAS   92 (104)
T ss_dssp             CCCCCS
T ss_pred             ccCCCc
Confidence            976543

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.74  E-value=3.3e-05  Score=54.90  Aligned_cols=45  Identities=18%  Similarity=0.294  Sum_probs=38.7

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ....++|||+|||++++++                                         +|+.. ||+.|.|+.|+|++
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~   91 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKP   91 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            3456899999999999998                                         78887 99999999999999


Q ss_pred             eecCccc
Q psy2204         193 ASVGAKN  199 (231)
Q Consensus       193 a~~~~~~  199 (231)
                      +.+....
T Consensus        92 a~~~~~~   98 (105)
T 2dh8_A           92 CTPRGMQ   98 (105)
T ss_dssp             SCCSSCC
T ss_pred             ccCCCCC
Confidence            9866443

>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=97.73  E-value=4.9e-05  Score=54.13  Aligned_cols=44  Identities=16%  Similarity=0.261  Sum_probs=37.4

Q ss_pred             CCCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         154 PDSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ....++|||+|||+++|++                                       +|| .+|+..|+||.|+|.+++
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCSEEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCceEEEEEECCCCCEeeEEEEEECCHHHHHHHH-HhCCCeECCcEEEEEECC
Confidence            3445899999999999998                                       777 579999999999999988


Q ss_pred             cCcc
Q psy2204         195 VGAK  198 (231)
Q Consensus       195 ~~~~  198 (231)
                      ....
T Consensus        91 ~~~~   94 (102)
T 1wez_A           91 TAGT   94 (102)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6643

>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=97.73  E-value=2e-05  Score=57.03  Aligned_cols=40  Identities=28%  Similarity=0.359  Sum_probs=36.4

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||++++++                                         +|+ .|||+.|.|+.|+|+++..
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  103 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA  103 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCC
Confidence            4799999999999998                                         888 9999999999999999975


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus       104 ~~  105 (114)
T 2cq4_A          104 EK  105 (114)
T ss_dssp             HH
T ss_pred             Cc
Confidence            53

>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=97.72  E-value=4e-05  Score=56.39  Aligned_cols=44  Identities=16%  Similarity=0.145  Sum_probs=37.4

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCC--CeeCCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNG--MQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG--~~i~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+++|++                                   +|++.||+  ..|.|+.|+|++|.....
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k~~  109 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKEL  109 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCCCC
Confidence            45789999999999998                                   88888874  689999999999986544


Q ss_pred             c
Q psy2204         199 N  199 (231)
Q Consensus       199 ~  199 (231)
                      .
T Consensus       110 ~  110 (119)
T 2ad9_A          110 K  110 (119)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.72  E-value=4e-06  Score=57.34  Aligned_cols=40  Identities=15%  Similarity=0.220  Sum_probs=34.5

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         +|++.|||..+.|+.|+|++++
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~~   83 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGPS   83 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCCC
Confidence            45899999999999998                                         8888899999999988887765


Q ss_pred             c
Q psy2204         195 V  195 (231)
Q Consensus       195 ~  195 (231)
                      .
T Consensus        84 s   84 (85)
T 1x4e_A           84 S   84 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=97.71  E-value=3.8e-05  Score=57.82  Aligned_cols=41  Identities=27%  Similarity=0.383  Sum_probs=37.4

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------------------HHHHHhCCCeeCCeEEE
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------------------QAIAGLNGMQLGDKKLI  189 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------------------~Ai~~lnG~~i~gr~l~  189 (231)
                      ..++|||+|||+++|++                                              +|+..|||..|.|+.|+
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~  123 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMV  123 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEE
Confidence            35799999999999998                                              89999999999999999


Q ss_pred             EEEeecC
Q psy2204         190 VQRASVG  196 (231)
Q Consensus       190 V~~a~~~  196 (231)
                      |++|...
T Consensus       124 V~~a~~~  130 (143)
T 3egn_A          124 VQFARSA  130 (143)
T ss_dssp             EEECCCS
T ss_pred             EEECCCC
Confidence            9999754

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

Probab=97.70  E-value=9e-06  Score=57.67  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=22.2

Q ss_pred             HHHHHhCCCeeCC-eEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGD-KKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~g-r~l~V~~a~~~  196 (231)
                      +|+..|||+.|.| +.|+|++|.+.
T Consensus        69 ~Ai~~lng~~~~g~r~l~V~~a~~~   93 (100)
T 3ns6_A           69 KIIKSFHGKRLDLKHRLFLYTMKDV   93 (100)
T ss_dssp             HHHHHHTTCBSSSSCBCEEEESHHH
T ss_pred             HHHHHhCCcccCCCeEEEEEECchh
Confidence            8999999999999 99999999754

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

Probab=97.68  E-value=4.3e-05  Score=54.50  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=21.9

Q ss_pred             HHHHHhCCCeeCCe-EEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDK-KLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr-~l~V~~a~~~  196 (231)
                      +|+..|||..|.|+ .|+|++|...
T Consensus        76 ~Ai~~l~g~~~~g~~~l~V~~a~~~  100 (105)
T 2nlw_A           76 DAVKNADGYKLDKQHTFRVNLFTDF  100 (105)
T ss_dssp             HHHHHCSSEECSTTCEEEEECSCCC
T ss_pred             HHHHHhCCcccCCCceEEEEEcchH
Confidence            89999999999999 9999999743

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=97.67  E-value=2.2e-05  Score=52.22  Aligned_cols=34  Identities=24%  Similarity=0.431  Sum_probs=29.4

Q ss_pred             cEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         159 KIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       159 ~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|||+|||++++++                                         +|++ |||..++|+.|+|++|
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            58999999999988                                         6665 9999999999999876

>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=97.67  E-value=7.3e-05  Score=53.89  Aligned_cols=42  Identities=21%  Similarity=0.452  Sum_probs=36.9

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCee--------CCe
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQL--------GDK  186 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i--------~gr  186 (231)
                      ...++|||+|||+++|++                                        +|+..|||..|        .++
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~  102 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE  102 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCC
Confidence            356899999999999998                                        89999999999        578


Q ss_pred             EEEEEEeecC
Q psy2204         187 KLIVQRASVG  196 (231)
Q Consensus       187 ~l~V~~a~~~  196 (231)
                      .|+|++|.+.
T Consensus       103 ~l~v~~a~p~  112 (114)
T 1x5o_A          103 PLLCKFSGPS  112 (114)
T ss_dssp             CBEEEECCCS
T ss_pred             ceeEEccCCC
Confidence            8999999854

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=97.66  E-value=7.9e-05  Score=54.40  Aligned_cols=42  Identities=14%  Similarity=0.154  Sum_probs=36.9

Q ss_pred             CCCCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIV  190 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V  190 (231)
                      ....++|||+|||+++|++                                           +|++ |||..|+||.|+|
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V   92 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEV   92 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEE
Confidence            3456899999999999998                                           7777 9999999999999


Q ss_pred             EEeecC
Q psy2204         191 QRASVG  196 (231)
Q Consensus       191 ~~a~~~  196 (231)
                      .++...
T Consensus        93 ~~a~~~   98 (118)
T 2db1_A           93 FKSHRT   98 (118)
T ss_dssp             EEECHH
T ss_pred             EECCHH
Confidence            999754

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=97.65  E-value=4.7e-05  Score=55.76  Aligned_cols=39  Identities=8%  Similarity=0.229  Sum_probs=35.8

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         +|+ .|||..|.|+.|+|+++..
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  114 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRT  114 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCC
Confidence            4799999999999998                                         788 8999999999999999975


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      .
T Consensus       115 ~  115 (124)
T 2jwn_A          115 N  115 (124)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=97.65  E-value=4.1e-05  Score=54.91  Aligned_cols=42  Identities=7%  Similarity=0.124  Sum_probs=35.8

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCC--eeCCeEEEEEEeecCc
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGM--QLGDKKLIVQRASVGA  197 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~--~i~gr~l~V~~a~~~~  197 (231)
                      ..++|||+|||++++++                                   +|++.||+.  .+.|+.|+|+++....
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~~   92 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKR   92 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCcc
Confidence            35799999999999998                                   888888764  5999999999998553

>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=97.63  E-value=1.3e-05  Score=55.32  Aligned_cols=40  Identities=23%  Similarity=0.365  Sum_probs=32.8

Q ss_pred             CcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         158 HKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       158 ~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      ++|||+|||.+++++                                        +|+..|||..+.|+.|+|++|....
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~a~~a~~~l~g~~~~g~~l~V~~a~~~~   81 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLDNTDFMGRTIRVTEANPKK   81 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTHHHHHHHTSCSSCCSSSSCSEEEC----
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            478888888888887                                        8899999999999999999998653

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=97.60  E-value=8.6e-05  Score=53.38  Aligned_cols=43  Identities=26%  Similarity=0.280  Sum_probs=35.1

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+++|++                                         +|+..+ |..+.|+.|+|+++
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a  101 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVA  101 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEc
Confidence            346899999999999998                                         777776 59999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .++..
T Consensus       102 ~~~~~  106 (109)
T 2rs2_A          102 FPRRA  106 (109)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            86643

>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=97.59  E-value=4.8e-05  Score=55.37  Aligned_cols=42  Identities=10%  Similarity=0.112  Sum_probs=35.4

Q ss_pred             CCCCcEEEcCCCCC-CCHH-----------------------------------HHHHHhCC--CeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNY-LNED-----------------------------------QAIAGLNG--MQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~-~tee-----------------------------------~Ai~~lnG--~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||++ +|++                                   +|++.||+  ..|.||.|+|++|...
T Consensus        23 ~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~~  102 (112)
T 1x4f_A           23 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKY  102 (112)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECSC
T ss_pred             CCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECccc
Confidence            34689999999998 8887                                   88888864  5699999999999754

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.56  E-value=0.00022  Score=49.80  Aligned_cols=42  Identities=26%  Similarity=0.318  Sum_probs=35.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ...++|||+||  ++|++                                   +|+..|||..|.|+.|+|+++.....
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~~~~   89 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQPM   89 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSCCC
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCCC
Confidence            34579999996  77887                                   89999999999999999999986543

>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=97.55  E-value=2.8e-05  Score=54.94  Aligned_cols=41  Identities=32%  Similarity=0.588  Sum_probs=34.1

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+ .|||..|.|+.|+|+++
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~Gi~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a   95 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVA   95 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSCEEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEec
Confidence            446899999999998876                                         788 89999999999999998


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ..+
T Consensus        96 ~~~   98 (100)
T 2j76_E           96 DQA   98 (100)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            754

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=97.55  E-value=0.0001  Score=55.04  Aligned_cols=39  Identities=18%  Similarity=0.209  Sum_probs=35.9

Q ss_pred             CcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCeeCC--eEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQLGD--KKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i~g--r~l~V~~a~~~  196 (231)
                      -+|||+||++.+|++                                     +|++.|||+.|.|  +.|+|++|+..
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~  106 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  106 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCS
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCC
Confidence            368899999999999                                     9999999999998  99999999865

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.54  E-value=4.9e-05  Score=50.63  Aligned_cols=20  Identities=20%  Similarity=0.192  Sum_probs=16.7

Q ss_pred             HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|++.+| ..+.|+.|+|++|
T Consensus        57 ~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A           57 KVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             HHHHTTT-CCCSSCCCEEEEC
T ss_pred             HHHHhCC-CccCCEEEEEEec
Confidence            7888888 8888888888876

>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=97.53  E-value=0.00015  Score=51.54  Aligned_cols=42  Identities=14%  Similarity=0.253  Sum_probs=36.4

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+++|++                                         +|+.. ||..|+||.|+|.++
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~   91 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKS   91 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEEC
Confidence            345899999999999998                                         77777 999999999999998


Q ss_pred             ecCc
Q psy2204         194 SVGA  197 (231)
Q Consensus       194 ~~~~  197 (231)
                      +...
T Consensus        92 ~~~~   95 (104)
T 1wg5_A           92 SRAE   95 (104)
T ss_dssp             CTTT
T ss_pred             CHHH
Confidence            7553

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.52  E-value=9.7e-05  Score=53.43  Aligned_cols=41  Identities=27%  Similarity=0.371  Sum_probs=36.3

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         +|+.. ||..|.|+.|+|+++.+
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~  105 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVA  105 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCC
Confidence            4799999999999998                                         77777 99999999999999986


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus       106 ~~~  108 (116)
T 1x4b_A          106 REE  108 (116)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            644

>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=97.51  E-value=0.00013  Score=52.76  Aligned_cols=42  Identities=10%  Similarity=0.112  Sum_probs=36.5

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||+++|++                                         +||.. ||..|.|+.|+|.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a   91 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVV   91 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEEC
Confidence            445899999999999998                                         67666 999999999999999


Q ss_pred             ecCc
Q psy2204         194 SVGA  197 (231)
Q Consensus       194 ~~~~  197 (231)
                      ....
T Consensus        92 ~~~~   95 (114)
T 2cpy_A           92 TLED   95 (114)
T ss_dssp             CHHH
T ss_pred             CHHH
Confidence            8654

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.46  E-value=7.3e-05  Score=53.39  Aligned_cols=38  Identities=16%  Similarity=0.332  Sum_probs=34.1

Q ss_pred             CCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                        .|+. +||..+.|+.|+|.++..
T Consensus        11 ~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEchH
Confidence            4799999999999998                                        7777 899999999999998764

>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=97.44  E-value=6e-05  Score=53.92  Aligned_cols=41  Identities=22%  Similarity=0.239  Sum_probs=35.8

Q ss_pred             CCCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V~  191 (231)
                      ...++|||+|||+++|++                                           +|+. |||..++||.|+|.
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~   87 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVY   87 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEE
Confidence            345899999999999988                                           7777 99999999999999


Q ss_pred             EeecC
Q psy2204         192 RASVG  196 (231)
Q Consensus       192 ~a~~~  196 (231)
                      ++...
T Consensus        88 ~a~~~   92 (107)
T 2lmi_A           88 EINNE   92 (107)
T ss_dssp             ECCHH
T ss_pred             ECCHH
Confidence            98754

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.44  E-value=0.00016  Score=52.22  Aligned_cols=38  Identities=21%  Similarity=0.213  Sum_probs=34.2

Q ss_pred             CcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .+|||+|||+++|++                                       +|+ .|||..|+||.|+|..++..
T Consensus        17 ~~v~V~nLp~~~te~dl~~~F~~~~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~~   93 (109)
T 2dnn_A           17 LYVSVHGMPFSAMENDVRDFFHGLRVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATER   93 (109)
T ss_dssp             HEEEEECCCSSCCHHHHHHHTTTSCCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHhccCCeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCcc
Confidence            689999999999998                                       777 79999999999999988643

>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=97.43  E-value=0.00039  Score=48.98  Aligned_cols=42  Identities=10%  Similarity=0.144  Sum_probs=35.2

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ...++|||+|||++++++                                         +|+.  +++.|.|+.|+|+++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEec
Confidence            345899999999999998                                         6666  578999999999999


Q ss_pred             ecCcc
Q psy2204         194 SVGAK  198 (231)
Q Consensus       194 ~~~~~  198 (231)
                      .....
T Consensus        91 ~~~~~   95 (103)
T 2cqg_A           91 NSKQS   95 (103)
T ss_dssp             CTTCC
T ss_pred             CCCCc
Confidence            86643

>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=97.42  E-value=0.00012  Score=56.74  Aligned_cols=39  Identities=18%  Similarity=0.209  Sum_probs=35.6

Q ss_pred             CcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCeeCC--eEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQLGD--KKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i~g--r~l~V~~a~~~  196 (231)
                      .+|||+||++.+|++                                     +|++.|||..|.|  +.|+|+||...
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  124 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCC
Confidence            478999999999998                                     8999999999965  99999999865

>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=97.41  E-value=0.00014  Score=54.73  Aligned_cols=41  Identities=15%  Similarity=0.199  Sum_probs=36.3

Q ss_pred             CCCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V~  191 (231)
                      ...++|||+|||+++|++                                           +|++ |||..|+||.|+|.
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~  120 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVF  120 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEE
Confidence            345899999999999998                                           7888 99999999999999


Q ss_pred             EeecC
Q psy2204         192 RASVG  196 (231)
Q Consensus       192 ~a~~~  196 (231)
                      +++..
T Consensus       121 ~a~~~  125 (136)
T 2hgl_A          121 KSHRT  125 (136)
T ss_dssp             ECCHH
T ss_pred             ECChH
Confidence            98754

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=97.39  E-value=0.00015  Score=56.97  Aligned_cols=42  Identities=14%  Similarity=0.294  Sum_probs=38.0

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+.++++                                        +|+..|||..|.|+.|+|++|.
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~  165 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  165 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            345799999999999998                                        8999999999999999999997


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus       166 ~~  167 (177)
T 2f3j_A          166 SQ  167 (177)
T ss_dssp             SG
T ss_pred             CC
Confidence            54

>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=97.37  E-value=0.0001  Score=60.32  Aligned_cols=40  Identities=15%  Similarity=0.272  Sum_probs=35.7

Q ss_pred             CCCcEEEcCCCCCCCHH-------------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED-------------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ..++|||+|||+++|++                                           +||+.|||+.|.|+.|+|++
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            45789999999999998                                           89999999999999999999


Q ss_pred             eec
Q psy2204         193 ASV  195 (231)
Q Consensus       193 a~~  195 (231)
                      |..
T Consensus       147 a~~  149 (229)
T 3q2s_C          147 VNK  149 (229)
T ss_dssp             CCH
T ss_pred             CCC
Confidence            864

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=96.45  E-value=3e-05  Score=56.28  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=22.4

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      +|+..|||..|.|+.|+|++|.+..
T Consensus        72 ~Ai~~l~g~~~~g~~l~V~~a~~~~   96 (116)
T 2lcw_A           72 AAIDWFDGKEFSGNPIKVSFATRRA   96 (116)
Confidence            7888999999999999999998653

>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=97.33  E-value=9.5e-05  Score=53.67  Aligned_cols=41  Identities=17%  Similarity=0.280  Sum_probs=33.9

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeE-----EEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKK-----LIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~-----l~V~~a~~~  196 (231)
                      ..++|||+|||+++|++                                  +||+.|||.+|.|+.     |+|..+.+.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~~~~   94 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPR   94 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEECC--
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecCCEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccCCCC
Confidence            45899999999999988                                  899999999999998     777777654

>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=97.30  E-value=0.00015  Score=48.02  Aligned_cols=34  Identities=29%  Similarity=0.404  Sum_probs=28.1

Q ss_pred             cEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         159 KIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       159 ~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|||+|||++++++                                         +|++ ++|..+.|+.|+|++|
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            68999999999998                                         5665 4888888888888875

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

Probab=97.27  E-value=6e-05  Score=50.98  Aligned_cols=18  Identities=22%  Similarity=0.455  Sum_probs=14.9

Q ss_pred             HHHHHhCCCeeCCe-EEEE
Q psy2204         173 QAIAGLNGMQLGDK-KLIV  190 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr-~l~V  190 (231)
                      +|+..|||..+.|+ .|+|
T Consensus        62 ~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           62 DAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             HHHTTSSSCCCSSSSCCCC
T ss_pred             HHHHHhcCcccCCceeEEe
Confidence            78888888888888 7776

>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=97.27  E-value=0.00018  Score=48.94  Aligned_cols=16  Identities=19%  Similarity=0.719  Sum_probs=14.4

Q ss_pred             CCcEEEcCCCCCCCHH
Q psy2204         157 PHKIFIGGLPNYLNED  172 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee  172 (231)
                      .++|||+|||++++++
T Consensus         6 ~~~l~V~nLp~~~t~~   21 (87)
T 2hzc_A            6 ARRLYVGNIPFGITEE   21 (87)
T ss_dssp             GGEEEEESCCTTCCHH
T ss_pred             CCEEEEeCCCCCCCHH
Confidence            4789999999999988

>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=97.25  E-value=0.001  Score=48.64  Aligned_cols=71  Identities=15%  Similarity=0.182  Sum_probs=57.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecC-ceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKG-QSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~g-r~i  122 (231)
                      ...+-|-|=+.|+.. ...+...|++||           .|++.......++-.|.|.+..+|++||..||..+.| -.|
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~G-----------~Iv~~~~~~~~NWihI~Y~s~~~A~rAL~kNG~ii~g~~mI   89 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQYG-----------NILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGESIMI   89 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTTS-----------CEEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTTEEC
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhhC-----------cEEEeccCCCCCeEEEEeCCHHHHHHHHHhCCeEecCCEEE
Confidence            345678888888875 567888899999           7887777666899999999999999999999999986 445


Q ss_pred             EEeC
Q psy2204         123 KIRR  126 (231)
Q Consensus       123 ~V~~  126 (231)
                      -|..
T Consensus        90 GV~p   93 (119)
T 1wwh_A           90 GVKP   93 (119)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            5554

>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=97.25  E-value=0.00047  Score=47.58  Aligned_cols=43  Identities=16%  Similarity=0.246  Sum_probs=32.6

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------HHHHHhCCCeeC--CeEEEEEEeecCc
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------QAIAGLNGMQLG--DKKLIVQRASVGA  197 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------~Ai~~lnG~~i~--gr~l~V~~a~~~~  197 (231)
                      ...++|||+|||+++|++                                +....|+|..+.  |+.|+|++|.++.
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~srGfaFV~F~~~~~A~~~~~~~~~~~g~~v~v~~a~~k~   85 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSLCGEDLIIKGISVHISNAEPKH   85 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSSCCSEEEEEESCHHHHHHHTTCEEEETTEEEEEEECC---
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeCCCCEEEEEECCHHHHHHHcCCCcccCCEEEEEEEcCCCC
Confidence            346899999999999999                                444578988754  9999999998653

>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=97.25  E-value=0.00011  Score=55.40  Aligned_cols=43  Identities=16%  Similarity=0.253  Sum_probs=36.7

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ...++|||+|||+++|++                                       +|| .+|+..|.||.|+|.+++.
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~Gi~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~  122 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNST  122 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCCCSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCC
Confidence            345799999999999998                                       777 7899999999999999886


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus       123 ~~~  125 (139)
T 2hgn_A          123 TGA  125 (139)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            543

>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=97.25  E-value=0.00077  Score=46.02  Aligned_cols=43  Identities=21%  Similarity=0.304  Sum_probs=34.9

Q ss_pred             CCCcEEEcCCCCCCCHH--------------------------------HHHHHhCCCee--CCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPNYLNED--------------------------------QAIAGLNGMQL--GDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee--------------------------------~Ai~~lnG~~i--~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+++|++                                +..+.+++..+  .|+.|+|.++.+...
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~~~~~~~~~~g~~l~v~~a~~~~~   80 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGEDLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTTCEEEETTEEEEEECCCCCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecCCCCEEEEEECCHHHHHHHhcCCceeCCEEEEEEecCCCCC
Confidence            35899999999999998                                44467888765  899999999986644

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.22  E-value=0.00031  Score=51.99  Aligned_cols=39  Identities=23%  Similarity=0.147  Sum_probs=34.9

Q ss_pred             cEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCC--eEEEEEEeecCc
Q psy2204         159 KIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGD--KKLIVQRASVGA  197 (231)
Q Consensus       159 ~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~g--r~l~V~~a~~~~  197 (231)
                      .|||+||++.+|++                                    .|++.|||..|.|  +.|+|.+|.+..
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~~  103 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTR  103 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCSC
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCCc
Confidence            46899999999998                                    8999999999987  699999998663

>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=97.03  E-value=0.00073  Score=49.21  Aligned_cols=40  Identities=23%  Similarity=0.390  Sum_probs=35.6

Q ss_pred             CCCcEEE--cCCCCCCCHH-----------------------------------HHHHHhCCCee-----CCeEEEEEEe
Q psy2204         156 SPHKIFI--GGLPNYLNED-----------------------------------QAIAGLNGMQL-----GDKKLIVQRA  193 (231)
Q Consensus       156 ~~~~ifV--~nLp~~~tee-----------------------------------~Ai~~lnG~~i-----~gr~l~V~~a  193 (231)
                      ..++|||  +||++++|++                                   +|++.|||.++     .|+.|.|.++
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a  103 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFV  103 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEec
Confidence            4578999  7799999998                                   89999999999     7899999998


Q ss_pred             ec
Q psy2204         194 SV  195 (231)
Q Consensus       194 ~~  195 (231)
                      ..
T Consensus       104 ~~  105 (114)
T 2cq2_A          104 EK  105 (114)
T ss_dssp             SC
T ss_pred             cc
Confidence            63

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=96.99  E-value=0.00066  Score=47.68  Aligned_cols=38  Identities=24%  Similarity=0.486  Sum_probs=33.5

Q ss_pred             CCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||++++++                                        +|+.  ||..++|+.|.|.++...
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a~~~   86 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIRK   86 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEECCcC
Confidence            4799999999999998                                        6666  899999999999999755

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.86  E-value=0.00073  Score=49.79  Aligned_cols=41  Identities=17%  Similarity=0.282  Sum_probs=33.8

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------------HHHHHhCCCeeCCeEEEE
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------------QAIAGLNGMQLGDKKLIV  190 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------------~Ai~~lnG~~i~gr~l~V  190 (231)
                      ....+|||+|||+++|++                                            +|++. ||..|+||.|+|
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V   99 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIEL   99 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEE
Confidence            345799999999999998                                            66665 888888999988


Q ss_pred             EEeecC
Q psy2204         191 QRASVG  196 (231)
Q Consensus       191 ~~a~~~  196 (231)
                      ..++..
T Consensus       100 ~~a~~~  105 (123)
T 2dha_A          100 FRSTAA  105 (123)
T ss_dssp             EEECHH
T ss_pred             EECCHH
Confidence            888644

>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=96.85  E-value=0.0016  Score=45.45  Aligned_cols=63  Identities=14%  Similarity=0.261  Sum_probs=48.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--------CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--------KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--------kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .+|-|++||+.+||+++.+.++...           .+........        -.-|||.|.+.+++..-. .++|..|
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~-----------~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F   70 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMP-----------EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCC-----------CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcc-----------cceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEE
Confidence            4788999999999999999888765           2222222111        267999999999999999 9999988


Q ss_pred             cCc
Q psy2204         118 KGQ  120 (231)
Q Consensus       118 ~gr  120 (231)
                      .+.
T Consensus        71 ~D~   73 (91)
T 1uw4_A           71 LDN   73 (91)
T ss_dssp             ECT
T ss_pred             EcC
Confidence            653

>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=96.81  E-value=0.0008  Score=49.83  Aligned_cols=17  Identities=18%  Similarity=0.221  Sum_probs=15.4

Q ss_pred             CCCcEEEcCCCCCCCHH
Q psy2204         156 SPHKIFIGGLPNYLNED  172 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee  172 (231)
                      ..++|||+|||+++|++
T Consensus        41 ~~~~lfVgnLp~~~te~   57 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKE   57 (126)
T ss_dssp             SCCEEEEECCCTTCCHH
T ss_pred             CCCEEEEeCCCCCCCHH
Confidence            45789999999999999

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=96.79  E-value=0.00062  Score=56.06  Aligned_cols=41  Identities=22%  Similarity=0.366  Sum_probs=35.2

Q ss_pred             CCCcEEEcCCCCCC---------CHH-----------------------------------HHHHHhCCCee--------
Q psy2204         156 SPHKIFIGGLPNYL---------NED-----------------------------------QAIAGLNGMQL--------  183 (231)
Q Consensus       156 ~~~~ifV~nLp~~~---------tee-----------------------------------~Ai~~lnG~~i--------  183 (231)
                      ..++|||+||+..+         +++                                   .|++.|||..|        
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~  212 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEW  212 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTG
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccc
Confidence            46899999999998         455                                   89999999999        


Q ss_pred             ----CCeEEEEEEeecC
Q psy2204         184 ----GDKKLIVQRASVG  196 (231)
Q Consensus       184 ----~gr~l~V~~a~~~  196 (231)
                          .|+.|+|+||...
T Consensus       213 ~~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          213 DDRREGTGLLVKWANED  229 (240)
T ss_dssp             GGGGGSCCCEEEECC--
T ss_pred             cccCCCCEEEEEEccCC
Confidence                8999999999854

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.73  E-value=0.00067  Score=60.94  Aligned_cols=54  Identities=15%  Similarity=0.241  Sum_probs=42.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCc-EEEEEecCHHHHHHHHHh
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN-FAFLEFRSIDETTQAMAF  112 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg-~aFV~F~~~~~a~~Al~l  112 (231)
                      |+|||. .+..+++.+|.++|++||           +|.++...+++| |+.|||.+.+++..++..
T Consensus        54 rsv~v~-~~~~~~~~~l~~y~~~~g-----------~i~~~~~~~~~g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           54 RTVLIH-CPEKISENKFLKYLSQFG-----------PINNHFFYESFGLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             TEEEEE-ECCC---CHHHHHHGGGS-----------CCCCEEEECSSSEEEEEECC---CCHHHHSS
T ss_pred             ceEEEE-cCCCCCHHHHHHHHHhcC-----------CcceEEEEccCCeEEEEEeCCHHHHHHHHhc
Confidence            899997 799999999999999999           788877777765 999999999999988733

>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=96.64  E-value=0.005  Score=48.69  Aligned_cols=81  Identities=20%  Similarity=0.303  Sum_probs=50.1

Q ss_pred             CHHHHHHHH-Hh--CCCeecCceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH------
Q psy2204         102 SIDETTQAM-AF--DGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED------  172 (231)
Q Consensus       102 ~~~~a~~Al-~l--ng~~l~gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee------  172 (231)
                      +.+.+..|+ ..  ....+.+...+|++.. ..+.+....           ........++|||+|||+++|++      
T Consensus        63 d~~~I~~Al~~S~~~~lev~ed~~~vrR~~-~~p~p~~~~-----------~~~~~~~~~~l~V~nLp~~~t~~~L~~~F  130 (193)
T 2voo_A           63 DFNVIVEALSKSKAELMEISEDKTKIRRSP-SKPLPEVTD-----------EYKNDVKNRSVYIKGFPTDATLDDIKEWL  130 (193)
T ss_dssp             CHHHHHHHHHTCSSCCEEECTTSSEEEECT-TSCCCCCCH-----------HHHHHHHHTEEEEECCCTTCCHHHHHHHH
T ss_pred             CHHHHHHHHhhcccceEEEecccceEEecc-cCCCcccch-----------hhhhccccCEEEecCCCCcCCHHHHHHHH
Confidence            567777777 55  4556666656666442 111111000           00001124799999999999998      


Q ss_pred             ----------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 ----------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                                                        +|+..+ +..+.|+.|+|.++..
T Consensus       131 ~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          131 EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFKDD  186 (193)
T ss_dssp             TTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEETTT
T ss_pred             hcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEhHH
Confidence                                              677655 4599999999998763

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=96.48  E-value=0.0036  Score=46.62  Aligned_cols=25  Identities=16%  Similarity=0.022  Sum_probs=20.9

Q ss_pred             HHHH--HhCCCeeCCeEEEEEEeecCc
Q psy2204         173 QAIA--GLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       173 ~Ai~--~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      +|+.  .|||..|+||.|+|....-+.
T Consensus        71 kAi~~~~lng~~I~Gr~irV~ln~~g~   97 (136)
T 2j8a_A           71 SAVRKHESSGCFIMGFKFEVILNKHSI   97 (136)
T ss_dssp             HHHHHTTTTCEEETTEEEEEEECCTTH
T ss_pred             HHHHHhhhcCCeecCcEEEEEECcccH
Confidence            6667  789999999999999876553

>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=96.03  E-value=0.021  Score=40.01  Aligned_cols=53  Identities=9%  Similarity=0.162  Sum_probs=40.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      .||+-+.|.++...||.++|+.||.+         .|.=++    --.|||.|.+.+.|..|+ .++
T Consensus        17 HVf~l~FP~ewKt~DI~~lFs~fggv---------~I~Wid----DTsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           17 HVLHVTFPKEWKTSDLYQLFSAFGNI---------QISWID----DTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHHTTTCSC---------CCEEEE----TTEEEEECSCHHHHHHHHHHHH
T ss_pred             eEEEEeCChhhhhHHHHHHhhccCCE---------EEEEEc----CCeEEEEecCHHHHHHHHHhcc
Confidence            45444999999999999999999821         232222    368999999999999999 553

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

Probab=95.87  E-value=0.012  Score=41.85  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      +|+..|||+.+.||.|+|.++..
T Consensus        71 ~Ai~~lnG~~~~Gr~i~v~~a~~   93 (105)
T 2pe8_A           71 KAVVDLNGRYFGGRVVKACFYNL   93 (105)
T ss_dssp             HHHHHHTTCEETTEECEEEECCH
T ss_pred             HHHHHHCCCEECCcEEEEEEcCH
Confidence            99999999999999999999974

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=95.85  E-value=0.0068  Score=42.59  Aligned_cols=65  Identities=18%  Similarity=0.272  Sum_probs=47.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--------CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--------KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--------kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .+-+|-|+.||+.+||+++.+.++..-           .+........        -.-|||.|.+.+++..-. .++|.
T Consensus         8 ~~~KvVIRrLPP~Ltee~F~~~l~~~~-----------~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~   76 (97)
T 2l08_A            8 HSHMVVIRRLPPGLTKEQLEEQLRPLP-----------AHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGY   76 (97)
T ss_dssp             CCCCEEEECCCSCSCHHHHTTTTSCCS-----------SEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTE
T ss_pred             cceeEEEeCCCCCCCHHHHHHHhCCcC-----------ccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Confidence            456899999999999999877766432           1111111111        256899999999999999 99999


Q ss_pred             eecCc
Q psy2204         116 NFKGQ  120 (231)
Q Consensus       116 ~l~gr  120 (231)
                      .|.+.
T Consensus        77 ~F~D~   81 (97)
T 2l08_A           77 IFLDS   81 (97)
T ss_dssp             EEECT
T ss_pred             EEEeC
Confidence            88653

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=95.63  E-value=0.017  Score=42.73  Aligned_cols=80  Identities=10%  Similarity=0.108  Sum_probs=51.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCC-CC------eeeeEec--CCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAG-NP------VLACQIN--LDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~-~~------i~~~~~~--~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ..|.|=+.|.+. ...+.+.|++||.|.+-..... ..      ....+..  ...++-.|+|.+..+|.+||..||..|
T Consensus         8 ~~VtVFGFp~~~-~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii   86 (132)
T 3p3d_A            8 LAILVFGYPETM-ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVF   86 (132)
T ss_dssp             CEEEEECCCGGG-HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEE
T ss_pred             eEEEEEecCHHH-HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEe
Confidence            345566666554 4567788999996654210000 00      0000111  125788999999999999999999999


Q ss_pred             cCceEEEeCC
Q psy2204         118 KGQSLKIRRP  127 (231)
Q Consensus       118 ~gr~i~V~~~  127 (231)
                      .|..|-|...
T Consensus        87 ~G~mIGV~Py   96 (132)
T 3p3d_A           87 NGVLLGVIPY   96 (132)
T ss_dssp             TTEECEEEEC
T ss_pred             CcEEEEEEEC
Confidence            9987777643

>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=95.41  E-value=0.029  Score=39.91  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +|+..|||+.|.||.|+|+++.+.
T Consensus        79 ~Ai~~lng~~~~gr~l~v~~a~~~  102 (112)
T 2dit_A           79 YCIQTLDGRWFGGRQITAQAWDGT  102 (112)
T ss_dssp             HHHHHSTTCEETTEECEEEECCSC
T ss_pred             HHHHHcCCCEECCcEEEEEEeCCC
Confidence            899999999999999999999864

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.32  E-value=0.022  Score=40.70  Aligned_cols=17  Identities=47%  Similarity=1.023  Sum_probs=15.3

Q ss_pred             CCCcEEEcCCCCCCCHH
Q psy2204         156 SPHKIFIGGLPNYLNED  172 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee  172 (231)
                      ..++|||+|||+++|++
T Consensus         7 ~~~~lfVgnLp~~~te~   23 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDED   23 (114)
T ss_dssp             CCCCEEEECCCTTCCHH
T ss_pred             CCCEEEEcCCCCCCCHH
Confidence            35899999999999998

>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=95.16  E-value=0.014  Score=41.04  Aligned_cols=52  Identities=10%  Similarity=0.107  Sum_probs=40.4

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ||+-+.|.++...||.++|+.||           .| .++..- -..|||.|.+.+.|..|+ .++
T Consensus         8 V~~l~FP~ewKt~Di~~lFs~fg-----------gv-~I~Wid-DTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHVTFPKEWKTSDLYQLFSAFG-----------NI-QISWID-DTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEECCTTCCHHHHHHHTTTSE-----------EE-EEEEEE-TTEEEEEEEEECHHHHHHHHHT
T ss_pred             EEEEeCChhhhhHHHHHHHhccC-----------CE-EEEEEc-CCeEEEEecCHHHHHHHHHhcc
Confidence            44449999999999999999998           12 222221 368999999999999999 554

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=93.14  E-value=0.2  Score=35.93  Aligned_cols=37  Identities=19%  Similarity=0.149  Sum_probs=32.5

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      ..++|-+-|||..+++.                                        +|...|||.+|.||+|+|.-
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gT   96 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGT   96 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEEEecC
Confidence            45788888999999988                                        88889999999999999863

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.50  E-value=0.075  Score=36.78  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.7

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +||+ |||.++.||.|+|+.+++.
T Consensus        64 aAi~-mnG~~v~Gr~LkV~lkt~d   86 (91)
T 2dnr_A           64 NVLS-LNGKELLNRTITIALKSPS   86 (91)
T ss_dssp             HGGG-GTTCEETTEEEEEEECCCS
T ss_pred             HHHh-cCCeEeCCeEEEEEeCCCC
Confidence            6777 9999999999999999865

>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=92.36  E-value=0.14  Score=44.11  Aligned_cols=40  Identities=18%  Similarity=0.286  Sum_probs=32.5

Q ss_pred             CCCCcEEEcC--CCCCCCHH-----------------------------------HHHHHhCCCeeC---Ce--EEEEEE
Q psy2204         155 DSPHKIFIGG--LPNYLNED-----------------------------------QAIAGLNGMQLG---DK--KLIVQR  192 (231)
Q Consensus       155 ~~~~~ifV~n--Lp~~~tee-----------------------------------~Ai~~lnG~~i~---gr--~l~V~~  192 (231)
                      ...++|||+|  |++.+|++                                   +||+.|||.++.   |+  .|.|.+
T Consensus        16 ~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~   95 (345)
T 3tht_A           16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNF   95 (345)
T ss_dssp             SCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEE
T ss_pred             CCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEE
Confidence            3457999999  68899998                                   999999999983   45  577887


Q ss_pred             ee
Q psy2204         193 AS  194 (231)
Q Consensus       193 a~  194 (231)
                      +.
T Consensus        96 ~~   97 (345)
T 3tht_A           96 VE   97 (345)
T ss_dssp             CS
T ss_pred             ee
Confidence            74

>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=91.11  E-value=0.16  Score=35.80  Aligned_cols=35  Identities=23%  Similarity=0.360  Sum_probs=26.7

Q ss_pred             CcEEEcCCCCCCCHH--HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         158 HKIFIGGLPNYLNED--QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       158 ~~ifV~nLp~~~tee--~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      -.+||.-   ...++  +|+..|||+.++||.|+|.++..
T Consensus        60 G~~fV~f---~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           60 GKIFVEF---TSVFDCQKAMQGLTGRKFANRVVVTKYCDP   96 (105)
T ss_dssp             TEEEEEE---SSHHHHHHHHHHHTTCEETTEECEEEEECH
T ss_pred             EEEEEEE---CCHHHHHHHHHHhCCCEeCCCEEEEEEeCH
Confidence            4577752   21222  99999999999999999999864

>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=90.83  E-value=0.17  Score=36.32  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=21.5

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      +|+..|||+.++||.|+|.++..
T Consensus        70 ~Ai~~lnG~~f~GR~i~v~~~~~   92 (114)
T 3s6e_A           70 AAVNALHGRWFAGKMITAAYVPL   92 (114)
T ss_dssp             HHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHhCCCEECCEEEEEEEEcH
Confidence            99999999999999999999863

>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=90.36  E-value=0.16  Score=35.31  Aligned_cols=23  Identities=17%  Similarity=0.471  Sum_probs=20.4

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +||+ |||.++.||.|+|++.+++
T Consensus        73 ~AI~-ldG~~v~Gr~L~V~~k~~~   95 (95)
T 1ufw_A           73 SVLD-VDGMKVKGRAVKISGPSSG   95 (95)
T ss_dssp             HHHH-GGGSEETTEEEEEECCCCC
T ss_pred             HHHh-cCCeeeCCeEEEEeccCCC
Confidence            7887 9999999999999987753

>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=89.90  E-value=0.17  Score=35.50  Aligned_cols=21  Identities=14%  Similarity=0.237  Sum_probs=20.0

Q ss_pred             HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|+..|||+.+.||.|+|.++
T Consensus        83 ~A~~~lng~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           83 KAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHCCCEECCEEEEEEEc
Confidence            999999999999999999986

>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=89.54  E-value=0.25  Score=35.62  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=21.5

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      +|+..|||+.++||.|+|.++..
T Consensus        86 ~Ai~~LnGr~f~GR~i~v~~~~~  108 (118)
T 3ue2_A           86 KAIQALNGRWFAGRKVVAEVYDQ  108 (118)
T ss_dssp             HHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHHCCCEECCcEEEEEEcCh
Confidence            99999999999999999999863

>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=83.16  E-value=1.4  Score=31.10  Aligned_cols=24  Identities=17%  Similarity=0.027  Sum_probs=21.9

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +|...|++..+.|++|+|-++.+-
T Consensus        61 ~AR~~Lh~~~f~g~~~r~YFgq~~   84 (104)
T 1wey_A           61 DARLRLHKTEFLGKEMKLYFAQTL   84 (104)
T ss_dssp             HHHHTSTTSEETTEECEEECCCCS
T ss_pred             HHHHHhccceecCceeEEEecCCC
Confidence            888999999999999999999843

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=82.59  E-value=3.2  Score=37.47  Aligned_cols=54  Identities=15%  Similarity=0.201  Sum_probs=42.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      ..++|+ ++..+...+|.++|+.||           .+ +++. -+...|||.|.+.++|..++ .++.
T Consensus       441 ~vl~v~-f~~~~~~~~i~~~fs~fg-----------~v-~V~w-iddt~a~V~~~~~~~a~~~l~~~~~  495 (507)
T 3d45_A          441 HVLHVT-FPKEWKTSDLYQLFSAFG-----------NI-QISW-IDDTSAFVSLSQPEQVQIAVNTSKY  495 (507)
T ss_dssp             GEEEEE-CCTTCCHHHHHHHGGGGC-----------CC-EEEE-CSSSEEEEECSCHHHHHHHHHHHTT
T ss_pred             cEEEEe-CCCCCCHHHHHHHHHhcC-----------CE-EEEE-EcCCeEEEEECCHHHHHHHHHHHHh
Confidence            456676 888999999999999998           22 3332 23578999999999999999 7753

---

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	231
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-26
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	3e-14
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	3e-14
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	4e-13
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	2e-12
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-12
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	3e-12
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	3e-12
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	3e-12
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-12
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	6e-12
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	2e-11
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	5e-11
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	7e-11
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	7e-11
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	7e-11
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-10
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	8e-07
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	1e-10
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	2e-07
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	1e-10
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	1e-10
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	2e-10
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	2e-10
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-10
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	3e-10
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	4e-10
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	5e-10
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	5e-10
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	6e-10
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	7e-10
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	1e-09
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-09
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	2e-09
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	2e-09
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-09
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	3e-09
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	5e-09
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	5e-09
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	6e-09
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	7e-09
d3begb1	87	d.58.7.1 (B:121-207) Splicing factor, arginine/ser	8e-09
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	9e-09
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	1e-08
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-08
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	1e-08
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	1e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-08
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	2e-08
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	2e-08
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	2e-08
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	2e-08
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-08
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	2e-08
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	4e-08
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	5e-08
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	7e-08
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	1e-07
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	2e-07
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-07
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	3e-07
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-07
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	4e-07
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	7e-07
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-06
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	1e-06
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	2e-06
d1wi6a1	75	d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding	2e-06
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	5e-06
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	5e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	6e-06
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	6e-06
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	7e-06
d2adca1	109	d.58.7.1 (A:335-443) Polypyrimidine tract-binding	1e-05
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	1e-05
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	1e-05
d1x4da1	89	d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [	2e-05
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	3e-05
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	2e-04
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	2e-04
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	2e-04
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	2e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	5e-04
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	0.003

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 94.8 bits (235), Expect = 5e-26
 Identities = 75/90 (83%), Positives = 80/90 (88%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           ARRLYVGNIPFG+TE+ MM+FFN QM L GL QA GNPVLA QIN DKNFAFLEFRS+DE
Sbjct: 1   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 60

Query: 106 TTQAMAFDGINFKGQSLKIRRPHDYQPTPG 135
           TTQAMAFDGI F+GQSLKIRRPHDYQP PG
Sbjct: 61  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPG 90

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.9 bits (155), Expect = 3e-14
 Identities = 15/82 (18%), Positives = 33/82 (40%), Gaps = 5/82 (6%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           Q R+L++G + F  T++ +   F Q              +        + F F+ + +++
Sbjct: 5   QLRKLFIGGLSFETTDESLRSHFEQWGT-----LTDCVVMRDPNTKRSRGFGFVTYATVE 59

Query: 105 ETTQAMAFDGINFKGQSLKIRR 126
           E   AM        G+ ++ +R
Sbjct: 60  EVDAAMNARPHKVDGRVVEPKR 81

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.6 bits (154), Expect = 3e-14
 Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 6/87 (6%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
            + R +Y+   P   T D++ E+   +             +        K   F+ F SI
Sbjct: 4   VKNRSVYIKGFPTDATLDDIKEWLEDKGQ------VLNIQMRRTLHKAFKGSIFVVFDSI 57

Query: 104 DETTQAMAFDGINFKGQSLKIRRPHDY 130
           +   + +   G  +K   L I    DY
Sbjct: 58  ESAKKFVETPGQKYKETDLLILFKDDY 84

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.2 bits (148), Expect = 4e-13
 Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 5/82 (6%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           Q R+L++G + F  TE+ +  ++ Q              +        + F F+ F S+ 
Sbjct: 19  QFRKLFIGGLSFETTEESLRNYYEQWGK-----LTDCVVMRDPASKRSRGFGFVTFSSMA 73

Query: 105 ETTQAMAFDGINFKGQSLKIRR 126
           E   AMA    +  G+ ++ +R
Sbjct: 74  EVDAAMAARPHSIDGRVVEPKR 95

>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 = 59.3 bits (143), Expect = 2e-12
 Identities = 24/94 (25%), Positives = 38/94 (40%), Gaps = 11/94 (11%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
            R AR L   N+ F +TEDE+ E F   +             L  Q    K  A++EF+S
Sbjct: 13  VRAARTLLAKNLSFNITEDELKEVFEDALE----------IRLVSQDGKSKGIAYIEFKS 62

Query: 103 IDETTQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
             +  + +    G    G+S+ +    +   T G
Sbjct: 63  EADAEKNLEEKQGAEIDGRSVSLYYTGEKGGTRG 96

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (142), Expect = 2e-12
 Identities = 15/86 (17%), Positives = 35/86 (40%), Gaps = 12/86 (13%)

Query: 42  ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
                + LYV N+    +E+ + + FN                   ++   +++AF+ F 
Sbjct: 4   TMSSVKILYVRNLMLSTSEEMIEKEFNNIKP-----------GAVERVKKIRDYAFVHFS 52

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRR 126
           + ++  +AM A +G    G  +++  
Sbjct: 53  NREDAVEAMKALNGKVLDGSPIEVTL 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 = 58.8 bits (142), Expect = 3e-12
 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 6/84 (7%)

Query: 42  ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           + +++  LYVGN+ F  TE+++ E F++               L         F F+E+ 
Sbjct: 3   LLKKSCTLYVGNLSFYTTEEQIYELFSKSGD-----IKKIIMGLDKMKKTACGFCFVEYY 57

Query: 102 SIDETTQAM-AFDGINFKGQSLKI 124
           S  +   AM   +G     + ++ 
Sbjct: 58  SRADAENAMRYINGTRLDDRIIRT 81

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.2 bits (140), Expect = 3e-12
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 5/80 (6%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           ++++VG I     E  + ++F Q              +        + FAF+ F   D  
Sbjct: 3   KKIFVGGIKEDTEEHHLRDYFEQYGK-----IEVIEIMTDRGSGKKRGFAFVTFDDHDSV 57

Query: 107 TQAMAFDGINFKGQSLKIRR 126
            + +        G + ++R+
Sbjct: 58  DKIVIQKYHTVNGHNCEVRK 77

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (142), Expect = 3e-12
 Identities = 16/89 (17%), Positives = 32/89 (35%), Gaps = 17/89 (19%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAF 97
           R AR ++   +   +   ++ +FF+               V   +I  D+N       A+
Sbjct: 16  RDARTVFCMQLAARIRPRDLEDFFSAVGK-----------VRDVRIISDRNSRRSKGIAY 64

Query: 98  LEFRSIDETTQAMAFDGINFKGQSLKIRR 126
           +EF  I     A+   G    G  + ++ 
Sbjct: 65  VEFCEIQSVPLAIGLTGQRLLGVPIIVQA 93

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.7 bits (139), Expect = 5e-12
 Identities = 10/79 (12%), Positives = 31/79 (39%), Gaps = 5/79 (6%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           ++++G + +  T+ ++ ++F++               L       + F F+ F+  +   
Sbjct: 1   KMFIGGLSWDTTKKDLKDYFSKFGE-----VVDCTLKLDPITGRSRGFGFVLFKESESVD 55

Query: 108 QAMAFDGINFKGQSLKIRR 126
           + M        G+ +  +R
Sbjct: 56  KVMDQKEHKLNGKVIDPKR 74

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 57.4 bits (138), Expect = 6e-12
 Identities = 11/79 (13%), Positives = 28/79 (35%), Gaps = 5/79 (6%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           +++VG +    T +++  +F Q              +     N  + F F+ F S D   
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGK-----VDDAMLMFDKTTNRHRGFGFVTFESEDIVE 55

Query: 108 QAMAFDGINFKGQSLKIRR 126
           +           + ++ ++
Sbjct: 56  KVCEIHFHEINNKMVECKK 74

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.3 bits (135), Expect = 2e-11
 Identities = 8/84 (9%), Positives = 27/84 (32%), Gaps = 3/84 (3%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           T + R + + N+   + ++ ++    +                      +   AF+ F +
Sbjct: 1   TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSF---NNCCAFMVFEN 57

Query: 103 IDETTQAMAFDGINFKGQSLKIRR 126
            D   +A+  +      + + +  
Sbjct: 58  KDSAERALQMNRSLLGNREISVSL 81

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.4 bits (133), Expect = 5e-11
 Identities = 23/89 (25%), Positives = 37/89 (41%), Gaps = 12/89 (13%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           G     Q  RL+VGN+P  +TE+EM + F +                   I+ DK F F+
Sbjct: 1   GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGK-----------AGEVFIHKDKGFGFI 49

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRR 126
              +      A    D +  +G+ L++R 
Sbjct: 50  RLETRTLAEIAKVELDNMPLRGKQLRVRF 78

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.1 bits (132), Expect = 7e-11
 Identities = 16/84 (19%), Positives = 34/84 (40%), Gaps = 8/84 (9%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
              +RL+V NIPF   + ++ + F Q   +        +  +       K F F+ F + 
Sbjct: 9   STPKRLHVSNIPFRFRDPDLRQMFGQFGKIL-------DVEIIFNERGSKGFGFVTFENS 61

Query: 104 DETTQAM-AFDGINFKGQSLKIRR 126
            +  +A     G   +G+ +++  
Sbjct: 62  ADADRAREKLHGTVVEGRKIEVNN 85

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.9 bits (132), Expect = 7e-11
 Identities = 16/85 (18%), Positives = 32/85 (37%), Gaps = 6/85 (7%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           +   ++ V NIPF   + E+ E F+      G  +    P         + F F++F + 
Sbjct: 6   QTTSKILVRNIPFQANQREIRELFSTF----GELKTVRLPKKMTGTGAHRGFGFVDFITK 61

Query: 104 DETTQAMA--FDGINFKGQSLKIRR 126
            +  +A        +  G+ L +  
Sbjct: 62  QDAKKAFNALCHSTHLYGRRLVLEW 86

>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 = 54.6 bits (131), Expect = 7e-11
 Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 7/79 (8%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           +L V N+ FGV++ ++ E F +   L          V   +       A + F    +  
Sbjct: 2   KLLVSNLDFGVSDADIQELFAEFGTLKKA------AVHYDRSGRSLGTADVHFERKADAL 55

Query: 108 QAM-AFDGINFKGQSLKIR 125
           +AM  ++G+   G+ + I+
Sbjct: 56  KAMKQYNGVPLDGRPMNIQ 74

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (130), Expect = 1e-10
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 6/82 (7%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           A +L++G +P  + +D++ E              A N V      L K +AF E+  I+ 
Sbjct: 1   AHKLFIGGLPNYLNDDQVKELLTSF-----GPLKAFNLVKDSATGLSKGYAFCEYVDINV 55

Query: 106 TTQAM-AFDGINFKGQSLKIRR 126
           T QA+   +G+    + L ++R
Sbjct: 56  TDQAIAGLNGMQLGDKKLLVQR 77

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 8e-07
 Identities = 40/84 (47%), Positives = 43/84 (51%), Gaps = 41/84 (48%)

Query: 158 HKIFIGGLPNYLNEDQ-----------------------------------------AIA 176
           HK+FIGGLPNYLN+DQ                                         AIA
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 177 GLNGMQLGDKKLIVQRASVGAKNA 200
           GLNGMQLGDKKL+VQRASVGAKNA
Sbjct: 62  GLNGMQLGDKKLLVQRASVGAKNA 85

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.5 bits (135), Expect = 1e-10
 Identities = 22/129 (17%), Positives = 47/129 (36%), Gaps = 20/129 (15%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           Q R+L++G + F  T++ +   F Q   L+         +        + F F+ + +++
Sbjct: 5   QLRKLFIGGLSFETTDESLRSHFEQWGTLTDC-----VVMRDPNTKRSRGFGFVTYATVE 59

Query: 105 ETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGG 164
           E   AM        G+ ++ +R    + +     +                +  KIF+GG
Sbjct: 60  EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAH---------------LTVKKIFVGG 104

Query: 165 LPNYLNEDQ 173
           +     E  
Sbjct: 105 IKEDTEEHH 113

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.3 bits (111), Expect = 2e-07
 Identities = 15/86 (17%), Positives = 32/86 (37%), Gaps = 17/86 (19%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD------KNFAFLEF 100
           ++++VG I     E  + ++F Q              +   +I  D      + FAF+ F
Sbjct: 98  KKIFVGGIKEDTEEHHLRDYFEQY-----------GKIEVIEIMTDRGSGKKRGFAFVTF 146

Query: 101 RSIDETTQAMAFDGINFKGQSLKIRR 126
              D   + +        G + ++R+
Sbjct: 147 DDHDSVDKIVIQKYHTVNGHNCEVRK 172

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (130), Expect = 1e-10
 Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 6/85 (7%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
             Q   +YVG +   V+E  + E F Q            +          + + F+EF S
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAGP-----VVNTHMPKDRVTGQHQGYGFVEFLS 60

Query: 103 IDETTQAM-AFDGINFKGQSLKIRR 126
            ++   A+   D I   G+ +++ +
Sbjct: 61  EEDADYAIKIMDMIKLYGKPIRVNK 85

>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 = 53.9 bits (129), Expect = 1e-10
 Identities = 15/79 (18%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           L++ N+ F  TE+ +   F++   +     +         + L   F F+E++  ++  +
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNK--AGVLLSMGFGFVEYKKPEQAQK 58

Query: 109 AM-AFDGINFKGQSLKIRR 126
           A+    G    G  L++R 
Sbjct: 59  ALKQLQGHTVDGHKLEVRI 77

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.0 bits (129), Expect = 2e-10
 Identities = 17/86 (19%), Positives = 38/86 (44%), Gaps = 6/86 (6%)

Query: 42  ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
           +     +L+VG + F   E  + + F++         +    V   +    + F F+ F 
Sbjct: 1   MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQ-----ISEVVVVKDRETQRSRGFGFVTFE 55

Query: 102 SIDETTQAM-AFDGINFKGQSLKIRR 126
           +ID+   AM A +G +  G+ +++ +
Sbjct: 56  NIDDAKDAMMAMNGKSVDGRQIRVDQ 81

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (130), Expect = 2e-10
 Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 10/98 (10%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
                  ++GN+P+ VTE+ + EFF           A   P         K F + EF  
Sbjct: 12  KSPPYTAFLGNLPYDVTEESIKEFFRGLNI-----SAVRLPREPSNPERLKGFGYAEFED 66

Query: 103 IDETTQAMAFDGINFKGQSLKI-----RRPHDYQPTPG 135
           +D    A++ +  +   + +++      +  D  P+ G
Sbjct: 67  LDSLLSALSLNEESLGNKRIRVDVADQAQDKDSGPSSG 104

>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 = 54.3 bits (130), Expect = 2e-10
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 9/80 (11%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R LY+ N+P+ +T +EM + F +   +  +                +  A++ +  I + 
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKYGPIRQIRV--------GNTPETRGTAYVVYEDIFDA 59

Query: 107 TQAM-AFDGINFKGQSLKIR 125
             A     G N   + L + 
Sbjct: 60  KNACDHLSGFNVCNRYLVVL 79

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.0 bits (127), Expect = 3e-10
 Identities = 12/79 (15%), Positives = 30/79 (37%), Gaps = 5/79 (6%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           +++VG +     E+++ E+F            +    +  + N  + F F+ F+  +   
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGFGE-----VESIELPMDNKTNKRRGFCFITFKEEEPVK 55

Query: 108 QAMAFDGINFKGQSLKIRR 126
           + M     N      +I+ 
Sbjct: 56  KIMEKKYHNVGLSKCEIKV 74

>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 = 53.1 bits (127), Expect = 4e-10
 Identities = 15/88 (17%), Positives = 35/88 (39%), Gaps = 13/88 (14%)

Query: 44  RQARRLYVGNIPFGVTEDE----MMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLE 99
           R    +Y+ N+   + +DE    +   F++              +L  +    +  AF+ 
Sbjct: 1   RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQ--------ILDILVSRSLKMRGQAFVI 52

Query: 100 FRSIDETTQAM-AFDGINFKGQSLKIRR 126
           F+ +   T A+ +  G  F  + ++I+ 
Sbjct: 53  FKEVSSATNALRSMQGFPFYDKPMRIQY 80

>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 = 52.8 bits (126), Expect = 5e-10
 Identities = 19/89 (21%), Positives = 40/89 (44%), Gaps = 6/89 (6%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           GS+ +  + RL+V N+ +  +E+++ + F+          +  +  +       K FAF+
Sbjct: 1   GSSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGP-----LSELHYPIDSLTKKPKGFAFV 55

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRR 126
            F   +   +A    DG  F+G+ L +  
Sbjct: 56  TFMFPEHAVKAYAEVDGQVFQGRMLHVLP 84

>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 = 52.3 bits (125), Expect = 5e-10
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 6/80 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             LYV N+P  +T+D++   F +   +        N +        +  AF+ +   +E 
Sbjct: 7   TNLYVTNLPRTITDDQLDTIFGKYGSIVQ-----KNILRDKLTGRPRGVAFVRYNKREEA 61

Query: 107 TQAM-AFDGINFKGQSLKIR 125
            +A+ A + +  +G S  + 
Sbjct: 62  QEAISALNNVIPEGGSQPLS 81

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.4 bits (125), Expect = 6e-10
 Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 6/80 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             LYV  +P  +T+ E+ + F+Q              ++     + +   F+ F    E 
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQYGR-----IITSRILVDQVTGVSRGVGFIRFDKRIEA 61

Query: 107 TQAM-AFDGINFKGQSLKIR 125
            +A+   +G    G +  I 
Sbjct: 62  EEAIKGLNGQKPSGATEPIT 81

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.9 bits (124), Expect = 7e-10
 Identities = 9/79 (11%), Positives = 28/79 (35%), Gaps = 5/79 (6%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           ++++G + +  T++ + E+F Q              +        + F F+ F       
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQFGE-----VKECLVMRDPLTKRSRGFGFVTFMDQAGVD 56

Query: 108 QAMAFDGINFKGQSLKIRR 126
           + +A        +++  + 
Sbjct: 57  KVLAQSRHELDSKTIDPKV 75

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (123), Expect = 1e-09
 Identities = 17/81 (20%), Positives = 37/81 (45%), Gaps = 13/81 (16%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           +LY+GN+   VT D++ + F  +              LA Q+ L   +AF+++   +   
Sbjct: 3   KLYIGNLSPAVTADDLRQLFGDRKL-----------PLAGQVLLKSGYAFVDYPDQNWAI 51

Query: 108 QAM-AFDG-INFKGQSLKIRR 126
           +A+    G +   G+ +++  
Sbjct: 52  RAIETLSGKVELHGKIMEVDY 72

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 1e-09
 Identities = 14/83 (16%), Positives = 36/83 (43%), Gaps = 12/83 (14%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           + +   +Y G I  G+T+  M + F+               ++  ++  +K ++F+ F +
Sbjct: 15  SPKNCTVYCGGIASGLTDQLMRQTFSPFG-----------QIMEIRVFPEKGYSFVRFST 63

Query: 103 IDETTQAM-AFDGINFKGQSLKI 124
            +    A+ + +G   +G  +K 
Sbjct: 64  HESAAHAIVSVNGTTIEGHVVKC 86

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.9 bits (121), Expect = 2e-09
 Identities = 14/79 (17%), Positives = 32/79 (40%), Gaps = 5/79 (6%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           +++GN+   + E  + + F+      G+       +        K +AF+ F S D +  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAF----GVILQTPKIMRDPDTGNSKGYAFINFASFDASDA 56

Query: 109 AM-AFDGINFKGQSLKIRR 126
           A+ A +G     + + +  
Sbjct: 57  AIEAMNGQYLCNRPITVSY 75

>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 = 51.7 bits (123), Expect = 2e-09
 Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 6/84 (7%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R  R ++VGNIP+  TE+++ + F++          +   V   +    K + F E++  
Sbjct: 6   RSLRSVFVGNIPYEATEEQLKDIFSEVGP-----VVSFRLVYDRETGKPKGYGFCEYQDQ 60

Query: 104 DETTQAM-AFDGINFKGQSLKIRR 126
           +    AM   +G  F G++L++  
Sbjct: 61  ETALSAMRNLNGREFSGRALRVDN 84

>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 = 50.8 bits (121), Expect = 2e-09
 Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 8/84 (9%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
            Q R LYVGN+   VTE  +++ F+Q                  +   +  + F+EF   
Sbjct: 6   GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKM-------ITEHTSNDPYCFVEFYEH 58

Query: 104 DETTQAM-AFDGINFKGQSLKIRR 126
            +   A+ A +G    G+ +K+  
Sbjct: 59  RDAAAALAAMNGRKILGKEVKVNW 82

>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 = 50.2 bits (119), Expect = 3e-09
 Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 6/76 (7%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           LY+  +  G T+ ++++              +   +L    N  K + F++F S     +
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGK-----IVSTKAILDKTTNKCKGYGFVDFDSPSAAQK 55

Query: 109 AM-AFDGINFKGQSLK 123
           A+ A      + Q  K
Sbjct: 56  AVTALKASGVQAQMAK 71

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 5e-09
 Identities = 10/80 (12%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
            +++ N+   +    + + F+   +         +  + C  N  K + F+ F + +   
Sbjct: 10  NIFIKNLDKSIDNKALYDTFSAFGN-------ILSCKVVCDENGSKGYGFVHFETQEAAE 62

Query: 108 QAM-AFDGINFKGQSLKIRR 126
           +A+   +G+    + + + R
Sbjct: 63  RAIEKMNGMLLNDRKVFVGR 82

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

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]

 Score = 50.2 bits (119), Expect = 5e-09
 Identities = 9/89 (10%), Positives = 24/89 (26%), Gaps = 13/89 (14%)

Query: 39  GSTITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           G    R   R+ V  +P   +  ++ +   +   +                        +
Sbjct: 8   GPPTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVC------------YADVQKDGMGMV 55

Query: 99  EFRSIDETTQAM-AFDGINFKGQSLKIRR 126
           E+   ++   A+   D   F+    +   
Sbjct: 56  EYLRKEDMEYALRKLDDTKFRSHEGETSY 84

>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 = 49.3 bits (117), Expect = 6e-09
 Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 6/81 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             L V  +P  +T++E    F            +   V          + F+ +    + 
Sbjct: 3   TNLIVNYLPQNMTQEEFRSLFGSIGE-----IESCKLVRDKITGQSLGYGFVNYIDPKDA 57

Query: 107 TQAM-AFDGINFKGQSLKIRR 126
            +A+   +G+  + +++K+  
Sbjct: 58  EKAINTLNGLRLQTKTIKVSY 78

>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 = 49.3 bits (117), Expect = 7e-09
 Identities = 13/81 (16%), Positives = 25/81 (30%), Gaps = 6/81 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             + V N+     E ++ E F           +             K FAF+ F   ++ 
Sbjct: 9   ATIRVTNLSEDTRETDLQELFRPFGS-----ISRIYLAKDKTTGQSKGFAFISFHRREDA 63

Query: 107 TQAM-AFDGINFKGQSLKIRR 126
            +A+    G  +    L +  
Sbjct: 64  ARAIAGVSGFGYDHLILNVEW 84

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.1 bits (116), Expect = 8e-09
 Identities = 13/92 (14%), Positives = 28/92 (30%), Gaps = 16/92 (17%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           R+ V  +P   +  ++ +   +   +                        +EF   ++ T
Sbjct: 2   RVVVSGLPPSGSWQDLKDHMREAGDVC------------YADVYRDGTGVVEFVRKEDMT 49

Query: 108 QAM-AFDGINFKGQSLK---IRRPHDYQPTPG 135
            A+   D   F+    +   IR   D   +P 
Sbjct: 50  YAVRKLDNTKFRSHEGETAYIRVKVDGPRSPS 81

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.3 bits (117), Expect = 9e-09
 Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 12/80 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
            RL+VG +    +   +   F++              +         +FA++++ S+D  
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDRF-----------GSIRTIDHVKGDSFAYIQYESLDAA 66

Query: 107 TQAM-AFDGINFKGQSLKIR 125
             A     G    G   ++R
Sbjct: 67  QAACAKMRGFPLGGPDRRLR 86

>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 = 49.3 bits (117), Expect = 1e-08
 Identities = 13/81 (16%), Positives = 34/81 (41%), Gaps = 6/81 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             L++ ++P    + ++++ F    +       +    +  Q NL K F F+ + +    
Sbjct: 19  ANLFIYHLPQEFGDQDLLQMFMPFGN-----VVSAKVFIDKQTNLSKCFGFVSYDNPVSA 73

Query: 107 TQAM-AFDGINFKGQSLKIRR 126
             A+ + +G     + LK++ 
Sbjct: 74  QAAIQSMNGFQIGMKRLKVQL 94

>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 = 48.4 bits (115), Expect = 1e-08
 Identities = 15/78 (19%), Positives = 32/78 (41%), Gaps = 6/78 (7%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           LYVG++   VTE  + E F+    +  +                  +A++ F+   +  +
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPAGPILSI-----RVCRDMITRRSLGYAYVNFQQPADAER 57

Query: 109 AM-AFDGINFKGQSLKIR 125
           A+   +    KG+ ++I 
Sbjct: 58  ALDTMNFDVIKGKPVRIM 75

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 48.3 bits (114), Expect = 1e-08
 Identities = 11/78 (14%), Positives = 28/78 (35%), Gaps = 7/78 (8%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           + V N+P    ++++ ++F     +        +  +A  +  +  FA +EF   D    
Sbjct: 3   VLVKNLPKSYNQNKVYKYFKHCGPII-------HVDVADSLKKNFRFARIEFARYDGALA 55

Query: 109 AMAFDGINFKGQSLKIRR 126
           A+           + +  
Sbjct: 56  AITKTHKVVGQNEIIVSH 73

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.4 bits (115), Expect = 1e-08
 Identities = 14/85 (16%), Positives = 29/85 (34%), Gaps = 6/85 (7%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
            ++   L V  +P+  TE ++ E+F+                   +    K F F+ F  
Sbjct: 5   VQKTSDLIVLGLPWKTTEQDLKEYFSTFGE-----VLMVQVKKDLKTGHSKGFGFVRFTE 59

Query: 103 IDETTQAMAFDGINFKGQSLKIRRP 127
            +   + M+       G+    + P
Sbjct: 60  YETQVKVMS-QRHMIDGRWCDCKLP 83

>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 = 48.5 bits (115), Expect = 1e-08
 Identities = 15/80 (18%), Positives = 34/80 (42%), Gaps = 6/80 (7%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
            L V  +P  +T+ E+   F     ++         +   +      +AF++F S  ++ 
Sbjct: 4   NLIVNYLPQDMTDRELYALFRAIGPINTC-----RIMRDYKTGYSYGYAFVDFTSEMDSQ 58

Query: 108 QAM-AFDGINFKGQSLKIRR 126
           +A+   +GI  + + LK+  
Sbjct: 59  RAIKVLNGITVRNKRLKVSY 78

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.5 bits (115), Expect = 2e-08
 Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 6/82 (7%)

Query: 48  RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETT 107
           RL++G IP     +E++E   +                A     ++ FAF+E+ S     
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKVTEGV---LDVIVYASAADKMKNRGFAFVEYESHRAAA 59

Query: 108 QA---MAFDGINFKGQSLKIRR 126
            A   +    I   G  + +  
Sbjct: 60  MARRKLMPGRIQLWGHQIAVDW 81

>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 = 48.6 bits (115), Expect = 2e-08
 Identities = 17/83 (20%), Positives = 33/83 (39%), Gaps = 6/83 (7%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
           +   L+V +I     EDE+ E F              +  L  +    K +A +E+ +  
Sbjct: 6   EGWILFVTSIHEEAQEDEIQEKFCDYGE-----IKNIHLNLDRRTGFSKGYALVEYETHK 60

Query: 105 ETTQAM-AFDGINFKGQSLKIRR 126
           +   A  A +G    GQ++++  
Sbjct: 61  QALAAKEALNGAEIMGQTIQVDW 83

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 2e-08
 Identities = 11/94 (11%), Positives = 28/94 (29%), Gaps = 11/94 (11%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 104
              +++VG +P+  T+  + ++F                +   Q    + + F+      
Sbjct: 9   TFTKIFVGGLPYHTTDASLRKYFEGFGD-----IEEAVVITDRQTGKSRGYGFVTMADRA 63

Query: 105 ETTQAMAFDGINFKGQSLKIR------RPHDYQP 132
              +A         G+   +       +P   Q 
Sbjct: 64  AAERACKDPNPIIDGRKANVNLAYLGAKPRSLQT 97

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.1 bits (114), Expect = 2e-08
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 9/91 (9%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
               R+YVGN+P  +   ++ + F +   +          +          FAF+EF   
Sbjct: 12  NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIR--------DIDLKNRRGGPPFAFVEFEDP 63

Query: 104 DETTQAM-AFDGINFKGQSLKIRRPHDYQPT 133
            +   A+   DG ++ G  L++  P   + T
Sbjct: 64  RDAEDAVYGRDGYDYDGYRLRVEFPRSGRGT 94

>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 = 48.3 bits (115), Expect = 2e-08
 Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 18/94 (19%)

Query: 47  RRLYVGNI-PFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
            R+++GN+    V + ++   F++           G  V     ++ K FAF+++ +   
Sbjct: 16  SRVFIGNLNTLVVKKSDVEAIFSK----------YGKIV---GCSVHKGFAFVQYVNERN 62

Query: 106 TTQAM-AFDGINFKGQSLKI---RRPHDYQPTPG 135
              A+   DG    GQ L I     P   +  P 
Sbjct: 63  ARAAVAGEDGRMIAGQVLDINLAAEPKVNRSGPS 96

>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 = 48.1 bits (114), Expect = 2e-08
 Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 11/89 (12%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R LYVG +   V +  +   F     ++          L  +    + FAF+EF   ++ 
Sbjct: 6   RVLYVGGLAEEVDDKVLHAAFIPFGDITD-----IQIPLDYETEKHRGFAFVEFELAEDA 60

Query: 107 TQAM-AFDGINFKGQSLKI-----RRPHD 129
             A+   +     G+++++      R  +
Sbjct: 61  AAAIDNMNESELFGRTIRVNLAKPMRIKE 89

>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 = 47.4 bits (112), Expect = 4e-08
 Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 6/79 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             L V  +    TE ++ E F++         A  + V   Q    + FAF+ F ++D+ 
Sbjct: 10  CCLGVFGLSLYTTERDLREVFSKYGP-----IADVSIVYDQQSRRSRGFAFVYFENVDDA 64

Query: 107 TQAM-AFDGINFKGQSLKI 124
            +A    +G+   G+ +++
Sbjct: 65  KEAKERANGMELDGRRIRV 83

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (112), Expect = 5e-08
 Identities = 19/93 (20%), Positives = 34/93 (36%), Gaps = 4/93 (4%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC---QINLDKNFAFLEF 100
                +YV  +   VT D++ +FF Q   +    +     +      +    K  A + +
Sbjct: 6   SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 65

Query: 101 RSIDETTQAM-AFDGINFKGQSLKIRRPHDYQP 132
                   A+  FDG +F+G  LK+       P
Sbjct: 66  EDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 98

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.6 bits (110), Expect = 7e-08
 Identities = 15/89 (16%), Positives = 34/89 (38%), Gaps = 18/89 (20%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R+   LYV      +T   +   F+               ++   ++  +N AF+ +  +
Sbjct: 3   RKGNTLYVYGED--MTPTLLRGAFSPF-----------GNIIDLSMDPPRNCAFVTYEKM 49

Query: 104 DETTQAM-AFDGINFKGQSLKI----RRP 127
           +   QA+   +G   +   LK+    ++P
Sbjct: 50  ESADQAVAELNGTQVESVQLKVNIARKQP 78

>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 = 47.2 bits (111), Expect = 1e-07
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 6/90 (6%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R L V  IP  V E ++ + F +          +   V   +    + + F++F+S    
Sbjct: 43  RNLMVNYIPTTVDEVQLRQLFERYGP-----IESVKIVCDRETRQSRGYGFVKFQSGSSA 97

Query: 107 TQAM-AFDGINFKGQSLKIRRPHDYQPTPG 135
            QA+   +G N   + LK+         PG
Sbjct: 98  QQAIAGLNGFNILNKRLKVALAASGHQRPG 127

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 11/80 (13%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             ++VG     +TEDE+ EFF+Q           G+ +        + FAF+ F      
Sbjct: 6   SGVFVGRCTGDMTEDELREFFSQY----------GDVMDVFIPKPFRAFAFVTFADDQIA 55

Query: 107 TQAMAFDGINFKGQSLKIRR 126
                 + +  KG S+ I  
Sbjct: 56  QSLCG-EDLIIKGISVHISN 74

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (109), Expect = 2e-07
 Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 14/82 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN--FAFLEFRSID 104
            R+ V N+ + VT D + + F++              VL        N   A L++    
Sbjct: 8   LRIIVENLFYPVTLDVLHQIFSKF-----------GTVLKIITFTKNNQFQALLQYADPV 56

Query: 105 ETTQAM-AFDGINFKGQSLKIR 125
               A  + DG N       +R
Sbjct: 57  SAQHAKLSLDGQNIYNACCTLR 78

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

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]

 Score = 45.2 bits (106), Expect = 3e-07
 Identities = 16/91 (17%), Positives = 32/91 (35%), Gaps = 12/91 (13%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
             + + +++ N+ F   E+ + E   Q              VL       K  AF +F +
Sbjct: 5   VTEGKTVFIRNLSFDSEEEALGEVLQQFGD-----LKYVRVVLHPDTEHSKGCAFAQFMT 59

Query: 103 IDETTQAMA-------FDGINFKGQSLKIRR 126
            +   + +A         G+   G+ LK+  
Sbjct: 60  QEAAQKCLAAASLEAEGGGLKLDGRQLKVDL 90

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {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: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 3e-07
 Identities = 13/84 (15%), Positives = 33/84 (39%), Gaps = 7/84 (8%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           +     +++  +P+  TE+++  FF+               +           A +EF +
Sbjct: 12  STTGHCVHMRGLPYRATENDIYNFFSPLNP-------MRVHIEIGPDGRVTGEADVEFAT 64

Query: 103 IDETTQAMAFDGINFKGQSLKIRR 126
            ++   AMA D  N + + +++  
Sbjct: 65  HEDAVAAMAKDKANMQHRYVELFL 88

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {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: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.8 bits (105), Expect = 4e-07
 Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 6/81 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           + LY+ N+   VTE +++  F +     G                 +  AF+ F + +  
Sbjct: 19  KVLYLKNLSPRVTERDLVSLFARFQEKKGP-----PIQFRMMTGRMRGQAFITFPNKEIA 73

Query: 107 TQAM-AFDGINFKGQSLKIRR 126
            QA+   +G    G+ L I  
Sbjct: 74  WQALHLVNGYKLYGKILVIEF 94

>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 = 43.9 bits (103), Expect = 7e-07
 Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 6/80 (7%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             + V N+PF V+ DE+++FF                +   +  +    A + F S DE 
Sbjct: 10  TIIKVQNMPFTVSIDEILDFFYGYQV-----IPGSVCLKYNEKGMPTGEAMVAFESRDEA 64

Query: 107 TQAM-AFDGINFKGQSLKIR 125
           T A+   +      + +K+ 
Sbjct: 65  TAAVIDLNDRPIGSRKVKLV 84

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 18/100 (18%), Positives = 35/100 (35%), Gaps = 22/100 (22%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             ++V  +   V E +++E   +              +    +   K  A +EF +ID  
Sbjct: 16  PVVHVRGLCESVVEADLVEALEKF-----------GTICYVMMMPFKRQALVEFENIDSA 64

Query: 107 TQAMAF---DGINFKGQSL--------KIRRPHDYQPTPG 135
            + + F     +   GQ          +I RP +  P+ G
Sbjct: 65  KECVTFAADVPVYIAGQQAFFNYSTSKRITRPGNSGPSSG 104

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.0 bits (101), Expect = 1e-06
 Identities = 10/73 (13%), Positives = 25/73 (34%), Gaps = 12/73 (16%)

Query: 50  YVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQA 109
            V   P       +++F                 +L   ++   N+  + ++S  +  +A
Sbjct: 8   TVFGFPQASASYILLQFAQYGN------------ILKHVMSNTGNWMHIRYQSKLQARKA 55

Query: 110 MAFDGINFKGQSL 122
           ++ DG  F    +
Sbjct: 56  LSKDGRIFGESIM 68

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.9 bits (100), Expect = 2e-06
 Identities = 10/104 (9%), Positives = 23/104 (22%), Gaps = 8/104 (7%)

Query: 43  TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 102
           +  +  L        V  +        +     L +         Q         + F +
Sbjct: 2   SSGSSGLIACVANDDVFSESET-----RAKFESLFRTYD-KDTTFQYFKSFKRVRINFSN 55

Query: 103 IDETTQAMAFDGINFKGQSLKIRRPHDYQPTPGVTDNAAVAVPA 146
                 A     ++      K  + +  Q     + + A   P 
Sbjct: 56  PLSAADAR--LRLHKTEFLGKEMKLYFAQTLHIGSSHLAPPNPD 97

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.2 bits (98), Expect = 2e-06
 Identities = 13/83 (15%), Positives = 32/83 (38%), Gaps = 14/83 (16%)

Query: 49  LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 108
           + +  +P  VT  E+ +  +               +  C ++  K  AF+   + ++   
Sbjct: 1   ILIRGLPGDVTNQEVHDLLSDY------------ELKYCFVDKYKGTAFVTLLNGEQAEA 48

Query: 109 AM-AFDGINFKGQSLKIR-RPHD 129
           A+  F     + + L ++ +P D
Sbjct: 49  AINTFHQSRLRERELSVQLQPTD 71

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {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: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.7 bits (97), Expect = 5e-06
 Identities = 16/79 (20%), Positives = 33/79 (41%), Gaps = 9/79 (11%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             L++ NIP  V+E+++   F+            G          D+  A ++  S++E 
Sbjct: 11  ATLHLSNIPPSVSEEDLKVLFSSNG---------GVVKGFKFFQKDRKMALIQMGSVEEA 61

Query: 107 TQAMAFDGINFKGQSLKIR 125
            QA+     +  G++  +R
Sbjct: 62  VQALIDLHNHDLGENHHLR 80

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

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 = 41.5 bits (96), Expect = 5e-06
 Identities = 12/83 (14%), Positives = 35/83 (42%), Gaps = 6/83 (7%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
                L++GN+    +  E+    ++    +         V+  +   ++ F +++F S 
Sbjct: 11  TTPFNLFIGNLNPNKSVAELKVAISELFAKN------DLAVVDVRTGTNRKFGYVDFESA 64

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
           ++  +A+   G+   G  +K+ +
Sbjct: 65  EDLEKALELTGLKVFGNEIKLEK 87

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.9 bits (95), Expect = 6e-06
 Identities = 12/84 (14%), Positives = 34/84 (40%), Gaps = 8/84 (9%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             L++ N P   T+  + +       ++         + + + N  + FA+++  S ++ 
Sbjct: 2   CTLWMTNFPPSYTQRNIRDLLQDINVVAL-----SIRLPSLRFNTSRRFAYIDVTSKEDA 56

Query: 107 TQAM-AFDGINFKGQSLKIR--RP 127
              +   +G+  +G +L  +   P
Sbjct: 57  RYCVEKLNGLKIEGYTLVTKVSNP 80

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {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: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (96), Expect = 6e-06
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 14/82 (17%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           R L++  +P  VTE E++                   V    +   KN AFLE  + +  
Sbjct: 9   RVLHIRKLPGEVTETEVIALGLPF-----------GKVTNILMLKGKNQAFLELATEEAA 57

Query: 107 TQAMAF---DGINFKGQSLKIR 125
              + +      + + Q + I+
Sbjct: 58  ITMVNYYSAVTPHLRNQPIYIQ 79

>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 = 41.3 bits (96), Expect = 7e-06
 Identities = 13/81 (16%), Positives = 28/81 (34%), Gaps = 13/81 (16%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
           +  + V N+P      E+ +                        N  K  AF+   + ++
Sbjct: 5   SSGILVKNLPQDSNCQEVHDLLKD----------YDLKYCYVDRN--KRTAFVTLLNGEQ 52

Query: 106 TTQAM-AFDGINFKGQSLKIR 125
              A+  F   +F+G+ L ++
Sbjct: 53  AQNAIQMFHQYSFRGKDLIVQ 73

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 109

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 1e-05
 Identities = 15/80 (18%), Positives = 27/80 (33%), Gaps = 12/80 (15%)

Query: 47  RRLYVGNI-PFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
             L V N+ P  VT   +   F             G+      +   K  A ++    ++
Sbjct: 3   SVLLVSNLNPERVTPQSLFILFGVY----------GDVQRVKILFNKKENALVQMADGNQ 52

Query: 106 TTQAM-AFDGINFKGQSLKI 124
              AM   +G    G+ ++I
Sbjct: 53  AQLAMSHLNGHKLHGKPIRI 72

>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 = 40.9 bits (95), Expect = 1e-05
 Identities = 12/83 (14%), Positives = 23/83 (27%), Gaps = 7/83 (8%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           +    LY+ N+P  + E E+                    +L       +   F    S 
Sbjct: 16  QDPTNLYISNLPLSMDEQELENMLKPFGQ------VISTRILRDSSGTSRGVGFARMEST 69

Query: 104 DETTQAM-AFDGINFKGQSLKIR 125
           ++    +  F+G   K       
Sbjct: 70  EKCEAVIGHFNGKFIKTPPGVSA 92

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (94), Expect = 1e-05
 Identities = 12/86 (13%), Positives = 29/86 (33%), Gaps = 17/86 (19%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKN------FAFLEF 100
              ++ NIPF +T+ ++++F                        L  N       A ++F
Sbjct: 9   VCAHITNIPFSITKMDVLQFLEGIP-----------VDENAVHVLVDNNGQGLGQALVQF 57

Query: 101 RSIDETTQAMAFDGINFKGQSLKIRR 126
           ++ D+  ++         G+   +  
Sbjct: 58  KNEDDARKSERLHRKKLNGREAFVHV 83

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 11/93 (11%), Positives = 31/93 (33%), Gaps = 15/93 (16%)

Query: 43  TRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFR 101
               R +++ +   G     ++++            +  G       I    N AF+E  
Sbjct: 5   VETRRVVHIMDFQRGKNLRYQLLQLV----------EPFGVIS-NHLILNKINEAFIEMA 53

Query: 102 SIDETTQAMAF---DGINFKGQSLKIRRPHDYQ 131
           + ++   A+ +         G+ +++     Y+
Sbjct: 54  TTEDAQAAVDYYTTTPALVFGKPVRVHLSQKYK 86

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.9 bits (92), Expect = 3e-05
 Identities = 14/84 (16%), Positives = 24/84 (28%), Gaps = 12/84 (14%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
           R    +   N+P G    E+ E F++              +    +      A +EF   
Sbjct: 8   RSKTVILAKNLPAGTLAAEIQETFSRF-----------GSLGRVLLPEGGITAIVEFLEP 56

Query: 104 DETTQAM-AFDGINFKGQSLKIRR 126
            E  +A        F    L +  
Sbjct: 57  LEARKAFRHLAYSKFHHVPLYLEW 80

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.9 bits (87), Expect = 2e-04
 Identities = 12/83 (14%), Positives = 28/83 (33%), Gaps = 5/83 (6%)

Query: 44  RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI 103
                +Y+  +PF      +++FF +   +      A  P             F+EFR+ 
Sbjct: 16  EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKA-----TGEGFVEFRNE 70

Query: 104 DETTQAMAFDGINFKGQSLKIRR 126
            +   A+         + +++  
Sbjct: 71  ADYKAALCRHKQYMGNRFIQVHP 93

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 16/80 (20%), Positives = 29/80 (36%), Gaps = 12/80 (15%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
           + L++ N+P    E  +   FNQ                   +    + AF+EF +  ++
Sbjct: 9   QILFLTNLPEETNEMMLSMLFNQFPGF----------KEVRLVPNRHDIAFVEFTTELQS 58

Query: 107 TQAM-AFDGINF-KGQSLKI 124
             A  A  G       ++KI
Sbjct: 59  NAAKEALQGFKITPTHAMKI 78

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 2e-04
 Identities = 14/77 (18%), Positives = 34/77 (44%), Gaps = 14/77 (18%)

Query: 41  TITRQARRLYV--GNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 98
           T++   + L V  G +  GV+ ++++    +              V A  +  +K ++F 
Sbjct: 13  TVSYATQSLVVANGGLGNGVSRNQLLPVLEKC-----------GLVDALLMPPNKPYSFA 61

Query: 99  EFRSIDETTQAM-AFDG 114
            +R+ +E+ +A    +G
Sbjct: 62  RYRTTEESKRAYVTLNG 78

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 9/82 (10%), Positives = 32/82 (39%), Gaps = 2/82 (2%)

Query: 45  QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSI 103
           Q   ++V  +   + + E+++          + +   N   +   +      A++ +   
Sbjct: 7   QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRS 66

Query: 104 DETTQAM-AFDGINFKGQSLKI 124
           ++  +A+   + +   G++LK 
Sbjct: 67  EDALRAIQCVNNVVVDGRTLKA 88

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.7 bits (84), Expect = 5e-04
 Identities = 5/85 (5%), Positives = 22/85 (25%), Gaps = 13/85 (15%)

Query: 46  ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDE 105
               + G++      +++   F+               +             + F+   +
Sbjct: 11  CLLKFSGDLDDQTCREDLHILFSNH-----------GEIKWIDFVRGAKEGIILFKEKAK 59

Query: 106 TTQ--AMAFDGINFKGQSLKIRRPH 128
                A   +  N + ++ ++    
Sbjct: 60  EALGKAKDANNGNLQLRNKEVTWEV 84

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {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: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 0.003
 Identities = 13/80 (16%), Positives = 33/80 (41%), Gaps = 5/80 (6%)

Query: 47  RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 106
             + +  +PFG +++E+++FF+            G  +           AF++F S +  
Sbjct: 16  GFVRLRGLPFGCSKEEIVQFFSGLEI-----VPNGMTLPVDFQGRSTGEAFVQFASQEIA 70

Query: 107 TQAMAFDGINFKGQSLKIRR 126
            +A+         + ++I +
Sbjct: 71  EKALKKHKERIGHRYIEIFK 90

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	231
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.86
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.84
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.83
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.82
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.82
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.81
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.81
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.81
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.81
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.8
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.8
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.8
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.8
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.8
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.8
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.79
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.79
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.79
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.79
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.79
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.79
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.79
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.79
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.79
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.78
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.78
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.78
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.78
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.78
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.78
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.78
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.78
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.78
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.78
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.78
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.78
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.77
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.77
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.77
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.77
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.77
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.77
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.77
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.77
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.76
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.76
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.76
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.76
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.76
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.76
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.76
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.76
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.76
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.76
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.76
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.76
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.75
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.75
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.75
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.75
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.75
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.74
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.74
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.74
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.74
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.74
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.73
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.73
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.72
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.72
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.71
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.7
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.69
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.68
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.68
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.67
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.67
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.67
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.66
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.62
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.55
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.54
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.53
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.47
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	99.41
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.23
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	98.62
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.54
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	98.53
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.49
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	98.49
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.49
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.48
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	98.47
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.46
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.44
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	98.43
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.42
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.42
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.4
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	98.39
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	98.39
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	98.38
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.38
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.37
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	98.33
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.33
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.31
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.3
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	98.27
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	98.26
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.26
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.25
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.23
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.23
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.23
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.22
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.22
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.22
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.22
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.21
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.2
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.19
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.18
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	98.17
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.15
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	98.15
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.13
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	98.11
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	98.11
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.09
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	98.08
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.06
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	98.06
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	98.05
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	98.05
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.03
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	98.03
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	98.01
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.0
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	97.97
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.97
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	97.95
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	97.93
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	97.91
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	97.9
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	97.89
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	97.89
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	97.88
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	97.85
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	97.8
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	97.77
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	97.77
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	97.76
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	97.72
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	97.69
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	97.66
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	97.65
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.57
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.48
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	97.45
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.45
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	97.36
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	97.35
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.27
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	97.27
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.76
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.27
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	96.22
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	95.15
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	94.93
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	94.78
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	94.4
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	92.93
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	90.52

>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=99.86  E-value=2.3e-21  Score=152.48  Aligned_cols=125  Identities=19%  Similarity=0.373  Sum_probs=101.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      +.|+|||||||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+..++..+.
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G-----------~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~   73 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWG-----------TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVD   73 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEET
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcC-----------CEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCccc
Confidence            458999999999999999999999999           66666554      4479999999999999999988888999


Q ss_pred             CceEEEeCCCCCCCCCCCCCCCcccCCCCcccCcCCCCCCcEEEcCCCCCCCHH--------------------------
Q psy2204         119 GQSLKIRRPHDYQPTPGVTDNAAVAVPAGVISTVVPDSPHKIFIGGLPNYLNED--------------------------  172 (231)
Q Consensus       119 gr~i~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nLp~~~tee--------------------------  172 (231)
                      ++.+.+.+........               ........++|||+|||+.+|++                          
T Consensus        74 ~~~~~~~~~~~~~~~~---------------~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~  138 (183)
T d1u1qa_          74 GRVVEPKRAVSREDSQ---------------RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKK  138 (183)
T ss_dssp             TEECEEEECCCTTGGG---------------STTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCE
T ss_pred             ccchhhhhhhhccccc---------------ccccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCcc
Confidence            9988887654332111               11123445899999999999999                          


Q ss_pred             ---------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 ---------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ---------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                                     +|++ +++..+.|+.|+|++|.++
T Consensus       139 ~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A~~k  176 (183)
T d1u1qa_         139 RGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKALSK  176 (183)
T ss_dssp             EEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEECCCH
T ss_pred             ceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEecCCc
Confidence                           6665 7999999999999999754

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=4.4e-22  Score=139.81  Aligned_cols=89  Identities=83%  Similarity=1.306  Sum_probs=80.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEe
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIR  125 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~  125 (231)
                      .|+|||||||+++|+++|+++|++||.+..+.......+.+.+..++||||||+|.+.++|.+|++|||..|.|+.|+|+
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            37999999999999999999999999988887666667788888899999999999999999999999999999999999


Q ss_pred             CCCCCCCCC
Q psy2204         126 RPHDYQPTP  134 (231)
Q Consensus       126 ~~~~~~~~~  134 (231)
                      +++.+.+.+
T Consensus        81 r~k~~~p~p   89 (90)
T d1u2fa_          81 RPHDYQPLP   89 (90)
T ss_dssp             CTTCCSCCC
T ss_pred             CCCCCCCcc
Confidence            998876554

>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=99.83  E-value=1.7e-20  Score=131.87  Aligned_cols=82  Identities=17%  Similarity=0.430  Sum_probs=74.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      .....++|||+|||+++|+++|+++|++||.+.++      .|.+.+.+++||||||+|.+.++|.+||+|||..+.|++
T Consensus         9 ~~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~------~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~   82 (91)
T d1fjeb1           9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDL------AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNE   82 (91)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC------CCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEE
T ss_pred             CCCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEe------eeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEE
Confidence            34456799999999999999999999999998877      566778899999999999999999999999999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |+|.+++.
T Consensus        83 i~V~~ak~   90 (91)
T d1fjeb1          83 IKLEKPKG   90 (91)
T ss_dssp             EEEECCCC
T ss_pred             EEEEecCC
Confidence            99998874

>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=99.82  E-value=8.3e-21  Score=132.95  Aligned_cols=83  Identities=18%  Similarity=0.359  Sum_probs=69.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      +...++|||+|||+++|+++|+++|++||.|.++.     .+.+...+++||||||+|.+.++|.+|+ .|||..+.|+.
T Consensus         2 a~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~-----i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~   76 (89)
T d2cqba1           2 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ-----IPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRT   76 (89)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEE-----CCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecc-----cccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            45678999999999999999999999999444332     1222233456899999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.++++.
T Consensus        77 l~v~~a~p~   85 (89)
T d2cqba1          77 IRVNLAKPM   85 (89)
T ss_dssp             EEEEECCCC
T ss_pred             EEEEEeCCC
Confidence            999988754

>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=99.82  E-value=5.6e-20  Score=130.49  Aligned_cols=74  Identities=19%  Similarity=0.430  Sum_probs=70.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ..++|||+|||+++++++|+++|++||           .|.++++.++||||||+|.+.++|.+|+ .|||..|.|+.|+
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~fG-----------~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~   85 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSPFG-----------QIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVK   85 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHhC-----------CceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            357899999999999999999999999           8999999999999999999999999999 9999999999999


Q ss_pred             EeCCCC
Q psy2204         124 IRRPHD  129 (231)
Q Consensus       124 V~~~~~  129 (231)
                      |.++++
T Consensus        86 v~~ak~   91 (96)
T d1x4ga1          86 CYWGKE   91 (96)
T ss_dssp             EECCCC
T ss_pred             EEEcCC
Confidence            999864

>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=99.81  E-value=1e-19  Score=127.51  Aligned_cols=76  Identities=29%  Similarity=0.551  Sum_probs=68.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..+.|+|||+|||+++|+++|+++|++||           .|.++++.++    ++||||+|.+.++|.+|+ .+||..+
T Consensus         5 ~~~~~tl~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~   73 (90)
T d2cqia1           5 DGQPRTLYVGNLSRDVTEVLILQLFSQIG-----------PCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKI   73 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHS-----------CEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC-----------CceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEE
Confidence            35678999999999999999999999999           7777777543    689999999999999999 9999999


Q ss_pred             cCceEEEeCCCC
Q psy2204         118 KGQSLKIRRPHD  129 (231)
Q Consensus       118 ~gr~i~V~~~~~  129 (231)
                      .|+.|+|.++++
T Consensus        74 ~g~~i~v~~a~~   85 (90)
T d2cqia1          74 LGKEVKVNWATT   85 (90)
T ss_dssp             TTEEEEEEECCC
T ss_pred             CCEEEEEEEcCC
Confidence            999999998864

>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=99.81  E-value=1.5e-19  Score=128.86  Aligned_cols=80  Identities=23%  Similarity=0.397  Sum_probs=69.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ..+..+++|||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|| .||
T Consensus         3 ~~~~~~~~lfV~nL~~~~t~~~l~~~F~~~g-----------~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~   71 (99)
T d1whwa_           3 SGSSGSGRLFVRNLSYTSSEEDLEKLFSAYG-----------PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD   71 (99)
T ss_dssp             CCCCSCEEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEECCCCcCCHHHHHHHHHhcC-----------CceeeeecccccccccCcceEEEECCHHHHHHHHHHcC
Confidence            3345577899999999999999999999999           66666664      34799999999999999999 899


Q ss_pred             CCeecCceEEEeCCCCCC
Q psy2204         114 GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~~~  131 (231)
                      +..|.||.|+|.+++...
T Consensus        72 g~~~~gr~i~V~~a~~~~   89 (99)
T d1whwa_          72 GQVFQGRMLHVLPSTIKK   89 (99)
T ss_dssp             TEESSSCEEEEEECCCCS
T ss_pred             CCEECCEEEEEEECCCCC
Confidence            999999999999887654

>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=99.81  E-value=2e-20  Score=131.12  Aligned_cols=83  Identities=22%  Similarity=0.500  Sum_probs=67.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      +.+.++|||||||+++|+++|+++|++||.|..+.     .+.+....+++|||||+|.+.++|.+|+ .|||..|.|+.
T Consensus         2 ~~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~-----~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~   76 (90)
T d1x5sa1           2 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVV-----VVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQ   76 (90)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEE-----ECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCC
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHhhhcccccccee-----eccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            46778999999999999999999999999443321     1122223445899999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|+++.+.
T Consensus        77 l~V~~a~~~   85 (90)
T d1x5sa1          77 IRVDQAGKS   85 (90)
T ss_dssp             CEEEEEECC
T ss_pred             EEEEEcCCC
Confidence            999987543

>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=99.81  E-value=1e-19  Score=126.42  Aligned_cols=76  Identities=21%  Similarity=0.424  Sum_probs=69.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      ...++|||+|||+++|+++|+++|++||           .+..+++.++||||||+|.+.++|.+|+ .|||..|.|+.|
T Consensus         6 ~~~k~l~V~nLp~~~te~~l~~~F~~~g-----------~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i   74 (86)
T d2cpda1           6 SSVKILYVRNLMLSTSEEMIEKEFNNIK-----------PGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPI   74 (86)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTS-----------TTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEE
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHhhcccc-----------eeeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEE
Confidence            3458999999999999999999999999           6777777888999999999999999999 999999999999


Q ss_pred             EEeCCCCC
Q psy2204         123 KIRRPHDY  130 (231)
Q Consensus       123 ~V~~~~~~  130 (231)
                      +|.++++.
T Consensus        75 ~V~~akP~   82 (86)
T d2cpda1          75 EVTLAKPV   82 (86)
T ss_dssp             EEECCCCC
T ss_pred             EEEeccCC
Confidence            99988754

>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=99.80  E-value=6.3e-20  Score=126.29  Aligned_cols=73  Identities=25%  Similarity=0.517  Sum_probs=65.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .++|||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|| .|||..+.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~   70 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIG-----------PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVR   70 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhC-----------CcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEEC
Confidence            46899999999999999999999999           66666654      33799999999999999999 99999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      |++|+|+++++
T Consensus        71 g~~l~v~~a~p   81 (82)
T d1b7fa1          71 NKRLKVSYARP   81 (82)
T ss_dssp             TEECEEEECCC
T ss_pred             CEEEEEEEcCC
Confidence            99999998864

>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=99.80  E-value=3.2e-20  Score=127.41  Aligned_cols=74  Identities=23%  Similarity=0.495  Sum_probs=67.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCC-eecCceEEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGI-NFKGQSLKI  124 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~-~l~gr~i~V  124 (231)
                      ++|||||||+++|+++|+++|++||           .+.+.++.++||||||+|.+.++|.+|+ .|||. .++|++|+|
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G-----------~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V   70 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRK-----------LPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEV   70 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTT-----------CCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhC-----------cEEEeEEecccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEE
Confidence            5799999999999999999999999           6777777778999999999999999999 99996 699999999


Q ss_pred             eCCCCCC
Q psy2204         125 RRPHDYQ  131 (231)
Q Consensus       125 ~~~~~~~  131 (231)
                      .++.+..
T Consensus        71 ~~a~~k~   77 (80)
T d2cqha1          71 DYSVSKK   77 (80)
T ss_dssp             EECCCCC
T ss_pred             EEcCCcC
Confidence            9887643

>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=99.80  E-value=1.2e-19  Score=128.07  Aligned_cols=77  Identities=25%  Similarity=0.462  Sum_probs=68.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|+ .|||..
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~~G-----------~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~   75 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQAG-----------PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIK   75 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCB
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhC-----------CccccceeecccccccccceEEEECCHHHHHHHHHHcCCCE
Confidence            3457999999999999999999999999           66666664      44799999999999999999 999999


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      |.|++|+|+++++..
T Consensus        76 ~~g~~l~V~~A~~~~   90 (93)
T d1x5ua1          76 LYGKPIRVNKASAHN   90 (93)
T ss_dssp             CSSCBCEEEETTTTS
T ss_pred             ECCEEEEEEEcCCCC
Confidence            999999999887543

>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=99.80  E-value=4.9e-20  Score=132.19  Aligned_cols=82  Identities=16%  Similarity=0.340  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ++++|||+|||+++|+++|+++|+.||.+.++.     .+.+....++||||||+|.+.++|.+|| .|||..|.|++|+
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~-----~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~   91 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAK-----VFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLK   91 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEE-----EEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccc-----eeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            456899999999999999999999999433321     1222223445799999999999999999 9999999999999


Q ss_pred             EeCCCCCC
Q psy2204         124 IRRPHDYQ  131 (231)
Q Consensus       124 V~~~~~~~  131 (231)
                      |+++++..
T Consensus        92 V~~a~~k~   99 (102)
T d2cpza1          92 VQLKRSKN   99 (102)
T ss_dssp             EECCCCSC
T ss_pred             EEEeCCCC
Confidence            99887654

>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=99.80  E-value=3.6e-19  Score=134.44  Aligned_cols=81  Identities=23%  Similarity=0.391  Sum_probs=70.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDG  114 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng  114 (231)
                      .....++|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|| .|||
T Consensus        38 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng  106 (139)
T d1u6fa1          38 EPDVLRNLMVNYIPTTVDEVQLRQLFERYG-----------PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNG  106 (139)
T ss_dssp             CTTTTSEEEEESCSTTCCHHHHHHHHHHHS-----------CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhc-----------cccccccccccccccccceeeEEECCHHHHHHHHHHhCC
Confidence            344568999999999999999999999999           66666653      34799999999999999999 8999


Q ss_pred             CeecCceEEEeCCCCCCCC
Q psy2204         115 INFKGQSLKIRRPHDYQPT  133 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~~~~  133 (231)
                      ..|.||+|+|.+++.....
T Consensus       107 ~~~~gr~l~V~~a~~~~~~  125 (139)
T d1u6fa1         107 FNILNKRLKVALAASGHQR  125 (139)
T ss_dssp             EECSSCEEEEEESSCCCCC
T ss_pred             CEECCEEEEEEEcCCCCCC
Confidence            9999999999988755443

>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=99.80  E-value=1e-19  Score=125.16  Aligned_cols=73  Identities=15%  Similarity=0.434  Sum_probs=65.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .++|||+|||+++++++|+++|++||           .|.++++.      +.+|||||+|.+.++|.+|+ .|||..+.
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G-----------~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~   70 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIG-----------EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQ   70 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhC-----------CcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEEC
Confidence            35799999999999999999999999           66666664      33689999999999999999 99999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      |++|+|.++++
T Consensus        71 g~~l~v~~AkP   81 (82)
T d1fxla1          71 TKTIKVSYARP   81 (82)
T ss_dssp             TEECEEEECCC
T ss_pred             CEEEEEEEeeC
Confidence            99999998764

>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=99.79  E-value=3.1e-19  Score=126.27  Aligned_cols=78  Identities=23%  Similarity=0.467  Sum_probs=69.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..+.+++|||+|||+++|+++|+++|++||           .|..+.+.   ..++||||+|++.++|.+|| .||++.|
T Consensus        10 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~   78 (95)
T d1x4aa1          10 AGNNDCRIYVGNLPPDIRTKDIEDVFYKYG-----------AIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDY   78 (95)
T ss_dssp             CCCCSSEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHhcCC-----------ceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEE
Confidence            345667899999999999999999999999           66666654   34799999999999999999 9999999


Q ss_pred             cCceEEEeCCCCC
Q psy2204         118 KGQSLKIRRPHDY  130 (231)
Q Consensus       118 ~gr~i~V~~~~~~  130 (231)
                      .|++|+|++++..
T Consensus        79 ~g~~l~V~~a~~~   91 (95)
T d1x4aa1          79 DGYRLRVEFPRSG   91 (95)
T ss_dssp             TTEECEEECCCCC
T ss_pred             CCEEEEEEeccCC
Confidence            9999999998754

>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=99.79  E-value=5.9e-20  Score=133.42  Aligned_cols=77  Identities=18%  Similarity=0.146  Sum_probs=71.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ..+.+++|||+|||+++++++|+++|+.||           .|..+.+.+.||||||+|.+.++|.+|| .|||..|.|+
T Consensus         6 ~~r~~~~l~V~nLp~~~t~~~L~~~F~~fG-----------~I~~v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr   74 (111)
T d1whxa_           6 SGRSKTVILAKNLPAGTLAAEIQETFSRFG-----------SLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             TSEEEEEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHhhhhccC-----------CccEEEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCC
Confidence            445667999999999999999999999999           8999999999999999999999999999 9999999999


Q ss_pred             eEEEeCCCC
Q psy2204         121 SLKIRRPHD  129 (231)
Q Consensus       121 ~i~V~~~~~  129 (231)
                      .|.|.++..
T Consensus        75 ~l~v~~a~~   83 (111)
T d1whxa_          75 PLYLEWAPI   83 (111)
T ss_dssp             BCEEEEEET
T ss_pred             eEEEEECCC
Confidence            999997754

>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=99.79  E-value=9.2e-20  Score=126.76  Aligned_cols=75  Identities=29%  Similarity=0.499  Sum_probs=70.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      ..++|||+|||+++++++|+++|++||           .|.++++.++|+||||+|.+.++|.+|+ .|||..+.|+.|+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G-----------~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~   75 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYG-----------KAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLR   75 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTC-----------CCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhC-----------CceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            346899999999999999999999999           8999999999999999999999999999 9999999999999


Q ss_pred             EeCCCCC
Q psy2204         124 IRRPHDY  130 (231)
Q Consensus       124 V~~~~~~  130 (231)
                      |+++...
T Consensus        76 V~~A~~~   82 (86)
T d2cpja1          76 VRFACHS   82 (86)
T ss_dssp             EEESSCC
T ss_pred             EEECCCc
Confidence            9988643

>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=99.79  E-value=2.9e-19  Score=126.00  Aligned_cols=79  Identities=23%  Similarity=0.471  Sum_probs=70.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      ......++|||+|||+++++++|+++|++||           .|.++++..+    +|||||+|.+.++|.+|+ .|||.
T Consensus         6 ~~~~~~~~l~v~nLp~~~t~~~L~~~F~~~G-----------~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~   74 (93)
T d2cq3a1           6 ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFG-----------KILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGT   74 (93)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHGGGTS-----------CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHhhcc-----------eeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCC
Confidence            3445678999999999999999999999999           7777776544    799999999999999999 99999


Q ss_pred             eecCceEEEeCCCCC
Q psy2204         116 NFKGQSLKIRRPHDY  130 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~  130 (231)
                      .|.|+.|+|.+++++
T Consensus        75 ~~~g~~l~V~~A~~r   89 (93)
T d2cq3a1          75 VVEGRKIEVNNATAR   89 (93)
T ss_dssp             EETTEECEEEECCSS
T ss_pred             EECCEEEEEEecCcC
Confidence            999999999988754

>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=99.79  E-value=1.3e-19  Score=124.04  Aligned_cols=74  Identities=19%  Similarity=0.346  Sum_probs=69.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      .+.+++|||+||+  +|+++|+++|++||           .|.++++.++++||||+|.+.++|.+|+ .|||..+.|++
T Consensus         2 p~~~~ti~V~~~~--~te~~L~~~F~~~G-----------~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~   68 (79)
T d2bz2a1           2 PRKGNTLYVYGED--MTPTLLRGAFSPFG-----------NIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQ   68 (79)
T ss_dssp             CCCCCEEEEECSS--CCHHHHHHHHSTTC-----------CCSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCCCEEEEECCC--CCHHHHHHHHhccC-----------ccceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEE
Confidence            3567899999985  89999999999999           8999999999999999999999999999 99999999999


Q ss_pred             EEEeCCCC
Q psy2204         122 LKIRRPHD  129 (231)
Q Consensus       122 i~V~~~~~  129 (231)
                      |+|.++++
T Consensus        69 l~V~~a~~   76 (79)
T d2bz2a1          69 LKVNIARK   76 (79)
T ss_dssp             CEEEECCS
T ss_pred             EEEEEecC
Confidence            99998864

>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=99.79  E-value=1.2e-19  Score=124.65  Aligned_cols=78  Identities=14%  Similarity=0.327  Sum_probs=62.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      .+|||+|||+++|+++|+++|++||.+..+.     .+.+.+.++++|||||+|.+.++|.+|+ .|||..+.|++|+|+
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~-----~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~   76 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSI-----RLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTK   76 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEE-----ECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeee-----eecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            5899999999999999999999999554332     2233344566899999999999999999 999999999999999


Q ss_pred             CCCC
Q psy2204         126 RPHD  129 (231)
Q Consensus       126 ~~~~  129 (231)
                      ++++
T Consensus        77 ~a~P   80 (81)
T d2ghpa1          77 VSNP   80 (81)
T ss_dssp             ECCC
T ss_pred             EccC
Confidence            8764

>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=99.79  E-value=1.3e-19  Score=125.45  Aligned_cols=73  Identities=22%  Similarity=0.516  Sum_probs=64.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      +.|+|||+|||+++|+++|+++|++||           .|.++++      +++||||||+|.+.++|.+||++++..|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~   73 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWG-----------TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVD   73 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEET
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhc-----------cccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEEC
Confidence            457999999999999999999999999           5655555      34479999999999999999988999999


Q ss_pred             CceEEEeCCC
Q psy2204         119 GQSLKIRRPH  128 (231)
Q Consensus       119 gr~i~V~~~~  128 (231)
                      ||.|+|+++.
T Consensus        74 Gr~i~V~~A~   83 (84)
T d1l3ka1          74 GRVVEPKRAV   83 (84)
T ss_dssp             TEECEEEECC
T ss_pred             CEEEEEEeee
Confidence            9999998764

>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=99.79  E-value=2.8e-19  Score=126.10  Aligned_cols=77  Identities=23%  Similarity=0.471  Sum_probs=68.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      .+.+++|||+|||+++|+++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||.
T Consensus         4 ~~~s~tlfV~nlp~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~   72 (93)
T d1h2vz_           4 LKKSCTLYVGNLSFYTTEEQIYELFSKSG-----------DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGT   72 (93)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTS
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHHHC-----------CcceeccccccccccccceEEEEECCHHHHHHHHHHhCCC
Confidence            45678999999999999999999999999           677777644      3689999999999999999 89999


Q ss_pred             eecCceEEEeCCCCC
Q psy2204         116 NFKGQSLKIRRPHDY  130 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~  130 (231)
                      .+.|+.|+|.++...
T Consensus        73 ~~~gr~i~V~~a~~~   87 (93)
T d1h2vz_          73 RLDDRIIRTDWDAGF   87 (93)
T ss_dssp             EETTEECEEEEESCC
T ss_pred             EECCEEEEEEEcCCC
Confidence            999999999987643

>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=99.79  E-value=1.4e-19  Score=126.30  Aligned_cols=76  Identities=24%  Similarity=0.365  Sum_probs=66.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      +.+.++|||+|||+++|+++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||.
T Consensus         4 s~~~~~l~V~nL~~~~t~~~l~~~F~~~G-----------~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~   72 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYG-----------EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGA   72 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC-----------CcccccccccccccccccceeEEECCHHHHHHHHHHcCCC
Confidence            44678999999999999999999999999           666666543      4789999999999999999 89999


Q ss_pred             eecCceEEEeCCCC
Q psy2204         116 NFKGQSLKIRRPHD  129 (231)
Q Consensus       116 ~l~gr~i~V~~~~~  129 (231)
                      .+.|+.|+|.++.+
T Consensus        73 ~l~g~~l~V~~a~~   86 (88)
T d1rk8a_          73 EIMGQTIQVDWCFV   86 (88)
T ss_dssp             EETTEECEEEESEE
T ss_pred             EECCEEEEEEEecC
Confidence            99999999998764

>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=99.78  E-value=4.2e-19  Score=125.37  Aligned_cols=76  Identities=20%  Similarity=0.437  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-------CCCcEEEEEecCHHHHHHHH-Hh-CC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-------LDKNFAFLEFRSIDETTQAM-AF-DG  114 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-------~~kg~aFV~F~~~~~a~~Al-~l-ng  114 (231)
                      ..+++|||+|||+++++++|+++|++||           .|.++++.       ++||||||+|.+.++|.+|| .| ||
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G-----------~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~   74 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFG-----------ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHS   74 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC-----------CceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCC
Confidence            4667899999999999999999999999           66666653       44799999999999999999 87 99


Q ss_pred             CeecCceEEEeCCCCC
Q psy2204         115 INFKGQSLKIRRPHDY  130 (231)
Q Consensus       115 ~~l~gr~i~V~~~~~~  130 (231)
                      ..|.||+|.|.+++..
T Consensus        75 ~~~~Gr~l~V~~A~~~   90 (94)
T d2cpha1          75 THLYGRRLVLEWADSE   90 (94)
T ss_dssp             CBSSSCBCEEEECCCC
T ss_pred             cEECCEEEEEEEcCCC
Confidence            9999999999998754

>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=99.78  E-value=2.4e-19  Score=125.34  Aligned_cols=74  Identities=15%  Similarity=0.432  Sum_probs=67.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ..+|||+|||+++|+++|+++|+.||           .|.++++..+    +|||||+|.+.++|.+|| .|||..+.|+
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G-----------~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   76 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFG-----------NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR   76 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTS-----------CEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC-----------CceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            35799999999999999999999999           7777777544    799999999999999999 9999999999


Q ss_pred             eEEEeCCCCC
Q psy2204         121 SLKIRRPHDY  130 (231)
Q Consensus       121 ~i~V~~~~~~  130 (231)
                      .|+|.++++.
T Consensus        77 ~i~V~~a~~~   86 (89)
T d1cvja2          77 KVFVGRFKSR   86 (89)
T ss_dssp             EEEEEECCCT
T ss_pred             EEEEEECCCC
Confidence            9999988754

>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=99.78  E-value=1.9e-19  Score=122.94  Aligned_cols=71  Identities=20%  Similarity=0.412  Sum_probs=63.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      .|+|||||||+++|+++|+++|++||           .+..+++.      +++|||||+|.+.+++.+|+++||..|.|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G-----------~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~G   70 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYG-----------KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNG   70 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETT
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhc-----------cccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECC
Confidence            58999999999999999999999999           55555553      34699999999999999999999999999


Q ss_pred             ceEEEeCC
Q psy2204         120 QSLKIRRP  127 (231)
Q Consensus       120 r~i~V~~~  127 (231)
                      |.|+|+++
T Consensus        71 r~i~V~~A   78 (79)
T d1l3ka2          71 HNCEVRKA   78 (79)
T ss_dssp             EECEEEEC
T ss_pred             EEEEEEEC
Confidence            99999865

>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=99.78  E-value=4e-19  Score=129.70  Aligned_cols=74  Identities=22%  Similarity=0.429  Sum_probs=67.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec---CCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN---LDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~---~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ..+|+|||+|||+++|+++|+++|++||           .|.++++.   +.||||||+|.+.++|.+|+ .|||..|.|
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G-----------~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~g   73 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYG-----------PIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCN   73 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcC-----------CeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3468999999999999999999999999           67777664   44899999999999999999 999999999


Q ss_pred             ceEEEeCCC
Q psy2204         120 QSLKIRRPH  128 (231)
Q Consensus       120 r~i~V~~~~  128 (231)
                      +.|.|.++.
T Consensus        74 r~l~V~~a~   82 (114)
T d2f9da1          74 RYLVVLYYN   82 (114)
T ss_dssp             EECEEEECC
T ss_pred             EEEEEEEcC
Confidence            999999765

>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=99.78  E-value=5.3e-19  Score=126.50  Aligned_cols=83  Identities=20%  Similarity=0.291  Sum_probs=73.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      .++++|||+|||+++++++|+++|++||.+..+.     .+.+...++.+|||||+|.+.++|.+|| .|||..|.|+.|
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~-----~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l   90 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP-----IQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKIL   90 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC-----CEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEE-----eecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEE
Confidence            4578999999999999999999999999887664     3455566788999999999999999999 999999999999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.++++..
T Consensus        91 ~V~~ak~k~   99 (102)
T d2cpxa1          91 VIEFGKNKK   99 (102)
T ss_dssp             EEEECCCCS
T ss_pred             EEEeCCCcc
Confidence            999987643

>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=99.78  E-value=2.7e-19  Score=127.01  Aligned_cols=79  Identities=18%  Similarity=0.359  Sum_probs=66.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHH-HhC-
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAM-AFD-  113 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al-~ln-  113 (231)
                      .....++|||||||+++|+++|+++|++||           .+.++.+      .+++|||||+|.+.++|.+|| .+| 
T Consensus         4 ~~~~~~tlfV~nLp~~~te~~l~~~f~~~G-----------~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~   72 (98)
T d1x4ha1           4 DVTEGKTVFIRNLSFDSEEEALGEVLQQFG-----------DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASL   72 (98)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTS-----------CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCT
T ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHHHhccc-----------cceeeeeccccccccccceEEEEEcCHHHHHHHHHHccc
Confidence            345678999999999999999999999999           4555444      345799999999999999999 776 


Q ss_pred             -----CCeecCceEEEeCCCCCC
Q psy2204         114 -----GINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       114 -----g~~l~gr~i~V~~~~~~~  131 (231)
                           |..+.||.|+|.+++++.
T Consensus        73 ~~~~~g~~~~gr~l~v~~a~~k~   95 (98)
T d1x4ha1          73 EAEGGGLKLDGRQLKVDLAVTRD   95 (98)
T ss_dssp             TTTTCCEESSSCEEEEECCCCCC
T ss_pred             ccccCCcEECCEEEEEEECCCCC
Confidence                 678899999999887543

>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=99.78  E-value=2.4e-19  Score=128.79  Aligned_cols=76  Identities=25%  Similarity=0.521  Sum_probs=67.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHHHhCCCeec
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAMAFDGINFK  118 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al~lng~~l~  118 (231)
                      ..++|||||||+++|+++|+++|++||           .|.++.+      .++||||||+|.+.++|.+||.+++..|.
T Consensus        19 ~~~~lfVgnLp~~~te~~L~~~F~~~G-----------~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~   87 (103)
T d1x4ba1          19 QFRKLFIGGLSFETTEESLRNYYEQWG-----------KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSID   87 (103)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSC-----------CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEET
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhhC-----------cccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeEC
Confidence            347999999999999999999999999           5655555      34589999999999999999988999999


Q ss_pred             CceEEEeCCCCCC
Q psy2204         119 GQSLKIRRPHDYQ  131 (231)
Q Consensus       119 gr~i~V~~~~~~~  131 (231)
                      |+.|.|+++.++.
T Consensus        88 G~~i~V~~a~~ke  100 (103)
T d1x4ba1          88 GRVVEPKRAVARE  100 (103)
T ss_dssp             TEEEEEECCSSCC
T ss_pred             CEEEEEEECcccC
Confidence            9999999887554

>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=99.78  E-value=2.2e-20  Score=134.42  Aligned_cols=79  Identities=27%  Similarity=0.629  Sum_probs=68.2

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      |..++..|+|||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+ .|
T Consensus         2 P~~~~~~rtl~V~nLp~~~te~~l~~~f~~~G-----------~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l   70 (104)
T d1p1ta_           2 PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVG-----------PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL   70 (104)
T ss_dssp             CCSHHHHSCEEEESCCTTSCHHHHHHHHHTTS-----------CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS
T ss_pred             CCCCCCCCEEEEECCCCcCCHHHHHHhhhccc-----------cccccccccccceeccCCceEEEECCHHHHHHHHHHc
Confidence            33445678999999999999999999999999           55555553      34689999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCC
Q psy2204         113 DGINFKGQSLKIRRPHD  129 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~  129 (231)
                      ||..|.|+.|+|.++..
T Consensus        71 ~~~~~~g~~i~V~~a~~   87 (104)
T d1p1ta_          71 NGREFSGRALRVDNAAS   87 (104)
T ss_dssp             SSBSCSSSCBEEEETTC
T ss_pred             CCCEECCEEEEEEECCC
Confidence            99999999999998764

>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=99.78  E-value=3.1e-19  Score=120.86  Aligned_cols=69  Identities=16%  Similarity=0.542  Sum_probs=62.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      +|||||||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|++||.+++..|.|+.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G-----------~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~   69 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFG-----------EVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKV   69 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTS-----------CEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhc-----------cccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCE
Confidence            599999999999999999999999           66666654      4479999999999999999988999999999


Q ss_pred             EEEeCC
Q psy2204         122 LKIRRP  127 (231)
Q Consensus       122 i~V~~~  127 (231)
                      |.|+++
T Consensus        70 i~V~rA   75 (75)
T d1hd0a_          70 IDPKRA   75 (75)
T ss_dssp             CEECCC
T ss_pred             EEeeEC
Confidence            999764

>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=99.78  E-value=1e-19  Score=123.04  Aligned_cols=75  Identities=15%  Similarity=0.336  Sum_probs=62.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEeCC
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRP  127 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~~~  127 (231)
                      +|||||||+++|+++|+++|++||.+..+.     .+.+....+.++||||+|.+.++|.+|+++||+.|.||+|+|+++
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~-----~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAM-----LMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEEC-----CBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceee-----eeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEEC
Confidence            599999999999999999999999554432     222223345589999999999999999999999999999999864

>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=99.78  E-value=5.8e-19  Score=120.36  Aligned_cols=70  Identities=21%  Similarity=0.462  Sum_probs=63.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-----CCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-----DKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-----~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      +|||+|||+++++++|+++|++||           .|.++++..     ++|||||+|.+.++|.+|+ .|||..+.||+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G-----------~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~   70 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFG-----------TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRP   70 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHS-----------CEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhC-----------CCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            699999999999999999999999           666666643     4789999999999999999 99999999999


Q ss_pred             EEEeCCC
Q psy2204         122 LKIRRPH  128 (231)
Q Consensus       122 i~V~~~~  128 (231)
                      |+|+.+.
T Consensus        71 l~V~~a~   77 (78)
T d1no8a_          71 MNIQLVT   77 (78)
T ss_dssp             CEEEEEC
T ss_pred             EEEEEee
Confidence            9998654

>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=99.78  E-value=2.7e-19  Score=123.45  Aligned_cols=70  Identities=23%  Similarity=0.433  Sum_probs=62.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++++|||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+ .|||..
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~   75 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYG-----------PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGME   75 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTS-----------CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC-----------CCccccccccccccccccceEEEECCHHHHHHHHHHcCCCE
Confidence            3467999999999999999999999999           66666654      34689999999999999999 999999


Q ss_pred             ecCceEEE
Q psy2204         117 FKGQSLKI  124 (231)
Q Consensus       117 l~gr~i~V  124 (231)
                      |.||+|+|
T Consensus        76 ~~gr~i~V   83 (83)
T d2cqca1          76 LDGRRIRV   83 (83)
T ss_dssp             ETTEEEEE
T ss_pred             ECCEEeEC
Confidence            99999987

>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=99.77  E-value=2.7e-19  Score=122.65  Aligned_cols=70  Identities=24%  Similarity=0.447  Sum_probs=63.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      +|||||||+++|+++|+++|++||           .|.++++.+      ++|||||+|.+.++|.+|+ .|||..+.||
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr   70 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAG-----------PILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGK   70 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhC-----------CEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            699999999999999999999999           666666654      3699999999999999999 9999999999


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      +|+|.+++
T Consensus        71 ~i~v~~a~   78 (80)
T d1cvja1          71 PVRIMWSQ   78 (80)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEeC
Confidence            99999875

>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=99.77  E-value=7.9e-19  Score=125.30  Aligned_cols=89  Identities=20%  Similarity=0.253  Sum_probs=71.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeE------ecCCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ------INLDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~------~~~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      |......++|||+|||+++|+++|+++|+.||.+......   ....+.      .++.+|||||+|.+.++|.+|| .|
T Consensus         2 p~~~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~---~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l   78 (101)
T d2cpea1           2 PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRT---GQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWF   78 (101)
T ss_dssp             CCCCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSS---CCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeec---ccceeEEeeccccccccceeeEEecCHHHHHHHHHHh
Confidence            3445567899999999999999999999999966433211   111222      2345799999999999999999 99


Q ss_pred             CCCeecCceEEEeCCCCCC
Q psy2204         113 DGINFKGQSLKIRRPHDYQ  131 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~~~  131 (231)
                      ||..|.||.|+|.+++.+.
T Consensus        79 ~g~~~~gr~i~V~~a~~~~   97 (101)
T d2cpea1          79 DGKDFQGSKLKVSLARKKP   97 (101)
T ss_dssp             TTCEETTEECEEECSSCCC
T ss_pred             CCCEECCEEEEEEEcCCCC
Confidence            9999999999999987644

>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=99.77  E-value=2e-19  Score=125.52  Aligned_cols=74  Identities=18%  Similarity=0.348  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~  123 (231)
                      .+++|||+|||+++++++|+++|++||            +..+.+.+.|+||||+|.+.++|.+|+ .||+..|+|+.|+
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G------------~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~   71 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD------------LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLI   71 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC------------CCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC------------ceeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            457899999999999999999999998            445566778999999999999999999 9999999999999


Q ss_pred             EeCCCCC
Q psy2204         124 IRRPHDY  130 (231)
Q Consensus       124 V~~~~~~  130 (231)
                      |++++..
T Consensus        72 V~~a~~~   78 (88)
T d1wg1a_          72 VQLQPTD   78 (88)
T ss_dssp             EEECCCC
T ss_pred             EEEcCCC
Confidence            9987643

>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=99.77  E-value=2.7e-19  Score=125.37  Aligned_cols=76  Identities=17%  Similarity=0.334  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      .++++|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|| .|||..
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G-----------~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~   74 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFG-----------SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFG   74 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTC-----------CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhc-----------ccccccccccccccccccceeEEECCHHHHHHHHHHhCCCE
Confidence            4567999999999999999999999999           56666554      34789999999999999999 899999


Q ss_pred             ecCceEEEeCCCCC
Q psy2204         117 FKGQSLKIRRPHDY  130 (231)
Q Consensus       117 l~gr~i~V~~~~~~  130 (231)
                      ++|+.|+|.+++++
T Consensus        75 ~~g~~i~v~~akp~   88 (90)
T d2cq0a1          75 YDHLILNVEWAKPS   88 (90)
T ss_dssp             ETTEECEEEESSCC
T ss_pred             ECCEEEEEEeeeCC
Confidence            99999999998754

>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=99.77  E-value=1.8e-18  Score=124.06  Aligned_cols=78  Identities=12%  Similarity=0.263  Sum_probs=66.1

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-Hh
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AF  112 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~l  112 (231)
                      +..+...++|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|| .+
T Consensus         4 ~~~d~~~~~lfV~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~   72 (103)
T d2cqda1           4 SQKDTTFTKIFVGGLPYHTTDASLRKYFEGFG-----------DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP   72 (103)
T ss_dssp             CCCSCSSSEEEEECCCSSCCHHHHHHHHHTTS-----------CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCS
T ss_pred             CCCCCCCcEEEEeCCCCcCcHHHHHHHHhhcc-----------cccceeccccccccccCCeEEEEECCHHHHHHHHHHC
Confidence            33444557899999999999999999999999           66666664      45899999999999999999 66


Q ss_pred             CCCeecCceEEEeCCCC
Q psy2204         113 DGINFKGQSLKIRRPHD  129 (231)
Q Consensus       113 ng~~l~gr~i~V~~~~~  129 (231)
                      |+ .|.||+|+|+++..
T Consensus        73 ~~-~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          73 NP-IIDGRKANVNLAYL   88 (103)
T ss_dssp             SC-EETTEECEEEESTT
T ss_pred             CC-cCCCEEEEEEEcCC
Confidence            65 79999999997764

>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=99.77  E-value=5e-19  Score=122.94  Aligned_cols=74  Identities=15%  Similarity=0.280  Sum_probs=64.7

Q ss_pred             CCCeEEEcCCCCCCC-HHHHHHHHHHhhhhhhccccCCCCeeeeEec-------CCCcEEEEEecCHHHHHHHHHhCCCe
Q psy2204          45 QARRLYVGNIPFGVT-EDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-------LDKNFAFLEFRSIDETTQAMAFDGIN  116 (231)
Q Consensus        45 ~~r~lfVgNLp~~~t-e~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-------~~kg~aFV~F~~~~~a~~Al~lng~~  116 (231)
                      ..|+|||+|||+++| +++|+++|++||           .|.++++.       +++|||||+|.+.++|.+||+||+..
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G-----------~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~   71 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFG-----------SIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSL   71 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGS-----------CEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhh-----------hccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCE
Confidence            578999999999986 566999999999           66666553       34789999999999999999999999


Q ss_pred             ecCceEEEeCCCC
Q psy2204         117 FKGQSLKIRRPHD  129 (231)
Q Consensus       117 l~gr~i~V~~~~~  129 (231)
                      |.||.|+|.++++
T Consensus        72 ~~gr~l~V~~a~~   84 (86)
T d2ghpa3          72 LGNREISVSLADK   84 (86)
T ss_dssp             ETTEEEEEEECCC
T ss_pred             ECCEEEEEEEcCC
Confidence            9999999998764

>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=99.77  E-value=1.3e-18  Score=123.50  Aligned_cols=76  Identities=17%  Similarity=0.355  Sum_probs=70.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecC--
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKG--  119 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g--  119 (231)
                      ..++++|||+|||+++++++|+++|++||           .|..+++.++++||||+|.+.++|.+|+ .||+..|.|  
T Consensus        14 ~~Ps~tl~V~nLp~~~t~~~l~~~f~~~G-----------~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~   82 (97)
T d1whya_          14 ANPTTRLWVGGLGPNTSLAALAREFDRFG-----------SIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPD   82 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTS-----------CEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSS
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhhc-----------ccceEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCc
Confidence            34578999999999999999999999999           8999999999999999999999999999 999999987  


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      ++|+|.+++.
T Consensus        83 ~~l~v~~ak~   92 (97)
T d1whya_          83 RRLRVDFAKS   92 (97)
T ss_dssp             CBCEEEECCC
T ss_pred             eEEEEEeCCC
Confidence            5799998874

>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=99.77  E-value=6.6e-20  Score=124.88  Aligned_cols=75  Identities=12%  Similarity=0.306  Sum_probs=63.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEeCC
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRP  127 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~~~  127 (231)
                      +|||+|||+++|+++|+++|++||.|.++.     .+.+...+++||||||+|.+.++|.+||++|++.++||.|.|+.+
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~~v~-----i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVKECL-----VMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEE-----EECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcceee-----eecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            799999999999999999999999544332     123333356689999999999999999988999999999999854

>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=99.76  E-value=5.8e-19  Score=119.50  Aligned_cols=69  Identities=16%  Similarity=0.332  Sum_probs=65.3

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCC
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRP  127 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~  127 (231)
                      |||+|||+++++++|+++|++||            +..+++.+.+|||||+|.+.++|.+|+ .|||..+.|++|+|+++
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g------------~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a   68 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE------------LKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQ   68 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc------------ccceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEe
Confidence            79999999999999999999997            677888899999999999999999999 99999999999999987


Q ss_pred             CC
Q psy2204         128 HD  129 (231)
Q Consensus       128 ~~  129 (231)
                      +.
T Consensus        69 ~~   70 (75)
T d1wi6a1          69 PT   70 (75)
T ss_dssp             CS
T ss_pred             CC
Confidence            64

>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=99.76  E-value=6.9e-19  Score=121.83  Aligned_cols=70  Identities=23%  Similarity=0.564  Sum_probs=62.4

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC---------CCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL---------DKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~---------~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      |||+|||+++|+++|+++|++||           .|.++++.+         +||||||+|.+.++|.+|+ .|||..+.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G-----------~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~   69 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVG-----------AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD   69 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTS-----------CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhC-----------CccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            79999999999999999999999           565555532         3689999999999999999 99999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      |+.|.|++++.
T Consensus        70 g~~i~V~~a~~   80 (85)
T d2cpfa1          70 GHKLEVRISER   80 (85)
T ss_dssp             TEECEEECSSC
T ss_pred             CEEEEEEECCC
Confidence            99999998753

>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=99.76  E-value=4.8e-19  Score=122.11  Aligned_cols=79  Identities=16%  Similarity=0.316  Sum_probs=64.7

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCC
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRP  127 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~  127 (231)
                      |||+|||+++|+++|+++|++||.+.+...    .+.+....+++|||||+|.+.++|.+|| .|||..+.||+|+|.++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~----i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a   76 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPK----IMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   76 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCE----ECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEE----EEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEe
Confidence            799999999999999999999995543210    1122233456899999999999999999 99999999999999988


Q ss_pred             CCCC
Q psy2204         128 HDYQ  131 (231)
Q Consensus       128 ~~~~  131 (231)
                      .++.
T Consensus        77 ~~k~   80 (83)
T d1x5ta1          77 FKKD   80 (83)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            7543

>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=99.76  E-value=1.6e-19  Score=129.23  Aligned_cols=74  Identities=20%  Similarity=0.388  Sum_probs=65.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ++.++|||+|||+++|+++|+++|+.||           .|.++++.      ++||||||+|.+.++|.+|+.|||..|
T Consensus        16 ~~~~tifV~nL~~~~te~~l~~~F~~~G-----------~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~   84 (101)
T d2cq4a1          16 RDARTVFCMQLAARIRPRDLEDFFSAVG-----------KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRL   84 (101)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTS-----------CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHcCCC-----------eEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEE
Confidence            4568999999999999999999999999           56666654      457999999999999999999999999


Q ss_pred             cCceEEEeCCC
Q psy2204         118 KGQSLKIRRPH  128 (231)
Q Consensus       118 ~gr~i~V~~~~  128 (231)
                      .|+.|.|++++
T Consensus        85 ~G~~l~V~~a~   95 (101)
T d2cq4a1          85 LGVPIIVQASQ   95 (101)
T ss_dssp             TTEEEEEEEHH
T ss_pred             CCEEEEEEECC
Confidence            99999998653

>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=99.76  E-value=3.8e-19  Score=126.08  Aligned_cols=79  Identities=27%  Similarity=0.455  Sum_probs=68.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      ..+++++|||+|||+++|+++|+++|++||           .|..+ ...++++||||+|.+.++|.+|+ .|||..|.|
T Consensus        12 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~g-----------~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g   80 (96)
T d1fjca_          12 KVRAARTLLAKNLSFNITEDELKEVFEDAL-----------EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             TTTGGGEEEEESCCSSCCHHHHHHHHCSEE-----------EECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcc-----------cceeeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            345678999999999999999999999999           44444 33466899999999999999999 999999999


Q ss_pred             ceEEEeCCCCCC
Q psy2204         120 QSLKIRRPHDYQ  131 (231)
Q Consensus       120 r~i~V~~~~~~~  131 (231)
                      |+|+|.++.++.
T Consensus        81 r~i~V~~a~~k~   92 (96)
T d1fjca_          81 RSVSLYYTGEKG   92 (96)
T ss_dssp             EEEEEEECSSSC
T ss_pred             EEEEEEEeCCCC
Confidence            999999887654

>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=99.76  E-value=1.4e-18  Score=119.77  Aligned_cols=74  Identities=22%  Similarity=0.328  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeec-Cc
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFK-GQ  120 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~-gr  120 (231)
                      .++++|||+|||+++|+++|+++|+.||           .|.++++.++ +|||||+|.+.++|..|+ .|||..+. |+
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~~G-----------~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~   74 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQFP-----------GFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITPTH   74 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTST-----------TEEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSSTTC
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhccCc-----------cEEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCCCc
Confidence            4578999999999999999999999999           8888888664 689999999999999999 99999985 68


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      .|+|.+++
T Consensus        75 ~i~v~~ak   82 (83)
T d2b0ga1          75 AMKITFAK   82 (83)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEEec
Confidence            99999876

>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=99.76  E-value=5.6e-19  Score=122.46  Aligned_cols=72  Identities=26%  Similarity=0.547  Sum_probs=65.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeecC
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFKG  119 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~g  119 (231)
                      .+|||+|||+++|+++|+++|++||           +|.++++.      ++||||||+|.+.++|.+|+ .|||..+.|
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G-----------~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g   70 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFG-----------PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD   70 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSS-----------CEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSS
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcC-----------ccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECC
Confidence            4799999999999999999999999           66666664      44799999999999999999 899999999


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      ++|+|.++..
T Consensus        71 ~~l~V~~A~~   80 (85)
T d2u2fa_          71 KKLLVQRASV   80 (85)
T ss_dssp             SCCEEEECCC
T ss_pred             EEEEEEECCC
Confidence            9999998864

>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=99.76  E-value=5.1e-19  Score=123.44  Aligned_cols=76  Identities=26%  Similarity=0.363  Sum_probs=67.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC-CCcEEEEEecCHHHHHHHHHhCCCeecCceE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL-DKNFAFLEFRSIDETTQAMAFDGINFKGQSL  122 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~-~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i  122 (231)
                      ..+++|||+|||+++|+++|+++|++||           .|.++++.+ .++||||+|.+.++|++||. +++.|.|++|
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G-----------~v~~v~~~~~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l   70 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYG-----------DVMDVFIPKPFRAFAFVTFADDQIAQSLCG-EDLIIKGISV   70 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTS-----------CCCEEECCSSCCSCCEEECSCHHHHHHTTT-CEEEETTEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC-----------CceEEEEeeccCceEEEEECCHHHHHHHHh-CCCEECCEEe
Confidence            4578999999999999999999999999           777777654 48999999999999999995 7889999999


Q ss_pred             EEeCCCCCC
Q psy2204         123 KIRRPHDYQ  131 (231)
Q Consensus       123 ~V~~~~~~~  131 (231)
                      +|.+++++.
T Consensus        71 ~v~~a~~k~   79 (88)
T d1wf0a_          71 HISNAEPKH   79 (88)
T ss_dssp             EEECCCCCC
T ss_pred             EEEeCCCCC
Confidence            999887544

>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=99.76  E-value=2.1e-18  Score=124.68  Aligned_cols=74  Identities=20%  Similarity=0.300  Sum_probs=67.4

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC-CcEEEEEecCHHHHHHHH-HhCCCeecCceE
Q psy2204          46 ARRLYVGNIPF-GVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD-KNFAFLEFRSIDETTQAM-AFDGINFKGQSL  122 (231)
Q Consensus        46 ~r~lfVgNLp~-~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~-kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i  122 (231)
                      +++|||+||++ .+|+++|+++|+.||           .|.++++.++ ||||||+|++.++|.+|+ .|||..|.|+.|
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG-----------~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l   70 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYG-----------DVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPI   70 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHT-----------CEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhcc-----------ccceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            57999999965 599999999999999           8999988766 689999999999999999 999999999999


Q ss_pred             EEeCCCCC
Q psy2204         123 KIRRPHDY  130 (231)
Q Consensus       123 ~V~~~~~~  130 (231)
                      +|.+++..
T Consensus        71 ~v~~s~~~   78 (109)
T d2adca1          71 RITLSKHQ   78 (109)
T ss_dssp             EEECCSCC
T ss_pred             EEEECCCC
Confidence            99988643

>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=99.76  E-value=1.6e-18  Score=120.77  Aligned_cols=78  Identities=21%  Similarity=0.155  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-H--hCCCeec
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-A--FDGINFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~--lng~~l~  118 (231)
                      ...++++|||+|||+++++++|+++|++||           .|.++++.++++||||+|.+.++|.+|+ .  +++..+.
T Consensus         4 ~~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G-----------~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~   72 (88)
T d2cq1a1           4 DGAPSRVLHIRKLPGEVTETEVIALGLPFG-----------KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLR   72 (88)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccc-----------ccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccC
Confidence            346789999999999999999999999999           8999999999999999999999999998 4  4788999


Q ss_pred             CceEEEeCCCCC
Q psy2204         119 GQSLKIRRPHDY  130 (231)
Q Consensus       119 gr~i~V~~~~~~  130 (231)
                      |++|+|.+++..
T Consensus        73 g~~l~v~~sk~~   84 (88)
T d2cq1a1          73 NQPIYIQYSNHK   84 (88)
T ss_dssp             TEECEEEECSCS
T ss_pred             CCEEEEEECCCC
Confidence            999999988643

>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=99.76  E-value=1.5e-18  Score=120.89  Aligned_cols=74  Identities=20%  Similarity=0.404  Sum_probs=65.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeE--ecCCCcEEEEEecCHHHHHHHH-HhCCCee-cCc
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQ--INLDKNFAFLEFRSIDETTQAM-AFDGINF-KGQ  120 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~--~~~~kg~aFV~F~~~~~a~~Al-~lng~~l-~gr  120 (231)
                      ++++|||+|||+++|+++|+++|++||           .+.++.  ..++++||||+|++.++|.+|+ .|||..+ +|+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G-----------~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~   77 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNG-----------GVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENH   77 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTS-----------CCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccC-----------CEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCC
Confidence            467999999999999999999999999           454443  3456899999999999999999 9999988 589


Q ss_pred             eEEEeCCCC
Q psy2204         121 SLKIRRPHD  129 (231)
Q Consensus       121 ~i~V~~~~~  129 (231)
                      .|+|.++++
T Consensus        78 ~l~v~~sk~   86 (88)
T d2adca2          78 HLRVSFSKS   86 (88)
T ss_dssp             BCEEEECSS
T ss_pred             EEEEEeCCC
Confidence            999998874

>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=99.76  E-value=6e-19  Score=122.28  Aligned_cols=74  Identities=26%  Similarity=0.393  Sum_probs=65.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHHHhCCCeecC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAMAFDGINFKG  119 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al~lng~~l~g  119 (231)
                      ..|+|||+|||+++|+++|+++|+.||           .|.++++.     +.||||||+|.+.++|.+||++++..+.|
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~G-----------~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g   73 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDKG-----------QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKE   73 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTSC-----------CEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETT
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHhc-----------ccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECC
Confidence            468999999999999999999999999           66666653     33699999999999999999889999999


Q ss_pred             ceEEEeCCCC
Q psy2204         120 QSLKIRRPHD  129 (231)
Q Consensus       120 r~i~V~~~~~  129 (231)
                      +.|.|.+...
T Consensus        74 ~~l~v~~~~d   83 (85)
T d1zh5a2          74 TDLLILFKDD   83 (85)
T ss_dssp             EECEEEEGGG
T ss_pred             EEEEEEEcCC
Confidence            9999987654

>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=99.75  E-value=9.2e-19  Score=118.51  Aligned_cols=69  Identities=17%  Similarity=0.355  Sum_probs=61.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      +|||||||+++|+++|+++|++||           .|.++++.+      +||||||+|.+.++|.+||+.++..+.|+.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G-----------~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~   69 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFG-----------EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSK   69 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHS-----------CEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhC-----------CcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEE
Confidence            699999999999999999999999           676666644      479999999999999999987889999999


Q ss_pred             EEEeCC
Q psy2204         122 LKIRRP  127 (231)
Q Consensus       122 i~V~~~  127 (231)
                      |.|+.+
T Consensus        70 i~vk~A   75 (75)
T d1x0fa1          70 CEIKVA   75 (75)
T ss_dssp             CEEECC
T ss_pred             eEEEEC
Confidence            998753

>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=99.75  E-value=8.3e-19  Score=121.54  Aligned_cols=72  Identities=21%  Similarity=0.452  Sum_probs=62.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..++|||+|||+++|+++|+++|++||           .|.++++.      ++||||||+|.+.++|.+|+ .|||..+
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G-----------~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~   73 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYG-----------RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKP   73 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhC-----------CccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEe
Confidence            456899999999999999999999999           66666664      34689999999999999999 9999999


Q ss_pred             cCc--eEEEeCC
Q psy2204         118 KGQ--SLKIRRP  127 (231)
Q Consensus       118 ~gr--~i~V~~~  127 (231)
                      .|+  +|+|+++
T Consensus        74 ~G~~~~i~V~~A   85 (85)
T d1fxla2          74 SGATEPITVKFA   85 (85)
T ss_dssp             TTCSSCCEEEEC
T ss_pred             CCCCEEEEEEeC
Confidence            984  5888764

>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=99.75  E-value=2.6e-18  Score=120.31  Aligned_cols=76  Identities=24%  Similarity=0.429  Sum_probs=64.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe------cCCCcEEEEEecCHHHHHHHHHhCCCee
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI------NLDKNFAFLEFRSIDETTQAMAFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~------~~~kg~aFV~F~~~~~a~~Al~lng~~l  117 (231)
                      ..+++|||+|||+++|+++|+++|++||           .|.++++      +++||||||+|.+.++|.+||+ +...|
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G-----------~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~~~l   73 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFG-----------EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMI   73 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGS-----------CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEE
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhc-----------ccceeeeccCCCCcccCCEEEEEECCHHHHHHHHh-cCCcc
Confidence            4567899999999999999999999999           5666555      4447999999999999999994 34589


Q ss_pred             cCceEEEeCCCCCC
Q psy2204         118 KGQSLKIRRPHDYQ  131 (231)
Q Consensus       118 ~gr~i~V~~~~~~~  131 (231)
                      +||.|.|+++.++.
T Consensus        74 ~Gr~i~v~~a~~k~   87 (90)
T d2cqga1          74 DGRWCDCKLPNSKQ   87 (90)
T ss_dssp             TTEEEEEECCCTTC
T ss_pred             CCEEeEEEeCCCCC
Confidence            99999999887543

>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=99.75  E-value=2.2e-19  Score=128.49  Aligned_cols=78  Identities=17%  Similarity=0.332  Sum_probs=66.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEe-----cCCCcEEEEEecCHHHHHHHH-HhC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQI-----NLDKNFAFLEFRSIDETTQAM-AFD  113 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~-----~~~kg~aFV~F~~~~~a~~Al-~ln  113 (231)
                      ...+.+.++|||+|||+++|+++|+++|++||           .|.++.+     .+++|||||+|.+.++|.+|| .||
T Consensus        12 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G-----------~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~ln   80 (101)
T d1x5oa1          12 KQQEQDPTNLYISNLPLSMDEQELENMLKPFG-----------QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN   80 (101)
T ss_dssp             SCCCCCTTEEEEESCCTTCCHHHHHHTTTTTS-----------CEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHB
T ss_pred             ccccCCCCEEEEeCCCCCCCHHHHHHHHhhcc-----------cccceeeecccccccccceeEEeCCHHHHHHHHHHhC
Confidence            34455678999999999999999999999999           4544443     344789999999999999999 999


Q ss_pred             CCeecCceEEEeCCC
Q psy2204         114 GINFKGQSLKIRRPH  128 (231)
Q Consensus       114 g~~l~gr~i~V~~~~  128 (231)
                      |..|.||++.|...+
T Consensus        81 g~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          81 GKFIKTPPGVSAPTE   95 (101)
T ss_dssp             TCCCCCCTTSCCCSS
T ss_pred             CCEECCcCCccCCCC
Confidence            999999998886544

>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=99.75  E-value=1.2e-18  Score=120.73  Aligned_cols=73  Identities=25%  Similarity=0.453  Sum_probs=64.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecC------CCcEEEEEecCHHHHHHHH-HhCCCe
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL------DKNFAFLEFRSIDETTQAM-AFDGIN  116 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~------~kg~aFV~F~~~~~a~~Al-~lng~~  116 (231)
                      ...++|||+|||+++++++|+++|++||           .|.++++.+      +||||||+|.+.++|.+|| .|||..
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~G-----------~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~   72 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKYG-----------SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI   72 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSS-----------CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhC-----------CEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCE
Confidence            3567899999999999999999999999           666666643      3689999999999999999 999999


Q ss_pred             ecC--ceEEEeCC
Q psy2204         117 FKG--QSLKIRRP  127 (231)
Q Consensus       117 l~g--r~i~V~~~  127 (231)
                      +.|  ++|+|+++
T Consensus        73 ~~g~~~~l~V~~A   85 (85)
T d1b7fa2          73 PEGGSQPLSVRLA   85 (85)
T ss_dssp             CTTCSSCCEEEEC
T ss_pred             eCCCCeEEEEEEC
Confidence            987  88999864

>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=99.74  E-value=1e-18  Score=124.32  Aligned_cols=74  Identities=23%  Similarity=0.474  Sum_probs=66.3

Q ss_pred             CCCCeEEEcCCC-CCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          44 RQARRLYVGNIP-FGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        44 ~~~r~lfVgNLp-~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      ...++|||+||+ ..+++++|+++|++||           .|.++++.  ||||||+|.+.++|.+|| .|||..|.|+.
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G-----------~i~~~~i~--rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~   79 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYG-----------KIVGCSVH--KGFAFVQYVNERNARAAVAGEDGRMIAGQV   79 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSS-----------CEEEEEEE--TEEEEEEESSHHHHHHHHHTTTTCEETTEE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcC-----------CEEEEEEe--CCeEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            445689999997 5788999999999999           88888884  799999999999999999 99999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.+++..
T Consensus        80 l~V~~a~~~   88 (98)
T d1wf2a_          80 LDINLAAEP   88 (98)
T ss_dssp             CEEEETTSC
T ss_pred             EEEEECCCC
Confidence            999988643

>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=99.74  E-value=6.5e-19  Score=122.61  Aligned_cols=70  Identities=14%  Similarity=0.218  Sum_probs=64.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEEe
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIR  125 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~  125 (231)
                      ++|||+|||+++|+++|+++|++||           .|.++++.+ +|||||+|.+.++|.+|| .|||..|.|+.|+|.
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G-----------~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~   68 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAG-----------DVCYADVYR-DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETA   68 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGS-----------CEEEEEECT-TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCC
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhc-----------ccccccccc-cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEe
Confidence            4799999999999999999999999           888888765 599999999999999999 999999999999887


Q ss_pred             CCC
Q psy2204         126 RPH  128 (231)
Q Consensus       126 ~~~  128 (231)
                      +.+
T Consensus        69 ~~~   71 (87)
T d3begb1          69 YIR   71 (87)
T ss_dssp             BCE
T ss_pred             EEe
Confidence            654

>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=99.74  E-value=1.8e-18  Score=117.05  Aligned_cols=69  Identities=16%  Similarity=0.286  Sum_probs=62.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC----CcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          48 RLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD----KNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        48 ~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~----kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      +|||+|||+++++++|+++|+.||           .|.++++.++    ++||||+|.+.++|.+||.+|++.|+|++|.
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G-----------~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~   70 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCG-----------PIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEII   70 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECE
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCC-----------ceEEEEEEeeccccceEEEEEEcchHHhHHHHHhcCcEECCEEEE
Confidence            799999999999999999999999           7777777544    5799999999999999999999999999999


Q ss_pred             EeCC
Q psy2204         124 IRRP  127 (231)
Q Consensus       124 V~~~  127 (231)
                      |.+.
T Consensus        71 V~~~   74 (75)
T d2ghpa2          71 VSHL   74 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9854

>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=99.74  E-value=1.8e-18  Score=122.98  Aligned_cols=78  Identities=12%  Similarity=0.209  Sum_probs=69.5

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      +...+..++|||+|||+++++++|+++|++||           .|+++++.+ +|||||+|.+.++|.+|| .|||..|.
T Consensus         9 p~~~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G-----------~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~lng~~~~   76 (98)
T d1wg4a_           9 PPTRRSDFRVLVSGLPPSGSWQDLKDHMREAG-----------DVCYADVQK-DGMGMVEYLRKEDMEYALRKLDDTKFR   76 (98)
T ss_dssp             CCCCSCSCEEEEECCCSSCCHHHHHHHHTTSS-----------CEEEEEEET-TTEEEEEESSHHHHHHHHHHHSSEEEE
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhhc-----------ccccccccc-cceEEEEECCHHHHHHHHHHhCCCEeC
Confidence            34456678999999999999999999999999           788888764 699999999999999999 99999999


Q ss_pred             CceEEEeCCCC
Q psy2204         119 GQSLKIRRPHD  129 (231)
Q Consensus       119 gr~i~V~~~~~  129 (231)
                      |+.|+|.+.+.
T Consensus        77 g~~i~v~~~~~   87 (98)
T d1wg4a_          77 SHEGETSYIRV   87 (98)
T ss_dssp             CTTSCEEEEEE
T ss_pred             CeEEEEEEEec
Confidence            99999987653

>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=99.74  E-value=2.8e-18  Score=120.29  Aligned_cols=76  Identities=20%  Similarity=0.430  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHH----HHHHhhhhhhccccCCCCeeeeEecC---CCcEEEEEecCHHHHHHHH-HhCCC
Q psy2204          44 RQARRLYVGNIPFGVTEDEMME----FFNQQMHLSGLAQAAGNPVLACQINL---DKNFAFLEFRSIDETTQAM-AFDGI  115 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~----~F~~~G~~~~~~~~~~~~i~~~~~~~---~kg~aFV~F~~~~~a~~Al-~lng~  115 (231)
                      +++++|||+|||+++++++|++    +|++||           .|.++++.+   .+|||||+|.+.++|.+|+ .+||.
T Consensus         1 ~P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G-----------~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~   69 (91)
T d1nu4a_           1 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFG-----------QILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGF   69 (91)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGS-----------CEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhcccc-----------cccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCC
Confidence            4678999999999999999865    578888           677777643   4899999999999999999 99999


Q ss_pred             eecCceEEEeCCCCC
Q psy2204         116 NFKGQSLKIRRPHDY  130 (231)
Q Consensus       116 ~l~gr~i~V~~~~~~  130 (231)
                      .+.|+.|.|.+++..
T Consensus        70 ~~~g~~l~v~~ak~~   84 (91)
T d1nu4a_          70 PFYDKPMRIQYAKTD   84 (91)
T ss_dssp             EETTEECEEEECSSC
T ss_pred             EECCEEEEEEEeCCC
Confidence            999999999988753

>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=99.73  E-value=1.6e-17  Score=119.30  Aligned_cols=77  Identities=16%  Similarity=0.128  Sum_probs=70.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh--CCCeecC
Q psy2204          43 TRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF--DGINFKG  119 (231)
Q Consensus        43 ~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l--ng~~l~g  119 (231)
                      ..++++|||+|||+++|+++|+++|+.||           .|..+++.++|+||||+|.+.++|.+|+ .+  ++..+.|
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG-----------~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g   80 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFG-----------TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAG   80 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTS-----------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcc-----------cceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEee
Confidence            34688999999999999999999999999           8999999999999999999999999999 66  6677889


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      ++|+|.+++..
T Consensus        81 ~~l~v~~s~~~   91 (104)
T d1wexa_          81 QQAFFNYSTSK   91 (104)
T ss_dssp             SBCEEEECSSS
T ss_pred             EEEEEEEcCCC
Confidence            99999988653

>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=99.73  E-value=7e-18  Score=121.04  Aligned_cols=81  Identities=21%  Similarity=0.401  Sum_probs=64.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeee-EecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLAC-QINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~-~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      +.++|||+|||+++|+++|+++|+.|| +.++.     .+.+. ...+.+|||||+|.+.++|++|+.||+..|.||.|+
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~-----~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~   87 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR-----LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIR   87 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEE-----CCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-cccce-----eeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEE
Confidence            457999999999999999999999998 22211     11111 123457999999999999988789999999999999


Q ss_pred             EeCCCCCC
Q psy2204         124 IRRPHDYQ  131 (231)
Q Consensus       124 V~~~~~~~  131 (231)
                      |.++....
T Consensus        88 V~~a~~~~   95 (104)
T d1wi8a_          88 VDVADQAQ   95 (104)
T ss_dssp             EEECCCCC
T ss_pred             EEECCCCC
Confidence            99876543

>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=99.72  E-value=3.3e-18  Score=121.88  Aligned_cols=80  Identities=14%  Similarity=0.284  Sum_probs=71.8

Q ss_pred             CCCCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH---HhCCCe
Q psy2204          41 TITRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM---AFDGIN  116 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al---~lng~~  116 (231)
                      .....+++|||+|||.+ +|+++|+++|+.||           .|.++.+.++||||||+|.+.++|.+|+   .+++..
T Consensus        13 ~~~~~~~~l~v~nLp~~~~te~~l~~~F~~fG-----------~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~   81 (99)
T d1x4fa1          13 QKQELGRVIHLSNLPHSGYSDSAVLKLAEPYG-----------KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALW   81 (99)
T ss_dssp             CSSCCCCEEEEESCCCSSCCSHHHHTTTTTTS-----------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             cCCCCCCEEEEeCCcCCccCHHHHHhhhcccc-----------ceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCce
Confidence            34467789999999985 89999999999999           8999999999999999999999999998   478999


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      ++|+.|+|.+++.+.
T Consensus        82 ~~gr~l~V~~s~~~~   96 (99)
T d1x4fa1          82 FQGRCVKVDLSEKYK   96 (99)
T ss_dssp             SSSSCCEEEEECSCS
T ss_pred             ECCEEEEEEEcCCcc
Confidence            999999999886543

>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=99.72  E-value=4.1e-18  Score=118.08  Aligned_cols=76  Identities=24%  Similarity=0.350  Sum_probs=64.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeecCceEEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      ...|||+|||+++++++|+++|+.||.+....     .+......+++|||||+|.+.++|.+|| .||+..+.||+|+|
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~-----~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v   83 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSV-----CLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL   83 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTC-----EEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEE-----EEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEE
Confidence            34699999999999999999999999655422     2334444566899999999999999999 99999999999999


Q ss_pred             eC
Q psy2204         125 RR  126 (231)
Q Consensus       125 ~~  126 (231)
                      ..
T Consensus        84 ~l   85 (86)
T d2cqpa1          84 VL   85 (86)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.71  E-value=3.1e-18  Score=119.67  Aligned_cols=70  Identities=17%  Similarity=0.328  Sum_probs=62.3

Q ss_pred             CCCeEEEcCCCCCCCHHHH---HHHHHHhhhhhhccccCCCCeeeeEecCC---------CcEEEEEecCHHHHHHHH-H
Q psy2204          45 QARRLYVGNIPFGVTEDEM---MEFFNQQMHLSGLAQAAGNPVLACQINLD---------KNFAFLEFRSIDETTQAM-A  111 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L---~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---------kg~aFV~F~~~~~a~~Al-~  111 (231)
                      ..++|||+|||+++++++|   +++|++||           .|.++.+.++         +|||||+|.+.++|.+|+ .
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G-----------~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~   75 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFG-----------KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQC   75 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTS-----------CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHH
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccC-----------CceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHH
Confidence            4578999999999999999   77899999           7777776543         389999999999999999 9


Q ss_pred             hCCCeecCceEEEe
Q psy2204         112 FDGINFKGQSLKIR  125 (231)
Q Consensus       112 lng~~l~gr~i~V~  125 (231)
                      |||..|+||.|+|.
T Consensus        76 lng~~~~gr~lkvS   89 (89)
T d2cpia1          76 VNNVVVDGRTLKAS   89 (89)
T ss_dssp             HTTEEETTEEEEEE
T ss_pred             hCCCEECCEEEEEC
Confidence            99999999999984

>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=99.70  E-value=7.1e-18  Score=121.10  Aligned_cols=82  Identities=15%  Similarity=0.212  Sum_probs=65.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      .....|||+|||+++|+++|+++|+.+|.+...+     .+......+.+|||||+|.+.++|.+|+++|+..|.||.|+
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v-----~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~   87 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGM-----TLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIE   87 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEE-----ECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEE-----EEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEE
Confidence            3455899999999999999999999999433221     12222334457999999999999999999999999999999


Q ss_pred             EeCCCCC
Q psy2204         124 IRRPHDY  130 (231)
Q Consensus       124 V~~~~~~  130 (231)
                      |..++..
T Consensus        88 V~~~~~~   94 (104)
T d1wg5a_          88 IFKSSRA   94 (104)
T ss_dssp             EEEECTT
T ss_pred             EEECCHH
Confidence            9977644

>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=99.70  E-value=1.6e-17  Score=115.97  Aligned_cols=79  Identities=13%  Similarity=0.194  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCCC-CCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-Hh--CCCee
Q psy2204          42 ITRQARRLYVGNIPFG-VTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AF--DGINF  117 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~-~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~l--ng~~l  117 (231)
                      ..+.+|+|||+|||.. +|++||+++|+.||           .|.++++.++++||||+|++.++|.+|+ .+  ++..+
T Consensus         4 ~~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG-----------~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~   72 (89)
T d1x4da1           4 RVETRRVVHIMDFQRGKNLRYQLLQLVEPFG-----------VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALV   72 (89)
T ss_dssp             CCCCCCEEEEESCCCSSSHHHHHHTTTGGGS-----------CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCCCcEEEEECCCCCcCCHHHHHHHHHhhC-----------CeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCcc
Confidence            3467899999999986 78999999999999           8999999999999999999999999999 54  78899


Q ss_pred             cCceEEEeCCCCCC
Q psy2204         118 KGQSLKIRRPHDYQ  131 (231)
Q Consensus       118 ~gr~i~V~~~~~~~  131 (231)
                      .||+|+|.+++.+.
T Consensus        73 ~gr~l~V~~s~~~~   86 (89)
T d1x4da1          73 FGKPVRVHLSQKYK   86 (89)
T ss_dssp             TTEECEEEEECCCT
T ss_pred             CCceEEEEECCCcc
Confidence            99999999987543

>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=99.69  E-value=9e-18  Score=120.27  Aligned_cols=80  Identities=15%  Similarity=0.221  Sum_probs=66.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEE
Q psy2204          44 RQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLK  123 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~  123 (231)
                      ....+|||+|||+++|+++|+++|+.||.+....     .+.....++++|||||+|.+.++|.+||.+|+..|.||.|.
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~-----~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~   80 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAV-----HVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAF   80 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTE-----EECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEEE-----EEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEE
Confidence            4457899999999999999999999999544321     22233345668999999999999999999999999999999


Q ss_pred             EeCCC
Q psy2204         124 IRRPH  128 (231)
Q Consensus       124 V~~~~  128 (231)
                      |....
T Consensus        81 V~~~~   85 (103)
T d2cpya1          81 VHVVT   85 (103)
T ss_dssp             EEEEC
T ss_pred             EEECC
Confidence            98653

>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=99.68  E-value=3.8e-17  Score=117.98  Aligned_cols=75  Identities=23%  Similarity=0.229  Sum_probs=65.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec--CCCcEEEEEecCHHHHHHHH-HhCCCee--cC
Q psy2204          45 QARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN--LDKNFAFLEFRSIDETTQAM-AFDGINF--KG  119 (231)
Q Consensus        45 ~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~--~~kg~aFV~F~~~~~a~~Al-~lng~~l--~g  119 (231)
                      +..+|||+|||+++|+++|+++|++||           .|.++.+.  +++|||||+|++.++|.+|| .|||..|  .+
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G-----------~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~   74 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFG-----------TVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNAC   74 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTS-----------CEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTC
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCC-----------cEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCC
Confidence            456899999999999999999999999           67666663  45799999999999999999 9999998  47


Q ss_pred             ceEEEeCCCCC
Q psy2204         120 QSLKIRRPHDY  130 (231)
Q Consensus       120 r~i~V~~~~~~  130 (231)
                      ++|+|.+++..
T Consensus        75 ~~l~v~~s~~~   85 (108)
T d2adba1          75 CTLRIDFSKLT   85 (108)
T ss_dssp             CCCEEEECSSC
T ss_pred             cEEEEEecCCc
Confidence            78999887653

>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=99.68  E-value=1.2e-16  Score=112.87  Aligned_cols=75  Identities=23%  Similarity=0.360  Sum_probs=62.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-------CCCcEEEEEecCHHHHHHHH-HhCC--Ce
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-------LDKNFAFLEFRSIDETTQAM-AFDG--IN  116 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-------~~kg~aFV~F~~~~~a~~Al-~lng--~~  116 (231)
                      .+|||||||.++|+++|+++|++||.          .|.++++.       +++|||||+|.+.++|.+|+ .|++  ..
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~----------~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~   71 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTE----------GVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQ   71 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHST----------TEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSC
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCC----------cceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeE
Confidence            47999999999999999999999992          25555553       45799999999999999999 8864  45


Q ss_pred             ecCceEEEeCCCCCC
Q psy2204         117 FKGQSLKIRRPHDYQ  131 (231)
Q Consensus       117 l~gr~i~V~~~~~~~  131 (231)
                      +.|+.|+|.++++..
T Consensus        72 ~~g~~i~V~~A~p~~   86 (96)
T d2disa1          72 LWGHQIAVDWAEPEI   86 (96)
T ss_dssp             BTTBCCEEEESCSSC
T ss_pred             ECCEEEEEEEcCCCC
Confidence            679999999997644

>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=99.67  E-value=6.8e-18  Score=113.06  Aligned_cols=64  Identities=19%  Similarity=0.372  Sum_probs=57.3

Q ss_pred             EEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHH-HhCCCeecCce
Q psy2204          49 LYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAM-AFDGINFKGQS  121 (231)
Q Consensus        49 lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr~  121 (231)
                      |||+|||+++|+++|+++|++||           .|.++++.      +++|||||+|.+.++|.+|+ .|||..+.||.
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G-----------~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~   69 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYG-----------KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQM   69 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTS-----------CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEES
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhc-----------cccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            79999999999999999999999           56665553      34799999999999999999 99999999997


Q ss_pred             EE
Q psy2204         122 LK  123 (231)
Q Consensus       122 i~  123 (231)
                      |+
T Consensus        70 ~k   71 (72)
T d1x4ea1          70 AK   71 (72)
T ss_dssp             CC
T ss_pred             Cc
Confidence            64

>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=99.67  E-value=1.4e-17  Score=119.06  Aligned_cols=82  Identities=16%  Similarity=0.209  Sum_probs=64.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce
Q psy2204          42 ITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS  121 (231)
Q Consensus        42 ~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~  121 (231)
                      ......+|||+|||+++|+++|+++|..||.+ .+      .+......+.+|||||+|.+.++|.+|+++|+..|.||.
T Consensus        11 ~~~~~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v------~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~   83 (102)
T d1weza_          11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNPM-RV------HIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRY   83 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EE------EEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSC
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHhccCcc-ee------eeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEE
Confidence            33456799999999999999999999998721 11      111112233479999999999999999999999999999


Q ss_pred             EEEeCCCCC
Q psy2204         122 LKIRRPHDY  130 (231)
Q Consensus       122 i~V~~~~~~  130 (231)
                      |+|.++...
T Consensus        84 I~V~~s~~~   92 (102)
T d1weza_          84 VELFLNSTA   92 (102)
T ss_dssp             CEEEEECCC
T ss_pred             EEEEEcCCC
Confidence            999977643

>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=99.67  E-value=2.5e-17  Score=118.27  Aligned_cols=77  Identities=12%  Similarity=0.065  Sum_probs=69.1

Q ss_pred             CCCCeEEEcCCCCCC-C----HHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          44 RQARRLYVGNIPFGV-T----EDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        44 ~~~r~lfVgNLp~~~-t----e~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      ..+.+|||+||+.++ +    +++|+++|+.||           .|+++++.++++||||+|.+.++|.+|+ .|||..|
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G-----------~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~lng~~~   71 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYD-----------KDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEF   71 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC-----------SSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccc-----------cceEEEEecCCCEEEEEECCHHHHHHHHHHhccccc
Confidence            456799999999876 3    357999999999           8999999999999999999999999999 9999999


Q ss_pred             cCceEEEeCCCCCC
Q psy2204         118 KGQSLKIRRPHDYQ  131 (231)
Q Consensus       118 ~gr~i~V~~~~~~~  131 (231)
                      .|++|+|.+++...
T Consensus        72 ~g~~l~v~~a~~~~   85 (104)
T d1weya_          72 LGKEMKLYFAQTLH   85 (104)
T ss_dssp             TTEECEEECCCCSS
T ss_pred             CCCEeEEeecccCC
Confidence            99999999887543

>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=99.66  E-value=1.6e-17  Score=120.87  Aligned_cols=83  Identities=12%  Similarity=0.203  Sum_probs=67.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCc
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQ  120 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr  120 (231)
                      ......++|||+|||+++|+++|+++|+.||.+....     .+.....++.+|||||+|.+.++|.+|+.+|+..|.||
T Consensus        13 ~~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~-----~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR   87 (112)
T d1wela1          13 SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSI-----YIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNR   87 (112)
T ss_dssp             SCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTC-----EEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTS
T ss_pred             CCCCCCeEEEEecCCCcCcHHHHhhHHhhccccccce-----eeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCE
Confidence            3445677999999999999999999999999554321     22333345568999999999999999999999999999


Q ss_pred             eEEEeCCC
Q psy2204         121 SLKIRRPH  128 (231)
Q Consensus       121 ~i~V~~~~  128 (231)
                      .|.|..+.
T Consensus        88 ~i~V~~~~   95 (112)
T d1wela1          88 FIQVHPIT   95 (112)
T ss_dssp             CBEEEEEC
T ss_pred             EEEEEEcC
Confidence            99998553

>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=99.62  E-value=8.5e-16  Score=109.51  Aligned_cols=66  Identities=20%  Similarity=0.386  Sum_probs=60.7

Q ss_pred             CCCCCCeEEEcC--CCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH-HhCCCeec
Q psy2204          42 ITRQARRLYVGN--IPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM-AFDGINFK  118 (231)
Q Consensus        42 ~~~~~r~lfVgN--Lp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al-~lng~~l~  118 (231)
                      .+.++++|||+|  ||+++|+++|+++|++||           .|.++++.++|+||||+|.+.++|.+|+ .|||..+.
T Consensus        14 ~~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G-----------~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i~   82 (101)
T d2cq2a1          14 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCG-----------LVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (101)
T ss_dssp             CSSCCSEEEEETCTGGGTCCHHHHHHHHHHHS-----------CEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCCCCceEEEECCCCCCCCCHHHHHHHHHhhC-----------cccEEeeccCccEEEEEECCHHHHHHHHHHhCCCCCC
Confidence            345678999955  999999999999999999           8999999999999999999999999999 99999873

>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=99.55  E-value=7e-15  Score=114.77  Aligned_cols=79  Identities=18%  Similarity=0.348  Sum_probs=68.3

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec------CCCcEEEEEecCHHHHHHHHHhC
Q psy2204          40 STITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN------LDKNFAFLEFRSIDETTQAMAFD  113 (231)
Q Consensus        40 ~~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~------~~kg~aFV~F~~~~~a~~Al~ln  113 (231)
                      .......++|||+|||+++|+++|+++|+.||           .|..+.+.      +++|||||+|.+.++|.+||+++
T Consensus        91 ~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G-----------~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~~  159 (183)
T d1u1qa_          91 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYG-----------KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK  159 (183)
T ss_dssp             TTTTCCCSEEEEECCCTTCCHHHHHHHHGGGS-----------CEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTSS
T ss_pred             cccccccceeEEccCCCcCCHHHHhhhhccCC-----------ceeeeeeecccccCccceeEEEEECCHHHHHHHHHhC
Confidence            34556778999999999999999999999999           56666553      34689999999999999999889


Q ss_pred             CCeecCceEEEeCCCC
Q psy2204         114 GINFKGQSLKIRRPHD  129 (231)
Q Consensus       114 g~~l~gr~i~V~~~~~  129 (231)
                      +..+.|+.|+|.++.+
T Consensus       160 ~~~~~G~~i~V~~A~~  175 (183)
T d1u1qa_         160 YHTVNGHNCEVRKALS  175 (183)
T ss_dssp             CEEETTEEEEEEECCC
T ss_pred             CCeECCEEEEEEecCC
Confidence            9999999999997754

>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=99.54  E-value=6.2e-15  Score=100.69  Aligned_cols=71  Identities=15%  Similarity=0.148  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCce-EEE
Q psy2204          46 ARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQS-LKI  124 (231)
Q Consensus        46 ~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~-i~V  124 (231)
                      .+.|||+++|++++++.| ++|++||           .|.++++.++++||||+|.+.++|.+||.+||..|.|+. |.|
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G-----------~I~~~~~~~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV   71 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYG-----------NILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGV   71 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTS-----------CEEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEE
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhh-----------hhheEEecCCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEE
Confidence            457999999999986555 5899999           899999999999999999999999999999999999985 567


Q ss_pred             eCCC
Q psy2204         125 RRPH  128 (231)
Q Consensus       125 ~~~~  128 (231)
                      ....
T Consensus        72 ~~~~   75 (81)
T d1wwha1          72 KPCI   75 (81)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            7554

>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=99.53  E-value=3e-15  Score=108.71  Aligned_cols=69  Identities=7%  Similarity=0.085  Sum_probs=62.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCH-HHHHHHH-HhCCCeecCceEEE
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSI-DETTQAM-AFDGINFKGQSLKI  124 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~-~~a~~Al-~lng~~l~gr~i~V  124 (231)
                      ..+||||||+++|+++|+++|++||           .|.++++.+++|||||.|.+. ++|..|+ .+|+..+.++.+.|
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG-----------~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v   80 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHG-----------EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEV   80 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSC-----------CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSE
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcC-----------ChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceEE
Confidence            4569999999999999999999999           899999999999999999985 7888899 99999988776666


Q ss_pred             eC
Q psy2204         125 RR  126 (231)
Q Consensus       125 ~~  126 (231)
                      .+
T Consensus        81 ~~   82 (113)
T d1owxa_          81 TW   82 (113)
T ss_dssp             EE
T ss_pred             EE
Confidence            53

>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=99.47  E-value=4.7e-14  Score=99.92  Aligned_cols=81  Identities=16%  Similarity=0.249  Sum_probs=66.3

Q ss_pred             CCCCCCCCCeEEEcCC--CCCC---------CHHHHHHHHHHhhhhhhccccCCCCeeeeEecC--CCcEEEEEecCHHH
Q psy2204          39 GSTITRQARRLYVGNI--PFGV---------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINL--DKNFAFLEFRSIDE  105 (231)
Q Consensus        39 ~~~~~~~~r~lfVgNL--p~~~---------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~--~kg~aFV~F~~~~~  105 (231)
                      +|...+.+|+|+|.||  |.++         .+++|++.|++||           .|.++++..  .+||+||+|++.++
T Consensus         1 gp~~~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G-----------~V~~v~~~~~~~~G~~fV~f~~~e~   69 (99)
T d2dita1           1 GPSRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG-----------QIRKLLLFDRHPDGVASVSFRDPEE   69 (99)
T ss_dssp             CCCCCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS-----------CCSEEEEETTCTTCEEEEECSCHHH
T ss_pred             CCCCCCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcc-----------cEEEEeccCCCCccEEEEEECCHHH
Confidence            3556688999999999  5432         1367888999999           676666644  47999999999999


Q ss_pred             HHHHH-HhCCCeecCceEEEeCCCCC
Q psy2204         106 TTQAM-AFDGINFKGQSLKIRRPHDY  130 (231)
Q Consensus       106 a~~Al-~lng~~l~gr~i~V~~~~~~  130 (231)
                      |.+|+ .|||..|.||.|.|.+..+.
T Consensus        70 A~~A~~~lng~~~~gr~i~v~~~~g~   95 (99)
T d2dita1          70 ADYCIQTLDGRWFGGRQITAQAWDGT   95 (99)
T ss_dssp             HHHHHHHSTTCEETTEECEEEECCSC
T ss_pred             HHHHHHHhCCcEECCEEEEEEEeCCc
Confidence            99999 99999999999999976543

>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=99.41  E-value=9.7e-15  Score=104.45  Aligned_cols=70  Identities=13%  Similarity=0.134  Sum_probs=62.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEec-----CCCcEEEEEecCHHHHHHHH-HhCCCeecCc
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQIN-----LDKNFAFLEFRSIDETTQAM-AFDGINFKGQ  120 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~-----~~kg~aFV~F~~~~~a~~Al-~lng~~l~gr  120 (231)
                      ..++|+++..+++|++|+++|++||           .|.++++.     +.||||||+|.+.++|.+|+ .|||..|.||
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G-----------~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr   96 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYG-----------EVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQ   96 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTC-----------CEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCC-----------CEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCE
Confidence            3588999999999999999999999           67776664     44799999999999999999 9999999999


Q ss_pred             eEEEeCC
Q psy2204         121 SLKIRRP  127 (231)
Q Consensus       121 ~i~V~~~  127 (231)
                      +|+|.+.
T Consensus        97 ~i~v~~s  103 (104)
T d1jmta_          97 PIHAELS  103 (104)
T ss_dssp             ECCEEEC
T ss_pred             EEEEEEC
Confidence            9999753

>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=99.23  E-value=3.8e-12  Score=90.63  Aligned_cols=74  Identities=18%  Similarity=0.217  Sum_probs=61.8

Q ss_pred             CCCCeEEEcCC--CCCC--------CHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--------CcEEEEEecCHHH
Q psy2204          44 RQARRLYVGNI--PFGV--------TEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--------KNFAFLEFRSIDE  105 (231)
Q Consensus        44 ~~~r~lfVgNL--p~~~--------te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--------kg~aFV~F~~~~~  105 (231)
                      .+++.|.+.||  +.++        ..++|++.|++||           .|.++.+.++        +|++||+|.+.++
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G-----------~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~   70 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG-----------LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFD   70 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTS-----------CEEEEECCCCTTSSSCTTCCEEEEEESCHHH
T ss_pred             CCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccC-----------ceEEEEEeecCCCCccCCceEEEEEECCHHH
Confidence            35789999999  4443        2357899999999           7888777543        4899999999999


Q ss_pred             HHHHH-HhCCCeecCceEEEeCCC
Q psy2204         106 TTQAM-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus       106 a~~Al-~lng~~l~gr~i~V~~~~  128 (231)
                      |.+|+ .|||..+.||.|.+.+..
T Consensus        71 A~~A~~~l~Gr~f~gR~v~v~f~~   94 (104)
T d1o0pa_          71 CQKAMQGLTGRKFANRVVVTKYCD   94 (104)
T ss_dssp             HHHHHHHHSSCCSSSSCCEEEEEC
T ss_pred             HHHHHHHHCCCEECCeEEEEEEcC
Confidence            99999 999999999999998653

>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=98.62  E-value=2.5e-08  Score=66.97  Aligned_cols=40  Identities=30%  Similarity=0.491  Sum_probs=37.3

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||.++|++                                         +|++.|||..+.|+.|+|++|.+
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            3689999999999999                                         89999999999999999999987


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      |
T Consensus        82 g   82 (82)
T d1b7fa1          82 G   82 (82)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=98.54  E-value=6.3e-08  Score=67.00  Aligned_cols=45  Identities=9%  Similarity=0.209  Sum_probs=40.2

Q ss_pred             CCCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         155 DSPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      +..++|||+|||+++|++                                    +|++.|||..|.|+.|+|.||.++..
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k~~   93 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCCCC
Confidence            345899999999999999                                    99999999999999999999997654


Q ss_pred             c
Q psy2204         199 N  199 (231)
Q Consensus       199 ~  199 (231)
                      +
T Consensus        94 ~   94 (96)
T d1fjca_          94 T   94 (96)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=98.53  E-value=9.7e-08  Score=65.67  Aligned_cols=44  Identities=18%  Similarity=0.400  Sum_probs=39.8

Q ss_pred             CCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ..+++|||+|||++++++                                       +|+..|||..|.|+.|+|++|.+
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~   88 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   88 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCc
Confidence            346899999999999999                                       89999999999999999999987


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      +..
T Consensus        89 r~~   91 (93)
T d2cq3a1          89 RVM   91 (93)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            644

>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=98.49  E-value=8.4e-08  Score=64.20  Aligned_cols=38  Identities=29%  Similarity=0.499  Sum_probs=35.9

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      ++|||+|||.+++++                                         .|++.|||..+.|+.|+|++|.|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            579999999999999                                         89999999999999999999975

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=9.9e-08  Score=63.76  Aligned_cols=41  Identities=29%  Similarity=0.425  Sum_probs=37.0

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------HHHHHhCCC-eeCCeEEEEEEeecCcc
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------QAIAGLNGM-QLGDKKLIVQRASVGAK  198 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~-~i~gr~l~V~~a~~~~~  198 (231)
                      ++|||+|||.++|++                                   +|++.|||. .+.|+.|+|++|.+..+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~~   78 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKKL   78 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcCc
Confidence            579999999999999                                   899999995 79999999999997644

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=1.3e-07  Score=65.25  Aligned_cols=42  Identities=24%  Similarity=0.497  Sum_probs=37.9

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+++|++                                      .||+.|||+.|.|++|+|+||..+
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~~   91 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSG   91 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccCC
Confidence            344689999999999999                                      899999999999999999999754

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=1.2e-07  Score=64.04  Aligned_cols=42  Identities=24%  Similarity=0.265  Sum_probs=38.5

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      .++|||+|||+++|++                                   .|+..|||..|.|+.|+|+||.+..+
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~~   84 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK   84 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCCC
Confidence            3789999999999999                                   99999999999999999999987644

>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=98.47  E-value=8.5e-08  Score=65.42  Aligned_cols=42  Identities=29%  Similarity=0.525  Sum_probs=38.3

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         .|++.|||+.|+|+.|+|++|.+
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~   84 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   84 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4789999999999999                                         88999999999999999999986


Q ss_pred             Ccc
Q psy2204         196 GAK  198 (231)
Q Consensus       196 ~~~  198 (231)
                      ...
T Consensus        85 ~~~   87 (90)
T d1x5sa1          85 SSD   87 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=98.46  E-value=1.7e-07  Score=63.94  Aligned_cols=42  Identities=26%  Similarity=0.483  Sum_probs=38.4

Q ss_pred             CCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .+++|||+|||.++|++                                       .|++.|||..+.|+.|+|+||.+.
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~   86 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP   86 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCC
Confidence            45899999999999999                                       899999999999999999999865


Q ss_pred             c
Q psy2204         197 A  197 (231)
Q Consensus       197 ~  197 (231)
                      .
T Consensus        87 ~   87 (90)
T d2cqia1          87 S   87 (90)
T ss_dssp             T
T ss_pred             C
Confidence            3

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=6.3e-08  Score=65.55  Aligned_cols=42  Identities=93%  Similarity=1.406  Sum_probs=38.7

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ++|||+|||..+|++                                         .|++.|||+.+.|+.|+|++|.++
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~   81 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            689999999999999                                         899999999999999999999977


Q ss_pred             ccc
Q psy2204         197 AKN  199 (231)
Q Consensus       197 ~~~  199 (231)
                      .++
T Consensus        82 ~~~   84 (85)
T d2u2fa_          82 AKN   84 (85)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            554

>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=98.43  E-value=2.4e-07  Score=63.65  Aligned_cols=42  Identities=21%  Similarity=0.389  Sum_probs=37.9

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +.+++|||+|||+++|++                                         .|++.|||..+.|+.|+|+||
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            345899999999999999                                         999999999999999999998


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      ...
T Consensus        85 ~~~   87 (93)
T d1h2vz_          85 AGF   87 (93)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            643

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=2.1e-07  Score=64.68  Aligned_cols=41  Identities=24%  Similarity=0.352  Sum_probs=37.9

Q ss_pred             CCCcEEEcCCCCCCCHH-------------------------------------------------HHHHHhCCCeeCCe
Q psy2204         156 SPHKIFIGGLPNYLNED-------------------------------------------------QAIAGLNGMQLGDK  186 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-------------------------------------------------~Ai~~lnG~~i~gr  186 (231)
                      ..++|||+|||+.+|++                                                 .|++.|||+.|.||
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr   86 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGS   86 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCE
Confidence            35799999999999999                                                 89999999999999


Q ss_pred             EEEEEEeecC
Q psy2204         187 KLIVQRASVG  196 (231)
Q Consensus       187 ~l~V~~a~~~  196 (231)
                      .|+|++|...
T Consensus        87 ~i~V~~a~~~   96 (101)
T d2cpea1          87 KLKVSLARKK   96 (101)
T ss_dssp             ECEEECSSCC
T ss_pred             EEEEEEcCCC
Confidence            9999999854

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=2.4e-07  Score=62.98  Aligned_cols=40  Identities=28%  Similarity=0.328  Sum_probs=37.1

Q ss_pred             CCcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||++++++                                  +|+..|||+.+.|++|+|+++...
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~   78 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSCCCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcCceeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            4789999999999999                                  999999999999999999999644

>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=98.40  E-value=2.4e-07  Score=63.01  Aligned_cols=41  Identities=22%  Similarity=0.386  Sum_probs=37.7

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      +.++|||+|||+++|++                                         .|+..|||..|+|+.|+|++|.
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~   83 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   83 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            45899999999999999                                         8899999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      +.
T Consensus        84 p~   85 (89)
T d2cqba1          84 PM   85 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=98.39  E-value=3.8e-07  Score=63.71  Aligned_cols=41  Identities=34%  Similarity=0.500  Sum_probs=37.7

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||++++++                                         .||+.|||..|+|+.|+|++|.+
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~   97 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS   97 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            4689999999999999                                         89999999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        98 k~   99 (102)
T d2cpza1          98 KN   99 (102)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=98.39  E-value=7.9e-07  Score=65.37  Aligned_cols=45  Identities=38%  Similarity=0.608  Sum_probs=39.7

Q ss_pred             CCCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEE
Q psy2204         154 PDSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQR  192 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~  192 (231)
                      .+..++|||+|||+++|++                                         .||+.|||+.|.||.|+|++
T Consensus        39 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~  118 (139)
T d1u6fa1          39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3445789999999999999                                         89999999999999999999


Q ss_pred             eecCcc
Q psy2204         193 ASVGAK  198 (231)
Q Consensus       193 a~~~~~  198 (231)
                      |..+..
T Consensus       119 a~~~~~  124 (139)
T d1u6fa1         119 AASGHQ  124 (139)
T ss_dssp             SSCCCC
T ss_pred             cCCCCC
Confidence            986543

>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=98.38  E-value=2.3e-07  Score=63.23  Aligned_cols=41  Identities=27%  Similarity=0.295  Sum_probs=37.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.++|++                                         +|++.|||..++|+.|+|+||.
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            44789999999999999                                         9999999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ++
T Consensus        87 p~   88 (90)
T d2cq0a1          87 PS   88 (90)
T ss_dssp             CC
T ss_pred             CC
Confidence            65

>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=98.38  E-value=2.1e-07  Score=62.06  Aligned_cols=38  Identities=13%  Similarity=0.371  Sum_probs=36.0

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .||||+|||+++|++                                         +|++.|||..+.|++|+|++|.|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            589999999999999                                         89999999999999999999975

>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=98.37  E-value=2.1e-07  Score=63.97  Aligned_cols=41  Identities=27%  Similarity=0.399  Sum_probs=37.8

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||.++|++                                         +|++.|||..|.|+.|+|++|.+
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            3689999999999998                                         89999999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        89 ~~   90 (93)
T d1x5ua1          89 HN   90 (93)
T ss_dssp             TS
T ss_pred             CC
Confidence            64

>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=98.33  E-value=3.4e-07  Score=62.14  Aligned_cols=41  Identities=22%  Similarity=0.298  Sum_probs=37.6

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||.++|++                                         +|+..|||..+.|+.|+|+||.+
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~~   86 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV   86 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEecC
Confidence            4789999999999998                                         89999999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ++
T Consensus        87 kG   88 (88)
T d1rk8a_          87 KG   88 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=2.9e-07  Score=64.06  Aligned_cols=42  Identities=21%  Similarity=0.309  Sum_probs=38.3

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||.+++++                                         .|+..|||..|.|+.|+|+||.
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            35789999999999999                                         9999999999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      +..
T Consensus        97 ~k~   99 (102)
T d2cpxa1          97 NKK   99 (102)
T ss_dssp             CCS
T ss_pred             Ccc
Confidence            653

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.31  E-value=3.4e-07  Score=60.34  Aligned_cols=37  Identities=30%  Similarity=0.469  Sum_probs=34.8

Q ss_pred             EEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         160 IFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       160 ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      |||+|||++++++                                  +|+..|||..+.|++|+|+++...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYELKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhcccccceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            7999999999999                                  999999999999999999999754

>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=98.30  E-value=6.5e-07  Score=61.99  Aligned_cols=41  Identities=20%  Similarity=0.353  Sum_probs=37.8

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|++.|||+.|.||.|+|++|.
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~   86 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            35789999999999999                                         8899999999999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus        87 ~~   88 (99)
T d1whwa_          87 IK   88 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            65

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.27  E-value=5.8e-07  Score=60.74  Aligned_cols=39  Identities=33%  Similarity=0.516  Sum_probs=36.8

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ++|||+|||.+++++                                   +|++.|||..|.|+.|+|+||...
T Consensus         9 ~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~   82 (86)
T d2cpja1           9 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHS   82 (86)
T ss_dssp             TEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCc
Confidence            579999999999999                                   999999999999999999999865

>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=98.26  E-value=5.6e-07  Score=59.60  Aligned_cols=36  Identities=19%  Similarity=0.385  Sum_probs=34.3

Q ss_pred             cEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         159 KIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       159 ~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      +|||+|||++++++                                        +|++.|||..++||.|+|++|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            69999999999999                                        8999999999999999999986

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=98.26  E-value=5.3e-07  Score=61.63  Aligned_cols=41  Identities=20%  Similarity=0.434  Sum_probs=36.2

Q ss_pred             CCCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         154 PDSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +...++|||+|||+++|++                                        +|++ |||..++|+.|+|++|
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~a   88 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   88 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECC
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEec
Confidence            3445789999999999999                                        8884 9999999999999999


Q ss_pred             ec
Q psy2204         194 SV  195 (231)
Q Consensus       194 ~~  195 (231)
                      ..
T Consensus        89 k~   90 (91)
T d1fjeb1          89 KG   90 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.25  E-value=5.5e-07  Score=59.61  Aligned_cols=37  Identities=24%  Similarity=0.332  Sum_probs=32.9

Q ss_pred             CCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         157 PHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      -++|||+|||+++|++                                        .++..|||+.|+||.|+|++|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            3799999999999999                                        455579999999999999987

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=7.3e-07  Score=63.25  Aligned_cols=42  Identities=19%  Similarity=0.380  Sum_probs=37.9

Q ss_pred             CCCCcEEEcCCCCCCCHH--------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED--------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee--------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||+++|++                                      .||+.|||+.|.|+.|+|.++...
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~~   84 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNAN   84 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            345799999999999999                                      999999999999999999998643

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=9e-07  Score=60.33  Aligned_cols=40  Identities=28%  Similarity=0.501  Sum_probs=36.9

Q ss_pred             CCcEEEcCCCCCCCHH------------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED------------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee------------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .++|||+|||.+++++                                          .|++.|||..+.|+.|+|+||.
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak   82 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   82 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            4799999999999986                                          9999999999999999999997


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus        83 ~~   84 (91)
T d1nu4a_          83 TD   84 (91)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>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=98.23  E-value=4.5e-07  Score=61.64  Aligned_cols=40  Identities=35%  Similarity=0.533  Sum_probs=36.9

Q ss_pred             CCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..+|||+|||+++|++                                       +|++.|||+.|+|+.|+|++|.+.
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            3579999999999999                                       899999999999999999999855

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.22  E-value=4.2e-07  Score=59.51  Aligned_cols=34  Identities=24%  Similarity=0.424  Sum_probs=31.1

Q ss_pred             cEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         159 KIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       159 ~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|||+|||+++|++                                         +|+ +|||+.|+||.|+|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al-~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-EIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHH-HCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHH-hcCCCEECCeEEEEEEC
Confidence            69999999999999                                         666 59999999999999987

>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=98.22  E-value=5.9e-07  Score=63.32  Aligned_cols=42  Identities=21%  Similarity=0.208  Sum_probs=38.0

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecCc
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVGA  197 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~  197 (231)
                      +.++|||+|||++++++                                   +|++.|||..|.|+.|+|+||....
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~   85 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCc
Confidence            34789999999999999                                   9999999999999999999997553

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=8.2e-07  Score=59.36  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +|++.|||..+.|+.|+|++|.+.
T Consensus        56 ~Ai~~~~g~~~~gr~l~v~~a~~k   79 (83)
T d1x5ta1          56 AAIEAMNGQYLCNRPITVSYAFKK   79 (83)
T ss_dssp             HHHHTTTTCEETTEECEEEESCCC
T ss_pred             HHHHhCCCcEECCEEEEEEEecCC
Confidence            899999999999999999999865

>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=98.22  E-value=5.4e-07  Score=59.95  Aligned_cols=36  Identities=17%  Similarity=0.283  Sum_probs=34.2

Q ss_pred             cEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         159 KIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       159 ~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .|||+|||+++|++                                         .|++.|||..+.||.|+|+||.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            59999999999999                                         8999999999999999999986

>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=98.21  E-value=7.8e-07  Score=59.76  Aligned_cols=37  Identities=27%  Similarity=0.374  Sum_probs=34.3

Q ss_pred             EEEcCCCCCCCHH--------------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         160 IFIGGLPNYLNED--------------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       160 ifV~nLp~~~tee--------------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      |||+|||+++|++                                            +|++.|||..++|+.|+|++|..
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            7999999999999                                            89999999999999999999864


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      .
T Consensus        81 ~   81 (85)
T d2cpfa1          81 A   81 (85)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.20  E-value=1e-06  Score=59.31  Aligned_cols=38  Identities=24%  Similarity=0.384  Sum_probs=34.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +..+|||+|||++++++                                         +|++.|||+.++||+|+|++|
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            34679999999999999                                         899999999999999999975

>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=98.19  E-value=1.1e-06  Score=60.64  Aligned_cols=40  Identities=18%  Similarity=0.356  Sum_probs=36.9

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||.+++++                                   .|+..|||..|+|+.|+|+|+...
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~   92 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES   92 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            4689999999999999                                   999999999999999999998753

>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=98.18  E-value=1.1e-06  Score=60.34  Aligned_cols=41  Identities=22%  Similarity=0.404  Sum_probs=37.3

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------------HHHHHh-CCCeeCCeEEEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------------QAIAGL-NGMQLGDKKLIVQR  192 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------------~Ai~~l-nG~~i~gr~l~V~~  192 (231)
                      ..++|||+|||++++++                                          +|+..| ||..|.|++|+|+|
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~   86 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEW   86 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEE
Confidence            45789999999999999                                          889998 89999999999999


Q ss_pred             eecC
Q psy2204         193 ASVG  196 (231)
Q Consensus       193 a~~~  196 (231)
                      |...
T Consensus        87 A~~~   90 (94)
T d2cpha1          87 ADSE   90 (94)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9855

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=9.7e-07  Score=59.70  Aligned_cols=39  Identities=21%  Similarity=0.376  Sum_probs=35.6

Q ss_pred             CCcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCee-CCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQL-GDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i-~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                     +|+..|||+.+ .|+.|+|+|++.
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            4789999999999999                                     89999999998 489999999874

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=1.7e-06  Score=60.27  Aligned_cols=42  Identities=31%  Similarity=0.510  Sum_probs=37.1

Q ss_pred             CCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         156 SPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .+++|||+|||+++|++                                        +|+..|||+.|.||.|+|++|..
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a~~   93 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSCEEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECCC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhccccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            45799999999999999                                        66668999999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      ..
T Consensus        94 ~~   95 (104)
T d1wi8a_          94 AQ   95 (104)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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=98.15  E-value=1.3e-06  Score=58.43  Aligned_cols=39  Identities=23%  Similarity=0.372  Sum_probs=35.1

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeC-CeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLG-DKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~-gr~l~V~~a~  194 (231)
                      ..++|||+|||..+|++                                    .|+..|||+.|. |+.|+|+||.
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            35799999999999999                                    899999999985 6899999986

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=1.6e-06  Score=60.39  Aligned_cols=43  Identities=16%  Similarity=0.266  Sum_probs=37.2

Q ss_pred             CCCCCcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         154 PDSPHKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       154 ~~~~~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ....++|||+|||+++|++                                       +|+ .|||+.|+||.|+|.+++
T Consensus        12 ~~~~~~v~v~nLp~~~te~dl~~~F~~~~~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al-~~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          12 STTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCSEEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEEC
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHhccCcceeeeEEecCCcceEEEEEEECCHHHHHHHH-HcCCCEECCEEEEEEEcC
Confidence            3445799999999999999                                       776 589999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      ...
T Consensus        91 ~~~   93 (102)
T d1weza_          91 TAG   93 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            664

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.11  E-value=2.2e-06  Score=58.84  Aligned_cols=41  Identities=24%  Similarity=0.387  Sum_probs=35.9

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhC------CCeeCCeEE
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLN------GMQLGDKKL  188 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~ln------G~~i~gr~l  188 (231)
                      ..++|||+|||+++|++                                         +|++.||      |..+.||.|
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l   86 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQL   86 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEE
Confidence            34799999999999999                                         7888776      788999999


Q ss_pred             EEEEeecC
Q psy2204         189 IVQRASVG  196 (231)
Q Consensus       189 ~V~~a~~~  196 (231)
                      +|++|.++
T Consensus        87 ~v~~a~~k   94 (98)
T d1x4ha1          87 KVDLAVTR   94 (98)
T ss_dssp             EEECCCCC
T ss_pred             EEEECCCC
Confidence            99999865

>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=98.11  E-value=1.4e-06  Score=58.16  Aligned_cols=35  Identities=29%  Similarity=0.371  Sum_probs=32.3

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEE
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIV  190 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V  190 (231)
                      ..++|||+|||+++|++                                         .|+..|||+.|.||+|+|
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            35789999999999999                                         889999999999999987

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.09  E-value=1.7e-06  Score=60.60  Aligned_cols=32  Identities=16%  Similarity=-0.004  Sum_probs=26.5

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecCcccccCCC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVGAKNASGQQ  204 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~~~~~~~~~  204 (231)
                      +|++.|||+.|.|+.|+|.||.+.........
T Consensus        61 ~Ai~~lng~~~~g~~l~v~~a~~~~~~~~~~~   92 (104)
T d1weya_          61 DARLRLHKTEFLGKEMKLYFAQTLHIGSSHLA   92 (104)
T ss_dssp             HHHHTSTTSEETTEECEEECCCCSSCCSCCSC
T ss_pred             HHHHHhcccccCCCEeEEeecccCCCCCcccC
Confidence            99999999999999999999986655444333

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.08  E-value=5.9e-07  Score=62.53  Aligned_cols=40  Identities=20%  Similarity=0.399  Sum_probs=35.4

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..+++|||+|||+++|++                                        +|++.|||..|.||.++|.++.
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            345899999999999999                                        8999999999999998887665

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=1.8e-06  Score=59.70  Aligned_cols=42  Identities=17%  Similarity=0.184  Sum_probs=38.2

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .+.++|||+|||++++++                                  +||+.|||+.|.|+.|+|.++...
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~   88 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVY   88 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEETTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecC
Confidence            345789999999999999                                  999999999999999999998754

>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=98.06  E-value=2.3e-06  Score=56.62  Aligned_cols=40  Identities=28%  Similarity=0.360  Sum_probs=34.8

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|++  +|++                                   .|+..|||..+.|+.|+|+||.+.
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   77 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   77 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCSS
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            345899999986  6777                                   999999999999999999999754

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=3.8e-06  Score=58.50  Aligned_cols=40  Identities=33%  Similarity=0.448  Sum_probs=35.2

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +||+.+|+ .|.||.|+|++|.
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~   87 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAY   87 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEEST
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcC
Confidence            34689999999999999                                         88888876 7999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus        88 ~~   89 (103)
T d2cqda1          88 LG   89 (103)
T ss_dssp             TT
T ss_pred             CC
Confidence            55

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=1.4e-06  Score=60.78  Aligned_cols=40  Identities=28%  Similarity=0.522  Sum_probs=36.8

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         +|++.|||+.|.|+.|+|++|..
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~   87 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            3789999999999998                                         89999999999999999999875


Q ss_pred             C
Q psy2204         196 G  196 (231)
Q Consensus       196 ~  196 (231)
                      .
T Consensus        88 ~   88 (104)
T d1p1ta_          88 E   88 (104)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.03  E-value=1.4e-06  Score=58.73  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      +|+ .|||+.++||.|+|++|.+.
T Consensus        63 ~Al-~~n~~~~~gr~l~V~~a~~k   85 (86)
T d2ghpa3          63 RAL-QMNRSLLGNREISVSLADKK   85 (86)
T ss_dssp             HHG-GGTTEEETTEEEEEEECCCC
T ss_pred             HHH-hcCCCEECCEEEEEEEcCCC
Confidence            777 49999999999999999854

>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=98.03  E-value=2.5e-06  Score=57.18  Aligned_cols=37  Identities=27%  Similarity=0.484  Sum_probs=33.8

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCC--eEEEEEEe
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGD--KKLIVQRA  193 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~g--r~l~V~~a  193 (231)
                      .++|||+|||.+++++                                         +|++.|||..+.|  ++|+|+||
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            4679999999999999                                         9999999999976  88999987

>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=98.01  E-value=3.6e-06  Score=58.10  Aligned_cols=40  Identities=25%  Similarity=0.406  Sum_probs=34.8

Q ss_pred             CCcEEEcCCC-CCCCHH---------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLP-NYLNED---------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp-~~~tee---------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ..+|||+||| ..++++                                 +||..|||+.|.|+.|+|++|...
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEeCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            4689999997 567775                                 899999999999999999999754

>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=98.00  E-value=2.3e-06  Score=57.42  Aligned_cols=36  Identities=31%  Similarity=0.633  Sum_probs=32.9

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCC--eEEEEEEe
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGD--KKLIVQRA  193 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~g--r~l~V~~a  193 (231)
                      ++|||+|||.++|++                                         +|++.|||..+.|  ++|+|+||
T Consensus         7 ~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2           7 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            679999999999999                                         8999999999998  55999987

>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=97.97  E-value=4.2e-06  Score=58.34  Aligned_cols=40  Identities=25%  Similarity=0.341  Sum_probs=35.0

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         .|+ .+||..|.|+.|.|++|.+
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al-~~~~~~l~G~~i~V~~a~~   98 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM-AARPHSIDGRVVEPKRAVA   98 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHH-TSCSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHH-HhCCCeECCEEEEEEECcc
Confidence            3789999999999999                                         554 6899999999999999986


Q ss_pred             Cc
Q psy2204         196 GA  197 (231)
Q Consensus       196 ~~  197 (231)
                      +.
T Consensus        99 ke  100 (103)
T d1x4ba1          99 RE  100 (103)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>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=97.97  E-value=3.7e-06  Score=56.34  Aligned_cols=38  Identities=24%  Similarity=0.369  Sum_probs=33.4

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|++ ++|+.|.||.|+|++|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEeee
Confidence            34799999999999999                                         6664 79999999999999885

>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=97.95  E-value=9e-06  Score=55.81  Aligned_cols=41  Identities=29%  Similarity=0.510  Sum_probs=36.6

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHhCCCeeCC--eEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGLNGMQLGD--KKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~lnG~~i~g--r~l~V~~a~~~  196 (231)
                      ..++|||+|||++++++                                   .|++.|||..|.|  ++|+|+||...
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~   93 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG   93 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCC
Confidence            35899999999999999                                   8999999999986  68999999854

>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=97.93  E-value=7e-06  Score=56.94  Aligned_cols=41  Identities=12%  Similarity=0.185  Sum_probs=35.6

Q ss_pred             CCCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         155 DSPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      ....+|||+|||+++|++                                         +|++ |||..|+||.|+|.++
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~   84 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVV   84 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEEC
Confidence            345789999999999998                                         7774 9999999999999998


Q ss_pred             ecC
Q psy2204         194 SVG  196 (231)
Q Consensus       194 ~~~  196 (231)
                      +..
T Consensus        85 ~~~   87 (103)
T d2cpya1          85 TLE   87 (103)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            643

>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=97.91  E-value=7.5e-07  Score=60.25  Aligned_cols=39  Identities=15%  Similarity=0.209  Sum_probs=35.2

Q ss_pred             CcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ++|||+|||+++|++                                  +||..|||..|.|+.|+|.++...
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEecC
Confidence            579999999999998                                  899999999999999999887644

>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=97.90  E-value=4.9e-06  Score=56.14  Aligned_cols=41  Identities=12%  Similarity=0.238  Sum_probs=34.1

Q ss_pred             CCCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecCcc
Q psy2204         156 SPHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVGAK  198 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~~~  198 (231)
                      ..++|||+|||+++|++                                    +|+.  +++.|.|+.|+|++|.++..
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k~~   80 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeeccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCCCC
Confidence            35899999999999999                                    4443  78899999999999976543

>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=97.89  E-value=3.5e-06  Score=55.57  Aligned_cols=35  Identities=29%  Similarity=0.418  Sum_probs=30.9

Q ss_pred             CcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         158 HKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      .+|||+|||+++|++                                         +|++ +|++.++||.|+|++|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            379999999999998                                         6665 7999999999999986

>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=97.89  E-value=4.8e-06  Score=56.37  Aligned_cols=19  Identities=21%  Similarity=0.331  Sum_probs=17.9

Q ss_pred             HHHHHhCCCeeCCeEEEEE
Q psy2204         173 QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~  191 (231)
                      +|++.|||+.++||.|+|+
T Consensus        71 ~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          71 RAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             HHHHHHTTEEETTEEEEEE
T ss_pred             HHHHHhCCCEECCEEEEEC
Confidence            9999999999999999985

>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=97.88  E-value=3.4e-06  Score=55.24  Aligned_cols=34  Identities=29%  Similarity=0.423  Sum_probs=30.2

Q ss_pred             cEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEe
Q psy2204         159 KIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       159 ~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|||+|||+++|++                                         +|++ +++..|.|+.|+|++|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeEC
Confidence            69999999999999                                         7775 7999999999999765

>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=97.85  E-value=8.1e-06  Score=56.62  Aligned_cols=38  Identities=29%  Similarity=0.388  Sum_probs=34.3

Q ss_pred             CCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         157 PHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      .++|||+|||+++|++                                         +|+ .|||..|.|+.|+|++|..
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~-~l~g~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHH-HHCCCEECCEEEEEEECCC
Confidence            3689999999999999                                         777 5999999999999999863

>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=97.80  E-value=7.7e-06  Score=53.49  Aligned_cols=36  Identities=22%  Similarity=0.439  Sum_probs=31.9

Q ss_pred             CcEEEcCCCCCCCHH---------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         158 HKIFIGGLPNYLNED---------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       158 ~~ifV~nLp~~~tee---------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .+|||+|||++++++                                       +|+ .|||+.|+|+.|.|+.++
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~V~~~T   75 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSHLT   75 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHH-HhcCcEECCEEEEEEECC
Confidence            379999999999999                                       776 589999999999999864

>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=97.77  E-value=1.7e-05  Score=54.98  Aligned_cols=41  Identities=15%  Similarity=0.247  Sum_probs=35.4

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...+|||+|||+++|++                                         +|+ ++|+..|+||.|+|.+++
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~-~~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKAL-KKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHH-TTTTCCSSSSCCEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHH-hhCCCEEcceEEEEEECC
Confidence            34689999999999999                                         555 599999999999999998


Q ss_pred             cCc
Q psy2204         195 VGA  197 (231)
Q Consensus       195 ~~~  197 (231)
                      ...
T Consensus        93 ~~~   95 (104)
T d1wg5a_          93 RAE   95 (104)
T ss_dssp             TTT
T ss_pred             HHH
Confidence            663

>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=97.77  E-value=1.7e-05  Score=55.37  Aligned_cols=40  Identities=18%  Similarity=0.263  Sum_probs=35.0

Q ss_pred             CCcEEEcCCCC-CCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPN-YLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~-~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .++|||+|||+ .+|++                                    +|++.|||..|.|+.|+|+++...
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            47899999965 58887                                    999999999999999999998644

>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=97.76  E-value=1.2e-06  Score=59.50  Aligned_cols=36  Identities=22%  Similarity=0.627  Sum_probs=30.6

Q ss_pred             CcEEEcCCCCCCCHH----------------------------------------------HHHHHhCCCeeCCeEEEEE
Q psy2204         158 HKIFIGGLPNYLNED----------------------------------------------QAIAGLNGMQLGDKKLIVQ  191 (231)
Q Consensus       158 ~~ifV~nLp~~~tee----------------------------------------------~Ai~~lnG~~i~gr~l~V~  191 (231)
                      |+|||+|||+++|++                                              .|+ .|||+.+.|+.|+|+
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~-~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGG-GGSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHH-hhCCcEECCEEEEEC
Confidence            789999999999998                                              665 599999999999987


Q ss_pred             Eee
Q psy2204         192 RAS  194 (231)
Q Consensus       192 ~a~  194 (231)
                      +++
T Consensus        81 r~k   83 (90)
T d1u2fa_          81 RPH   83 (90)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            543

>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=97.72  E-value=3.1e-05  Score=52.35  Aligned_cols=39  Identities=10%  Similarity=0.134  Sum_probs=33.1

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ..++|||+|||+++|++                                         +|++.  ++.|+||.|.|++|.
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~--~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKLPN   84 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEECCC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc--CCccCCEEeEEEeCC
Confidence            45789999999999999                                         67764  458999999999998


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      +.
T Consensus        85 ~k   86 (90)
T d2cqga1          85 SK   86 (90)
T ss_dssp             TT
T ss_pred             CC
Confidence            65

>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=97.69  E-value=2e-05  Score=53.86  Aligned_cols=40  Identities=28%  Similarity=0.418  Sum_probs=33.7

Q ss_pred             CcEEEcCCCCCCCHH-------------------------------------------HHHHHhCC--CeeCCeEEEEEE
Q psy2204         158 HKIFIGGLPNYLNED-------------------------------------------QAIAGLNG--MQLGDKKLIVQR  192 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-------------------------------------------~Ai~~lnG--~~i~gr~l~V~~  192 (231)
                      .+|||+|||.++|++                                           .|++.|++  ..+.|+.|+|+|
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            479999999999999                                           78888864  556799999999


Q ss_pred             eecCc
Q psy2204         193 ASVGA  197 (231)
Q Consensus       193 a~~~~  197 (231)
                      |.+..
T Consensus        82 A~p~~   86 (96)
T d2disa1          82 AEPEI   86 (96)
T ss_dssp             SCSSC
T ss_pred             cCCCC
Confidence            98653

>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=97.66  E-value=5.8e-05  Score=50.54  Aligned_cols=41  Identities=15%  Similarity=0.199  Sum_probs=34.7

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHh--CCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGL--NGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~l--nG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||.+++++                                   .|+..|  ++..+.|+.|+|+|++..
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~~   84 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   84 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCCC
Confidence            45789999999999999                                   667654  678999999999999743

>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=97.65  E-value=2.7e-05  Score=54.76  Aligned_cols=42  Identities=14%  Similarity=0.250  Sum_probs=35.3

Q ss_pred             CCCCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         155 DSPHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       155 ~~~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      ...++|||+|||+++|++                                        +++..|||..|+||.|.|.++.
T Consensus        16 ~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~   95 (112)
T d1wela1          16 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPIT   95 (112)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEEC
T ss_pred             CCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcC
Confidence            345799999999999998                                        3444699999999999999987


Q ss_pred             cC
Q psy2204         195 VG  196 (231)
Q Consensus       195 ~~  196 (231)
                      ..
T Consensus        96 ~~   97 (112)
T d1wela1          96 KK   97 (112)
T ss_dssp             HH
T ss_pred             hH
Confidence            54

>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=97.57  E-value=4.6e-05  Score=50.83  Aligned_cols=37  Identities=16%  Similarity=0.360  Sum_probs=32.7

Q ss_pred             CCcEEEcCCCCCCCHH----------------------------------------HHHHHhCCCeeCCeEEEEEEee
Q psy2204         157 PHKIFIGGLPNYLNED----------------------------------------QAIAGLNGMQLGDKKLIVQRAS  194 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee----------------------------------------~Ai~~lnG~~i~gr~l~V~~a~  194 (231)
                      .++|||+|||.++|++                                        +|+ +++|..+.|+.|+|+++.
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al-~~~~~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV-ETPGQKYKETDLLILFKD   82 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHH-TCCCCEETTEECEEEEGG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHH-HHCCCEECCEEEEEEEcC
Confidence            4799999999999999                                        666 579999999999999864

>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=97.48  E-value=0.00016  Score=48.35  Aligned_cols=55  Identities=22%  Similarity=0.426  Sum_probs=47.5

Q ss_pred             HHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHHHhCCCeecCceEEEeCCC
Q psy2204          61 DEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAMAFDGINFKGQSLKIRRPH  128 (231)
Q Consensus        61 ~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al~lng~~l~gr~i~V~~~~  128 (231)
                      .+|.+.|.+||           +|.-+++..  +--+|+|.+-++|-+|+.++|..+.|+.|+|..+.
T Consensus        39 ~~Llq~l~~~G-----------eViLvRFv~--d~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~~   93 (95)
T d1ufwa_          39 TELMQTLGSYG-----------TIVLVRINQ--GQMLVTFADSHSALSVLDVDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHHS-----------CCSEEEEET--TEEEEECSCSHHHHHHHHGGGSEETTEEEEEECCC
T ss_pred             HHHHHHHhhCC-----------eEEEEEEeC--CeEEEEECCcHHHHHHhccCCeEEcceEEEEecCC
Confidence            36788899999           777777774  45789999999999999999999999999998553

>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=97.45  E-value=3.4e-05  Score=50.30  Aligned_cols=14  Identities=50%  Similarity=0.840  Sum_probs=13.4

Q ss_pred             cEEEcCCCCCCCHH
Q psy2204         159 KIFIGGLPNYLNED  172 (231)
Q Consensus       159 ~ifV~nLp~~~tee  172 (231)
                      +|||+|||+++|++
T Consensus         1 klfVgnLp~~~te~   14 (75)
T d1x0fa1           1 KIFVGGLSPDTPEE   14 (75)
T ss_dssp             EEEEESCCSSCCHH
T ss_pred             CEEEcCCCCCCCHH
Confidence            69999999999999

>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=97.45  E-value=9.4e-05  Score=50.71  Aligned_cols=42  Identities=10%  Similarity=0.126  Sum_probs=34.3

Q ss_pred             CCCCcEEEcCCCCC-CCHH-----------------------------------HHHH--HhCCCeeCCeEEEEEEeecC
Q psy2204         155 DSPHKIFIGGLPNY-LNED-----------------------------------QAIA--GLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       155 ~~~~~ifV~nLp~~-~tee-----------------------------------~Ai~--~lnG~~i~gr~l~V~~a~~~  196 (231)
                      ...++|||+|||.+ +|++                                   .|++  .+++..+.||.|+|++|...
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~~   95 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKY   95 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECSC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCCc
Confidence            44578999999985 7766                                   6665  57899999999999999743

>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=97.36  E-value=0.00021  Score=49.26  Aligned_cols=41  Identities=7%  Similarity=0.103  Sum_probs=34.7

Q ss_pred             CCCcEEEcCCCCCCCHH-----------------------------------HHHHHh--CCCeeCCeEEEEEEeecC
Q psy2204         156 SPHKIFIGGLPNYLNED-----------------------------------QAIAGL--NGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       156 ~~~~ifV~nLp~~~tee-----------------------------------~Ai~~l--nG~~i~gr~l~V~~a~~~  196 (231)
                      ..++|||+|||..+|++                                   .|+..|  ++..++|++|+|++++..
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~   91 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSK   91 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCC
Confidence            45789999999999998                                   777766  567889999999999754

>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=97.35  E-value=1.4e-05  Score=51.59  Aligned_cols=13  Identities=23%  Similarity=0.493  Sum_probs=12.4

Q ss_pred             EEEcCCCCCCCHH
Q psy2204         160 IFIGGLPNYLNED  172 (231)
Q Consensus       160 ifV~nLp~~~tee  172 (231)
                      |||+|||+++|++
T Consensus         1 lyV~nLp~~~te~   13 (72)
T d1x4ea1           1 LYIRGLQPGTTDQ   13 (72)
T ss_dssp             EEEESCCTTCCHH
T ss_pred             CEEeCCCCcCCHH
Confidence            7999999999999

>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=97.27  E-value=0.00019  Score=48.10  Aligned_cols=41  Identities=10%  Similarity=-0.048  Sum_probs=33.5

Q ss_pred             CCCCcEEEcCCCCC-CCHH-----------------------------------HHHHHh--CCCeeCCeEEEEEEeec
Q psy2204         155 DSPHKIFIGGLPNY-LNED-----------------------------------QAIAGL--NGMQLGDKKLIVQRASV  195 (231)
Q Consensus       155 ~~~~~ifV~nLp~~-~tee-----------------------------------~Ai~~l--nG~~i~gr~l~V~~a~~  195 (231)
                      +.+++|||+|||.. +|++                                   .|+..|  ++..+.||+|+|++|..
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~~   84 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCC
Confidence            45689999999986 5565                                   777754  78899999999999974

>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=97.27  E-value=7.9e-05  Score=51.85  Aligned_cols=39  Identities=18%  Similarity=0.201  Sum_probs=34.9

Q ss_pred             CcEEEcCCCCCCCHH-------------------------------------HHHHHhCCCee--CCeEEEEEEeecC
Q psy2204         158 HKIFIGGLPNYLNED-------------------------------------QAIAGLNGMQL--GDKKLIVQRASVG  196 (231)
Q Consensus       158 ~~ifV~nLp~~~tee-------------------------------------~Ai~~lnG~~i--~gr~l~V~~a~~~  196 (231)
                      .+|||+|||+++|++                                     .|+..|||..|  .+++|+|.++...
T Consensus         8 ~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~   85 (108)
T d2adba1           8 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT   85 (108)
T ss_dssp             EEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSC
T ss_pred             EEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCc
Confidence            579999999999999                                     99999999998  5789999998754

>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=96.76  E-value=0.00096  Score=44.79  Aligned_cols=62  Identities=15%  Similarity=0.261  Sum_probs=48.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCC--------CcEEEEEecCHHHHHHHH-HhCCCee
Q psy2204          47 RRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLD--------KNFAFLEFRSIDETTQAM-AFDGINF  117 (231)
Q Consensus        47 r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~--------kg~aFV~F~~~~~a~~Al-~lng~~l  117 (231)
                      .+|-|++||+++||+++.+.+...|           .+.-......        -.-|||.|.+.+++..-. .++|+.|
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~-----------~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F   70 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMP-----------EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCC-----------CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcC-----------ceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            4788999999999999999887665           3332222211        267999999999999999 9999998


Q ss_pred             cC
Q psy2204         118 KG  119 (231)
Q Consensus       118 ~g  119 (231)
                      .+
T Consensus        71 ~D   72 (91)
T d1uw4a_          71 LD   72 (91)
T ss_dssp             EC
T ss_pred             Ec
Confidence            55

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.27  E-value=0.016  Score=36.46  Aligned_cols=56  Identities=9%  Similarity=0.186  Sum_probs=47.3

Q ss_pred             HHHHHHHHhhhhhhccccCCCCeeeeEecCC---CcEEEEEecCHHHHHHHH-HhCCCeecCceEEEeCCC
Q psy2204          62 EMMEFFNQQMHLSGLAQAAGNPVLACQINLD---KNFAFLEFRSIDETTQAM-AFDGINFKGQSLKIRRPH  128 (231)
Q Consensus        62 ~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~---kg~aFV~F~~~~~a~~Al-~lng~~l~gr~i~V~~~~  128 (231)
                      -|.+.|.+++           .|.++.+...   .-.|-|...+..+|..|+ .|+...+++++|.|.+..
T Consensus        12 ~L~~~f~~h~-----------~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          12 LLQEAFARHG-----------KVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHS-----------CEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHhhe-----------eEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            4566788888           7888888544   357999999999999999 999999999999998764

>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=96.22  E-value=0.0016  Score=44.28  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=21.7

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      +|+..|||+.++||.|+|+++..
T Consensus        72 ~A~~~lng~~~~gr~i~v~~~~g   94 (99)
T d2dita1          72 YCIQTLDGRWFGGRQITAQAWDG   94 (99)
T ss_dssp             HHHHHSTTCEETTEECEEEECCS
T ss_pred             HHHHHhCCcEECCEEEEEEEeCC
Confidence            99999999999999999999874

>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=95.15  E-value=0.006  Score=42.23  Aligned_cols=40  Identities=15%  Similarity=0.033  Sum_probs=33.8

Q ss_pred             CCcEEEcCCCCCCCHH------------------------------------HHHHHhCCCeeCCeEEEEEEeecC
Q psy2204         157 PHKIFIGGLPNYLNED------------------------------------QAIAGLNGMQLGDKKLIVQRASVG  196 (231)
Q Consensus       157 ~~~ifV~nLp~~~tee------------------------------------~Ai~~lnG~~i~gr~l~V~~a~~~  196 (231)
                      .-.+||+|||+++|++                                    .|+..|||..+.++.++|.++...
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~~   86 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLE   86 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECC
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeecc
Confidence            3467999999999999                                    688999999999888888887543

>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=94.93  E-value=0.01  Score=40.37  Aligned_cols=23  Identities=17%  Similarity=0.482  Sum_probs=21.5

Q ss_pred             HHHHHhCCCeeCCeEEEEEEeec
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRASV  195 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a~~  195 (231)
                      +|+..|||+.++||.|+|.++..
T Consensus        73 ~A~~~l~Gr~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          73 KAMQGLTGRKFANRVVVTKYCDP   95 (104)
T ss_dssp             HHHHHHSSCCSSSSCCEEEEECH
T ss_pred             HHHHHHCCCEECCeEEEEEEcCH
Confidence            99999999999999999999863

>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=94.78  E-value=0.0066  Score=39.55  Aligned_cols=37  Identities=16%  Similarity=0.209  Sum_probs=29.7

Q ss_pred             CcEEEcCCCCCCCHH----------------------------------HHHHHhCCCeeCCeE-EEEEEeec
Q psy2204         158 HKIFIGGLPNYLNED----------------------------------QAIAGLNGMQLGDKK-LIVQRASV  195 (231)
Q Consensus       158 ~~ifV~nLp~~~tee----------------------------------~Ai~~lnG~~i~gr~-l~V~~a~~  195 (231)
                      +.|||+++|++.+++                                  +|++ +||..|+|+. |.|+.+..
T Consensus         5 ~wV~V~G~p~~~~~~il~~F~~~G~I~~~~~~~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           5 TWVTVFGFPQASASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             GEEEEECCCGGGHHHHHHHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECCC
T ss_pred             cEEEEECCChHHHHHHHHHHHhhhhhheEEecCCCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeCCC
Confidence            468888888888877                                  7875 9999999984 67888763

>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=94.40  E-value=0.026  Score=38.05  Aligned_cols=29  Identities=24%  Similarity=0.444  Sum_probs=24.7

Q ss_pred             CCCcEEEc--CCCCCCCHH-----------------------------------HHHHHhCCCeeC
Q psy2204         156 SPHKIFIG--GLPNYLNED-----------------------------------QAIAGLNGMQLG  184 (231)
Q Consensus       156 ~~~~ifV~--nLp~~~tee-----------------------------------~Ai~~lnG~~i~  184 (231)
                      +.++|||.  |||.++|++                                   .|+..|||+.+.
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i~   82 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCccEEEEEECCHHHHHHHHHHhCCCCCC
Confidence            44788885  599999999                                   999999999884

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.93  E-value=0.13  Score=34.26  Aligned_cols=57  Identities=12%  Similarity=0.204  Sum_probs=44.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHHHHhhhhhhccccCCCCeeeeEecCCCcEEEEEecCHHHHHHHH
Q psy2204          41 TITRQARRLYVGNIPFGVTEDEMMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQAM  110 (231)
Q Consensus        41 ~~~~~~r~lfVgNLp~~~te~~L~~~F~~~G~~~~~~~~~~~~i~~~~~~~~kg~aFV~F~~~~~a~~Al  110 (231)
                      .......-||.-..|..+...||.++|+.||           .|.--.+  +.--|||...+.+++..++
T Consensus        10 d~~p~RdHVf~~tFP~~Wk~~dI~~lFSpfG-----------~V~VswI--ddTSa~V~L~~~e~~~~v~   66 (100)
T d1whva_          10 DLQPKRDHVLHVTFPKEWKTSDLYQLFSAFG-----------NIQISWI--DDTSAFVSLSQPEQVQIAV   66 (100)
T ss_dssp             CCCCCCCSEEEEECCTTCCHHHHHHHHTTTC-----------SCCCEEE--ETTEEEEECSCHHHHHHHH
T ss_pred             CCCCCcceeEEEeCCcccchhHHHHHhcCCC-----------ceEEEEe--cCceEEEEecCHHHHHHHH
Confidence            3334445699999999999999999999998           3322222  2358999999999999988

>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=90.52  E-value=0.068  Score=36.07  Aligned_cols=21  Identities=14%  Similarity=0.237  Sum_probs=19.9

Q ss_pred             HHHHHhCCCeeCCeEEEEEEe
Q psy2204         173 QAIAGLNGMQLGDKKLIVQRA  193 (231)
Q Consensus       173 ~Ai~~lnG~~i~gr~l~V~~a  193 (231)
                      +|++.|||+.++||.|+|++.
T Consensus        83 ~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          83 KAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHCCCEECCEEEEEEEC
Confidence            999999999999999999875