Psyllid ID: psy15187

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------30
Protein Sequence
MAKYTLTKKSLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIFGEEPPLEDPDSIAMETDK
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccEEEEEcccccHHHHHHHHcccccEEEEEEEEcccccccccccccccccccccccccEEEEcccHHHHHHHHHHHcccEEccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccHHHHHHHHcccccEEEEEEEEEcccEEEEccccccccHHHcccccEEEEEcccHHHHHHHHHHHccccEccEEEEEEEEcccccccccccccccccHHHHcccccccccccccccEEEEccHHccccccccccccEEEcccc
Coil and Loop (DISEMBL)
makytltkkslqaqkaprpepertqasstlkrpieAKDAREVARKLLKsgainpivrppkrceqegfkrprglerkltetdrstvsayqpfsaiqpedsepvdskpkflkvskretnddrtpvdkkvygeslltrlapnekpkggntifvqgagisEEFLRQHFSIFGKICSVSMEvekgrgfvtfdspessdkaitddcargfvtfdspessdkaiteVNGTHVQGVKLKVSLARRQlkvapindaassttWSAIACHQslkgnhkdkrhqviydddifgeeppledpdsiametdk
Flexible Loop (DISEMBL)
makytltkkslqaqkaprpepertqasstlkrpieakDAREVARKLlksgainpivrppkrceqegfkrprglerkltetdrstvsayqpfsaiqpedsepvdskpkflkvskretnddrtpvdkkvygeslltrlapnekpkggnTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGfvtfdspessdkaITDDCARGFVTFdspessdkaitevngthvqgVKLKVSLARRQLKVapindaassttWSAIACHQslkgnhkdkrHQVIYDDDifgeeppledpdsiametdk
Low Complexity Region (SEG)
MAKYTLTKKSLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIFGEEPPLEDPDSIAMETDK
Disordered region (IsUnstruct)
************************************************************************************************************************************************GNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTF**********TDDCARGFVTF*********ITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKG*****RHQVIYDDDIF******************
Disordered Region (DISOPRED)
**************************************************************************************************************************************************TIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTF**************ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVS******************************************DDDIFG*****************
Disordered Region (DISEMBL)
********************************PIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLKVS*********PVDKKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIFGEEPPLEDP*********
Disordered Region (DISPRO)
*AKYTLTKKSLQAQK****************RPIE*KDAREVARKLLKS*********************************************************************************************KGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPIN**********************DKRHQVIYDDDIFGEEPPLEDPDSIAM****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAKYTLTKKSLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIFGEEPPLEDPDSIAMETDK
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	298	2.2.26 [Sep-21-2011]
P92204	280	Negative elongation facto	yes	N/A	0.791	0.842	0.435	2e-52
Q95ZE9	281	Negative elongation facto	N/A	N/A	0.798	0.846	0.440	5e-50
Q0V898	374	Negative elongation facto	yes	N/A	0.389	0.310	0.373	2e-20
P18615	380	Negative elongation facto	yes	N/A	0.389	0.305	0.366	5e-20
P19426	375	Negative elongation facto	yes	N/A	0.379	0.301	0.366	3e-19
Q5R8F7	636	Polyadenylate-binding pro	no	N/A	0.251	0.117	0.377	1e-06
P11940	636	Polyadenylate-binding pro	no	N/A	0.251	0.117	0.377	1e-06
P61286	636	Polyadenylate-binding pro	no	N/A	0.251	0.117	0.377	1e-06
P29341	636	Polyadenylate-binding pro	no	N/A	0.251	0.117	0.377	1e-06
Q9EPH8	636	Polyadenylate-binding pro	no	N/A	0.251	0.117	0.377	1e-06

>sp|P92204|NELFE_DROME Negative elongation factor E OS=Drosophila melanogaster GN=Nelf-E PE=1 SV=1

 Score =  206 bits (523), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 118/271 (43%), Positives = 168/271 (61%), Gaps = 35/271 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSLTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSFKRPKGQERA 92

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  +TV++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++   
Sbjct: 93  KRSTSETTVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERGMP 149

Query: 130 ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK          
Sbjct: 150 EKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK---------- 199

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAAS 249
                      +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+S
Sbjct: 200 -----------SRGFVSFAKPESADRAIAEIHGKNVNGINLQVQLARRQPQIEPINDASS 248

Query: 250 STTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           S  WS+IA  +S KG+HKD R  V YD+D  
Sbjct: 249 SAVWSSIAASKSQKGSHKDHREMVQYDEDFL 279

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex, causes transcriptional pausing.
Drosophila melanogaster (taxid: 7227)

>sp|Q95ZE9|NELFE_DROVI Negative elongation factor E OS=Drosophila virilis GN=Nelf-E PE=3 SV=1

 Score =  197 bits (502), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 119/270 (44%), Positives = 164/270 (60%), Gaps = 32/270 (11%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+ EPE   ++ TLKRP +A+DAREVARKL+KSGAI  I +   + +Q  FKRP+G ER 
Sbjct: 37  PKQEPE---SALTLKRPTDARDAREVARKLIKSGAIPAIQKQQTKQDQTSFKRPKGQERA 93

Query: 77  LTETDRSTVSAYQPFSAIQPEDS-EPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTR 135
              T  +TV+AYQPFS+ Q + + E + S+   +K   R  N  +    ++V  E  LT 
Sbjct: 94  KRSTSETTVAAYQPFSSTQNDVAQETIISE--IIKEEPRRQNLYQHFATERVREERGLTE 151

Query: 136 -----LAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPE 190
                    EKP+ GNTIFV G  ++EEFL++ F+ +G I +VSME+EK           
Sbjct: 152 KVTLDTTQPEKPRAGNTIFVSGNKVTEEFLKKTFNDYGTIVNVSMEIEK----------- 200

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS 250
                     +RGFV+F  PES+D+AI E++G  V G+ L+V LARRQ ++ PINDA+SS
Sbjct: 201 ----------SRGFVSFAKPESADRAIAEMHGKSVTGIVLQVQLARRQPQIVPINDASSS 250

Query: 251 TTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
             WS+IA  +S KG+HKD R  V Y+DD  
Sbjct: 251 AVWSSIAASKSQKGSHKDLRQMVQYNDDFL 280

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex, causes transcriptional pausing.

Drosophila virilis (taxid: 7244)

>sp|Q0V898|NELFE_BOVIN Negative elongation factor E OS=Bos taurus GN=RDBP PE=2 SV=1

 Score = 99.8 bits (247), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/142 (37%), Positives = 81/142 (57%), Gaps = 26/142 (18%)

Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV                 
Sbjct: 252 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV----------------- 294

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIACHQ 260
               T++  ES+D+A+ E+NGT V+ V+LKVS+AR+Q    P+ DAA+  + W ++A   
Sbjct: 295 ----TYEKMESADQAVAELNGTQVESVQLKVSIARKQ----PMLDAATGKSVWGSLAVQN 346

Query: 261 SLKGNHKDKRHQVIYDDDIFGE 282
           S KG H+DKR Q++Y DD++ E
Sbjct: 347 SPKGCHRDKRTQIVYSDDVYKE 368

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.

Bos taurus (taxid: 9913)

>sp|P18615|NELFE_HUMAN Negative elongation factor E OS=Homo sapiens GN=RDBP PE=1 SV=3

 Score = 98.6 bits (244), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 52/142 (36%), Positives = 81/142 (57%), Gaps = 26/142 (18%)

Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV                 
Sbjct: 258 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV----------------- 300

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIACHQ 260
               T++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A   
Sbjct: 301 ----TYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLAVQN 352

Query: 261 SLKGNHKDKRHQVIYDDDIFGE 282
           S KG H+DKR Q++Y DD++ E
Sbjct: 353 SPKGCHRDKRTQIVYSDDVYKE 374

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.

Homo sapiens (taxid: 9606)

>sp|P19426|NELFE_MOUSE Negative elongation factor E OS=Mus musculus GN=Rdbp PE=1 SV=2

 Score = 96.3 bits (238), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 51/139 (36%), Positives = 79/139 (56%), Gaps = 26/139 (18%)

Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV                 
Sbjct: 262 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV----------------- 304

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIACHQ 260
               T++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A   
Sbjct: 305 ----TYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLAVQN 356

Query: 261 SLKGNHKDKRHQVIYDDDI 279
           S KG H+DKR Q++Y DD+
Sbjct: 357 SPKGCHRDKRTQIVYSDDL 375

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.

Mus musculus (taxid: 10090)

>sp|Q5R8F7|PABP1_PONAB Polyadenylate-binding protein 1 OS=Pongo abelii GN=PABPC1 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 50/98 (51%), Gaps = 23/98 (23%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           G  ++V+    GI +E LR+ FS FG I S  + +E GR  GF                 
Sbjct: 293 GVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGF----------------- 335

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             GFV F SPE + KA+TE+NG  V    L V+LA+R+
Sbjct: 336 --GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK 371

Binds the poly(A) tail of mRNA. May be involved in cytoplasmic regulatory processes of mRNA metabolism such as pre-mRNA splicing. Its function in translational initiation regulation can either be enhanced by PAIP1 or repressed by PAIP2. Can probably bind to cytoplasmic RNA sequences other than poly(A) in vivo. Involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved in regulation of nonsense-mediated decay (NMD) of mRNAs containing premature stop codons; for the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome-bound release factors is proposed.

Pongo abelii (taxid: 9601)

>sp|P11940|PABP1_HUMAN Polyadenylate-binding protein 1 OS=Homo sapiens GN=PABPC1 PE=1 SV=2

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 50/98 (51%), Gaps = 23/98 (23%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           G  ++V+    GI +E LR+ FS FG I S  + +E GR  GF                 
Sbjct: 293 GVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGF----------------- 335

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             GFV F SPE + KA+TE+NG  V    L V+LA+R+
Sbjct: 336 --GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK 371

Binds the poly(A) tail of mRNA. May be involved in cytoplasmic regulatory processes of mRNA metabolism such as pre-mRNA splicing. Its function in translational initiation regulation can either be enhanced by PAIP1 or repressed by PAIP2. Can probably bind to cytoplasmic RNA sequences other than poly(A) in vivo. Involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved in regulation of nonsense-mediated decay (NMD) of mRNAs containing premature stop codons; for the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome-bound release factors is proposed.

Homo sapiens (taxid: 9606)

>sp|P61286|PABP1_BOVIN Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 50/98 (51%), Gaps = 23/98 (23%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           G  ++V+    GI +E LR+ FS FG I S  + +E GR  GF                 
Sbjct: 293 GVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGF----------------- 335

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             GFV F SPE + KA+TE+NG  V    L V+LA+R+
Sbjct: 336 --GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK 371

Binds the poly(A) tail of mRNA. May be involved in cytoplasmic regulatory processes of mRNA metabolism such as pre-mRNA splicing. Its function in translational initiation regulation can either be enhanced by PAIP1 or repressed by PAIP2. Can probably bind to cytoplasmic RNA sequences other than poly(A) in vivo. Involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved in regulation of nonsense-mediated decay (NMD) of mRNAs containing premature stop codons; for the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome-bound release factors is proposed.

Bos taurus (taxid: 9913)

>sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 50/98 (51%), Gaps = 23/98 (23%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           G  ++V+    GI +E LR+ FS FG I S  + +E GR  GF                 
Sbjct: 293 GVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGF----------------- 335

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             GFV F SPE + KA+TE+NG  V    L V+LA+R+
Sbjct: 336 --GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK 371

Binds the poly(A) tail of mRNA. May be involved in cytoplasmic regulatory processes of mRNA metabolism such as pre-mRNA splicing. Its function in translational initiation regulation can either be enhanced by PAIP1 or repressed by PAIP2. Can probably bind to cytoplasmic RNA sequences other than poly(A) in vivo. Involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved in regulation of nonsense-mediated decay (NMD) of mRNAs containing premature stop codons; for the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome-bound release factors is proposed.

Mus musculus (taxid: 10090)

>sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 50/98 (51%), Gaps = 23/98 (23%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           G  ++V+    GI +E LR+ FS FG I S  + +E GR  GF                 
Sbjct: 293 GVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGF----------------- 335

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             GFV F SPE + KA+TE+NG  V    L V+LA+R+
Sbjct: 336 --GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK 371

Binds the poly(A) tail of mRNA. May be involved in cytoplasmic regulatory processes of mRNA metabolism such as pre-mRNA splicing. Its function in translational initiation regulation can either be enhanced by PAIP1 or repressed by PAIP2. Can probably bind to cytoplasmic RNA sequences other than poly(A) in vivo. Involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. Involved in regulation of nonsense-mediated decay (NMD) of mRNAs containing premature stop codons; for the recognition of premature termination codons (PTC) and initiation of NMD a competitive interaction between UPF1 and PABPC1 with the ribosome-bound release factors is proposed.

Rattus norvegicus (taxid: 10116)

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	298
242025524	273	Negative elongation factor E, putative [	0.771	0.842	0.463	3e-53
91078286	270	PREDICTED: similar to Negative elongatio	0.768	0.848	0.471	8e-52
24661022	280	negative elongation factor E [Drosophila	0.791	0.842	0.435	1e-50
380018252	275	PREDICTED: negative elongation factor E-	0.795	0.861	0.456	2e-50
194865848	280	GG15071 [Drosophila erecta] gi|190653416	0.791	0.842	0.431	2e-50
328790245	275	PREDICTED: negative elongation factor E	0.795	0.861	0.456	2e-50
195326059	280	GM24927 [Drosophila sechellia] gi|194118	0.791	0.842	0.431	3e-50
195491140	280	GE21294 [Drosophila yakuba] gi|194179535	0.791	0.842	0.431	3e-50
307202249	272	Negative elongation factor E [Harpegnath	0.795	0.871	0.447	5e-50
125978160	282	GA19284 [Drosophila pseudoobscura pseudo	0.795	0.840	0.437	2e-49

>gi|242025524|ref|XP_002433174.1| Negative elongation factor E, putative [Pediculus humanus corporis] gi|212518715|gb|EEB20436.1| Negative elongation factor E, putative [Pediculus humanus corporis]

 Score =  214 bits (546), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 126/272 (46%), Positives = 169/272 (62%), Gaps = 42/272 (15%)

Query: 16  APRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLER 75
           AP+PEPE+   +   KRP E +DA+E A+KL+KSGAI    + P+R EQ GFKRP GLER
Sbjct: 36  APKPEPEKQ--TILPKRPAEGRDAKERAKKLVKSGAIT-TSKTPRRPEQAGFKRPMGLER 92

Query: 76  KLTETDRSTVSAYQPFSAIQPEDSEPVDSKPK-------FLKVSKRETNDDRTPVDKKVY 128
           KL+  +R TVS YQPFSA QPE++   +S+PK       F+    RE         ++  
Sbjct: 93  KLSGVER-TVSGYQPFSATQPEEAPETESRPKVKNLYDSFVSARDRE---------ERGL 142

Query: 129 GESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDS 188
           G+    +  P+ KP+ GNTIFV G  I+E+ LR+ F   G I +VSME+EK RGFVT   
Sbjct: 143 GDKQKEQGKPD-KPRQGNTIFVSGYKITEDLLRKTFQGMGNIVNVSMEIEKNRGFVT--- 198

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAA 248
                             FD  +++++AI E++G+ V GV+LKVSLARRQ  V  INDA+
Sbjct: 199 ------------------FDKMDAAERAINEMDGSMVSGVQLKVSLARRQPVVEAINDAS 240

Query: 249 SSTTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           SS+TWS IA   S KGNHKDKR  ++Y++D+F
Sbjct: 241 SSSTWSTIAASHSQKGNHKDKRDVIVYEEDLF 272

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078286|ref|XP_971953.1| PREDICTED: similar to Negative elongation factor E CG5994-PA [Tribolium castaneum] gi|270003949|gb|EFA00397.1| hypothetical protein TcasGA2_TC003247 [Tribolium castaneum]

 Score =  209 bits (533), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 124/263 (47%), Positives = 167/263 (63%), Gaps = 34/263 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE+     T KRP EA+DAREVA+KL+KSGAI  I +  K+ EQ GFKRPRGLERK
Sbjct: 37  PKPEPEK---PITPKRPAEARDAREVAKKLIKSGAIPAISKQQKQPEQ-GFKRPRGLERK 92

Query: 77  LTETDRSTVSAYQPFSAIQPEDS--EPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLT 134
           L  +D+  VS YQPFSA+Q +D    P +  P+   +     N      D++  G +   
Sbjct: 93  LI-SDK-IVSGYQPFSAVQMDDGPDNPENKPPRIKNLYDTFANAR----DREERGLTEKQ 146

Query: 135 RLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
           R  P+ KP+ GNTI+V G  I+EEFL++HFS  G I ++SME+EK RGFVT         
Sbjct: 147 REKPD-KPRQGNTIYVSGYKITEEFLKKHFSTIGNIVNISMEIEKNRGFVT--------- 196

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWS 254
                       FD  E++++AI E++G+ V G++LKV+LARRQ ++ PINDA+SS  W+
Sbjct: 197 ------------FDKVEAAERAIAEMDGSMVSGIQLKVTLARRQPQIEPINDASSSAAWA 244

Query: 255 AIACHQSLKGNHKDKRHQVIYDD 277
            +A   S KGNH+DKR+ V YDD
Sbjct: 245 TLASSHSQKGNHRDKRNLVSYDD 267

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|24661022|ref|NP_648241.1| negative elongation factor E [Drosophila melanogaster] gi|38372288|sp|P92204.1|NELFE_DROME RecName: Full=Negative elongation factor E gi|1749772|emb|CAA71123.1| ANON-66Da protein [Drosophila melanogaster] gi|1749776|emb|CAA71120.1| ANON-66Da protein [Drosophila melanogaster] gi|7295068|gb|AAF50394.1| negative elongation factor E [Drosophila melanogaster] gi|17945251|gb|AAL48683.1| RE14181p [Drosophila melanogaster] gi|220947970|gb|ACL86528.1| Nelf-E-PA [synthetic construct] gi|220957250|gb|ACL91168.1| Nelf-E-PA [synthetic construct]

 Score =  206 bits (523), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 118/271 (43%), Positives = 168/271 (61%), Gaps = 35/271 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSLTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSFKRPKGQERA 92

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  +TV++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++   
Sbjct: 93  KRSTSETTVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERGMP 149

Query: 130 ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK          
Sbjct: 150 EKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK---------- 199

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAAS 249
                      +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+S
Sbjct: 200 -----------SRGFVSFAKPESADRAIAEIHGKNVNGINLQVQLARRQPQIEPINDASS 248

Query: 250 STTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           S  WS+IA  +S KG+HKD R  V YD+D  
Sbjct: 249 SAVWSSIAASKSQKGSHKDHREMVQYDEDFL 279

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380018252|ref|XP_003693047.1| PREDICTED: negative elongation factor E-like [Apis florea]

 Score =  205 bits (522), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 126/276 (45%), Positives = 169/276 (61%), Gaps = 39/276 (14%)

Query: 10  SLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKR 69
           +LQ  KAP+ E ER     T KRP EA+DAREVA+KL+KSG I    + PKR EQ  FKR
Sbjct: 33  ALQDLKAPKQETER--VPQTPKRPTEARDAREVAKKLIKSGVITA-PKTPKRPEQ-SFKR 88

Query: 70  PRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLK-----VSKRETNDDRTPVD 124
           PRGL RKL  T++ TVS+YQPFSA Q E+ EP   +P+        VS ++T +DRT  D
Sbjct: 89  PRGLVRKLNSTEK-TVSSYQPFSATQMEEEEPETVRPRVKDLYDSFVSAQDT-EDRTNRD 146

Query: 125 KKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFV 184
            +   +  +       KP+ GNTIFV G  ISE+FL++HF  FG I ++SME EK RGFV
Sbjct: 147 VQSPSKQEM-------KPRAGNTIFVCGYKISEDFLKKHFQTFGNIINISMEAEKNRGFV 199

Query: 185 TFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPI 244
           T                     FD  E++++AI+E++G+ V  ++LKVSLARRQ  +  +
Sbjct: 200 T---------------------FDKTEAAERAISEMDGSMVSSIQLKVSLARRQPIIESM 238

Query: 245 NDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
            DA SS+ WS IA + S K  HKD+R   +Y++D+F
Sbjct: 239 TDATSSSMWSPIAANYSQKSAHKDRRDLKVYEEDLF 274

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194865848|ref|XP_001971633.1| GG15071 [Drosophila erecta] gi|190653416|gb|EDV50659.1| GG15071 [Drosophila erecta]

 Score =  205 bits (521), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 117/271 (43%), Positives = 168/271 (61%), Gaps = 35/271 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSMTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSFKRPKGQERA 92

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  ++V++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++   
Sbjct: 93  KRSTSETSVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERGMP 149

Query: 130 ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK          
Sbjct: 150 EKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK---------- 199

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAAS 249
                      +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+S
Sbjct: 200 -----------SRGFVSFAKPESADRAIAEIHGKNVNGINLQVQLARRQPQIEPINDASS 248

Query: 250 STTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           S  WS+IA  +S KG+HKD R  V YD+D  
Sbjct: 249 SAVWSSIAASKSQKGSHKDHREMVQYDEDFL 279

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328790245|ref|XP_394669.2| PREDICTED: negative elongation factor E [Apis mellifera]

 Score =  205 bits (521), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 126/276 (45%), Positives = 169/276 (61%), Gaps = 39/276 (14%)

Query: 10  SLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKR 69
           +LQ  KAP+ E ER     T KRP EA+DAREVA+KL+KSG I    + PKR EQ  FKR
Sbjct: 33  ALQDLKAPKQETER--VPQTPKRPTEARDAREVAKKLIKSGVITA-PKTPKRPEQ-SFKR 88

Query: 70  PRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFLK-----VSKRETNDDRTPVD 124
           PRGL RKL  T++ TVS+YQPFSA Q E+ EP   +P+        VS ++T +DRT  D
Sbjct: 89  PRGLVRKLNSTEK-TVSSYQPFSATQMEEEEPETVRPRVKDLYDSFVSAQDT-EDRTSRD 146

Query: 125 KKVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFV 184
            +   +  +       KP+ GNTIFV G  ISE+FL++HF  FG I ++SME EK RGFV
Sbjct: 147 IQSPSKQEI-------KPRAGNTIFVCGYKISEDFLKKHFQTFGNIINISMEAEKNRGFV 199

Query: 185 TFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPI 244
           T                     FD  E++++AI+E++G+ V  ++LKVSLARRQ  +  +
Sbjct: 200 T---------------------FDKTEAAERAISEMDGSMVSSIQLKVSLARRQPIIESM 238

Query: 245 NDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
            DA SS+ WS IA + S K  HKD+R   +Y++D+F
Sbjct: 239 TDATSSSMWSPIAANYSQKSAHKDRRDLKVYEEDLF 274

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195326059|ref|XP_002029748.1| GM24927 [Drosophila sechellia] gi|194118691|gb|EDW40734.1| GM24927 [Drosophila sechellia]

 Score =  204 bits (520), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 117/271 (43%), Positives = 168/271 (61%), Gaps = 35/271 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSLTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSFKRPKGQERA 92

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  ++V++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++   
Sbjct: 93  KRSTSETSVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERGMP 149

Query: 130 ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK          
Sbjct: 150 EKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK---------- 199

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAAS 249
                      +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+S
Sbjct: 200 -----------SRGFVSFAKPESADRAIAEIHGKNVNGINLQVQLARRQPQIEPINDASS 248

Query: 250 STTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           S  WS+IA  +S KG+HKD R  V YD+D  
Sbjct: 249 SAVWSSIAASKSQKGSHKDHREMVQYDEDFL 279

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195491140|ref|XP_002093434.1| GE21294 [Drosophila yakuba] gi|194179535|gb|EDW93146.1| GE21294 [Drosophila yakuba]

 Score =  204 bits (520), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 117/271 (43%), Positives = 168/271 (61%), Gaps = 35/271 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSLTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSFKRPKGQERA 92

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  ++V++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++   
Sbjct: 93  KRSTSETSVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERGMP 149

Query: 130 ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK          
Sbjct: 150 EKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK---------- 199

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAAS 249
                      +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+S
Sbjct: 200 -----------SRGFVSFAKPESADRAIAEIHGKNVNGINLQVQLARRQPQIEPINDASS 248

Query: 250 STTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           S  WS+IA  +S KG+HKD R  V YD+D  
Sbjct: 249 SAVWSSIAASKSQKGSHKDHREMVQYDEDFL 279

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307202249|gb|EFN81733.1| Negative elongation factor E [Harpegnathos saltator]

 Score =  204 bits (518), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 123/275 (44%), Positives = 171/275 (62%), Gaps = 38/275 (13%)

Query: 10  SLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKR 69
           +LQ  KAP+ E ER   +   KRP EA+DAREVA+KL+KSG I    + PKR EQ  FKR
Sbjct: 31  ALQDLKAPKQEAERIPQAP--KRPTEARDAREVAKKLIKSGVITA-PKTPKRPEQ-SFKR 86

Query: 70  PRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPK----FLKVSKRETNDDRTPVDK 125
           PRGLERKL  T++ T+S+YQPFSA Q E+ E   ++P+    +      E+ DD+  VD 
Sbjct: 87  PRGLERKLNSTEK-TISSYQPFSATQLEEEETEAARPRVKDLYDSFVSAESTDDKNTVDT 145

Query: 126 KVYGESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVT 185
           +       +   P+ KP+GGNTIFV G  I+E++L++HF  FG I ++SMEVEK RGF+T
Sbjct: 146 Q-------SVTKPDIKPRGGNTIFVCGYKITEDYLKKHFQSFGNIINISMEVEKNRGFIT 198

Query: 186 FDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPIN 245
           F   E +D A                  ++AI+E++G+ V  ++LKVSLARRQ  + P+ 
Sbjct: 199 F---EKADAA------------------ERAISEMDGSMVSSIQLKVSLARRQPIIEPVT 237

Query: 246 DAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           D  SS+ WS IA + S K  HKD+R   +Y++D+F
Sbjct: 238 D-MSSSMWSPIAANYSQKSVHKDRRDLKVYEEDLF 271

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125978160|ref|XP_001353113.1| GA19284 [Drosophila pseudoobscura pseudoobscura] gi|195173466|ref|XP_002027512.1| GL10297 [Drosophila persimilis] gi|54641864|gb|EAL30614.1| GA19284 [Drosophila pseudoobscura pseudoobscura] gi|194114413|gb|EDW36456.1| GL10297 [Drosophila persimilis]

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 119/272 (43%), Positives = 168/272 (61%), Gaps = 35/272 (12%)

Query: 17  PRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGFKRPRGLERK 76
           P+PEPE   +S TLKRP +A+DAREVARKL+KSGAI  I +   + +Q  FKRP+G ER 
Sbjct: 37  PKPEPE---SSLTLKRPTDARDAREVARKLIKSGAIPAIQKQQTKQDQTSFKRPKGQERA 93

Query: 77  LTETDRSTVSAYQPFSAIQPE------DSEPVDSKPKFLKVSKR-ETNDDRTPVDKKVYG 129
              T  +TV++YQPFS+ Q +       SE +  +P+   + +   T  DR   +++V  
Sbjct: 94  KRSTSETTVASYQPFSSTQNDVAQETIISEIIKEEPRRQNLYQHFATERDR---EERVMA 150

Query: 130 E-SLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDS 188
           E +      P EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK         
Sbjct: 151 EKAAAIDTPPPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEK--------- 201

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAA 248
                       +RGFV+F  PES+D+AI E++G +V G+ L+V LARRQ ++ PINDA+
Sbjct: 202 ------------SRGFVSFAKPESADRAIAEMHGKNVTGIVLQVQLARRQPQIEPINDAS 249

Query: 249 SSTTWSAIACHQSLKGNHKDKRHQVIYDDDIF 280
           SS  WS+IA  +S KG+HKD R  V Y+DD  
Sbjct: 250 SSAVWSSIAASKSQKGSHKDHREMVKYNDDFL 281

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	298
FB|FBgn0017430	280	Nelf-E "Negative elongation fa	0.620	0.660	0.477	7.8e-62
UNIPROTKB|Q95ZE9	281	Nelf-E "Negative elongation fa	0.624	0.661	0.472	6.1e-60
UNIPROTKB|B4DUN1	350	NELFE "cDNA FLJ52247, highly s	0.261	0.222	0.458	7.3e-23
UNIPROTKB|K7GQ47	373	RDBP "Uncharacterized protein"	0.261	0.209	0.470	1.4e-22
UNIPROTKB|Q0V898	374	RDBP "Negative elongation fact	0.261	0.208	0.470	1.4e-22
UNIPROTKB|F1RQW5	378	RDBP "Uncharacterized protein"	0.261	0.206	0.470	1.5e-22
ZFIN|ZDB-GENE-040718-69	378	nelfe "negative elongation fac	0.248	0.195	0.469	2.6e-22
UNIPROTKB|P18615	380	NELFE "Negative elongation fac	0.261	0.205	0.458	4.5e-22
UNIPROTKB|B4DYX9	387	NELFE "cDNA FLJ56180, highly s	0.261	0.201	0.458	5.1e-22
UNIPROTKB|F1LP40	344	Rdbp "Protein Rdbp" [Rattus no	0.251	0.218	0.463	2e-21

FB|FBgn0017430 Nelf-E "Negative elongation factor E" [Drosophila melanogaster (taxid:7227)]

 Score = 411 (149.7 bits), Expect = 7.8e-62, Sum P(2) = 7.8e-62
 Identities = 94/197 (47%), Positives = 131/197 (66%)

Query:     8 KKSLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGF 67
             KK+LQA KAP+PEPE   +S TLKRP +A+DAREVARKL+KSGAI P ++   + +Q  F
Sbjct:    28 KKALQAHKAPKPEPE---SSLTLKRPTDARDAREVARKLIKSGAI-PAIQKQTKQDQTSF 83

Query:    68 KRPRGLERKLTETDRSTVSAYQPFSAIQPEDS-EPVDSKPKFLKVSKRETN---DDRTPV 123
             KRP+G ER    T  +TV++YQPFS+ Q + + E + S+   +K   R  N      T  
Sbjct:    84 KRPKGQERAKRSTSETTVASYQPFSSTQNDVAQETIISE--IIKEEPRRQNLYQHFATER 141

Query:   124 DKKVYG--ESLLTRLAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGR 181
             D++  G  E +    A  EKP+ GNTIFV G  ++E+FL++ F+ +G I +VSME+EK R
Sbjct:   142 DREERGMPEKVPMDTAQPEKPRAGNTIFVSGNKVTEDFLKKTFNDYGTIVNVSMEIEKSR 201

Query:   182 GFVTFDSPESSDKAITD 198
             GFV+F  PES+D+AI +
Sbjct:   202 GFVSFAKPESADRAIAE 218

GO:0003729 "mRNA binding" evidence=ISS;IDA

GO:0007070 "negative regulation of transcription from RNA polymerase II promoter during mitosis" evidence=IDA

GO:0017053 "transcriptional repressor complex" evidence=IDA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0032021 "NELF complex" evidence=IPI

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|Q95ZE9 Nelf-E "Negative elongation factor E" [Drosophila virilis (taxid:7244)]

 Score = 401 (146.2 bits), Expect = 6.1e-60, Sum P(2) = 6.1e-60
 Identities = 93/197 (47%), Positives = 128/197 (64%)

Query:     8 KKSLQAQKAPRPEPERTQASSTLKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGF 67
             KK+LQA KAP+ EPE   ++ TLKRP +A+DAREVARKL+KSGAI  I +   + +Q  F
Sbjct:    28 KKALQAHKAPKQEPE---SALTLKRPTDARDAREVARKLIKSGAIPAIQKQQTKQDQTSF 84

Query:    68 KRPRGLERKLTETDRSTVSAYQPFSAIQPEDS-EPVDSKPKFLKVSKRETNDDRTPVDKK 126
             KRP+G ER    T  +TV+AYQPFS+ Q + + E + S+   +K   R  N  +    ++
Sbjct:    85 KRPKGQERAKRSTSETTVAAYQPFSSTQNDVAQETIISE--IIKEEPRRQNLYQHFATER 142

Query:   127 VYGESLLTR-----LAPNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGR 181
             V  E  LT          EKP+ GNTIFV G  ++EEFL++ F+ +G I +VSME+EK R
Sbjct:   143 VREERGLTEKVTLDTTQPEKPRAGNTIFVSGNKVTEEFLKKTFNDYGTIVNVSMEIEKSR 202

Query:   182 GFVTFDSPESSDKAITD 198
             GFV+F  PES+D+AI +
Sbjct:   203 GFVSFAKPESADRAIAE 219

GO:0003723 "RNA binding" evidence=ISS

GO:0007070 "negative regulation of transcription from RNA polymerase II promoter during mitosis" evidence=ISS

GO:0017053 "transcriptional repressor complex" evidence=ISS

UNIPROTKB|B4DUN1 NELFE "cDNA FLJ52247, highly similar to Negative elongation factor E" [Homo sapiens (taxid:9606)]

 Score = 197 (74.4 bits), Expect = 7.3e-23, Sum P(2) = 7.3e-23
 Identities = 39/85 (45%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A
Sbjct:   266 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLA 319

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   320 VQNSPKGCHRDKRTQIVYSDDVYKE 344

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|K7GQ47 RDBP "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 200 (75.5 bits), Expect = 1.4e-22, Sum P(2) = 1.4e-22
 Identities = 40/85 (47%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKVS+AR+Q    P+ DAA+  + W ++A
Sbjct:   289 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVSIARKQ----PMLDAATGKSVWGSLA 342

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   343 VQNSPKGCHRDKRTQIVYSDDVYKE 367

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q0V898 RDBP "Negative elongation factor E" [Bos taurus (taxid:9913)]

 Score = 200 (75.5 bits), Expect = 1.4e-22, Sum P(2) = 1.4e-22
 Identities = 40/85 (47%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKVS+AR+Q    P+ DAA+  + W ++A
Sbjct:   290 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVSIARKQ----PMLDAATGKSVWGSLA 343

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   344 VQNSPKGCHRDKRTQIVYSDDVYKE 368

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IEA

GO:0032021 "NELF complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RQW5 RDBP "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 200 (75.5 bits), Expect = 1.5e-22, Sum P(2) = 1.5e-22
 Identities = 40/85 (47%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKVS+AR+Q    P+ DAA+  + W ++A
Sbjct:   294 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVSIARKQ----PMLDAATGKSVWGSLA 347

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   348 VQNSPKGCHRDKRTQIVYSDDVYKE 372

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IEA

GO:0032021 "NELF complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040718-69 nelfe "negative elongation factor complex member E" [Danio rerio (taxid:7955)]

 Score = 182 (69.1 bits), Expect = 2.6e-22, Sum P(2) = 2.6e-22
 Identities = 38/81 (46%), Positives = 58/81 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVTF+  ES+D+A+ E+NGT V  V +KVS+AR+Q    P+ DAA+  + W+++A
Sbjct:   302 NCA--FVTFEKIESADQAVAELNGTTVGDVNIKVSIARKQ----PMLDAATGKSVWASLA 355

Query:   258 CHQSLKGNHKDKRHQVIYDDD 278
                S KG+++DKR QV+Y +D
Sbjct:   356 VQNSAKGSYRDKRSQVVYSED 376

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|P18615 NELFE "Negative elongation factor E" [Homo sapiens (taxid:9606)]

 Score = 197 (74.4 bits), Expect = 4.5e-22, Sum P(2) = 4.5e-22
 Identities = 39/85 (45%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A
Sbjct:   296 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLA 349

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   350 VQNSPKGCHRDKRTQIVYSDDVYKE 374

GO:0000166 "nucleotide binding" evidence=IEA

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IEA

GO:0003723 "RNA binding" evidence=NAS

GO:0005634 "nucleus" evidence=IDA;NAS

GO:0008150 "biological_process" evidence=ND

GO:0032021 "NELF complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

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

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0050434 "positive regulation of viral transcription" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005730 "nucleolus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|B4DYX9 NELFE "cDNA FLJ56180, highly similar to Negative elongation factor E" [Homo sapiens (taxid:9606)]

 Score = 197 (74.4 bits), Expect = 5.1e-22, Sum P(2) = 5.1e-22
 Identities = 39/85 (45%), Positives = 61/85 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A
Sbjct:   303 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLA 356

Query:   258 CHQSLKGNHKDKRHQVIYDDDIFGE 282
                S KG H+DKR Q++Y DD++ E
Sbjct:   357 VQNSPKGCHRDKRTQIVYSDDVYKE 381

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|F1LP40 Rdbp "Protein Rdbp" [Rattus norvegicus (taxid:10116)]

 Score = 190 (71.9 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 38/82 (46%), Positives = 59/82 (71%)

Query:   199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS-TTWSAIA 257
             +CA  FVT++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+  + W ++A
Sbjct:   269 NCA--FVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATGKSVWGSLA 322

Query:   258 CHQSLKGNHKDKRHQVIYDDDI 279
                S KG H+DKR Q++Y DD+
Sbjct:   323 VQNSPKGCHRDKRTQIVYSDDL 344

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0032021 "NELF complex" evidence=IEA

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P92204	NELFE_DROME	No assigned EC number	0.4354	0.7919	0.8428	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	298
cd12305	75	cd12305, RRM_NELFE, RNA recognition motif in negat	8e-28
smart00360	73	smart00360, RRM, RNA recognition motif	8e-12
cd12381	79	cd12381, RRM4_I_PABPs, RNA recognition motif 4 in	9e-11
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	5e-10
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	6e-10
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	9e-08
cd12362	73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	1e-07
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-07
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	2e-07
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	2e-07
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	8e-07
cd12407	76	cd12407, RRM_FOX1_like, RNA recognition motif in v	9e-07
cd12328	73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	1e-06
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	1e-06
cd12620	73	cd12620, RRM3_TIAR, RNA recognition motif 3 in nuc	1e-06
cd12257	72	cd12257, RRM1_RBM26_like, RNA recognition motif 1	1e-06
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	2e-06
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	2e-06
cd12379	77	cd12379, RRM2_I_PABPs, RNA recognition motif 2 fou	2e-06
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	3e-06
cd12621	74	cd12621, RRM3_TIA1, RNA recognition motif 3 in nuc	4e-06
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	1e-05
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	1e-05
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	2e-05
cd12322	71	cd12322, RRM2_TDP43, RNA recognition motif 2 in TA	2e-05
cd12224	74	cd12224, RRM_RBM22, RNA recognition motif (RRM) fo	2e-05
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	2e-05
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	3e-05
cd12650	78	cd12650, RRM1_Hu, RNA recognition motif 1 in the H	3e-05
cd12323	74	cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-	5e-05
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	6e-05
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	6e-05
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	6e-05
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	8e-05
cd12327	80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	9e-05
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-04
cd12355	80	cd12355, RRM_RBM18, RNA recognition motif in eukar	2e-04
cd12251	72	cd12251, RRM3_hnRNPR_like, RNA recognition motif 3	2e-04
cd12273	71	cd12273, RRM1_NEFsp, RNA recognition motif 1 in ve	2e-04
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	3e-04
cd12365	73	cd12365, RRM_RNPS1, RNA recognition motif in RNA-b	3e-04
cd12371	77	cd12371, RRM2_PUF60, RNA recognition motif 2 in (U	4e-04
cd12326	79	cd12326, RRM1_hnRNPA0, RNA recognition motif 1 fou	4e-04
cd12335	83	cd12335, RRM2_SF3B4, RNA recognition motif 2 in sp	4e-04
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	4e-04
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	4e-04
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	6e-04
cd12639	79	cd12639, RRM3_CELF3_4_5_6, RNA recognition motif 2	6e-04
cd12431	80	cd12431, RRM_ALKBH8, RNA recognition motif in alky	8e-04
cd12649	81	cd12649, RRM1_SXL, RNA recognition motif 1 in Dros	9e-04
cd12341	68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	0.001
cd12369	68	cd12369, RRM4_RBM45, RNA recognition motif 4 in RN	0.001
cd12223	84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	0.001
cd12377	78	cd12377, RRM3_Hu, RNA recognition motif 3 in the H	0.001
cd12370	76	cd12370, RRM1_PUF60, RNA recognition motif 1 in (U	0.001
cd12279	74	cd12279, RRM_TUT1, RNA recognition motif in speckl	0.001
cd12565	76	cd12565, RRM1_MRD1, RNA recognition motif 1 in yea	0.001
cd12332	71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	0.001
cd12226	78	cd12226, RRM_NOL8, RNA recognition motif in nucleo	0.002
PLN03134	144	PLN03134, PLN03134, glycine-rich RNA-binding prote	0.002
TIGR01661	352	TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing f	0.002
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	0.002
cd12673	81	cd12673, RRM_BOULE, RNA recognition motif in prote	0.003
cd12772	84	cd12772, RRM1_HuC, RNA recognition motif 1 in vert	0.003
cd12351	77	cd12351, RRM4_SHARP, RNA recognition motif 4 in SM	0.004
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	0.004

>gnl|CDD|240751 cd12305, RRM_NELFE, RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

 Score =  102 bits (256), Expect = 8e-28
 Identities = 45/96 (46%), Positives = 60/96 (62%), Gaps = 21/96 (21%)

Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G G++EE L++ FS FG I ++SME EK  GFVTF+              
Sbjct: 1   PRKGNTLYVHGYGLTEEILKKAFSPFGNIINISMEKEKNCGFVTFEK------------- 47

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                    ES+D+AI E+NGT VQGV+LKVSLAR+
Sbjct: 48  --------MESADRAIAELNGTTVQGVQLKVSLARK 75

This subfamily corresponds to the RRM of NELF-E, also termed RNA-binding protein RD. NELF-E is the RNA-binding subunit of cellular negative transcription elongation factor NELF (negative elongation factor) involved in transcriptional regulation of HIV-1 by binding to the stem of the viral transactivation-response element (TAR) RNA which is synthesized by cellular RNA polymerase II at the viral long terminal repeat. NELF is a heterotetrameric protein consisting of NELF A, B, C or the splice variant D, and E. NELF-E contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It plays a role in the control of HIV transcription by binding to TAR RNA. In addition, NELF-E is associated with the NELF-B subunit, probably via a leucine zipper motif. . Length = 75

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

 Score = 59.5 bits (145), Expect = 8e-12
 Identities = 31/92 (33%), Positives = 43/92 (46%), Gaps = 25/92 (27%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDC 200
           T+FV       +EE LR+ FS FGK+ SV +    E  K +GF                 
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGF----------------- 43

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
              FV F+S E ++KA+  +NG  + G  LKV
Sbjct: 44  --AFVEFESEEDAEKALEALNGKELDGRPLKV 73

Length = 73

>gnl|CDD|240827 cd12381, RRM4_I_PABPs, RNA recognition motif 4 in type I polyadenylate-binding proteins

 Score = 56.9 bits (138), Expect = 9e-11
 Identities = 35/87 (40%), Positives = 44/87 (50%), Gaps = 22/87 (25%)

Query: 154 GISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFDSP 210
            I +E LR+ FS FG I S   M  EKG  +GF                   GFV F SP
Sbjct: 12  SIDDERLREEFSPFGTITSAKVMTDEKGRSKGF-------------------GFVCFSSP 52

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARR 237
           E + KA+TE+NG  + G  L V+LA+R
Sbjct: 53  EEATKAVTEMNGRIIGGKPLYVALAQR 79

This subfamily corresponds to the RRM4 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in theThe CD corresponds to the RRM. regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 79

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

 Score = 54.5 bits (132), Expect = 5e-10
 Identities = 33/99 (33%), Positives = 48/99 (48%), Gaps = 25/99 (25%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPESSDKAITD 198
           GN +FV G     +E+ L   FS FG++    +  + E G  RGF               
Sbjct: 1   GNKLFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGF--------------- 45

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
               GFVTF+S E +D AI ++NG  ++G  +KV  A+R
Sbjct: 46  ----GFVTFESVEDADAAIRDLNGKELEGRVIKVEKAKR 80

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

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

 Score = 54.2 bits (131), Expect = 6e-10
 Identities = 32/91 (35%), Positives = 45/91 (49%), Gaps = 24/91 (26%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSM---EVEKGRGFVTFDSPESSDKAITDDCAR 202
           +FV       +EE LR+ FS FG+I SV +   +  K +GF                   
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGF------------------- 41

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKVS 233
            FV F+SPE ++KA+  +NG  + G KLKVS
Sbjct: 42  AFVEFESPEDAEKALEALNGKELDGRKLKVS 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|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 = 9e-08
 Identities = 29/89 (32%), Positives = 42/89 (47%), Gaps = 23/89 (25%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           T++V     G++EE L++ FS FG I  V   V K +G+                    F
Sbjct: 2   TVYVGNLPHGLTEEELQRTFSPFGAIEEV--RVFKDKGY-------------------AF 40

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVS 233
           V FD+ E++  AI  VNGT + G  +K S
Sbjct: 41  VRFDTHEAAATAIVAVNGTSINGQTVKCS 69

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|240808 cd12362, RRM3_CELF1-6, RNA recognition motif 3 in CELF/Bruno-like family of RNA binding proteins CELF1, CELF2, CELF3, CELF4, CELF5, CELF6 and similar proteins

 Score = 47.6 bits (114), Expect = 1e-07
 Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 23/78 (29%)

Query: 160 LRQHFSIFGKICSVSMEVEK----GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK 215
           L Q F+ FG + S  + V+K     + F                   GFV++D+PES+  
Sbjct: 15  LYQLFAPFGNVISAKVFVDKNTGQSKCF-------------------GFVSYDNPESAQA 55

Query: 216 AITEVNGTHVQGVKLKVS 233
           AI  +NG  V G +LKV 
Sbjct: 56  AIKAMNGFQVGGKRLKVQ 73

This subgroup corresponds to the RRM3 of the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) proteins, a family of structurally related RNA-binding proteins involved in the regulation of pre-mRNA splicing in the nucleus and in the control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also termed BRUNOL-2, or CUG-BP1, or NAPOR, or EDEN-BP), CELF-2 (also termed BRUNOL-3, or ETR-3, or CUG-BP2, or NAPOR-2), CELF-3 (also termed BRUNOL-1, or TNRC4, or ETR-1, or CAGH4, or ER DA4), CELF-4 (also termed BRUNOL-4), CELF-5 (also termed BRUNOL-5), CELF-6 (also termed BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. . Length = 73

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

 Score = 47.6 bits (114), Expect = 2e-07
 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 24/89 (26%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSM---EVEKGRGFVTFDSPESSDKAITDDCAR 202
           +FV       +EE L+  FS FG I S+ +   E  + +GF                   
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGF------------------- 41

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLK 231
            FV F+  E ++KA+  +NG  + G +L+
Sbjct: 42  AFVEFEDEEDAEKALEALNGKELGGRELR 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|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 52.1 bits (125), Expect = 2e-07
 Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 22/88 (25%)

Query: 154 GISEEFLRQHFSIFGKICSVSM---EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP 210
            +++E LR+ FS  G+I S  +   E    RGF                   GFV F +P
Sbjct: 296 TVTDEKLRELFSECGEITSAKVMLDEKGVSRGF-------------------GFVCFSNP 336

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           E +++A+TE++G  + G  L V+LA+R+
Sbjct: 337 EEANRAVTEMHGRMLGGKPLYVALAQRK 364

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

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

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           T+FV G    ++E+ LR  F  FG+I  V +   KG GFV F    +++ AI
Sbjct: 3   TVFVGGLDPAVTEDELRSLFGPFGEIVYVKIPPGKGCGFVQFVHRAAAEAAI 54

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

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

 Score = 45.7 bits (109), Expect = 8e-07
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 23/85 (27%)

Query: 156 SEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
           +EE L+  F  FG++ S  +    E  + RGF                   GFV  ++ E
Sbjct: 12  TEEDLKDLFGQFGEVTSARVITDRETGRSRGF-------------------GFVEMETAE 52

Query: 212 SSDKAITEVNGTHVQGVKLKVSLAR 236
            ++ AI ++NGT   G  L V+ AR
Sbjct: 53  EANAAIEKLNGTDFGGRTLTVNEAR 77

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|240853 cd12407, RRM_FOX1_like, RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

 Score = 45.5 bits (108), Expect = 9e-07
 Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 21/78 (26%)

Query: 160 LRQHFSIFGKICSVSMEV-EKG-RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI 217
           LRQ F  FG I  V +   E+G +GF                   GFVTF +   +D+A 
Sbjct: 17  LRQMFGQFGPILDVEIIFNERGSKGF-------------------GFVTFANSADADRAR 57

Query: 218 TEVNGTHVQGVKLKVSLA 235
            +++GT V+G K++V+ A
Sbjct: 58  EKLHGTVVEGRKIEVNNA 75

This subfamily corresponds to the RRM of several tissue-specific alternative splicing isoforms of vertebrate RNA binding protein Fox-1 homologs, which show high sequence similarity to the Caenorhabditis elegans feminizing locus on X (Fox-1) gene encoding Fox-1 protein. RNA binding protein Fox-1 homolog 1 (RBFOX1), also termed ataxin-2-binding protein 1 (A2BP1), or Fox-1 homolog A, or hexaribonucleotide-binding protein 1 (HRNBP1), is predominantly expressed in neurons, skeletal muscle and heart. It regulates alternative splicing of tissue-specific exons by binding to UGCAUG elements. Moreover, RBFOX1 binds to the C-terminus of ataxin-2 and forms an ataxin-2/A2BP1 complex involved in RNA processing. RNA binding protein fox-1 homolog 2 (RBFOX2), also termed Fox-1 homolog B, or hexaribonucleotide-binding protein 2 (HRNBP2), or RNA-binding motif protein 9 (RBM9), or repressor of tamoxifen transcriptional activity, is expressed in ovary, whole embryo, and human embryonic cell lines in addition to neurons and muscle. RBFOX2 activates splicing of neuron-specific exons through binding to downstream UGCAUG elements. RBFOX2 also functions as a repressor of tamoxifen activation of the estrogen receptor. RNA binding protein Fox-1 homolog 3 (RBFOX3 or NeuN or HRNBP3), also termed Fox-1 homolog C, is a nuclear RNA-binding protein that regulates alternative splicing of the RBFOX2 pre-mRNA, producing a message encoding a dominant negative form of the RBFOX2 protein. Its message is detected exclusively in post-mitotic regions of embryonic brain. Like RBFOX1, both RBFOX2 and RBFOX3 bind to the hexanucleotide UGCAUG elements and modulate brain and muscle-specific splicing of exon EIIIB of fibronectin, exon N1 of c-src, and calcitonin/CGRP. Members in this family also harbor one RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

>gnl|CDD|240774 cd12328, RRM2_hnRNPA_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A subfamily

 Score = 44.9 bits (107), Expect = 1e-06
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 8/57 (14%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAI 196
           +FV G    ++EE LR++FS +G + SV +  +K      G  FVTFD  +  DK +
Sbjct: 2   LFVGGLKEDVTEEDLREYFSQYGNVESVEIVTDKETGKKRGFAFVTFDDYDPVDKIV 58

This subfamily corresponds to the RRM2 of hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 73

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

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 20/76 (26%)

Query: 160 LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE 219
           L + FS FG +  + +  +K                        FV F + E+++KA+  
Sbjct: 1   LYKLFSPFGNVEKIKLLKKKPG--------------------FAFVEFSTEEAAEKAVQY 40

Query: 220 VNGTHVQGVKLKVSLA 235
           +NG    G  L+V  +
Sbjct: 41  LNGVLFGGRPLRVDYS 56

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. Length = 56

>gnl|CDD|241064 cd12620, RRM3_TIAR, RNA recognition motif 3 in nucleolysin TIAR and similar proteins

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 18/45 (40%), Positives = 29/45 (64%)

Query: 152 GAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
            +G++E+ +RQ FS FG+I  + +  EKG  F+ F + ES+  AI
Sbjct: 9   ASGLTEQLMRQTFSPFGQIMEIRVFPEKGYSFIRFSTHESAAHAI 53

This subgroup corresponds to the RRM3 of nucleolysin TIAR, also termed TIA-1-related protein, a cytotoxic granule-associated RNA-binding protein that shows high sequence similarity with 40-kDa isoform of T-cell-restricted intracellular antigen-1 (p40-TIA-1). TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. TIAR possesses nucleolytic activity against cytolytic lymphocyte (CTL) target cells. It can trigger DNA fragmentation in permeabilized thymocytes, and thus may function as an effector responsible for inducing apoptosis. TIAR is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. It interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 73

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

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 12/41 (29%), Positives = 19/41 (46%)

Query: 156 SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           +   L +HFS FG I ++ +        V F + E + KA 
Sbjct: 15  NITKLNEHFSKFGTIVNIQVNYNPESALVQFSTSEEAKKAY 55

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

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

 Score = 45.0 bits (107), Expect = 2e-06
 Identities = 24/61 (39%), Positives = 32/61 (52%), Gaps = 7/61 (11%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSM-----EVEKGRGFVTFDSPESSDKAITD 198
           N IFV G     +EE LR  FS FG +  V +      V KG GFVTF++ E ++K +  
Sbjct: 3   NRIFVGGIPPDTTEEELRDFFSRFGSVKDVKIITDRAGVSKGYGFVTFETQEDAEKILAM 62

Query: 199 D 199
            
Sbjct: 63  G 63

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

 Score = 44.5 bits (106), Expect = 2e-06
 Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 17/93 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           T+FV+      ++E L + FS  G I          R FV  D      +        G+
Sbjct: 1   TLFVRNLPYDTTDEQLEEFFSEVGPI---------KRCFVVKDKGSKKCRGF------GY 45

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
           VTF   E + +A+ E   T   G K+ V  A++
Sbjct: 46  VTFALEEDAKRALEEKKKTKFGGRKIHVEFAKK 78

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|240825 cd12379, RRM2_I_PABPs, RNA recognition motif 2 found in type I polyadenylate-binding proteins

 Score = 44.1 bits (105), Expect = 2e-06
 Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 22/76 (28%)

Query: 160 LRQHFSIFGKI--CSVSM-EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA 216
           L   FS FG I  C V+  E    +G+                   GFV F++ E++ +A
Sbjct: 19  LYDTFSAFGNILSCKVATDENGGSKGY-------------------GFVHFETEEAAVRA 59

Query: 217 ITEVNGTHVQGVKLKV 232
           I +VNG  +   K+ V
Sbjct: 60  IEKVNGMLLNDKKVFV 75

This subfamily corresponds to the RRM2 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is a ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 77

>gnl|CDD|240821 cd12375, RRM1_Hu_like, RNA recognition motif 1 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 21/81 (25%), Positives = 32/81 (39%), Gaps = 15/81 (18%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
           +++E LR  F   G I S  +                 D+        GFV +     + 
Sbjct: 12  MTQEELRSLFEAIGPIESCKI---------------VRDRITGQSLGYGFVDYVDENDAQ 56

Query: 215 KAITEVNGTHVQGVKLKVSLA 235
           KAI  +NG  ++  +LKVS A
Sbjct: 57  KAINTLNGFEIRNKRLKVSYA 77

This subfamily corresponds to the RRM1 of Hu proteins and SXL. The Hu proteins family represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. This family also includes the sex-lethal protein (SXL) from Drosophila melanogaster. SXL governs sexual differentiation and X chromosome dosage compensation in flies. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds to its own pre-mRNA and promotes female-specific alternative splicing. It contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RRMs that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 77

>gnl|CDD|241065 cd12621, RRM3_TIA1, RNA recognition motif 3 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins

 Score = 43.9 bits (103), Expect = 4e-06
 Identities = 22/52 (42%), Positives = 34/52 (65%), Gaps = 2/52 (3%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           T++  G  +G++E+ +RQ FS FG+I  V +  +KG  FV F+S ES+  AI
Sbjct: 2   TVYCGGVTSGLTEQLMRQTFSPFGQIMEVRVFPDKGYSFVRFNSHESAAHAI 53

This subgroup corresponds to the RRM3 of p40-TIA-1, the 40-kDa isoform of T-cell-restricted intracellular antigen-1 (TIA-1) and a cytotoxic granule-associated RNA-binding protein mainly found in the granules of cytotoxic lymphocytes. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis, and function as the granule component responsible for inducing apoptosis in cytolytic lymphocyte (CTL) targets. It is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 74

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

 Score = 42.2 bits (100), Expect = 1e-05
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 23/84 (27%)

Query: 154 GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDS 209
            I+E+ LR  F  FG+I  V +    E  + +G+                   GF+ F  
Sbjct: 9   NITEDDLRGIFEPFGEIEFVQLQRDPETGRSKGY-------------------GFIQFAD 49

Query: 210 PESSDKAITEVNGTHVQGVKLKVS 233
            E + KA+ ++NG  + G  +KV 
Sbjct: 50  AEDAKKALEQLNGFELAGRPIKVG 73

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|240895 cd12449, RRM_CIRBP_RBM3, RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

 Score = 42.1 bits (99), Expect = 1e-05
 Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 23/84 (27%)

Query: 156 SEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
           +E+ L Q FS +G+I  V +    E ++ RGF                   GFVTF++P+
Sbjct: 13  NEQSLEQVFSKYGQISEVVVVKDRETQRSRGF-------------------GFVTFENPD 53

Query: 212 SSDKAITEVNGTHVQGVKLKVSLA 235
            +  A+  +NG  V G +++V  A
Sbjct: 54  DAKDAMMAMNGKSVDGRQIRVDQA 77

This subfamily corresponds to the RRM domain of two structurally related heterogenous nuclear ribonucleoproteins, CIRBP (also termed CIRP or A18 hnRNP) and RBM3 (also termed RNPL), both of which belong to a highly conserved cold shock proteins family. The cold shock proteins can be induced after exposure to a moderate cold-shock and other cellular stresses such as UV radiation and hypoxia. CIRBP and RBM3 may function in posttranscriptional regulation of gene expression by binding to different transcripts, thus allowing the cell to response rapidly to environmental signals. However, the kinetics and degree of cold induction are different between CIRBP and RBM3. Tissue distribution of their expression is different. CIRBP and RBM3 may be differentially regulated under physiological and stress conditions and may play distinct roles in cold responses of cells. CIRBP, also termed glycine-rich RNA-binding protein CIRP, is localized in the nucleus and mediates the cold-induced suppression of cell cycle progression. CIRBP also binds DNA and possibly serves as a chaperone that assists in the folding/unfolding, assembly/disassembly and transport of various proteins. RBM3 may enhance global protein synthesis and the formation of active polysomes while reducing the levels of ribonucleoprotein complexes containing microRNAs. RBM3 may also serve to prevent the loss of muscle mass by its ability to decrease cell death. Furthermore, RBM3 may be essential for cell proliferation and mitosis. Both, CIRBP and RBM3, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), that is involved in RNA binding, and C-terminal glycine-rich domain (RGG motif) that probably enhances RNA-binding via protein-protein and/or protein-RNA interactions. Like CIRBP, RBM3 can also bind to both RNA and DNA via its RRM domain. . Length = 80

>gnl|CDD|240893 cd12447, RRM1_gar2, RNA recognition motif 1 in yeast protein gar2 and similar proteins

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 25/95 (26%)

Query: 147 TIFVQGAG--ISEEFLRQHFSIFGKI--CSVSMEVEKGR--GFVTFDSPESSDKAITDDC 200
           T+FV      + +E+L+  F  FG +    V  + E GR  GF                 
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFEKFGTVVGARVITDRETGRSRGF----------------- 43

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
             G+V F+SPE + KAI  ++G  + G  + V  +
Sbjct: 44  --GYVDFESPEDAKKAIEAMDGKELDGRPINVDFS 76

This subfamily corresponds to the RRM1 of yeast protein gar2, a novel nucleolar protein required for 18S rRNA and 40S ribosomal subunit accumulation. It shares similar domain architecture with nucleolin from vertebrates and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of gar2 is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of gar2 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RGG (or GAR) domain of gar2 is rich in glycine, arginine and phenylalanine residues. . Length = 76

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

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDD 199
           ++EE LRQ+FS FG++  V +    +   FVTF  PE +     +D
Sbjct: 12  MTEEDLRQYFSQFGEVTDVYIPKPFRAFAFVTFADPEVAQSLCGED 57

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

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

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 20/51 (39%), Positives = 34/51 (66%), Gaps = 2/51 (3%)

Query: 147 TIFVQGAG--ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           T++V G G  ++E+ LR HF  FG+I S+++   +   FVTF + E+++KA
Sbjct: 3   TLYVGGLGERVTEKDLRDHFYQFGEIRSITVVPRQQCAFVTFTTREAAEKA 53

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

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

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 24/92 (26%)

Query: 152 GAGISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFD 208
           G  + +E L++ F  +GKI S   M+ ++G  +GF                   GFV F+
Sbjct: 10  GEDMDDEKLKELFGKYGKITSAKVMKDDEGKSKGF-------------------GFVNFE 50

Query: 209 SPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
           + E++ KA+ E+NG  V G KL V   R Q K
Sbjct: 51  NHEAAQKAVEELNGKEVNGKKLYV--GRAQKK 80

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

>gnl|CDD|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 = 41.1 bits (97), Expect = 3e-05
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 23/76 (30%)

Query: 156 SEEFLRQHFSIFGKICSVSMEVEK----GRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
           +EE LR+ F  FG+I  V + ++K     +GF                    FV+F  PE
Sbjct: 12  TEEELRELFEAFGEISEVHLPLDKETKRSKGF-------------------AFVSFMFPE 52

Query: 212 SSDKAITEVNGTHVQG 227
            + KA +E++G+  QG
Sbjct: 53  HAVKAYSELDGSIFQG 68

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|241094 cd12650, RRM1_Hu, RNA recognition motif 1 in the Hu proteins family

 Score = 41.3 bits (97), Expect = 3e-05
 Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 15/82 (18%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
            ++++ +R  FS  G+I S  +                 DK        GFV +  PE +
Sbjct: 12  NMTQDEIRSLFSSIGEIESCKL---------------IRDKVTGQSLGYGFVNYVDPEDA 56

Query: 214 DKAITEVNGTHVQGVKLKVSLA 235
           +KAI  +NG  +Q   +KVS A
Sbjct: 57  EKAINTLNGLRLQNKTIKVSYA 78

This subfamily corresponds to the RRM1 of the Hu proteins family which represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. HuR has an anti-apoptotic function during early cell stress response. It binds to mRNAs and enhances the expression of several anti-apoptotic proteins, such as p21waf1, p53, and prothymosin alpha. HuR also has pro-apoptotic function by promoting apoptosis when cell death is unavoidable. Furthermore, HuR may be important in muscle differentiation, adipogenesis, suppression of inflammatory response and modulation of gene expression in response to chronic ethanol exposure and amino acid starvation. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 78

>gnl|CDD|240769 cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-binding protein Musashi homologs Musashi-1, Musashi-2 and similar proteins

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 8/56 (14%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKA 195
           IFV G  A  +E+ ++++FS FGK+    +  +K      G GFVTF+S +  DK 
Sbjct: 2   IFVGGLSANTTEDDVKKYFSQFGKVEDAMLMFDKQTNRHRGFGFVTFESEDVVDKV 57

This subfamily corresponds to the RRM2.in Musashi-1 (also termed Msi1), a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells, and associated with asymmetric divisions in neural progenitor cells. It is evolutionarily conserved from invertebrates to vertebrates. Musashi-1 is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). It has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. Moreover, Musashi-1 represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-2 (also termed Msi2) has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Both, Musashi-1 and Musashi-2, contain two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 74

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

 Score = 40.3 bits (95), Expect = 6e-05
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 12/59 (20%)

Query: 148 IFVQGAGIS----EEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAI 196
           +F+   G+S    EE LR++FS +G++  C +  +   GR    GFVTF  P S DK +
Sbjct: 1   LFI--GGLSWDTTEESLREYFSKYGEVVDCVIMKDPITGRSRGFGFVTFADPSSVDKVL 57

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

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

 Score = 40.3 bits (95), Expect = 6e-05
 Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 22/84 (26%)

Query: 155 ISEEFLRQHFSIFGKICSVSM---EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
            +E  L++ FS FG +  V++      K +GF                    FV F S  
Sbjct: 11  CTEADLKKLFSPFGFVWEVTIPRKPDGKKKGF-------------------AFVQFTSKA 51

Query: 212 SSDKAITEVNGTHVQGVKLKVSLA 235
            ++KAI  VNG  ++G  + V  A
Sbjct: 52  DAEKAIKGVNGKKIKGRPVAVDWA 75

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

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

 Score = 40.3 bits (95), Expect = 6e-05
 Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 19/83 (22%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDD---CARGFVTFDSPE 211
           + E+ LR  FS FG++ S+ +             P+  D+         A  FVTF    
Sbjct: 12  LDEDDLRGIFSKFGEVESIRI-------------PKKQDEKQGRLNNGFA--FVTFKDAS 56

Query: 212 SSDKAITEVNGTHVQGVKLKVSL 234
           S++ A+ ++NGT + G K+ VSL
Sbjct: 57  SAENAL-QLNGTELGGRKISVSL 78

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

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

 Score = 40.3 bits (95), Expect = 8e-05
 Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 12/90 (13%)

Query: 147 TIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           T+FV+      +EE L++HF   G + SV++  +K                       GF
Sbjct: 2   TLFVKNLNFKTTEETLKKHFEKCGGVRSVTIAKKKDP----------KGPGKLLSMGYGF 51

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSL 234
           V F S E++ KA+  + GT + G  L++ L
Sbjct: 52  VEFKSKEAAQKALKRLQGTVLDGHALELKL 81

This subfamily corresponds to the RRM5 of RBM19 and RRM4 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 82

>gnl|CDD|240773 cd12327, RRM2_DAZAP1, RNA recognition motif 2 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins

 Score = 40.0 bits (94), Expect = 9e-05
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 12/71 (16%)

Query: 144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGF--VTFDSPESSDKA 195
               IFV G    ++E  LR++FS FG +  V +    E ++ RGF  +TF+S +S D+ 
Sbjct: 1   RTKKIFVGGLPPNVTETDLRKYFSQFGTVTEVVVMYDHEKKRPRGFGFITFESEDSVDQV 60

Query: 196 ITDDCARGFVT 206
                   F  
Sbjct: 61  ----VNEHFHD 67

This subfamily corresponds to the RRM2 of DAZAP1 or DAZ-associated protein 1, also termed proline-rich RNA binding protein (Prrp), a multi-functional ubiquitous RNA-binding protein expressed most abundantly in the testis and essential for normal cell growth, development, and spermatogenesis. DAZAP1 is a shuttling protein whose acetylated is predominantly nuclear and the nonacetylated form is in cytoplasm. DAZAP1 also functions as a translational regulator that activates translation in an mRNA-specific manner. DAZAP1 was initially identified as a binding partner of Deleted in Azoospermia (DAZ). It also interacts with numerous hnRNPs, including hnRNP U, hnRNP U like-1, hnRNPA1, hnRNPA/B, and hnRNP D, suggesting DAZAP1 might associate and cooperate with hnRNP particles to regulate adenylate-uridylate-rich elements (AU-rich element or ARE)-containing mRNAs. DAZAP1 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal proline-rich domain. . Length = 80

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

 Score = 39.1 bits (92), Expect = 2e-04
 Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 21/79 (26%)

Query: 155 ISEEFLRQHFSIFGKICSVSM--EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPES 212
           ++EE LR+ FS +GK+  V +    ++ RGF                    FV F SPE 
Sbjct: 10  VTEEDLREFFSPYGKVEGVRLVRNKDRPRGF-------------------AFVEFASPED 50

Query: 213 SDKAITEVNGTHVQGVKLK 231
           ++ A+ ++NG  + G  L+
Sbjct: 51  AEAALKKLNGLVLDGRTLR 69

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

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

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 26/89 (29%)

Query: 155 ISEEFLRQHFSIFGKICSVSM-------EVEKGRGFVTFDSPESSDKAITDDCARGFVTF 207
           ++E  L + FS +GKI               + RG+                    FVTF
Sbjct: 11  LTEFHLLKLFSKYGKIKKFDFLFHKSGPLKGQPRGY-------------------CFVTF 51

Query: 208 DSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           ++ E ++KA+  +NG    G KL V  A 
Sbjct: 52  ETKEEAEKALKSLNGKTALGKKLVVRWAH 80

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

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

 Score = 38.8 bits (91), Expect = 2e-04
 Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 23/81 (28%)

Query: 156 SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK 215
           +EE LR+ FS +G++  V                    K I D     FV F+  + + K
Sbjct: 14  TEEQLRELFSEYGEVERV--------------------KKIKD---YAFVHFEERDDAVK 50

Query: 216 AITEVNGTHVQGVKLKVSLAR 236
           A+ E+NG  ++G  ++VSLA+
Sbjct: 51  AMEEMNGKELEGSPIEVSLAK 71

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|240719 cd12273, RRM1_NEFsp, RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 19/73 (26%)

Query: 160 LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE 219
           +++ F   G +  V+M     +                      F+TF++ E++  AI  
Sbjct: 16  VKRLFETCGPVRKVTMLSRTVQPHA-------------------FITFENLEAAQLAIET 56

Query: 220 VNGTHVQGVKLKV 232
           +NG  V G  +KV
Sbjct: 57  LNGASVDGNCIKV 69

This subfamily corresponds to the RRM1 of NEF-sp., including uncharacterized putative RNA exonuclease NEF-sp found in vertebrates. Although its cellular functions remains unclear, NEF-sp contains an exonuclease domain and two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), suggesting it may possess both exonuclease and RNA-binding activities. . Length = 71

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 18/92 (19%)

Query: 152 GAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
              ++E+ LR+ F+ FG+I S ++  +       F                 FV F+  E
Sbjct: 187 DPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGF----------------AFVNFEKHE 230

Query: 212 SSDKAITEVNGTHVQGVKL--KVSLARRQLKV 241
            + KA+ E+NG  +   K   K+ + R Q + 
Sbjct: 231 DAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRA 262

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|240811 cd12365, RRM_RNPS1, RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins

 Score = 38.3 bits (90), Expect = 3e-04
 Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 23/83 (27%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           ++++ L++ FS +G +  V + +++     RG+                    +V F+SP
Sbjct: 10  VNKDHLKEIFSNYGTVKDVDLPIDREVNLPRGY-------------------AYVEFESP 50

Query: 211 ESSDKAITEVNGTHVQGVKLKVS 233
           E ++KAI  ++G  + G ++ V 
Sbjct: 51  EDAEKAIKHMDGGQIDGQEVTVE 73

This subfamily corresponds to the RRM of RNPS1 and its eukaryotic homologs. RNPS1, also termed RNA-binding protein prevalent during the S phase, or SR-related protein LDC2, was originally characterized as a general pre-mRNA splicing activator, which activates both constitutive and alternative splicing of pre-mRNA in vitro.It has been identified as a protein component of the splicing-dependent mRNP complex, or exon-exon junction complex (EJC), and is directly involved in mRNA surveillance. Furthermore, RNPS1 is a splicing regulator whose activator function is controlled in part by CK2 (casein kinase II) protein kinase phosphorylation. It can also function as a squamous-cell carcinoma antigen recognized by T cells-3 (SART3)-binding protein, and is involved in the regulation of mRNA splicing. RNPS1 contains an N-terminal serine-rich (S) domain, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and the C-terminal arginine/serine/proline-rich (RS/P) domain. . Length = 73

>gnl|CDD|240817 cd12371, RRM2_PUF60, RNA recognition motif 2 in (U)-binding-splicing factor PUF60 and similar proteins

 Score = 38.0 bits (89), Expect = 4e-04
 Identities = 23/85 (27%), Positives = 42/85 (49%), Gaps = 23/85 (27%)

Query: 155 ISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           +SE+ ++  F  FGKI  CS++ + E G  +G+                   GF+ +++P
Sbjct: 12  LSEDDIKSVFEAFGKIKSCSLAPDPETGKHKGY-------------------GFIEYENP 52

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLA 235
           +S+  AI  +N   + G +L+V  A
Sbjct: 53  QSAQDAIASMNLFDLGGQQLRVGKA 77

This subfamily corresponds to the RRM2 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1). PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. Research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 77

>gnl|CDD|240772 cd12326, RRM1_hnRNPA0, RNA recognition motif 1 found in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins

 Score = 38.2 bits (89), Expect = 4e-04
 Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 8/60 (13%)

Query: 145 GNTIFVQGAGI--SEEFLRQHFSIFGKI--CSV----SMEVEKGRGFVTFDSPESSDKAI 196
              +FV G  +  S+  LR+HF+ +GK+  C V    + +  +G GF+TF S + +D+A+
Sbjct: 2   LCKLFVGGLNLKTSDSGLRRHFTRYGKLTECVVMVDPNTKRSRGFGFITFSSADEADEAM 61

This subfamily corresponds to the RRM1 of hnRNP A0 which is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 79

>gnl|CDD|240781 cd12335, RRM2_SF3B4, RNA recognition motif 2 in splicing factor 3B subunit 4 (SF3B4) and similar proteins

 Score = 38.0 bits (89), Expect = 4e-04
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 24/88 (27%)

Query: 155 ISEEFLRQHFSIFGKI---CSVSMEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFDS 209
           + E+ L   FS FG I     +  + + G  +GF                    F+++DS
Sbjct: 13  VDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGF-------------------AFISYDS 53

Query: 210 PESSDKAITEVNGTHVQGVKLKVSLARR 237
            E+SD AI  +NG ++    + VS A +
Sbjct: 54  FEASDAAIEAMNGQYLCNRPITVSYAFK 81

This subfamily corresponds to the RRM2 of SF3B4, also termed pre-mRNA-splicing factor SF3b 49 kDa (SF3b50), or spliceosome-associated protein 49 (SAP 49). SF3B4 is a component of the multiprotein complex splicing factor 3b (SF3B), an integral part of the U2 small nuclear ribonucleoprotein (snRNP) and the U11/U12 di-snRNP. SF3B is essential for the accurate excision of introns from pre-messenger RNA, and is involved in the recognition of the pre-mRNA's branch site within the major and minor spliceosomes. SF3B4 functions to tether U2 snRNP with pre-mRNA at the branch site during spliceosome assembly. It is an evolutionarily highly conserved protein with orthologs across diverse species. SF3B4 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It binds directly to pre-mRNA and also interacts directly and highly specifically with another SF3B subunit called SAP 145. . Length = 83

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

 Score = 38.0 bits (89), Expect = 4e-04
 Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 25/92 (27%)

Query: 148 IFVQGAG--ISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDCA 201
           ++V G    + E+ L   F  FG I  + +    E +K RGF                  
Sbjct: 1   LYVGGLAEEVDEKVLHAAFIPFGDIKDIQIPLDYETQKHRGF------------------ 42

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVS 233
             FV F+ PE +  AI  +N + + G  ++V+
Sbjct: 43  -AFVEFEEPEDAAAAIDNMNESELFGRTIRVN 73

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

>gnl|CDD|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]

 Score = 41.1 bits (95), Expect = 4e-04
 Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 17/102 (16%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
           +  +  +  NT+FV      ++EE LR+ F  FG +  V +  ++  G            
Sbjct: 107 SRQKSKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETG------------ 154

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                    FV F+S ES++KAI E+NG  ++G  L+V  A+
Sbjct: 155 ---KSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193

Length = 306

>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 = 37.3 bits (87), Expect = 6e-04
 Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 12/69 (17%)

Query: 148 IFVQGAG--ISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAITDD 199
           IFV G    ++EE  +++FS FGK+    +  +       G GFVTFDS  + ++     
Sbjct: 2   IFVGGLPPDVTEEEFKEYFSQFGKVVDAQLMQDHDTGRSRGFGFVTFDSESAVERV---- 57

Query: 200 CARGFVTFD 208
            + G +   
Sbjct: 58  FSAGMLELG 66

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|241083 cd12639, RRM3_CELF3_4_5_6, RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

 Score = 37.5 bits (87), Expect = 6e-04
 Identities = 29/95 (30%), Positives = 43/95 (45%), Gaps = 22/95 (23%)

Query: 142 PKGGNTIFVQGAGISEEF----LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           P+G N +F+    + +EF    L Q F  FG + S  + V               D+A  
Sbjct: 2   PEGCN-LFIYH--LPQEFGDAELMQMFLPFGNVISAKVFV---------------DRATN 43

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
                GFV+FD+P S+  AI  +NG  +   +LKV
Sbjct: 44  QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKV 78

This subgroup corresponds to the RRM3 of CELF-3, CELF-4, CELF-5, and CELF-6, all of which belong to the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) family of RNA-binding proteins that display dual nuclear and cytoplasmic localizations and have been implicated in the regulation of pre-mRNA splicing and in the control of mRNA translation and deadenylation. CELF-3, expressed in brain and testis only, is also known as bruno-like protein 1 (BRUNOL-1), or CAG repeat protein 4, or CUG-BP- and ETR-3-like factor 3, or embryonic lethal abnormal vision (ELAV)-type RNA-binding protein 1 (ETR-1), or expanded repeat domain protein CAG/CTG 4, or trinucleotide repeat-containing gene 4 protein (TNRC4). It plays an important role in the pathogenesis of tauopathies. CELF-3 contains three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein.The effect of CELF-3 on tau splicing is mediated mainly by the RNA-binding activity of RRM2. The divergent linker region might mediate the interaction of CELF-3 with other proteins regulating its activity or involved in target recognition. CELF-4, highly expressed throughout the brain and in glandular tissues, moderately expressed in heart, skeletal muscle, and liver, is also known as bruno-like protein 4 (BRUNOL-4), or CUG-BP- and ETR-3-like factor 4. Like CELF-3, CELF-4 also contains three highly conserved RRMs. The splicing activation or repression activity of CELF-4 on some specific substrates is mediated by its RRM1/RRM2. Both, RRM1 and RRM2 of CELF-4, can activate cardiac troponin T (cTNT) exon 5 inclusion. CELF-5, expressed in brain, is also known as bruno-like protein 5 (BRUNOL-5), or CUG-BP- and ETR-3-like factor 5. Although its biological role remains unclear, CELF-5 shares same domain architecture with CELF-3. CELF-6, strongly expressed in kidney, brain, and testis, is also known as bruno-like protein 6 (BRUNOL-6), or CUG-BP- and ETR-3-like factor 6. It activates exon inclusion of a cardiac troponin T minigene in transient transfection assays in an muscle-specific splicing enhancer (MSE)-dependent manner and can activate inclusion via multiple copies of a single element, MSE2. CELF-6 also promotes skipping of exon 11 of insulin receptor, a known target of CELF activity that is expressed in kidney. In addition to three highly conserved RRMs, CELF-6 also possesses numerous potential phosphorylation sites, a potential nuclear localization signal (NLS) at the C terminus, and an alanine-rich region within the divergent linker region. . Length = 79

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

 Score = 37.2 bits (87), Expect = 8e-04
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 151 QGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
            G G+S E L + F  +G +  + M   K   FV++ S E +  A  
Sbjct: 11  LGNGVSREELLRVFEKYGTVEDLVMPPGKPYCFVSYSSIEDAAAAYD 57

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

>gnl|CDD|241093 cd12649, RRM1_SXL, RNA recognition motif 1 in Drosophila sex-lethal (SXL) and similar proteins

 Score = 37.4 bits (87), Expect = 9e-04
 Identities = 14/34 (41%), Positives = 22/34 (64%)

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           GFV + S E + +AI  +NG  +Q  ++KV+ AR
Sbjct: 45  GFVDYQSAEDAQRAIRTLNGLQLQNKRIKVAYAR 78

This subfamily corresponds to the RRM1 of SXL which governs sexual differentiation and X chromosome dosage compensation in Drosophila melanogaster. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds also to its own pre-mRNA and promotes female-specific alternative splicing. SXL contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 81

>gnl|CDD|240787 cd12341, RRM_hnRNPC_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein C (hnRNP C)-related proteins

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 23/79 (29%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
           +S+E L + FS +GKI  +S+     +G+                   GFV FD+ E + 
Sbjct: 13  VSKEDLEEIFSKYGKILGISLH----KGY-------------------GFVQFDNEEDAR 49

Query: 215 KAITEVNGTHVQGVKLKVS 233
            A+   NG  + G KL ++
Sbjct: 50  AAVAGENGREIAGQKLDIN 68

This subfamily corresponds to the RRM in the hnRNP C-related protein family, including hnRNP C proteins, Raly, and Raly-like protein (RALYL). hnRNP C proteins, C1 and C2, are produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex; they are involved in the packaging of the hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. Raly, also termed autoantigen p542, is an RNA-binding protein that may play a critical role in embryonic development. The biological role of RALYL remains unclear. It shows high sequence homology with hnRNP C proteins and Raly. Members of this family are characterized by an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. The Raly proteins contain a glycine/serine-rich stretch within the C-terminal regions, which is absent in the hnRNP C proteins. Thus, the Raly proteins represent a newly identified class of evolutionarily conserved autoepitopes. . Length = 68

>gnl|CDD|240815 cd12369, RRM4_RBM45, RNA recognition motif 4 in RNA-binding protein 45 (RBM45) and similar proteins

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
           G+  +   ES+++AIT ++G  V GVKLKV
Sbjct: 38  GYAKYADRESAERAITTLHGKEVNGVKLKV 67

This subfamily corresponds to the RRM4 of RBM45, also termed developmentally-regulated RNA-binding protein 1 (DRB1), a new member of RNA recognition motif (RRM)-type neural RNA-binding proteins, which expresses under spatiotemporal control. It is encoded by gene drb1 that is expressed in neurons, not in glial cells. RBM45 predominantly localizes in cytoplasm of cultured cells and specifically binds to poly(C) RNA. It could play an important role during neurogenesis. RBM45 carries four RRMs, also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 68

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

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 22/83 (26%)

Query: 155 ISEEFLRQHFSIFGKICSVSM-----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDS 209
           ++EE L Q F  FG + SV +     E E+ R                 +C  GFV F +
Sbjct: 13  VTEEVLCQEFGRFGPLASVKIMWPRTEEERRRN---------------RNC--GFVAFMN 55

Query: 210 PESSDKAITEVNGTHVQGVKLKV 232
              +++A+ E++G  V G +LK+
Sbjct: 56  RADAERALDELDGKDVMGYELKL 78

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

>gnl|CDD|240823 cd12377, RRM3_Hu, RNA recognition motif 3 in the Hu proteins family

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 27/96 (28%), Positives = 37/96 (38%), Gaps = 25/96 (26%)

Query: 145 GNTIFVQGAG--ISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITD 198
           G  IFV        E  L Q FS FG + +V +       K +G+               
Sbjct: 1   GWCIFVYNLPPDADESLLWQLFSPFGAVTNVKVIRDLTTNKCKGY--------------- 45

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSL 234
               GFVT  + E +  AI  +NG  + G  L+VS 
Sbjct: 46  ----GFVTMTNYEEAYSAIASLNGYRLGGRVLQVSF 77

This subfamily corresponds to the RRM3 of the Hu proteins family which represent a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 78

>gnl|CDD|240816 cd12370, RRM1_PUF60, RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 15/78 (19%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
           + E+ +RQ FS FG I S+ M         ++D      K         FV ++ PE++ 
Sbjct: 12  LGEDTIRQAFSPFGPIKSIDM---------SWDPVTMKHKGFA------FVEYEVPEAAQ 56

Query: 215 KAITEVNGTHVQGVKLKV 232
            A+ ++NG  + G  +KV
Sbjct: 57  LALEQMNGVMLGGRNIKV 74

This subfamily corresponds to the RRM1 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1). PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. Research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 76

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

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 3/54 (5%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR-GFVTFDSPESSDKAI 196
            ++FV G   G SEE L  +FS FG + +V M+ +KG    V FDS E  DK +
Sbjct: 3   RSVFVSGFKRGTSEEQLMDYFSAFGPVMNVIMDKDKGVYAIVEFDSKEGVDKVL 56

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

>gnl|CDD|241009 cd12565, RRM1_MRD1, RNA recognition motif 1 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 24/82 (29%), Positives = 33/82 (40%), Gaps = 22/82 (26%)

Query: 157 EEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
           E+ LR+HF   G++  V  M    G  R F                   GFV F S E +
Sbjct: 14  EDRLREHFESKGEVTDVKVMRTRDGKSRRF-------------------GFVGFKSEEDA 54

Query: 214 DKAITEVNGTHVQGVKLKVSLA 235
            +A+   N T +   K+ V LA
Sbjct: 55  QQAVKYFNKTFIDTSKISVELA 76

This subgroup corresponds to the RRM1 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). MRD1 is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. It contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 76

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

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 21/79 (26%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
            I+EE  ++ FS +G++  V   + K +GF                   GF+  D+  ++
Sbjct: 12  DITEEEFKELFSKYGEVSEVF--LNKEKGF-------------------GFIRLDTRTNA 50

Query: 214 DKAITEVNGTHVQGVKLKV 232
           +KA  E++G   +G +L+V
Sbjct: 51  EKAKAELDGIMRKGRQLRV 69

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 20/93 (21%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFV-TFDSPESSDKAITDDCARGF 204
           +FV G    ++E  L + FS FG +  V +  +K  G    F                 +
Sbjct: 2   LFVGGLSPSVTESDLEERFSRFGTVSDVEIIKKKDAGPDRGF----------------AY 45

Query: 205 VTFDSPESS-DKAITEVNGTHVQGVKLKVSLAR 236
           +   + E+   K  + +NGT  +G  LK+  A+
Sbjct: 46  IDLRTSEAQLKKCKSTLNGTKWKGSVLKIEEAK 78

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|178680 PLN03134, PLN03134, glycine-rich RNA-binding protein 4; Provisional

 Score = 37.3 bits (86), Expect = 0.002
 Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 25/94 (26%)

Query: 148 IFVQGA--GISEEFLRQHFSIFGKICS----VSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           +F+ G   G  +  LR  F+ FG +      V  E  + RGF                  
Sbjct: 37  LFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGF------------------ 78

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
            GFV F+   ++  AI+E++G  + G  ++V+ A
Sbjct: 79  -GFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111

Length = 144

>gnl|CDD|233516 TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing factor

 Score = 38.8 bits (90), Expect = 0.002
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 15/83 (18%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
            +++E +R  F+  G+I S  +                 DK        GFV +  PE +
Sbjct: 14  TMTQEEIRSLFTSIGEIESCKL---------------VRDKVTGQSLGYGFVNYVRPEDA 58

Query: 214 DKAITEVNGTHVQGVKLKVSLAR 236
           +KA+  +NG  +Q   +KVS AR
Sbjct: 59  EKAVNSLNGLRLQNKTIKVSYAR 81

This model describes the ELAV/HuD subfamily of splicing factors found in metazoa. HuD stands for the human paraneoplastic encephalomyelitis antigen D of which there are 4 variants in human. ELAV stnds for the Drosophila Embryonic lethal abnormal visual protein. ELAV-like splicing factors are also known in human as HuB (ELAV-like protein 2), HuC (ELAV-like protein 3, Paraneoplastic cerebellar degeneration-associated antigen) and HuR (ELAV-like protein 1). These genes are most closely related to the sex-lethal subfamily of splicing factors found in Dipteran insects (TIGR01659). These proteins contain 3 RNA-recognition motifs (rrm: pfam00076). Length = 352

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 6/47 (12%)

Query: 156 SEEFLRQHFSIFGKICSV------SMEVEKGRGFVTFDSPESSDKAI 196
           +EE L++ FS FG++              KG  FV F + ES+ K +
Sbjct: 13  TEEELKELFSQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESAQKCL 59

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

>gnl|CDD|241117 cd12673, RRM_BOULE, RNA recognition motif in protein BOULE

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 7/60 (11%)

Query: 146 NTIFVQGAG--ISEEFLRQHFSIFG-----KICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           N IFV G     +E  LR+ FS +G     KI +    V KG GFVTF++ E + K + +
Sbjct: 3   NRIFVGGIDFKTNENDLRKFFSQYGTVKEVKIVNDRAGVSKGYGFVTFETQEDAQKILQE 62

This subgroup corresponds to the RRM of BOULE, the founder member of the human DAZ gene family. Invertebrates contain a single BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. BOULE encodes an RNA-binding protein containing an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a single copy of the DAZ motif. Although its specific biochemical functions remains to be investigated, BOULE protein may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 81

>gnl|CDD|241216 cd12772, RRM1_HuC, RNA recognition motif 1 in vertebrate Hu-antigen C (HuC)

 Score = 35.9 bits (82), Expect = 0.003
 Identities = 18/44 (40%), Positives = 23/44 (52%)

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           DK        GFV +  P  +DKAI  +NG  +Q   +KVS AR
Sbjct: 38  DKITGQSLGYGFVNYVDPNDADKAINTLNGLKLQTKTIKVSYAR 81

This subgroup corresponds to the RRM1 of HuC, also termed ELAV-like protein 3 (ELAV-3), or paraneoplastic cerebellar degeneration-associated antigen, or paraneoplastic limbic encephalitis antigen 21 (PLE21), one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. Like other Hu proteins, HuC contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an AU-rich RNA element (ARE). The AU-rich element binding of HuC can be inhibited by flavonoids. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 84

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

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 13/44 (29%), Positives = 29/44 (65%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           ++E++L +HFS +G +  V ++ ++G+  V FD  E++  A+ +
Sbjct: 19  VTEQYLTRHFSRYGPVVHVVIDRQRGQALVFFDKVEAAQAAVNE 62

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

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

 Score = 34.9 bits (81), Expect = 0.004
 Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 18/91 (19%)

Query: 147 TIFVQGAGIS--EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
            IFV G      ++ LR++FS FG       E+E     V  D      +        GF
Sbjct: 2   KIFVGGLPYHTTDDSLRKYFSQFG-------EIE--EAVVITDRQTGKSRGY------GF 46

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
           VTF   ES+++A  + N   + G K  V+LA
Sbjct: 47  VTFKDKESAERACKDPNPI-IDGRKANVNLA 76

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	298
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.7
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.69
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.68
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.65
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.64
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.63
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.59
KOG0144|consensus	510		99.58
KOG0148|consensus	321		99.56
KOG0131|consensus	203		99.55
KOG0117|consensus	506		99.55
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.55
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.54
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.53
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.53
KOG0122|consensus	270		99.53
KOG0121|consensus	153		99.49
KOG0125|consensus	376		99.49
KOG0127|consensus	678		99.49
KOG0149|consensus	247		99.46
KOG0113|consensus	335		99.43
KOG0130|consensus	170		99.41
KOG0145|consensus	360		99.41
KOG4207|consensus	256		99.39
KOG0109|consensus	346		99.38
PLN03213	759	repressor of silencing 3; Provisional	99.36
PLN03120	260	nucleic acid binding protein; Provisional	99.36
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.36
KOG0107|consensus	195		99.36
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.35
KOG0148|consensus	321		99.34
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.34
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.33
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.33
smart00362	72	RRM_2 RNA recognition motif.	99.32
KOG0111|consensus	298		99.3
PLN03121	243	nucleic acid binding protein; Provisional	99.3
KOG0126|consensus	219		99.29
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.29
KOG0145|consensus	360		99.26
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.26
smart00361	70	RRM_1 RNA recognition motif.	99.25
smart00360	71	RRM RNA recognition motif.	99.24
KOG4205|consensus	311		99.21
KOG0108|consensus	435		99.19
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.18
KOG0123|consensus	369		99.17
KOG0117|consensus	506		99.16
KOG0124|consensus	544		99.15
KOG0132|consensus	894		99.14
KOG0127|consensus	678		99.13
KOG0146|consensus	371		99.13
KOG0123|consensus	369		99.12
KOG0105|consensus	241		99.1
KOG0110|consensus	725		99.09
KOG0114|consensus	124		99.06
KOG0415|consensus	479		99.06
KOG0147|consensus	549		98.98
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.9
KOG0153|consensus	377		98.85
KOG4208|consensus	214		98.82
KOG4206|consensus	221		98.81
KOG4661|consensus	940		98.8
KOG0124|consensus	544		98.79
KOG0144|consensus	510		98.77
KOG1548|consensus	382		98.76
KOG0146|consensus	371		98.67
KOG0110|consensus	725		98.6
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.57
KOG0151|consensus	877		98.56
KOG4205|consensus	311		98.55
KOG0106|consensus	216		98.53
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.49
KOG4209|consensus	231		98.44
KOG4212|consensus	608		98.39
KOG0226|consensus	290		98.38
KOG1457|consensus	284		98.34
KOG1456|consensus	494		98.34
KOG4212|consensus	608		98.33
KOG4660|consensus	549		98.15
KOG0533|consensus	243		98.14
KOG1190|consensus	492		98.05
KOG0116|consensus	419		98.01
KOG4454|consensus	267		97.96
KOG2314|consensus	698		97.85
KOG0120|consensus	500		97.73
KOG4211|consensus	510		97.69
KOG1995|consensus	351		97.67
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.64
KOG0147|consensus	549		97.58
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.58
KOG0109|consensus	346		97.44
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.42
KOG0120|consensus	500		97.4
KOG0131|consensus	203		97.4
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.4
KOG4210|consensus	285		97.37
KOG1457|consensus	284		97.25
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.21
KOG1190|consensus	492		96.95
KOG1456|consensus	494		96.94
KOG4206|consensus	221		96.83
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.53
KOG0128|consensus	881		96.47
KOG3152|consensus	278		96.32
KOG1996|consensus	378		96.17
KOG4849|consensus	498		96.06
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.01
KOG4307|consensus	944		95.95
KOG2202|consensus	260		95.92
KOG2416|consensus	718		95.8
KOG0129|consensus	520		95.53
KOG0112|consensus	975		95.49
KOG2068|consensus	327		95.31
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	95.28
KOG1365|consensus	508		95.15
KOG0129|consensus	520		95.1
KOG0112|consensus	975		94.54
KOG1855|consensus	484		94.48
KOG2193|consensus	584		94.26
KOG0106|consensus	216		94.02
KOG2135|consensus	526		93.47
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	93.22
KOG0105|consensus	241		92.96
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	91.8
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	91.22
KOG4285|consensus	350		90.81
KOG0115|consensus	275		90.48
KOG4211|consensus	510		90.01
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	89.53
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	88.25
KOG4574|consensus	1007		87.64
KOG0122|consensus	270		86.14
smart00361	70	RRM_1 RNA recognition motif.	85.81
KOG4676|consensus	479		84.58
KOG4210|consensus	285		84.43
KOG1548|consensus	382		82.04
KOG2253|consensus	668		81.47
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	80.52

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

Probab=99.70  E-value=3.1e-16  Score=132.91  Aligned_cols=83  Identities=25%  Similarity=0.491  Sum_probs=77.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  ++++|++|+++|.+||.|.+|.|+.|+.++.               ++|||||+|.+.++|+.||..|
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~---------------~kGfaFV~F~~~e~A~~Al~~l   96 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGR---------------SRGFGFVNFNDEGAATAAISEM   96 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCC---------------cceEEEEEECCHHHHHHHHHHc
Confidence            3457999999  9999999999999999999999999988876               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+..++.
T Consensus        97 ng~~i~Gr~l~V~~a~~~~~  116 (144)
T PLN03134         97 DGKELNGRHIRVNPANDRPS  116 (144)
T ss_pred             CCCEECCEEEEEEeCCcCCC
Confidence            99999999999999987655

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.69  E-value=2.3e-16  Score=151.30  Aligned_cols=100  Identities=27%  Similarity=0.395  Sum_probs=89.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh----------------
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI----------------  196 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai----------------  196 (298)
                      ....+++|||+|  +++|+++|+++|+.||+|++|.|+.|      +++|||+|.+.++|++||                
T Consensus       103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~  182 (346)
T TIGR01659       103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS  182 (346)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence            445678999999  99999999999999999999999877      479999999999999999                


Q ss_pred             -------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECC
Q psy15187        197 -------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQG  227 (298)
Q Consensus       197 -------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G  227 (298)
                                                                       ++++|||||+|.+.++|++||..||+..+.|
T Consensus       183 ~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g  262 (346)
T TIGR01659       183 YARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEG  262 (346)
T ss_pred             cccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence                                                             1267999999999999999999999999975


Q ss_pred             --eEEEEEEcccccc
Q psy15187        228 --VKLKVSLARRQLK  240 (298)
Q Consensus       228 --r~L~V~~A~~k~~  240 (298)
                        ++|+|.||..+..
T Consensus       263 ~~~~l~V~~a~~~~~  277 (346)
T TIGR01659       263 GSQPLTVRLAEEHGK  277 (346)
T ss_pred             CceeEEEEECCcccc
Confidence              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=99.68  E-value=2.8e-16  Score=159.37  Aligned_cols=98  Identities=26%  Similarity=0.420  Sum_probs=90.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh------------------
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI------------------  196 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai------------------  196 (298)
                      ...++|||||  +++++++|+++|.+||+|.+|.|+.|      +|||||+|.+.++|++||                  
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp  184 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  184 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence            3458999999  99999999999999999999999876      799999999999999998                  


Q ss_pred             ----------------------------------------------------------hcCCceEEEEeCCHHHHHHHHH
Q psy15187        197 ----------------------------------------------------------TDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       197 ----------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                                                                                +.++|||||+|.+.++|..||.
T Consensus       185 ~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~  264 (612)
T TIGR01645       185 SNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIA  264 (612)
T ss_pred             ccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHH
Confidence                                                                      1278999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.++.+.+.
T Consensus       265 amNg~elgGr~LrV~kAi~pP~  286 (612)
T TIGR01645       265 SMNLFDLGGQYLRVGKCVTPPD  286 (612)
T ss_pred             HhCCCeeCCeEEEEEecCCCcc
Confidence            9999999999999999997554

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=99.65  E-value=1.2e-15  Score=144.77  Aligned_cols=95  Identities=29%  Similarity=0.502  Sum_probs=86.0

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh--------------------
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai--------------------  196 (298)
                      .++|||+|  +++++++|+++|+.||+|.+|.|+.|      +|+|||+|.+.++|++||                    
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~   82 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP   82 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence            37999999  89999999999999999999999976      479999999999999999                    


Q ss_pred             ---------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECC--eE
Q psy15187        197 ---------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQG--VK  229 (298)
Q Consensus       197 ---------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G--r~  229 (298)
                                                                   +.++|||||+|.+.++|..||..|||..+.|  .+
T Consensus        83 ~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~  162 (352)
T TIGR01661        83 SSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEP  162 (352)
T ss_pred             cccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCcee
Confidence                                                         1268999999999999999999999999987  67


Q ss_pred             EEEEEccccc
Q psy15187        230 LKVSLARRQL  239 (298)
Q Consensus       230 L~V~~A~~k~  239 (298)
                      |.|.|+....
T Consensus       163 i~v~~a~~~~  172 (352)
T TIGR01661       163 ITVKFANNPS  172 (352)
T ss_pred             EEEEECCCCC
Confidence            8999986543

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

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

Probab=99.64  E-value=3.5e-15  Score=146.74  Aligned_cols=96  Identities=30%  Similarity=0.425  Sum_probs=88.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-----------------
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-----------------  196 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-----------------  196 (298)
                      .....+|||+|  +.+++++|+++|++||.|..|.|+.+      +++|||+|.+.++|++||                 
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~  165 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSS  165 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeec
Confidence            45567999999  99999999999999999999999976      689999999999998886                 


Q ss_pred             -----------------------------------------------------------hcCCceEEEEeCCHHHHHHHH
Q psy15187        197 -----------------------------------------------------------TDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       197 -----------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai  217 (298)
                                                                                 +.++|||||+|.+.++|..|+
T Consensus       166 ~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~  245 (457)
T TIGR01622       166 QAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEAL  245 (457)
T ss_pred             chhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHH
Confidence                                                                       136899999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      ..|||..|.|+.|.|.|+..
T Consensus       246 ~~l~g~~i~g~~i~v~~a~~  265 (457)
T TIGR01622       246 EVMNGFELAGRPIKVGYAQD  265 (457)
T ss_pred             HhcCCcEECCEEEEEEEccC
Confidence            99999999999999999763

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.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.63  E-value=1.7e-15  Score=143.75  Aligned_cols=83  Identities=25%  Similarity=0.319  Sum_probs=76.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+.+|||+|  +++++++|+++|++||.|.+|.|+.|..+|-               ++|||||+|.+.++|..||..|
T Consensus       267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~---------------skG~aFV~F~~~~~A~~Ai~~l  331 (352)
T TIGR01661       267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQ---------------CKGYGFVSMTNYDEAAMAILSL  331 (352)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCC---------------ccceEEEEECCHHHHHHHHHHh
Confidence            3445799999  9999999999999999999999999987776               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+..+..
T Consensus       332 nG~~~~gr~i~V~~~~~~~~  351 (352)
T TIGR01661       332 NGYTLGNRVLQVSFKTNKAY  351 (352)
T ss_pred             CCCEECCeEEEEEEccCCCC
Confidence            99999999999999987654

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

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

Probab=99.59  E-value=9.7e-15  Score=147.75  Aligned_cols=103  Identities=22%  Similarity=0.352  Sum_probs=90.2

Q ss_pred             CCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhh--------------
Q psy15187        138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAI--------------  196 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai--------------  196 (298)
                      +...+..+|+|||+|  ++++|++|+++|++||.|.+|+|++|     +++|||+|.+.++|++||              
T Consensus        51 ~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l  130 (578)
T TIGR01648        51 SGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLL  130 (578)
T ss_pred             cCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccc
Confidence            334456679999999  89999999999999999999999876     789999999999999999              


Q ss_pred             ------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCC--cEEC
Q psy15187        197 ------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNG--THVQ  226 (298)
Q Consensus       197 ------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG--~~i~  226 (298)
                                                                      ++++|||||+|.++++|..|+..|+.  ..+.
T Consensus       131 ~V~~S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~  210 (578)
T TIGR01648       131 GVCISVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLW  210 (578)
T ss_pred             cccccccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEec
Confidence                                                            12589999999999999999998864  4678


Q ss_pred             CeEEEEEEcccccc
Q psy15187        227 GVKLKVSLARRQLK  240 (298)
Q Consensus       227 Gr~L~V~~A~~k~~  240 (298)
                      |+.|.|.|+.+...
T Consensus       211 Gr~I~VdwA~p~~~  224 (578)
T TIGR01648       211 GHVIAVDWAEPEEE  224 (578)
T ss_pred             CceEEEEeeccccc
Confidence            99999999987543

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.

>KOG0144|consensus

Probab=99.58  E-value=6.2e-15  Score=141.20  Aligned_cols=100  Identities=29%  Similarity=0.409  Sum_probs=89.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh------------------
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI------------------  196 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai------------------  196 (298)
                      ...-+||||-  ..++|.||+++|++||.|.+|.|++|      ++|+||+|.+.++|++||                  
T Consensus        32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv  111 (510)
T KOG0144|consen   32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV  111 (510)
T ss_pred             chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence            3346899999  89999999999999999999999998      599999999999999999                  


Q ss_pred             --------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        197 --------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       197 --------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                                                                        +.+||||||.|.+.+.|..||++|||..-.
T Consensus       112 k~Ad~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tm  191 (510)
T KOG0144|consen  112 KYADGERERIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTM  191 (510)
T ss_pred             cccchhhhccccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceee
Confidence                                                              239999999999999999999999998654


Q ss_pred             -C--eEEEEEEcccccccc
Q psy15187        227 -G--VKLKVSLARRQLKVA  242 (298)
Q Consensus       227 -G--r~L~V~~A~~k~~~~  242 (298)
                       |  .+|.|.||.++..+.
T Consensus       192 eGcs~PLVVkFADtqkdk~  210 (510)
T KOG0144|consen  192 EGCSQPLVVKFADTQKDKD  210 (510)
T ss_pred             ccCCCceEEEecccCCCch
Confidence             4  699999999876654

>KOG0148|consensus

Probab=99.56  E-value=1.3e-14  Score=132.07  Aligned_cols=97  Identities=30%  Similarity=0.501  Sum_probs=89.5

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh---------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI---------------------  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai---------------------  196 (298)
                      --||||.  ..++-++|++.|.+||+|.+++|++|      +|+|||.|-+.++|++||                     
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK  142 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK  142 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence            4799998  99999999999999999999999988      799999999999999999                     


Q ss_pred             ------------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        197 ------------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       197 ------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                                                                            -+.+||+||.|+++|.|..||..|||
T Consensus       143 p~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNn  222 (321)
T KOG0148|consen  143 PSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNN  222 (321)
T ss_pred             ccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcC
Confidence                                                                  11799999999999999999999999


Q ss_pred             cEECCeEEEEEEcccccccc
Q psy15187        223 THVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .+|+|+.+++.|.+......
T Consensus       223 tei~G~~VkCsWGKe~~~~~  242 (321)
T KOG0148|consen  223 TEIGGQLVRCSWGKEGDDGI  242 (321)
T ss_pred             ceeCceEEEEeccccCCCCC
Confidence            99999999999998755433

>KOG0131|consensus

Probab=99.55  E-value=1.3e-14  Score=125.49  Aligned_cols=100  Identities=29%  Similarity=0.434  Sum_probs=92.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-----------------
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-----------------  196 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-----------------  196 (298)
                      ..++.||||||  ..++++.|+++|-+.|+|+++.|++|      +|+|||+|.+.++||.||                 
T Consensus         6 rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~k   85 (203)
T KOG0131|consen    6 RNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNK   85 (203)
T ss_pred             cCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEe
Confidence            45668999999  89999999999999999999999977      699999999999999999                 


Q ss_pred             --------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        197 --------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       197 --------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                                                                        +.++|||||.|++.+.+..||..|||..+.
T Consensus        86 as~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~  165 (203)
T KOG0131|consen   86 ASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLC  165 (203)
T ss_pred             cccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhc
Confidence                                                              238999999999999999999999999999


Q ss_pred             CeEEEEEEccccccc
Q psy15187        227 GVKLKVSLARRQLKV  241 (298)
Q Consensus       227 Gr~L~V~~A~~k~~~  241 (298)
                      .++|.|+++..+...
T Consensus       166 nr~itv~ya~k~~~k  180 (203)
T KOG0131|consen  166 NRPITVSYAFKKDTK  180 (203)
T ss_pred             CCceEEEEEEecCCC
Confidence            999999999876543

>KOG0117|consensus

Probab=99.55  E-value=1.9e-14  Score=138.36  Aligned_cols=113  Identities=25%  Similarity=0.354  Sum_probs=98.4

Q ss_pred             cccccccccCCCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh---
Q psy15187        128 YGESLLTRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI---  196 (298)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai---  196 (298)
                      |+.++  ++++...+..||.||||+  .|+.|++|.-+|++.|+|-+++||+|      +|++||+|.+.+.|..||   
T Consensus        68 ~ggPp--P~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~l  145 (506)
T KOG0117|consen   68 YGGPP--PGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKEL  145 (506)
T ss_pred             cCCCC--CcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHh
Confidence            44443  456777789999999999  99999999999999999999999988      799999999999999999   


Q ss_pred             -----------------------------------------------------------hcCCceEEEEeCCHHHHHHHH
Q psy15187        197 -----------------------------------------------------------TDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       197 -----------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai  217 (298)
                                                                                 .++||||||+|.++..|..|-
T Consensus       146 nn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aR  225 (506)
T KOG0117|consen  146 NNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMAR  225 (506)
T ss_pred             hCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHH
Confidence                                                                       238999999999999999998


Q ss_pred             HHhCCc--EECCeEEEEEEcccccccc
Q psy15187        218 TEVNGT--HVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       218 ~~lnG~--~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ..|-..  .+-|+.+.|+||.++....
T Consensus       226 rKl~~g~~klwgn~~tVdWAep~~e~d  252 (506)
T KOG0117|consen  226 RKLMPGKIKLWGNAITVDWAEPEEEPD  252 (506)
T ss_pred             hhccCCceeecCCcceeeccCcccCCC
Confidence            888543  4559999999999876643

>PF00076 RRM_1: RNA recognition motif

Probab=99.55  E-value=3.6e-14  Score=103.12  Aligned_cols=68  Identities=37%  Similarity=0.635  Sum_probs=62.3

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      |||+|  .++++++|+++|++||.|..|.++.+ ..+.               ++|||||+|.+.++|..|+..|||..+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~---------------~~~~a~V~F~~~~~a~~a~~~l~g~~~   64 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGK---------------SKGYAFVEFESEEDAEKALEELNGKKI   64 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSS---------------EEEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-cccc---------------ccceEEEEEcCHHHHHHHHHHcCCCEE
Confidence            79999  99999999999999999999999987 3333               578899999999999999999999999


Q ss_pred             CCeEEE
Q psy15187        226 QGVKLK  231 (298)
Q Consensus       226 ~Gr~L~  231 (298)
                      +|+.|+
T Consensus        65 ~~~~ir   70 (70)
T PF00076_consen   65 NGRKIR   70 (70)
T ss_dssp             TTEEEE
T ss_pred             CccCcC
Confidence            999986

(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 ....

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

Probab=99.54  E-value=3.9e-14  Score=143.32  Aligned_cols=94  Identities=28%  Similarity=0.496  Sum_probs=86.0

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh----------------------
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI----------------------  196 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai----------------------  196 (298)
                      +|||||  .++||++|+++|++||.|.+|.|++|      +++|||+|.+.++|++||                      
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~   81 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP   81 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence            699999  89999999999999999999999877      369999999999999999                      


Q ss_pred             --------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEE
Q psy15187        197 --------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV  232 (298)
Q Consensus       197 --------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V  232 (298)
                                                                  ++++|||||+|.+.++|..||..|||..++|+.|.|
T Consensus        82 ~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v  161 (562)
T TIGR01628        82 SLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYV  161 (562)
T ss_pred             cccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEE
Confidence                                                        127899999999999999999999999999999999


Q ss_pred             EEcccccc
Q psy15187        233 SLARRQLK  240 (298)
Q Consensus       233 ~~A~~k~~  240 (298)
                      .....+..
T Consensus       162 ~~~~~~~~  169 (562)
T TIGR01628       162 GRFIKKHE  169 (562)
T ss_pred             eccccccc
Confidence            87665443

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

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

Probab=99.53  E-value=5.5e-14  Score=142.19  Aligned_cols=96  Identities=33%  Similarity=0.585  Sum_probs=87.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhh--------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai--------------------  196 (298)
                      ..++|||+|  .++|+++|+++|+.||.|.+|.|+.+     +++|||+|.+.++|.+|+                    
T Consensus       177 ~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~  256 (562)
T TIGR01628       177 KFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVG  256 (562)
T ss_pred             CCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEee
Confidence            347899999  99999999999999999999999876     579999999999999887                    


Q ss_pred             ------------------------------------------------------------------hcCCceEEEEeCCH
Q psy15187        197 ------------------------------------------------------------------TDDCARGFVTFDSP  210 (298)
Q Consensus       197 ------------------------------------------------------------------~~skGfaFV~F~~~  210 (298)
                                                                                        +.++|||||+|.+.
T Consensus       257 ~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~  336 (562)
T TIGR01628       257 RAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNP  336 (562)
T ss_pred             cccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCH
Confidence                                                                              12689999999999


Q ss_pred             HHHHHHHHHhCCcEECCeEEEEEEccccc
Q psy15187        211 ESSDKAITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       211 e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      ++|.+|+..|||..|+|++|.|.||..+.
T Consensus       337 ~~A~~A~~~~~g~~~~gk~l~V~~a~~k~  365 (562)
T TIGR01628       337 EEANRAVTEMHGRMLGGKPLYVALAQRKE  365 (562)
T ss_pred             HHHHHHHHHhcCCeeCCceeEEEeccCcH
Confidence            99999999999999999999999998643

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

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

Probab=99.53  E-value=6.4e-14  Score=139.75  Aligned_cols=95  Identities=23%  Similarity=0.382  Sum_probs=86.5

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhh-------------------------
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT-------------------------  197 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~-------------------------  197 (298)
                      +.+|||+|  +++++++|+++|++||.|.+|.|+.++++|||+|.+.++|++||.                         
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~   81 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIK   81 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccc
Confidence            46899999  999999999999999999999999999999999999999999981                         


Q ss_pred             --------------------------------------------------cCCceEEEEeCCHHHHHHHHHHhCCcEECC
Q psy15187        198 --------------------------------------------------DDCARGFVTFDSPESSDKAITEVNGTHVQG  227 (298)
Q Consensus       198 --------------------------------------------------~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G  227 (298)
                                                                        ...|+|||+|.+.++|.+|+..|||..|.|
T Consensus        82 ~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~  161 (481)
T TIGR01649        82 RDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYN  161 (481)
T ss_pred             cCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccC
Confidence                                                              034799999999999999999999999964


Q ss_pred             --eEEEEEEccccc
Q psy15187        228 --VKLKVSLARRQL  239 (298)
Q Consensus       228 --r~L~V~~A~~k~  239 (298)
                        ++|+|.|++...
T Consensus       162 ~~~~l~v~~sk~~~  175 (481)
T TIGR01649       162 GCCTLKIEYAKPTR  175 (481)
T ss_pred             CceEEEEEEecCCC
Confidence              699999998644

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

>KOG0122|consensus

Probab=99.53  E-value=3.7e-14  Score=127.60  Aligned_cols=85  Identities=26%  Similarity=0.418  Sum_probs=80.0

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .+...+.++|-|.|  .+++|++|+++|.+||.|..|.|.+|+.+|.               ++|||||+|.+.++|.+|
T Consensus       183 ~R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~---------------~kGFAFVtF~sRddA~rA  247 (270)
T KOG0122|consen  183 MRERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGL---------------SKGFAFVTFESRDDAARA  247 (270)
T ss_pred             cccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCc---------------ccceEEEEEecHHHHHHH
Confidence            33445778999999  9999999999999999999999999999998               999999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |..|||+-+++-.|+|+|++++
T Consensus       248 I~~LnG~gyd~LILrvEwskP~  269 (270)
T KOG0122|consen  248 IADLNGYGYDNLILRVEWSKPS  269 (270)
T ss_pred             HHHccCcccceEEEEEEecCCC
Confidence            9999999999999999999986

>KOG0121|consensus

Probab=99.49  E-value=4.4e-14  Score=116.13  Aligned_cols=81  Identities=20%  Similarity=0.342  Sum_probs=73.6

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      -+.+|||||||  +.++|+.|.++|+++|+|..|.|-.|+.+--               +|||+||+|-+.++|..|+.-
T Consensus        33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kkt---------------pCGFCFVeyy~~~dA~~Alry   97 (153)
T KOG0121|consen   33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKT---------------PCGFCFVEYYSRDDAEDALRY   97 (153)
T ss_pred             HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcC---------------ccceEEEEEecchhHHHHHHH
Confidence            35569999999  9999999999999999999998888876554               788899999999999999999


Q ss_pred             hCCcEECCeEEEEEEccc
Q psy15187        220 VNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~  237 (298)
                      +||+.++.++|+|.|.-.
T Consensus        98 isgtrLddr~ir~D~D~G  115 (153)
T KOG0121|consen   98 ISGTRLDDRPIRIDWDAG  115 (153)
T ss_pred             hccCcccccceeeecccc
Confidence            999999999999999764

>KOG0125|consensus

Probab=99.49  E-value=1e-13  Score=129.14  Aligned_cols=97  Identities=26%  Similarity=0.429  Sum_probs=79.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....++|+|.|  +...+-||+.+|++||.|.+|.|+.+ ||                  |||||||+|++.++|++|-.
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERG------------------SKGFGFVTmen~~dadRARa  154 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERG------------------SKGFGFVTMENPADADRARA  154 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCC------------------CCccceEEecChhhHHHHHH
Confidence            33446899999  99999999999999999999999976 33                  78889999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccccccccccCCCCccchh
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAI  256 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~~~~~~~~~~~~~~~~~  256 (298)
                      +|||.+|.||+|.|..|..+-.............|-.+
T Consensus       155 ~LHgt~VEGRkIEVn~ATarV~n~K~~v~p~~~g~~~~  192 (376)
T KOG0125|consen  155 ELHGTVVEGRKIEVNNATARVHNKKKKVLPYPNGWKLL  192 (376)
T ss_pred             HhhcceeeceEEEEeccchhhccCCcccCCCccccccc
Confidence            99999999999999999876443333333333445444

>KOG0127|consensus

Probab=99.49  E-value=9.7e-14  Score=136.25  Aligned_cols=97  Identities=29%  Similarity=0.445  Sum_probs=90.9

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh---------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI---------------------  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai---------------------  196 (298)
                      .||||++  ++++.++|.++|+.+|+|..|.++.+      +|||||+|.-.++++.|+                     
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R   85 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKR   85 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccccc
Confidence            7999999  99999999999999999999999976      799999999999999999                     


Q ss_pred             ---------------------------------------------------------------------hcCCceEEEEe
Q psy15187        197 ---------------------------------------------------------------------TDDCARGFVTF  207 (298)
Q Consensus       197 ---------------------------------------------------------------------~~skGfaFV~F  207 (298)
                                                                                           +.-||||||.|
T Consensus        86 ~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~f  165 (678)
T KOG0127|consen   86 ARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQF  165 (678)
T ss_pred             ccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEE
Confidence                                                                                 22689999999


Q ss_pred             CCHHHHHHHHHHhCCcEECCeEEEEEEcccccccc
Q psy15187        208 DSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       208 ~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ....+|..|+..|||+.|+||+|-|.||..+...+
T Consensus       166 k~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye  200 (678)
T KOG0127|consen  166 KEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYE  200 (678)
T ss_pred             eeHHHHHHHHHhccCceecCceeEEeeeccccccc
Confidence            99999999999999999999999999999877655

>KOG0149|consensus

Probab=99.46  E-value=9.5e-14  Score=124.39  Aligned_cols=76  Identities=33%  Similarity=0.483  Sum_probs=70.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||||  |.+..+.|+++|++||+|++..|+.|+.+|.               |||||||+|.+.+.|.+|++..| -
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~r---------------skGyGfVTf~d~~aa~rAc~dp~-p   76 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGR---------------SKGYGFVTFRDAEAATRACKDPN-P   76 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCcc---------------ccceeeEEeecHHHHHHHhcCCC-C
Confidence            6999999  9999999999999999999999999999996               99999999999999999987654 6


Q ss_pred             EECCeEEEEEEccc
Q psy15187        224 HVQGVKLKVSLARR  237 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~  237 (298)
                      .|+||+-.|.+|.-
T Consensus        77 iIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   77 IIDGRKANCNLASL   90 (247)
T ss_pred             cccccccccchhhh
Confidence            89999999998753

>KOG0113|consensus

Probab=99.43  E-value=1.1e-12  Score=121.01  Aligned_cols=80  Identities=23%  Similarity=0.407  Sum_probs=76.1

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      +||||+.  ++++|..|+..|+.||+|..|.|+.|+-+|+               ++|||||+|++.-+...|.+..+|.
T Consensus       102 ~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgk---------------skGYAFIeye~erdm~~AYK~adG~  166 (335)
T KOG0113|consen  102 KTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGK---------------SKGYAFIEYEHERDMKAAYKDADGI  166 (335)
T ss_pred             ceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCC---------------ccceEEEEeccHHHHHHHHHhccCc
Confidence            8999997  9999999999999999999999999999998               9999999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|.|.+.+.+-.
T Consensus       167 ~Idgrri~VDvERgRTv  183 (335)
T KOG0113|consen  167 KIDGRRILVDVERGRTV  183 (335)
T ss_pred             eecCcEEEEEecccccc
Confidence            99999999999876543

>KOG0130|consensus

Probab=99.41  E-value=2.9e-13  Score=112.33  Aligned_cols=83  Identities=22%  Similarity=0.420  Sum_probs=78.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...|.-|||.|  ..++|+++.+.|..||+|.+|++..|+.+||               .+|||+|+|++.++|+.||.+
T Consensus        69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy---------------~KGYaLvEYet~keAq~A~~~  133 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGY---------------VKGYALVEYETLKEAQAAIDA  133 (170)
T ss_pred             ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeecccccccc---------------ccceeeeehHhHHHHHHHHHh
Confidence            45668999999  9999999999999999999999999999999               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |||..|.|..|.|.|+--+.
T Consensus       134 ~Ng~~ll~q~v~VDw~Fv~g  153 (170)
T KOG0130|consen  134 LNGAELLGQNVSVDWCFVKG  153 (170)
T ss_pred             ccchhhhCCceeEEEEEecC
Confidence            99999999999999997543

>KOG0145|consensus

Probab=99.41  E-value=6e-13  Score=120.90  Aligned_cols=100  Identities=28%  Similarity=0.475  Sum_probs=90.0

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh--------------
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI--------------  196 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai--------------  196 (298)
                      +...-.+.+|||.|  ..+|..+|+.+|++||.|+.-+|..|      +|-|||.|++.++|+.||              
T Consensus       121 Ss~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tep  200 (360)
T KOG0145|consen  121 SSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEP  200 (360)
T ss_pred             ChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCC
Confidence            34445567899999  89999999999999999999888866      799999999999999999              


Q ss_pred             --------------------------------------------------------------------------------
Q psy15187        197 --------------------------------------------------------------------------------  196 (298)
Q Consensus       197 --------------------------------------------------------------------------------  196 (298)
                                                                                                      
T Consensus       201 ItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~c  280 (360)
T KOG0145|consen  201 ITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWC  280 (360)
T ss_pred             eEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeE
Confidence                                                                                            


Q ss_pred             ------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccc
Q psy15187        197 ------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       197 ------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                                                          ++.+|||||.+.+-++|..||..|||+.++++.|.|+|...+
T Consensus       281 iFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk  358 (360)
T KOG0145|consen  281 IFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNK  358 (360)
T ss_pred             EEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCC
Confidence                                                238999999999999999999999999999999999997654

>KOG4207|consensus

Probab=99.39  E-value=4.2e-13  Score=118.34  Aligned_cols=78  Identities=22%  Similarity=0.373  Sum_probs=73.7

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      -+.|-|.|  +.|+.++|+.+|++||.|-+|.|+.|+-+.-               ++|||||.|....+|+.|+.+|+|
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~---------------sRgFaFVrf~~k~daedA~damDG   77 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQ---------------SRGFAFVRFHDKRDAEDALDAMDG   77 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceeccccccccc---------------ccceeEEEeeecchHHHHHHhhcc
Confidence            36899999  9999999999999999999999999988775               999999999999999999999999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      .+|+|+.|.|++|+=
T Consensus        78 ~~ldgRelrVq~ary   92 (256)
T KOG4207|consen   78 AVLDGRELRVQMARY   92 (256)
T ss_pred             eeeccceeeehhhhc
Confidence            999999999999873

>KOG0109|consensus

Probab=99.38  E-value=5.9e-13  Score=122.46  Aligned_cols=93  Identities=28%  Similarity=0.474  Sum_probs=85.2

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhh--------------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT--------------------------  197 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~--------------------------  197 (298)
                      .+|||||  ..+++.+|+.+|++||+|++|.|+  +++|||..++...++.||.                          
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv--KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk~stk   80 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV--KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSKASTK   80 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeee--cccceEEeecccccHHHHhhcccceecceEEEEEeccccCCCccc
Confidence            4799999  899999999999999999999998  6899999999999999991                          


Q ss_pred             -----------------------------cCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        198 -----------------------------DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       198 -----------------------------~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                                                   .-++|+||.|.-.++|..||..|||.+|+|.+|+|.+...+-.
T Consensus        81 l~vgNis~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlr  152 (346)
T KOG0109|consen   81 LHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR  152 (346)
T ss_pred             cccCCCCccccCHHHhhhhcccCCceeeeeecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccc
Confidence                                         1588999999999999999999999999999999999876543

>PLN03213 repressor of silencing 3; Provisional

Probab=99.36  E-value=2.3e-12  Score=125.49  Aligned_cols=75  Identities=27%  Similarity=0.450  Sum_probs=68.4

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCH--HHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP--ESSDKAITE  219 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~--e~A~~Ai~~  219 (298)
                      .+.+|||||  +.+++++|+.+|+.||.|.+|.|++..|.|                   ||||+|...  .++.+||..
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRG-------------------FAFVEMssdddaEeeKAISa   69 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRS-------------------FAYIDFSPSSTNSLTKLFST   69 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCc-------------------eEEEEecCCcHHHHHHHHHH
Confidence            447899999  999999999999999999999999665544                   599999987  689999999


Q ss_pred             hCCcEECCeEEEEEEccc
Q psy15187        220 VNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~  237 (298)
                      |||..|+|+.|+|..|++
T Consensus        70 LNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         70 YNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             hcCCeecCceeEEeeccH
Confidence            999999999999999986

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.36  E-value=3.3e-12  Score=117.20  Aligned_cols=74  Identities=23%  Similarity=0.384  Sum_probs=67.0

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +.+++++|+++|+.||.|.+|.|+.++.                  ++|||||+|.+.++|..||. |||
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~------------------~~GfAFVtF~d~eaAe~All-LnG   64 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE------------------RSQIAYVTFKDPQGAETALL-LSG   64 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC------------------CCCEEEEEeCcHHHHHHHHH-hcC
Confidence            46999999  9999999999999999999999987752                  34669999999999999995 999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      ..|.|+.|.|.++..
T Consensus        65 ~~l~gr~V~Vt~a~~   79 (260)
T PLN03120         65 ATIVDQSVTITPAED   79 (260)
T ss_pred             CeeCCceEEEEeccC
Confidence            999999999999874

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

Probab=99.36  E-value=4.2e-12  Score=126.46  Aligned_cols=81  Identities=20%  Similarity=0.368  Sum_probs=74.7

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +.+++++|+++|+.||.|..|.|+.+...|-               ++|||||+|.+.++|..||..|
T Consensus       293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~---------------~~g~afv~f~~~~~a~~A~~~l  357 (509)
T TIGR01642       293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGL---------------SKGYAFCEYKDPSVTDVAIAAL  357 (509)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCC---------------cCeEEEEEECCHHHHHHHHHHc
Confidence            3457999999  9999999999999999999999998877665               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccc
Q psy15187        221 NGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k  238 (298)
                      ||..|+|+.|.|.+|...
T Consensus       358 ~g~~~~~~~l~v~~a~~~  375 (509)
T TIGR01642       358 NGKDTGDNKLHVQRACVG  375 (509)
T ss_pred             CCCEECCeEEEEEECccC
Confidence            999999999999999754

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

>KOG0107|consensus

Probab=99.36  E-value=1.8e-12  Score=111.77  Aligned_cols=77  Identities=22%  Similarity=0.471  Sum_probs=69.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||||  .++++.||+.+|..||+|.+|.|.. .                   +-|||||+|+++.+|+.|+..||
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr-n-------------------PPGfAFVEFed~RDA~DAvr~LD   68 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR-N-------------------PPGFAFVEFEDPRDAEDAVRYLD   68 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEee-c-------------------CCCceEEeccCcccHHHHHhhcC
Confidence            358999999  9999999999999999999998865 2                   34559999999999999999999


Q ss_pred             CcEECCeEEEEEEcccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|.|..|+|++...++.
T Consensus        69 G~~~cG~r~rVE~S~G~~r   87 (195)
T KOG0107|consen   69 GKDICGSRIRVELSTGRPR   87 (195)
T ss_pred             CccccCceEEEEeecCCcc
Confidence            9999999999999887655

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.35  E-value=4.8e-12  Score=92.90  Aligned_cols=68  Identities=32%  Similarity=0.554  Sum_probs=60.6

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      |||+|  +++++++|.++|+.||.|..+.+..++. |-               ++|+|||+|.+.++|..|+..++|..|
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~---------------~~~~a~v~f~~~~~a~~al~~~~~~~~   64 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQ---------------SRGFAFVEFSSEEDAKRALELLNGKEI   64 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SS---------------EEEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cc---------------cCCEEEEEeCCHHHHHHHHHHCCCcEE
Confidence            79999  9999999999999999999999998765 43               678899999999999999999999999


Q ss_pred             CCeEEE
Q psy15187        226 QGVKLK  231 (298)
Q Consensus       226 ~Gr~L~  231 (298)
                      +|+.|+
T Consensus        65 ~g~~l~   70 (70)
T PF14259_consen   65 DGRKLR   70 (70)
T ss_dssp             TTEEEE
T ss_pred             CCEEcC
Confidence            999885

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 ....

>KOG0148|consensus

Probab=99.34  E-value=2.2e-12  Score=117.70  Aligned_cols=94  Identities=22%  Similarity=0.404  Sum_probs=77.1

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-----------------C---ceeEEec----Chhhhhhhh---
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-----------------G---RGFVTFD----SPESSDKAI---  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-----------------~---~gfV~f~----~~~~adkai---  196 (298)
                      .||||||  .++||+-|..+|.+.|.|..|+|+.|.                 +   .-||.+.    +.+....|.   
T Consensus         7 rtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~e~~v~wa~~p~nQsk~t~~~hfhvfvgdls~eI~~e~lr~aF~pF   86 (321)
T KOG0148|consen    7 RTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFDELKVNWATAPGNQSKPTSNQHFHVFVGDLSPEIDNEKLREAFAPF   86 (321)
T ss_pred             ceEEeeccChhhHHHHHHHHHHhccccccceeehhhhccccccCcccCCCCccccceeEEehhcchhcchHHHHHHhccc
Confidence            6999999  999999999999999999999998650                 1   1222222    222222222   


Q ss_pred             --------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccccc
Q psy15187        197 --------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       197 --------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                                    +++||||||.|.+.++|+.||..|||.-|++|.|+-.||.+++
T Consensus        87 GevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp  143 (321)
T KOG0148|consen   87 GEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP  143 (321)
T ss_pred             cccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence                          6799999999999999999999999999999999999999887

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

Probab=99.34  E-value=5.4e-12  Score=127.92  Aligned_cols=97  Identities=27%  Similarity=0.411  Sum_probs=82.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCC-eeEEEEe-------eecCceeEEecChhhhhhhhh----------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGK-ICSVSME-------VEKGRGFVTFDSPESSDKAIT----------------  197 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~-I~~v~i~-------~dk~~gfV~f~~~~~adkai~----------------  197 (298)
                      ..++|||+|  ..+++++|.++|++|+. |+.+.+.       ..+++|||+|.++++|..|+.                
T Consensus       137 ~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~V  216 (578)
T TIGR01648       137 DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAV  216 (578)
T ss_pred             cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEE
Confidence            357999999  89999999999999974 4444332       237899999999999988860                


Q ss_pred             --------------------------------------------------cCCceEEEEeCCHHHHHHHHHHhCCcEECC
Q psy15187        198 --------------------------------------------------DDCARGFVTFDSPESSDKAITEVNGTHVQG  227 (298)
Q Consensus       198 --------------------------------------------------~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G  227 (298)
                                                                        ..+|||||+|.+.++|.+||..|||..|+|
T Consensus       217 dwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rgfAFVeF~s~e~A~kAi~~lnG~~i~G  296 (578)
T TIGR01648       217 DWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRDYAFVHFEDREDAVKAMDELNGKELEG  296 (578)
T ss_pred             EeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecCeEEEEeCCHHHHHHHHHHhCCCEECC
Confidence                                                              158899999999999999999999999999


Q ss_pred             eEEEEEEcccccc
Q psy15187        228 VKLKVSLARRQLK  240 (298)
Q Consensus       228 r~L~V~~A~~k~~  240 (298)
                      +.|+|.||.+...
T Consensus       297 r~I~V~~Akp~~~  309 (578)
T TIGR01648       297 SEIEVTLAKPVDK  309 (578)
T ss_pred             EEEEEEEccCCCc
Confidence            9999999987544

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.

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

Probab=99.33  E-value=5.9e-12  Score=111.02  Aligned_cols=78  Identities=37%  Similarity=0.568  Sum_probs=73.7

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +++++++|.++|.+||.|..|.|..++.+|.               ++|||||+|.+.++|..|+..|+|
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~---------------~~g~~~v~f~~~~~~~~a~~~~~~  179 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGK---------------SRGFAFVEFESEESAEKAIEELNG  179 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCc---------------cCceEEEEecCHHHHHHHHHHcCC
Confidence            58999999  9999999999999999999999999987775               999999999999999999999999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      ..|.|+.|.|.++..
T Consensus       180 ~~~~~~~~~v~~~~~  194 (306)
T COG0724         180 KELEGRPLRVQKAQP  194 (306)
T ss_pred             CeECCceeEeecccc
Confidence            999999999999763

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

Probab=99.33  E-value=8.7e-12  Score=122.73  Aligned_cols=52  Identities=35%  Similarity=0.563  Sum_probs=48.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI  196 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai  196 (298)
                      .++|||+|  ..+++++|+++|++||.|..|.|+.+      +++|||+|.+.++|.+|+
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~  245 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEAL  245 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHH
Confidence            57999999  89999999999999999999999865      578999999999999887

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.

>smart00362 RRM_2 RNA recognition motif

Probab=99.32  E-value=1.1e-11  Score=88.61  Aligned_cols=70  Identities=40%  Similarity=0.608  Sum_probs=63.0

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  ..+++++|+++|.+||.|..+.+..+.  +-               ++|+|||+|.+.++|..|+..++|..
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~---------------~~~~~~v~f~~~~~a~~a~~~~~~~~   63 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GK---------------SKGFAFVEFESEEDAEKAIEALNGTK   63 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CC---------------CCceEEEEeCCHHHHHHHHHHhCCcE
Confidence            489999  899999999999999999999888765  32               67889999999999999999999999


Q ss_pred             ECCeEEEEE
Q psy15187        225 VQGVKLKVS  233 (298)
Q Consensus       225 i~Gr~L~V~  233 (298)
                      +.|+.|.|+
T Consensus        64 ~~~~~i~v~   72 (72)
T smart00362       64 LGGRPLRVE   72 (72)
T ss_pred             ECCEEEeeC
Confidence            999999873

>KOG0111|consensus

Probab=99.30  E-value=1.7e-12  Score=115.52  Aligned_cols=81  Identities=26%  Similarity=0.461  Sum_probs=74.2

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      -++|||||  ..++|.-|...|-+||.|..|.|+.|-..+-               +||||||+|...++|..||..||+
T Consensus        10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqk---------------HRgFgFVefe~aEDAaaAiDNMne   74 (298)
T KOG0111|consen   10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQK---------------HRGFGFVEFEEAEDAAAAIDNMNE   74 (298)
T ss_pred             ceeEEeccchHHHHHHHHHhccccccchhhcccccchhccc---------------ccceeEEEeeccchhHHHhhcCch
Confidence            36999999  9999999999999999999999998855553               889999999999999999999999


Q ss_pred             cEECCeEEEEEEcccccc
Q psy15187        223 THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~  240 (298)
                      .+|.||+|+|.+|++..-
T Consensus        75 sEL~GrtirVN~AkP~ki   92 (298)
T KOG0111|consen   75 SELFGRTIRVNLAKPEKI   92 (298)
T ss_pred             hhhcceeEEEeecCCccc
Confidence            999999999999998543

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.30  E-value=1.3e-11  Score=111.95  Aligned_cols=74  Identities=20%  Similarity=0.259  Sum_probs=66.3

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+.+|||+|  +.+|+++|+++|+.||.|.+|.|+.|..+                  .|||||+|.+.++|+.|+ .||
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et------------------~gfAfVtF~d~~aaetAl-lLn   64 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEY------------------ACTAYVTFKDAYALETAV-LLS   64 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCc------------------ceEEEEEECCHHHHHHHH-hcC
Confidence            457999999  99999999999999999999999988533                  356999999999999998 599


Q ss_pred             CcEECCeEEEEEEcc
Q psy15187        222 GTHVQGVKLKVSLAR  236 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~  236 (298)
                      |..|.++.|.|..+.
T Consensus        65 Ga~l~d~~I~It~~~   79 (243)
T PLN03121         65 GATIVDQRVCITRWG   79 (243)
T ss_pred             CCeeCCceEEEEeCc
Confidence            999999999997765

>KOG0126|consensus

Probab=99.29  E-value=3.8e-13  Score=116.53  Aligned_cols=79  Identities=22%  Similarity=0.390  Sum_probs=74.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .++.-|||||  ++.||.||-.+|++||+|++|.+++|+.+|-               |+||||+.|++..+..-|+..|
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGK---------------SKGFaFLcYEDQRSTILAVDN~   97 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGK---------------SKGFAFLCYEDQRSTILAVDNL   97 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCc---------------ccceEEEEecCccceEEEEecc
Confidence            4456899999  9999999999999999999999999999996               9999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcc
Q psy15187        221 NGTHVQGVKLKVSLAR  236 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~  236 (298)
                      ||..|.||.|+|....
T Consensus        98 NGiki~gRtirVDHv~  113 (219)
T KOG0126|consen   98 NGIKILGRTIRVDHVS  113 (219)
T ss_pred             CCceecceeEEeeecc
Confidence            9999999999998754

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

Probab=99.29  E-value=1.6e-11  Score=122.51  Aligned_cols=78  Identities=22%  Similarity=0.391  Sum_probs=68.8

Q ss_pred             CCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ...+++|||+|  + .+++++|+++|+.||.|.+|.|+.++                    +|||||+|.+.++|..||.
T Consensus       272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~--------------------~g~afV~f~~~~~A~~Ai~  331 (481)
T TIGR01649       272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK--------------------KETALIEMADPYQAQLALT  331 (481)
T ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC--------------------CCEEEEEECCHHHHHHHHH
Confidence            34678999999  5 59999999999999999999998762                    3459999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      .|||..|.|+.|+|.+++.+.
T Consensus       332 ~lng~~l~g~~l~v~~s~~~~  352 (481)
T TIGR01649       332 HLNGVKLFGKPLRVCPSKQQN  352 (481)
T ss_pred             HhCCCEECCceEEEEEccccc
Confidence            999999999999999987643

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).

>KOG0145|consensus

Probab=99.26  E-value=1.3e-11  Score=112.36  Aligned_cols=80  Identities=30%  Similarity=0.459  Sum_probs=74.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|.|.=  ..+|+++|+.+|+..|+|++|++++|+-+|.               +.|||||-|.++++|++||..|||.
T Consensus        42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGq---------------SLGYGFVNYv~p~DAe~AintlNGL  106 (360)
T KOG0145|consen   42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQ---------------SLGYGFVNYVRPKDAEKAINTLNGL  106 (360)
T ss_pred             ceeeeeecccccCHHHHHHHhhcccceeeeeeeecccccc---------------ccccceeeecChHHHHHHHhhhcce
Confidence            5677754  9999999999999999999999999998886               9999999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .+...+|+|+||++...
T Consensus       107 rLQ~KTIKVSyARPSs~  123 (360)
T KOG0145|consen  107 RLQNKTIKVSYARPSSD  123 (360)
T ss_pred             eeccceEEEEeccCChh
Confidence            99999999999997543

>PF13893 RRM_5: RNA recognition motif

Probab=99.26  E-value=3e-11  Score=85.46  Aligned_cols=56  Identities=43%  Similarity=0.626  Sum_probs=48.9

Q ss_pred             HHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEc
Q psy15187        160 LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       160 L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A  235 (298)
                      |.++|++||.|..|.+..+. .+                   +|||+|.+.++|..|+..|||..++|++|+|+||
T Consensus         1 L~~~f~~fG~V~~i~~~~~~-~~-------------------~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK-RG-------------------FAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS-TT-------------------EEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC-CC-------------------EEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            78999999999999887654 34                   3888888899999999999999999999999986

(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 ....

>smart00361 RRM_1 RNA recognition motif

Probab=99.25  E-value=2.6e-11  Score=90.10  Aligned_cols=61  Identities=23%  Similarity=0.496  Sum_probs=54.5

Q ss_pred             HHHHHHHHh----ccCCeeEEE-EeeecCc--eeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeE
Q psy15187        157 EEFLRQHFS----IFGKICSVS-MEVEKGR--GFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVK  229 (298)
Q Consensus       157 e~~L~~~F~----~fG~I~~v~-i~~dk~~--gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~  229 (298)
                      +++|+++|+    +||.|.+|. |+.++..  +-               ++|||||+|.+.++|..|+..|||..+.|+.
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~---------------~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~   66 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENH---------------KRGNVYITFERSEDAARAIVDLNGRYFDGRT   66 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCC---------------CcEEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            678999999    999999996 6666654  54               8999999999999999999999999999999


Q ss_pred             EEE
Q psy15187        230 LKV  232 (298)
Q Consensus       230 L~V  232 (298)
                      |++
T Consensus        67 l~~   69 (70)
T smart00361       67 VKA   69 (70)
T ss_pred             EEe
Confidence            987

>smart00360 RRM RNA recognition motif

Probab=99.24  E-value=3.5e-11  Score=85.46  Aligned_cols=69  Identities=41%  Similarity=0.587  Sum_probs=61.1

Q ss_pred             EcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECC
Q psy15187        150 VQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQG  227 (298)
Q Consensus       150 Vgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G  227 (298)
                      |+|  ..+++++|+++|.+||.|..|.+..++..+-               ++|||||+|.+.++|..|+..|+|..++|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~---------------~~~~a~v~f~~~~~a~~a~~~~~~~~~~~   65 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGK---------------SKGFAFVEFESEEDAEKALEALNGKELDG   65 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCC---------------CCceEEEEeCCHHHHHHHHHHcCCCeeCC
Confidence            456  7889999999999999999999987765443               78889999999999999999999999999


Q ss_pred             eEEEEE
Q psy15187        228 VKLKVS  233 (298)
Q Consensus       228 r~L~V~  233 (298)
                      +.|.|+
T Consensus        66 ~~~~v~   71 (71)
T smart00360       66 RPLKVK   71 (71)
T ss_pred             cEEEeC
Confidence            999873

>KOG4205|consensus

Probab=99.21  E-value=2e-11  Score=115.28  Aligned_cols=101  Identities=33%  Similarity=0.489  Sum_probs=90.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-------------------  196 (298)
                      ..++||||+  |+++++.|+++|.+||+|.+|.+|.|      +++|||+|.+.+.++.++                   
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~   84 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS   84 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence            568999999  99999999999999999999999987      699999999999999998                   


Q ss_pred             ---------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        197 ---------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       197 ---------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                                                                         .+++|||||.|.+.+.+.+++. ...+.|
T Consensus        85 r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~  163 (311)
T KOG4205|consen   85 REDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDF  163 (311)
T ss_pred             cccccccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeee
Confidence                                                               2289999999999998888654 678999


Q ss_pred             CCeEEEEEEccccccccccc
Q psy15187        226 QGVKLKVSLARRQLKVAPIN  245 (298)
Q Consensus       226 ~Gr~L~V~~A~~k~~~~~~~  245 (298)
                      +|+.+.|..|.++..+....
T Consensus       164 ~gk~vevkrA~pk~~~~~~~  183 (311)
T KOG4205|consen  164 NGKKVEVKRAIPKEVMQSTK  183 (311)
T ss_pred             cCceeeEeeccchhhccccc
Confidence            99999999999987766443

>KOG0108|consensus

Probab=99.19  E-value=5.8e-11  Score=116.65  Aligned_cols=82  Identities=29%  Similarity=0.428  Sum_probs=77.2

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      +.|||||  +++++++|.++|+..|.|.+++++.|+.+|-               ++||||++|.+.++|..|+..|||.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~---------------~~G~~f~~~~~~~~~~~a~~~lNg~   83 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGK---------------PKGFGFCEFTDEETAERAIRNLNGA   83 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCC---------------cCceeeEecCchhhHHHHHHhcCCc
Confidence            7899999  9999999999999999999999999998886               9999999999999999999999999


Q ss_pred             EECCeEEEEEEcccccccc
Q psy15187        224 HVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .+.|++|+|.|+.......
T Consensus        84 ~~~gr~l~v~~~~~~~~~~  102 (435)
T KOG0108|consen   84 EFNGRKLRVNYASNRKNAE  102 (435)
T ss_pred             ccCCceEEeecccccchhH
Confidence            9999999999998765544

>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=99.18  E-value=2.3e-10  Score=82.02  Aligned_cols=72  Identities=36%  Similarity=0.582  Sum_probs=64.1

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  ..+++++|+++|+.||.|..+.+..+....                ++|+|||+|.+.++|..|+..++|..
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~----------------~~~~~~v~f~s~~~a~~a~~~~~~~~   64 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTK----------------SKGFAFVEFEDEEDAEKALEALNGKE   64 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCC----------------cceEEEEEECCHHHHHHHHHHhCCCe
Confidence            489999  889999999999999999999988765431                46779999999999999999999999


Q ss_pred             ECCeEEEEEE
Q psy15187        225 VQGVKLKVSL  234 (298)
Q Consensus       225 i~Gr~L~V~~  234 (298)
                      ++|+.|.|.+
T Consensus        65 ~~~~~~~v~~   74 (74)
T cd00590          65 LGGRPLRVEF   74 (74)
T ss_pred             ECCeEEEEeC
Confidence            9999999874

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).

>KOG0123|consensus

Probab=99.17  E-value=1.1e-10  Score=113.11  Aligned_cols=95  Identities=29%  Similarity=0.516  Sum_probs=87.2

Q ss_pred             cEEEEcCCCCCHHHHHHHHhccCCeeEEEEeee---cCceeEEecChhhhhhhh--------------------------
Q psy15187        146 NTIFVQGAGISEEFLRQHFSIFGKICSVSMEVE---KGRGFVTFDSPESSDKAI--------------------------  196 (298)
Q Consensus       146 ~tLfVgn~~~te~~L~~~F~~fG~I~~v~i~~d---k~~gfV~f~~~~~adkai--------------------------  196 (298)
                      ..|||| +++||.+|.++|+.+|+|++|++-+|   -++|||.|.++.+|++||                          
T Consensus         2 ~sl~vg-~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~~~   80 (369)
T KOG0123|consen    2 ASLYVG-PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSLVF   80 (369)
T ss_pred             CceecC-CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCceee
Confidence            358999 99999999999999999999999877   489999999999999999                          


Q ss_pred             --------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccccccc
Q psy15187        197 --------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       197 --------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                                                      .-++|| ||+|++.++|.+||..|||..+.|..|.|..+..+..+.
T Consensus        81 i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~  157 (369)
T KOG0123|consen   81 IKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE  157 (369)
T ss_pred             ecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence                                            118999 999999999999999999999999999999988766654

>KOG0117|consensus

Probab=99.16  E-value=1.7e-10  Score=111.46  Aligned_cols=98  Identities=22%  Similarity=0.338  Sum_probs=83.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCC-eeEEEEe-------eecCceeEEecChhhhhhhh----------------
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGK-ICSVSME-------VEKGRGFVTFDSPESSDKAI----------------  196 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~-I~~v~i~-------~dk~~gfV~f~~~~~adkai----------------  196 (298)
                      -.+|+|||||  ...++++|.+.|.+.++ |++|.+.       ++|||+||+|.++..|..+-                
T Consensus       162 van~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~t  241 (506)
T KOG0117|consen  162 VANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAIT  241 (506)
T ss_pred             eecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcce
Confidence            3568999999  88899999999999885 4454443       34899999999999888776                


Q ss_pred             ------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCe
Q psy15187        197 ------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGV  228 (298)
Q Consensus       197 ------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr  228 (298)
                                                                      .+.+-||||+|.+.++|.+|++.|||+.|+|.
T Consensus       242 VdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rDYaFVHf~eR~davkAm~~~ngkeldG~  321 (506)
T KOG0117|consen  242 VDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRDYAFVHFAEREDAVKAMKETNGKELDGS  321 (506)
T ss_pred             eeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccceeEEeecchHHHHHHHHHhcCceecCc
Confidence                                                            12688999999999999999999999999999


Q ss_pred             EEEEEEcccccc
Q psy15187        229 KLKVSLARRQLK  240 (298)
Q Consensus       229 ~L~V~~A~~k~~  240 (298)
                      .|.|.+|++..+
T Consensus       322 ~iEvtLAKP~~k  333 (506)
T KOG0117|consen  322 PIEVTLAKPVDK  333 (506)
T ss_pred             eEEEEecCChhh
Confidence            999999998654

>KOG0124|consensus

Probab=99.15  E-value=2.5e-11  Score=114.75  Aligned_cols=77  Identities=26%  Similarity=0.478  Sum_probs=71.6

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      |+||||.  +.+.|+.|+..|..||+|.+|+|..|.-++.               ++|||||+|+=+|.|.-|++.|||.
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~k---------------HKgFAFVEYEvPEaAqLAlEqMNg~  178 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGK---------------HKGFAFVEYEVPEAAQLALEQMNGQ  178 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcceeeccccccccc---------------ccceEEEEEeCcHHHHHHHHHhccc
Confidence            7999999  9999999999999999999999998877775               9999999999999999999999999


Q ss_pred             EECCeEEEEEEccc
Q psy15187        224 HVQGVKLKVSLARR  237 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~  237 (298)
                      +++||.|+|..-..
T Consensus       179 mlGGRNiKVgrPsN  192 (544)
T KOG0124|consen  179 MLGGRNIKVGRPSN  192 (544)
T ss_pred             cccCccccccCCCC
Confidence            99999999975433

>KOG0132|consensus

Probab=99.14  E-value=2.6e-10  Score=116.11  Aligned_cols=81  Identities=21%  Similarity=0.348  Sum_probs=70.4

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      -..+++|||||+  ..++|.||..+|+.||+|.+|.|+..++||||++....                     +|.+|+.
T Consensus       417 isV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~Rq---------------------dA~kalq  475 (894)
T KOG0132|consen  417 ISVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQ---------------------DAEKALQ  475 (894)
T ss_pred             eeEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehh---------------------HHHHHHH
Confidence            345678999999  99999999999999999999999887777776665555                     9999999


Q ss_pred             HhCCcEECCeEEEEEEcccccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      +|+.+.+.+..|+|.||..+-...
T Consensus       476 kl~n~kv~~k~Iki~Wa~g~G~ks  499 (894)
T KOG0132|consen  476 KLSNVKVADKTIKIAWAVGKGPKS  499 (894)
T ss_pred             HHhcccccceeeEEeeeccCCcch
Confidence            999999999999999999765544

>KOG0127|consensus

Probab=99.13  E-value=1.8e-10  Score=113.63  Aligned_cols=115  Identities=26%  Similarity=0.445  Sum_probs=93.9

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh-
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV-  220 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l-  220 (298)
                      .+.+|||.|  +++|+++|.++|++||+|.++.|+.++.+|.               ++|.|||.|.+..+|..||... 
T Consensus       291 ~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~---------------skGtAFv~Fkt~~~~~~ci~~As  355 (678)
T KOG0127|consen  291 EGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGH---------------SKGTAFVKFKTQIAAQNCIEAAS  355 (678)
T ss_pred             ccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCC---------------cccceEEEeccHHHHHHHHHhcC
Confidence            447999999  9999999999999999999999999999997               9999999999999999999977 


Q ss_pred             ----CC-cEECCeEEEEEEcccccccccccccCCCCccchhhhcccCCCCCCCCCceeecCCCCCCCCCCC
Q psy15187        221 ----NG-THVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQSLKGNHKDKRHQVIYDDDIFGEEPPL  286 (298)
Q Consensus       221 ----nG-~~i~Gr~L~V~~A~~k~~~~~~~~~~~~~~~~~~a~~~s~~g~~~d~R~l~~y~~d~~~~~~~~  286 (298)
                          .| ..|+||.|.|..|..+.....+..            . ...-.+.+.|+|++.++....+..++
T Consensus       356 pa~e~g~~ll~GR~Lkv~~Av~RkeA~dmeq------------k-k~~Kk~~gkrNLyLa~EG~I~~gt~a  413 (678)
T KOG0127|consen  356 PASEDGSVLLDGRLLKVTLAVTRKEAADMEQ------------K-KKRKKPKGKRNLYLAREGLIRDGTPA  413 (678)
T ss_pred             ccCCCceEEEeccEEeeeeccchHHHHHHHH------------H-hhhhccCCccceeeeccCccccCChh
Confidence                34 789999999999998765332211            0 12234556889999988776665554

>KOG0146|consensus

Probab=99.13  E-value=4.9e-11  Score=108.90  Aligned_cols=86  Identities=30%  Similarity=0.440  Sum_probs=77.3

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      +.-++||+|||..  ....+.+|-..|-.||.|++.++..||.+.-               ||+||||.|+++.+|..||
T Consensus       280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQ---------------SKCFGFVSfDNp~SaQaAI  344 (371)
T KOG0146|consen  280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQ---------------SKCFGFVSFDNPASAQAAI  344 (371)
T ss_pred             hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhcccc---------------ccceeeEecCCchhHHHHH
Confidence            4456789999999  8999999999999999999998877765554               9999999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||+.|+-.+|+|.+.+++..
T Consensus       345 qAMNGFQIGMKRLKVQLKRPkda  367 (371)
T KOG0146|consen  345 QAMNGFQIGMKRLKVQLKRPKDA  367 (371)
T ss_pred             HHhcchhhhhhhhhhhhcCcccc
Confidence            99999999999999999988654

>KOG0123|consensus

Probab=99.12  E-value=8.4e-11  Score=113.86  Aligned_cols=90  Identities=37%  Similarity=0.606  Sum_probs=84.3

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeee----cCceeEEecChhhhhhhh-------------------------
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVE----KGRGFVTFDSPESSDKAI-------------------------  196 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d----k~~gfV~f~~~~~adkai-------------------------  196 (298)
                      |||.|  .+++..+|.++|+.||.|++|+++.+    +++ ||+|.+.++|++||                         
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~  157 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE  157 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence            99999  99999999999999999999999988    577 99999999999999                         


Q ss_pred             -----------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeE
Q psy15187        197 -----------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVK  229 (298)
Q Consensus       197 -----------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~  229 (298)
                                                                     +.++|||||.|.++++|..|+..|||..++|..
T Consensus       158 ~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~  237 (369)
T KOG0123|consen  158 APLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKE  237 (369)
T ss_pred             ccccchhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCccc
Confidence                                                           227999999999999999999999999999999


Q ss_pred             EEEEEcccc
Q psy15187        230 LKVSLARRQ  238 (298)
Q Consensus       230 L~V~~A~~k  238 (298)
                      |.|..+..+
T Consensus       238 ~~V~~aqkk  246 (369)
T KOG0123|consen  238 LYVGRAQKK  246 (369)
T ss_pred             eeecccccc
Confidence            999887763

>KOG0105|consensus

Probab=99.10  E-value=1.3e-10  Score=101.32  Aligned_cols=77  Identities=26%  Similarity=0.544  Sum_probs=68.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecC-ceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG-RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~-~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +..++|||||  .++.+.+|+++|-+||.|..|.+....+ ..|                   |||+|+++.+|+.||..
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppf-------------------afVeFEd~RDAeDAiyg   64 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPF-------------------AFVEFEDPRDAEDAIYG   64 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCe-------------------eEEEecCccchhhhhhc
Confidence            3458999999  9999999999999999999998765433 444                   99999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      -||+.++|+.|+|++++.-
T Consensus        65 RdGYdydg~rLRVEfprgg   83 (241)
T KOG0105|consen   65 RDGYDYDGCRLRVEFPRGG   83 (241)
T ss_pred             ccccccCcceEEEEeccCC
Confidence            9999999999999999863

>KOG0110|consensus

Probab=99.09  E-value=1.4e-10  Score=117.15  Aligned_cols=97  Identities=30%  Similarity=0.486  Sum_probs=87.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec---------CceeEEecChhhhhhhh------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK---------GRGFVTFDSPESSDKAI------------------  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk---------~~gfV~f~~~~~adkai------------------  196 (298)
                      ++|||.|  +++|.++|..+|..+|.|.+|.|...+         |+|||+|.+.++|..|+                  
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S  595 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS  595 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence            4599999  999999999999999999999887542         99999999999999998                  


Q ss_pred             --------------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        197 --------------------------------------------------------TDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       197 --------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                                                                              +.++|||||+|-++.+|..|+.+|
T Consensus       596 ~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al  675 (725)
T KOG0110|consen  596 ENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDAL  675 (725)
T ss_pred             cCccccccccccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhh
Confidence                                                                    117999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .++.+.||.|.+.||..-..++
T Consensus       676 ~STHlyGRrLVLEwA~~d~~~e  697 (725)
T KOG0110|consen  676 GSTHLYGRRLVLEWAKSDNTME  697 (725)
T ss_pred             cccceechhhheehhccchHHH
Confidence            9999999999999998755433

>KOG0114|consensus

Probab=99.06  E-value=7.2e-10  Score=88.40  Aligned_cols=80  Identities=19%  Similarity=0.311  Sum_probs=69.2

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+.-+.-|||.|  +++|.+++.++|++||.|..|+|--.++                  .+|-|||.|++..+|.+|+.
T Consensus        14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~------------------TrGTAFVVYedi~dAk~A~d   75 (124)
T KOG0114|consen   14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE------------------TRGTAFVVYEDIFDAKKACD   75 (124)
T ss_pred             ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC------------------cCceEEEEehHhhhHHHHHH
Confidence            344557899999  9999999999999999999998865433                  35668999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      .|+|..+.++.|.|-+-.+.
T Consensus        76 hlsg~n~~~ryl~vlyyq~~   95 (124)
T KOG0114|consen   76 HLSGYNVDNRYLVVLYYQPE   95 (124)
T ss_pred             HhcccccCCceEEEEecCHH
Confidence            99999999999999997653

>KOG0415|consensus

Probab=99.06  E-value=2.4e-10  Score=107.75  Aligned_cols=82  Identities=23%  Similarity=0.361  Sum_probs=75.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      -.++.+-|||.-  +.++.++|.-+|+.||.|.+|.|++|+.+|-               +..||||+|++.+++++|..
T Consensus       235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgd---------------sLqyaFiEFen~escE~AyF  299 (479)
T KOG0415|consen  235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGD---------------SLQYAFIEFENKESCEQAYF  299 (479)
T ss_pred             cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccc---------------hhheeeeeecchhhHHHHHh
Confidence            345567899996  9999999999999999999999999999986               88899999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccc
Q psy15187        219 EVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~  237 (298)
                      .|++..|+.+.|+|.|...
T Consensus       300 KMdNvLIDDrRIHVDFSQS  318 (479)
T KOG0415|consen  300 KMDNVLIDDRRIHVDFSQS  318 (479)
T ss_pred             hhcceeeccceEEeehhhh
Confidence            9999999999999999764

>KOG0147|consensus

Probab=98.98  E-value=6.2e-10  Score=109.88  Aligned_cols=76  Identities=33%  Similarity=0.537  Sum_probs=71.5

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      .|||||  +++++++|+.+|+.||.|..|.+++|-.+|-               ++|||||+|.+.++|.+|+..|||.+
T Consensus       280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~---------------skgfGfi~f~~~~~ar~a~e~lngfe  344 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGR---------------SKGFGFITFVNKEDARKALEQLNGFE  344 (549)
T ss_pred             hhhhcccccCchHHHHhhhccCcccceeeeecccccccc---------------ccCcceEEEecHHHHHHHHHHhccce
Confidence            399999  9999999999999999999999999987886               99999999999999999999999999


Q ss_pred             ECCeEEEEEEccc
Q psy15187        225 VQGVKLKVSLARR  237 (298)
Q Consensus       225 i~Gr~L~V~~A~~  237 (298)
                      |-|+.|+|....-
T Consensus       345 lAGr~ikV~~v~~  357 (549)
T KOG0147|consen  345 LAGRLIKVSVVTE  357 (549)
T ss_pred             ecCceEEEEEeee
Confidence            9999999988654

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

Probab=98.90  E-value=5.9e-09  Score=103.94  Aligned_cols=79  Identities=13%  Similarity=0.209  Sum_probs=64.5

Q ss_pred             CCcEEEEcC-CCC-----------CHHHHHHHHhccCCeeEEEEeeec---CceeEEecChhhhhhhhhcCCceEEEEeC
Q psy15187        144 GGNTIFVQG-AGI-----------SEEFLRQHFSIFGKICSVSMEVEK---GRGFVTFDSPESSDKAITDDCARGFVTFD  208 (298)
Q Consensus       144 ~~~tLfVgn-~~~-----------te~~L~~~F~~fG~I~~v~i~~dk---~~gfV~f~~~~~adkai~~skGfaFV~F~  208 (298)
                      +...|+|.| ...           ..++|+++|++||.|+.|.|+.+.   ..+.               .+|||||+|.
T Consensus       408 ~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~---------------~~G~~fV~F~  472 (509)
T TIGR01642       408 PTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTP---------------GVGKVFLEYA  472 (509)
T ss_pred             CceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCC---------------CcceEEEEEC
Confidence            456788988 321           125799999999999999998652   2232               5678999999


Q ss_pred             CHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        209 SPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       209 ~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      +.++|.+||..|||..|+|+.|.|.|...
T Consensus       473 ~~e~A~~A~~~lnGr~~~gr~v~~~~~~~  501 (509)
T TIGR01642       473 DVRSAEKAMEGMNGRKFNDRVVVAAFYGE  501 (509)
T ss_pred             CHHHHHHHHHHcCCCEECCeEEEEEEeCH
Confidence            99999999999999999999999999764

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

>KOG0153|consensus

Probab=98.85  E-value=1.1e-08  Score=96.50  Aligned_cols=71  Identities=32%  Similarity=0.587  Sum_probs=61.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH-HhCC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT-EVNG  222 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~-~lnG  222 (298)
                      ++|||||  ..++|.+|+++|.+||+|.+|.++..++|+||+|.+.+                     .|+.|.. .+|-
T Consensus       229 ~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~---------------------aAE~Aae~~~n~  287 (377)
T KOG0153|consen  229 KTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTRE---------------------AAEKAAEKSFNK  287 (377)
T ss_pred             eEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhH---------------------HHHHHHHhhcce
Confidence            6999999  89999999999999999999999988777776666655                     7776644 4577


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      ..|+|.+|+|.|+++
T Consensus       288 lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  288 LVINGFRLKIKWGRP  302 (377)
T ss_pred             eeecceEEEEEeCCC
Confidence            889999999999998

>KOG4208|consensus

Probab=98.82  E-value=8.7e-09  Score=91.11  Aligned_cols=78  Identities=21%  Similarity=0.294  Sum_probs=70.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhcc-CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIF-GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~f-G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .-+||+.  ..+.+..+..+|.+| |.|..+++-+++.+|-               |+|||||+|++.+.|.-|...||+
T Consensus        50 g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGN---------------SKgYAFVEFEs~eVA~IaAETMNN  114 (214)
T KOG4208|consen   50 GVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGN---------------SKGYAFVEFESEEVAKIAAETMNN  114 (214)
T ss_pred             cceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCC---------------cCceEEEEeccHHHHHHHHHHhhh
Confidence            3578887  888999999999999 7777777779999996               999999999999999999999999


Q ss_pred             cEECCeEEEEEEcccc
Q psy15187        223 THVQGVKLKVSLARRQ  238 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k  238 (298)
                      +.|+|+.|.|.+-.+.
T Consensus       115 YLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen  115 YLLMEHLLECHVMPPE  130 (214)
T ss_pred             hhhhhheeeeEEeCch
Confidence            9999999999987664

>KOG4206|consensus

Probab=98.81  E-value=1.2e-08  Score=91.25  Aligned_cols=77  Identities=23%  Similarity=0.433  Sum_probs=66.6

Q ss_pred             EEEEcC--CCCCHHHHHH----HHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        147 TIFVQG--AGISEEFLRQ----HFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~----~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ||||.|  ..+..++|+.    +|++||.|+.|.+...   .               +.+|.|||.|.+.+.|..|+..|
T Consensus        11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt---~---------------KmRGQA~VvFk~~~~As~A~r~l   72 (221)
T KOG4206|consen   11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT---P---------------KMRGQAFVVFKETEAASAALRAL   72 (221)
T ss_pred             eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC---C---------------CccCceEEEecChhHHHHHHHHh
Confidence            999999  8899999887    9999999999865432   1               26777999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      +|..+.|..++|.||+.....
T Consensus        73 ~gfpFygK~mriqyA~s~sdi   93 (221)
T KOG4206|consen   73 QGFPFYGKPMRIQYAKSDSDI   93 (221)
T ss_pred             cCCcccCchhheecccCccch
Confidence            999999999999999875543

>KOG4661|consensus

Probab=98.80  E-value=1.2e-08  Score=101.30  Aligned_cols=83  Identities=23%  Similarity=0.432  Sum_probs=72.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....+.+|||.|  ..+...+|+.+|++||.|+-..|+.+ +..|                .++||||++.+.++|.+||
T Consensus       401 rs~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPG----------------aRCYGfVTMSts~eAtkCI  464 (940)
T KOG4661|consen  401 RSTLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPG----------------ARCYGFVTMSTSAEATKCI  464 (940)
T ss_pred             ccccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCC----------------cceeEEEEecchHHHHHHH
Confidence            345667999999  66667899999999999999999988 5556                4788999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      ..|+-+.|+|+.|.|..++..+
T Consensus       465 ~hLHrTELHGrmISVEkaKNEp  486 (940)
T KOG4661|consen  465 EHLHRTELHGRMISVEKAKNEP  486 (940)
T ss_pred             HHhhhhhhcceeeeeeecccCc
Confidence            9999999999999999987643

>KOG0124|consensus

Probab=98.79  E-value=9.5e-09  Score=97.50  Aligned_cols=80  Identities=23%  Similarity=0.340  Sum_probs=71.9

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||..  ++.+|+||+.+|+.||+|+.|.+-++...+-               ++||||++|.+......||..||-+
T Consensus       211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~---------------HkGyGfiEy~n~qs~~eAiasMNlF  275 (544)
T KOG0124|consen  211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRG---------------HKGYGFIEYNNLQSQSEAIASMNLF  275 (544)
T ss_pred             heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCC---------------ccceeeEEeccccchHHHhhhcchh
Confidence            7899998  9999999999999999999999988743332               7999999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .++|.-|+|..+...+.
T Consensus       276 DLGGQyLRVGk~vTPP~  292 (544)
T KOG0124|consen  276 DLGGQYLRVGKCVTPPD  292 (544)
T ss_pred             hcccceEecccccCCCc
Confidence            99999999998876443

>KOG0144|consensus

Probab=98.77  E-value=9.6e-09  Score=99.14  Aligned_cols=85  Identities=25%  Similarity=0.443  Sum_probs=78.5

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .-+.|.+|||++  .+.-+.+|-..|..||.|++.++..|+.++|               +++||||.|++..+|..||.
T Consensus       420 eGpeGanlfiyhlPqefgdq~l~~~f~pfG~Vlsakvfidk~tnl---------------skcfgfvSyen~~sa~~aI~  484 (510)
T KOG0144|consen  420 EGPEGANLFIYHLPQEFGDQDLIATFQPFGGVLSAKVFIDKVTNL---------------SKCFGFVSYENAQSAQNAIS  484 (510)
T ss_pred             cCCCccceeeeeCchhhhhHHHHHHhccccceeEEEEEEecccCH---------------hhhcCcccccchhhhHHHHH
Confidence            345667799999  8999999999999999999999999999999               99999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|++.+|+|.+.+.+..
T Consensus       485 amngfQig~KrlkVQlk~~~~n  506 (510)
T KOG0144|consen  485 AMNGFQIGSKRLKVQLKRDRNN  506 (510)
T ss_pred             HhcchhhccccceEEeeeccCC
Confidence            9999999999999999887544

>KOG1548|consensus

Probab=98.76  E-value=8.8e-08  Score=90.39  Aligned_cols=100  Identities=25%  Similarity=0.364  Sum_probs=89.0

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeE--------EEEeee-----cCceeEEecChhhhhhhh---------
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICS--------VSMEVE-----KGRGFVTFDSPESSDKAI---------  196 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~--------v~i~~d-----k~~gfV~f~~~~~adkai---------  196 (298)
                      .+..++.|||.|  .++|-+++.++|++||-|..        |.+-++     +|-|.++|...++|+-||         
T Consensus       130 ~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r  209 (382)
T KOG1548|consen  130 EPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR  209 (382)
T ss_pred             ccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc
Confidence            456678899999  99999999999999999875        666665     789999999999999999         


Q ss_pred             --------------------------------------------------------------------------------
Q psy15187        197 --------------------------------------------------------------------------------  196 (298)
Q Consensus       197 --------------------------------------------------------------------------------  196 (298)
                                                                                                      
T Consensus       210 g~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dl  289 (382)
T KOG1548|consen  210 GKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDL  289 (382)
T ss_pred             CcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHH
Confidence                                                                                            


Q ss_pred             ---------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        197 ---------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       197 ---------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                                           .++.|.+-|.|.+.++|..||+.|+|..|+||+|..++...+..
T Consensus       290 kedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~t~  354 (382)
T KOG1548|consen  290 KEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGKTK  354 (382)
T ss_pred             HHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCcce
Confidence                                 12899999999999999999999999999999999998776544

>KOG0146|consensus

Probab=98.67  E-value=3.7e-08  Score=90.33  Aligned_cols=83  Identities=24%  Similarity=0.345  Sum_probs=70.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +..+||||-  ..-+|+|++.+|..||.|.+|.+.+.-. |               .+||+|||.|.++.+|..||..|+
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g---------------~sKGCAFVKf~s~~eAqaAI~aLH   81 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD-G---------------NSKGCAFVKFSSHAEAQAAINALH   81 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC-C---------------CCCCceEEEeccchHHHHHHHHhc
Confidence            557899996  8889999999999999999998876422 2               278889999999999999999999


Q ss_pred             CcEEC---CeEEEEEEcccccccc
Q psy15187        222 GTHVQ---GVKLKVSLARRQLKVA  242 (298)
Q Consensus       222 G~~i~---Gr~L~V~~A~~k~~~~  242 (298)
                      |....   ...|.|.||....++.
T Consensus        82 gSqTmpGASSSLVVK~ADTdkER~  105 (371)
T KOG0146|consen   82 GSQTMPGASSSLVVKFADTDKERT  105 (371)
T ss_pred             ccccCCCCccceEEEeccchHHHH
Confidence            98766   5789999998755543

>KOG0110|consensus

Probab=98.60  E-value=1.8e-07  Score=95.02  Aligned_cols=96  Identities=30%  Similarity=0.457  Sum_probs=85.1

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhh---------------------
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT---------------------  197 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~---------------------  197 (298)
                      ..+..+.|+|+|  ..+..++|.++|..||.|..|.|+..-..+.|.|.+..+|.+|..                     
T Consensus       381 ~~rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~G~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dv  460 (725)
T KOG0110|consen  381 AERSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPGGTGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDV  460 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcccccceeecCcccceeeeeecCccchHHHHHHhchhhhccCccccccChhhh
Confidence            556668899999  899999999999999999999666444558999999999999980                     


Q ss_pred             --------------------------------------------------------------------------------
Q psy15187        198 --------------------------------------------------------------------------------  197 (298)
Q Consensus       198 --------------------------------------------------------------------------------  197 (298)
                                                                                                      
T Consensus       461 f~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G  540 (725)
T KOG0110|consen  461 FTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQG  540 (725)
T ss_pred             ccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHHHhcC
Confidence                                                                                            


Q ss_pred             -----------------cCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        198 -----------------DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       198 -----------------~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                                       .|.|||||+|.+.++|..|+..|+|+.|+|+.|.|.++.
T Consensus       541 ~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  541 TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence                             045999999999999999999999999999999999998

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.57  E-value=1e-07  Score=91.77  Aligned_cols=55  Identities=25%  Similarity=0.508  Sum_probs=50.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec------CceeEEecChhhhhhhhhc
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk------~~gfV~f~~~~~adkai~~  198 (298)
                      ..++|||+|  +.+|+++|+++|++||.|+.|.|+.++      ++|||+|.+.++|++||..
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~  254 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISA  254 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHH
Confidence            357899999  999999999999999999999999873      7999999999999999954

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).

>KOG0151|consensus

Probab=98.56  E-value=1.4e-07  Score=95.70  Aligned_cols=76  Identities=24%  Similarity=0.470  Sum_probs=65.1

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee---------cCceeEEecChhhhhhhhhcCCceEEEEeCC
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE---------KGRGFVTFDSPESSDKAITDDCARGFVTFDS  209 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d---------k~~gfV~f~~~~~adkai~~skGfaFV~F~~  209 (298)
                      +-+..++|||+|  +.++++.|-..|+.||+|..|+|+..         ++||                     ||.|.+
T Consensus       170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cg---------------------fvafmn  228 (877)
T KOG0151|consen  170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCG---------------------FVAFMN  228 (877)
T ss_pred             CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccc---------------------eeeehh
Confidence            345568999999  99999999999999999999999854         3455                     455555


Q ss_pred             HHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        210 PESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       210 ~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      ..+|+.|+..|+|..+.++.+++.|++.
T Consensus       229 R~D~era~k~lqg~iv~~~e~K~gWgk~  256 (877)
T KOG0151|consen  229 RADAERALKELQGIIVMEYEMKLGWGKA  256 (877)
T ss_pred             hhhHHHHHHHhcceeeeeeeeeeccccc
Confidence            5599999999999999999999999964

>KOG4205|consensus

Probab=98.55  E-value=1.4e-07  Score=89.32  Aligned_cols=96  Identities=31%  Similarity=0.463  Sum_probs=77.2

Q ss_pred             ccCCcccccccCCCCCCCCccccCCCCCCCCCCCCCCCCCcc--------ccCCcccccCCCCCcccccccccccccCCC
Q psy15187         68 KRPRGLERKLTETDRSTVSAYQPFSAIQPEDSEPVDSKPKFL--------KVSKRETNDDRTPVDKKVYGESLLTRLAPN  139 (298)
Q Consensus        68 kr~r~~erk~~~~~~~~~s~~~p~s~~~~~~~~~~~~~~~~~--------~vsr~ere~~r~~~~~~~~~~~~~~~~~~~  139 (298)
                      +|+|++             +|..|......+.....+.|.++        .++|.+..+. ..+.               
T Consensus        45 ~rsrgF-------------gfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~-~~~~---------------   95 (311)
T KOG4205|consen   45 GRSRGF-------------GFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKV-GRHL---------------   95 (311)
T ss_pred             CCcccc-------------cceecCCCcchheeecccccccCCccccceeccCccccccc-cccc---------------
Confidence            788888             89999887777777777777665        4444444433 1111               


Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI  196 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai  196 (298)
                          ...+||||+  .++++++|+++|.+||.|..+.++.|      +++|||+|++.++|++++
T Consensus        96 ----~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~  156 (311)
T KOG4205|consen   96 ----RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT  156 (311)
T ss_pred             ----ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec
Confidence                235899999  99999999999999999999999877      689999999999999999

>KOG0106|consensus

Probab=98.53  E-value=1e-07  Score=85.65  Aligned_cols=89  Identities=25%  Similarity=0.515  Sum_probs=79.6

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhh---------------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI---------------------------  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai---------------------------  196 (298)
                      ..||||+  +.+.+.+|..+|..||.|.+|.|.  .++|||.|.+.-+|+.||                           
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~g~   79 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGRGR   79 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee--cccceeccCchhhhhcccchhcCceecceeeeeecccccccccCC
Confidence            4699999  999999999999999999998665  578899999999999999                           


Q ss_pred             ---h-----------------------------------------c------CCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        197 ---T-----------------------------------------D------DCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       197 ---~-----------------------------------------~------skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                         +                                         .      ..+++||+|...++|..|+..|+|..+.
T Consensus        80 ~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~da~ra~~~l~~~~~~  159 (216)
T KOG0106|consen   80 PRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARRNFAFVEFSEQEDAKRALEKLDGKKLN  159 (216)
T ss_pred             CCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhhccccceeehhhhhhhhcchhccchhhc
Confidence               0                                         0      3689999999999999999999999999


Q ss_pred             CeEEEEEEcc
Q psy15187        227 GVKLKVSLAR  236 (298)
Q Consensus       227 Gr~L~V~~A~  236 (298)
                      |+.|.+....
T Consensus       160 ~~~l~~~~~~  169 (216)
T KOG0106|consen  160 GRRISVEKNS  169 (216)
T ss_pred             CceeeecccC
Confidence            9999994443

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

Probab=98.49  E-value=2.3e-07  Score=94.96  Aligned_cols=55  Identities=29%  Similarity=0.535  Sum_probs=50.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      ..++|||+|  +++++++|+++|+.||.|.+|.|+.+      +|||||+|.+.++|.+||..
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~a  265 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIAS  265 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHH
Confidence            347899999  99999999999999999999999976      68999999999999999944

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.

>KOG4209|consensus

Probab=98.44  E-value=3.7e-07  Score=83.25  Aligned_cols=82  Identities=23%  Similarity=0.370  Sum_probs=74.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .+...+||||  +.+|.+++..+|+.||.|..+.|..|+..|-               ++||+||+|.+.+.+..|+. |
T Consensus        99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~---------------~k~~~yvef~~~~~~~~ay~-l  162 (231)
T KOG4209|consen   99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGH---------------PKGFAYVEFSSYELVEEAYK-L  162 (231)
T ss_pred             cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCC---------------cceeEEEecccHhhhHHHhh-c
Confidence            4446899999  8888888999999999999999999988885               89999999999999999999 9


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|.|+.|.|.+.+....
T Consensus       163 ~gs~i~~~~i~vt~~r~~~p  182 (231)
T KOG4209|consen  163 DGSEIPGPAIEVTLKRTNVP  182 (231)
T ss_pred             CCcccccccceeeeeeeecC
Confidence            99999999999999887533

>KOG4212|consensus

Probab=98.39  E-value=1.5e-06  Score=84.39  Aligned_cols=76  Identities=21%  Similarity=0.331  Sum_probs=66.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHh-ccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFS-IFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~-~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      ..+||.|  +++.+.+|+++|. +-|+|..|.+..|.. |               +++|+|.|+|.++|.+++|++.||-
T Consensus        45 R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~-G---------------K~rGcavVEFk~~E~~qKa~E~lnk  108 (608)
T KOG4212|consen   45 RSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES-G---------------KARGCAVVEFKDPENVQKALEKLNK  108 (608)
T ss_pred             ceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC-C---------------CcCCceEEEeeCHHHHHHHHHHhhh
Confidence            3599999  9999999999996 579999999988743 2               3678899999999999999999999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      +.+.||+|.|.-...
T Consensus       109 ~~~~GR~l~vKEd~d  123 (608)
T KOG4212|consen  109 YEVNGRELVVKEDHD  123 (608)
T ss_pred             ccccCceEEEeccCc
Confidence            999999999976543

>KOG0226|consensus

Probab=98.38  E-value=3.4e-07  Score=83.42  Aligned_cols=80  Identities=24%  Similarity=0.361  Sum_probs=72.5

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      +.+....+||+|.  .+++.+.|...|.+|-.-...++++|+.+|-               ++|||||.|.+..++..|+
T Consensus       185 ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgK---------------SkgygfVSf~~pad~~rAm  249 (290)
T KOG0226|consen  185 EWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGK---------------SKGYGFVSFRDPADYVRAM  249 (290)
T ss_pred             cCccccceeecccccccccHHHHHHHHHhccchhhccccccccccc---------------cccceeeeecCHHHHHHHH
Confidence            3445667999998  7899999999999999999999999999996               9999999999999999999


Q ss_pred             HHhCCcEECCeEEEEEE
Q psy15187        218 TEVNGTHVQGVKLKVSL  234 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~  234 (298)
                      .+|||..++.++|++.-
T Consensus       250 rem~gkyVgsrpiklRk  266 (290)
T KOG0226|consen  250 REMNGKYVGSRPIKLRK  266 (290)
T ss_pred             HhhcccccccchhHhhh
Confidence            99999999999998743

>KOG1457|consensus

Probab=98.34  E-value=5.3e-06  Score=74.61  Aligned_cols=84  Identities=24%  Similarity=0.320  Sum_probs=68.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      +||||.|  .|+.-.+|..+|..|---+.+.|... ++.-.               .+=+|||+|.+..+|..|+.+|||
T Consensus        35 RTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~---------------~~pvaFatF~s~q~A~aamnaLNG   99 (284)
T KOG1457|consen   35 RTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQV---------------CKPVAFATFTSHQFALAAMNALNG   99 (284)
T ss_pred             ceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCcc---------------ccceEEEEecchHHHHHHHHHhcC
Confidence            6999999  99999999999999977676655433 32211               234699999999999999999999


Q ss_pred             cEEC---CeEEEEEEcccccccccc
Q psy15187        223 THVQ---GVKLKVSLARRQLKVAPI  244 (298)
Q Consensus       223 ~~i~---Gr~L~V~~A~~k~~~~~~  244 (298)
                      ..|+   +..|+|++|+...++...
T Consensus       100 vrFDpE~~stLhiElAKSNtK~kr~  124 (284)
T KOG1457|consen  100 VRFDPETGSTLHIELAKSNTKRKRR  124 (284)
T ss_pred             eeeccccCceeEeeehhcCcccccC
Confidence            9999   899999999987665543

>KOG1456|consensus

Probab=98.34  E-value=4.2e-06  Score=80.01  Aligned_cols=115  Identities=28%  Similarity=0.456  Sum_probs=94.8

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhh--------------------
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai--------------------  196 (298)
                      ...+..+--|.|.|  ..++|.+|-+.++.||+|..+.++..+..+.|+|.+.+.|..++                    
T Consensus        25 phk~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NyS  104 (494)
T KOG1456|consen   25 PHKPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYS  104 (494)
T ss_pred             CCCCCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccceeeeeeccccchhhheehhccCcccccCchhhcccc
Confidence            34455566899999  99999999999999999999999999999999999999999998                    


Q ss_pred             ---------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        197 ---------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       197 ---------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                                                                         .++--.|.|+|++.+.|++|-..|||..|
T Consensus       105 tsq~i~R~g~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADI  184 (494)
T KOG1456|consen  105 TSQCIERPGDESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADI  184 (494)
T ss_pred             hhhhhccCCCCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccc
Confidence                                                               11333799999999999999999999999


Q ss_pred             C-C-eEEEEEEcccccccccccccCCCCccchh
Q psy15187        226 Q-G-VKLKVSLARRQLKVAPINDAASSTTWSAI  256 (298)
Q Consensus       226 ~-G-r~L~V~~A~~k~~~~~~~~~~~~~~~~~~  256 (298)
                      . | ++|+|+||++.......++   ..+|.-.
T Consensus       185 YsGCCTLKIeyAkP~rlnV~knd---~DtwDyT  214 (494)
T KOG1456|consen  185 YSGCCTLKIEYAKPTRLNVQKND---KDTWDYT  214 (494)
T ss_pred             cccceeEEEEecCcceeeeeecC---Ccccccc
Confidence            8 4 6999999998655443333   3445543

>KOG4212|consensus

Probab=98.33  E-value=9.6e-07  Score=85.70  Aligned_cols=75  Identities=24%  Similarity=0.452  Sum_probs=63.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ..+..|+|||.|  ++.|+..|++-|..||.|..+.|+.. +..                 +  +.|.|.++++|+.|+.
T Consensus       532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~-Gks-----------------k--GVVrF~s~edAEra~a  591 (608)
T KOG4212|consen  532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMEN-GKS-----------------K--GVVRFFSPEDAERACA  591 (608)
T ss_pred             ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhcc-CCc-----------------c--ceEEecCHHHHHHHHH
Confidence            346679999999  99999999999999999999988533 222                 2  4677777779999999


Q ss_pred             HhCCcEECCeEEEEEEc
Q psy15187        219 EVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A  235 (298)
                      .|||..++|+.|.|.|+
T Consensus       592 ~Mngs~l~Gr~I~V~y~  608 (608)
T KOG4212|consen  592 LMNGSRLDGRNIKVTYF  608 (608)
T ss_pred             HhccCcccCceeeeeeC
Confidence            99999999999999874

>KOG4660|consensus

Probab=98.15  E-value=3e-06  Score=84.31  Aligned_cols=73  Identities=22%  Similarity=0.373  Sum_probs=61.0

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .+......+|+|-|  ..+++++|+.+|+.||+|..|.+...                    .+|..||+|-|..+|+.|
T Consensus        69 ~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~--------------------~~~~~~v~FyDvR~A~~A  128 (549)
T KOG4660|consen   69 SEKDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN--------------------KRGIVFVEFYDVRDAERA  128 (549)
T ss_pred             CcccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc--------------------cCceEEEEEeehHhHHHH
Confidence            33334446899999  99999999999999999999765543                    344578888888899999


Q ss_pred             HHHhCCcEECCeEEE
Q psy15187        217 ITEVNGTHVQGVKLK  231 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~  231 (298)
                      +++||+..|.|..|+
T Consensus       129 lk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen  129 LKALNRREIAGKRIK  143 (549)
T ss_pred             HHHHHHHHhhhhhhc
Confidence            999999999999988

>KOG0533|consensus

Probab=98.14  E-value=9.7e-06  Score=74.34  Aligned_cols=82  Identities=18%  Similarity=0.412  Sum_probs=68.6

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..++|+|.|  +.++++||+++|..||.+..+.|-.++. |               .+.|.|-|.|...++|..||+.+|
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~-G---------------~s~Gta~v~~~r~~DA~~avk~~~  145 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA-G---------------RSLGTADVSFNRRDDAERAVKKYN  145 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC-C---------------CCCccceeeecchHhHHHHHHHhc
Confidence            337899999  9999999999999999888876665532 2               256678999999999999999999


Q ss_pred             CcEECCeEEEEEEccccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |..++|+.|++.+..+....
T Consensus       146 gv~ldG~~mk~~~i~~~~~~  165 (243)
T KOG0533|consen  146 GVALDGRPMKIEIISSPSQS  165 (243)
T ss_pred             CcccCCceeeeEEecCcccc
Confidence            99999999999987764443

>KOG1190|consensus

Probab=98.05  E-value=3.4e-05  Score=74.60  Aligned_cols=76  Identities=17%  Similarity=0.389  Sum_probs=68.1

Q ss_pred             CcEEEEcC---CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        145 GNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       145 ~~tLfVgn---~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ++.|.|.|   +.+|.+-|..+|+-||.|..|.|+.+++.-                    |.|.|.+...|.-|+..|+
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~--------------------ALIQmsd~~qAqLA~~hL~  356 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDN--------------------ALIQMSDGQQAQLAMEHLE  356 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcc--------------------eeeeecchhHHHHHHHHhh
Confidence            67888988   899999999999999999999999876632                    8888888889999999999


Q ss_pred             CcEECCeEEEEEEcccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~  240 (298)
                      |+.|.|+.|+|.+.+.+.-
T Consensus       357 g~~l~gk~lrvt~SKH~~v  375 (492)
T KOG1190|consen  357 GHKLYGKKLRVTLSKHTNV  375 (492)
T ss_pred             cceecCceEEEeeccCccc
Confidence            9999999999999986543

>KOG0116|consensus

Probab=98.01  E-value=2.1e-05  Score=77.33  Aligned_cols=80  Identities=28%  Similarity=0.407  Sum_probs=64.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....+|||+|  .+++..+|+++|..||+|....|..-. +..                ..+||||+|.+.+++..||.+
T Consensus       286 ~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~----------------~~~fgFV~f~~~~~~~~~i~A  349 (419)
T KOG0116|consen  286 ADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGK----------------NPCFGFVEFENAAAVQNAIEA  349 (419)
T ss_pred             ecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCC----------------cCceEEEEEeecchhhhhhhc
Confidence            3345699999  999999999999999999998877532 111                125699999999999999886


Q ss_pred             hCCcEECCeEEEEEEccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      - -..|+|++|.|...++..
T Consensus       350 s-p~~ig~~kl~Veek~~~~  368 (419)
T KOG0116|consen  350 S-PLEIGGRKLNVEEKRPGF  368 (419)
T ss_pred             C-ccccCCeeEEEEeccccc
Confidence            4 778899999998877643

>KOG4454|consensus

Probab=97.96  E-value=3.2e-06  Score=75.81  Aligned_cols=76  Identities=24%  Similarity=0.303  Sum_probs=65.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      ..||||+|  ..++|+.|.++|-+-|+|+.|.|..++..-                .+ ||||.|.+.-...-|+.-|||
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~----------------~k-Fa~v~f~~E~sv~~a~~L~ng   71 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQE----------------QK-FAYVFFPNENSVQLAGQLENG   71 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCC----------------Cc-eeeeecccccchhhhhhhccc
Confidence            46899999  899999999999999999999887654221                23 599999999999999999999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      ..+.+..|.|.+-..
T Consensus        72 ~~l~~~e~q~~~r~G   86 (267)
T KOG4454|consen   72 DDLEEDEEQRTLRCG   86 (267)
T ss_pred             chhccchhhcccccC
Confidence            999999999987654

>KOG2314|consensus

Probab=97.85  E-value=5e-05  Score=75.94  Aligned_cols=81  Identities=22%  Similarity=0.316  Sum_probs=66.8

Q ss_pred             CCCCCCcEEEEcC-CCCCHHH-------HHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHH
Q psy15187        140 EKPKGGNTIFVQG-AGISEEF-------LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE  211 (298)
Q Consensus       140 ~~~~~~~tLfVgn-~~~te~~-------L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e  211 (298)
                      ....-.+.|+|.| +.+...-       |..+|+++|+|+...++.+-..|                .+||.|++|.+..
T Consensus        53 ~~eg~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg----------------tkG~lf~E~~~~~  116 (698)
T KOG2314|consen   53 TAEGFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG----------------TKGYLFVEYASMR  116 (698)
T ss_pred             ccCCcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC----------------eeeEEEEEecChh
Confidence            3334456899999 6666654       56789999999999988776555                4899999999999


Q ss_pred             HHHHHHHHhCCcEEC-CeEEEEEEcc
Q psy15187        212 SSDKAITEVNGTHVQ-GVKLKVSLAR  236 (298)
Q Consensus       212 ~A~~Ai~~lnG~~i~-Gr~L~V~~A~  236 (298)
                      +|..|++.|||+.|+ .+++.|..-.
T Consensus       117 ~A~~aVK~l~G~~ldknHtf~v~~f~  142 (698)
T KOG2314|consen  117 DAKKAVKSLNGKRLDKNHTFFVRLFK  142 (698)
T ss_pred             hHHHHHHhcccceecccceEEeehhh
Confidence            999999999999999 8888887644

>KOG0120|consensus

Probab=97.73  E-value=3.6e-05  Score=76.94  Aligned_cols=85  Identities=25%  Similarity=0.382  Sum_probs=77.4

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+-..+++||+|  ..+++..+.++...||++....++.+...|+               ++||||.+|-+......|+.
T Consensus       285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~---------------skg~af~ey~dpsvtd~A~a  349 (500)
T KOG0120|consen  285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGN---------------SKGFAFCEYCDPSVTDQAIA  349 (500)
T ss_pred             cccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccccccc---------------ccceeeeeeeCCcchhhhhc
Confidence            344557999999  8999999999999999999999999988888               99999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..+++..|.|..|.....
T Consensus       350 gLnGm~lgd~~lvvq~A~~g~~  371 (500)
T KOG0120|consen  350 GLNGMQLGDKKLVVQRAIVGAS  371 (500)
T ss_pred             ccchhhhcCceeEeehhhccch
Confidence            9999999999999999886443

>KOG4211|consensus

Probab=97.69  E-value=0.00021  Score=70.51  Aligned_cols=89  Identities=24%  Similarity=0.361  Sum_probs=72.4

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee----cCceeEEecChhhhhhhh------------------------
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE----KGRGFVTFDSPESSDKAI------------------------  196 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d----k~~gfV~f~~~~~adkai------------------------  196 (298)
                      -|-+.|  |.+|++||.+||+.| .|.++.+.+.    .+-+||+|.+.+++++|+                        
T Consensus        12 ~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d~   90 (510)
T KOG4211|consen   12 EVRLRGLPWSATEKEILDFFSNC-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEADW   90 (510)
T ss_pred             EEEecCCCccccHHHHHHHHhcC-ceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCccccc
Confidence            344556  999999999999999 4666666654    578999999999999999                        


Q ss_pred             ---------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        197 ---------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       197 ---------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                                                                         +++.|-|||.|++.+.|++|+.. |-..|
T Consensus        91 ~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~i  169 (510)
T KOG4211|consen   91 VMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENI  169 (510)
T ss_pred             cccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhh
Confidence                                                               23889999999999999999874 55677


Q ss_pred             CCeEEEEEEccc
Q psy15187        226 QGVKLKVSLARR  237 (298)
Q Consensus       226 ~Gr~L~V~~A~~  237 (298)
                      +.|-|.|-.+..
T Consensus       170 GhRYIEvF~Ss~  181 (510)
T KOG4211|consen  170 GHRYIEVFRSSR  181 (510)
T ss_pred             ccceEEeehhHH
Confidence            778787766543

>KOG1995|consensus

Probab=97.67  E-value=3.7e-05  Score=73.22  Aligned_cols=94  Identities=28%  Similarity=0.328  Sum_probs=72.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      .....+|||-+  ..+++++|.++|.+||.|..     ++.++  .-...-+-++..+.+||-|.|.|.+...|..||..
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikr-----nK~t~--kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKR-----NKRTG--KPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceecc-----CCCCC--CcchhccccccccCcCCceeeeecChhhhhhhhhh
Confidence            34456899999  89999999999999998864     22221  11111122233345999999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      +++..+.|.+|+|.+|..+...+
T Consensus       136 ~agkdf~gn~ikvs~a~~r~~ve  158 (351)
T KOG1995|consen  136 FAGKDFCGNTIKVSLAERRTGVE  158 (351)
T ss_pred             hccccccCCCchhhhhhhccCcc
Confidence            99999999999999998877544

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

Probab=97.64  E-value=0.00038  Score=55.32  Aligned_cols=79  Identities=22%  Similarity=0.270  Sum_probs=64.1

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhcc--CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIF--GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~f--G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      |||-|.|  ...|.++|.+++...  |..--+.++.|-..+.               +.|||||-|.+++.|..-...++
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~---------------N~GYAFVNf~~~~~~~~F~~~f~   66 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKC---------------NLGYAFVNFTSPQAAIRFYKAFN   66 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCC---------------ceEEEEEEcCCHHHHHHHHHHHc
Confidence            6899999  889999999888763  5655666777744443               78999999999999999999999


Q ss_pred             CcEEC----CeEEEEEEccccc
Q psy15187        222 GTHVQ----GVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~----Gr~L~V~~A~~k~  239 (298)
                      |..+.    ...+.|.||+-|-
T Consensus        67 g~~w~~~~s~Kvc~i~yAriQG   88 (97)
T PF04059_consen   67 GKKWPNFNSKKVCEISYARIQG   88 (97)
T ss_pred             CCccccCCCCcEEEEehhHhhC
Confidence            99987    5677888888653

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

>KOG0147|consensus

Probab=97.58  E-value=8.6e-05  Score=74.02  Aligned_cols=82  Identities=23%  Similarity=0.321  Sum_probs=71.4

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ...+.-.+||+-.  ..++..+|.+||+.+|.|..|.|+.|+..+-               ++|.|||+|.+.+....||
T Consensus       174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~r---------------skgi~Yvef~D~~sVp~ai  238 (549)
T KOG0147|consen  174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRR---------------SKGIAYVEFCDEQSVPLAI  238 (549)
T ss_pred             chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchh---------------hcceeEEEEecccchhhHh
Confidence            3345556888887  8889999999999999999999999988775               8899999999999998888


Q ss_pred             HHhCCcEECCeEEEEEEccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~  237 (298)
                       .|.|..+.|.+|.|.....
T Consensus       239 -aLsGqrllg~pv~vq~sEa  257 (549)
T KOG0147|consen  239 -ALSGQRLLGVPVIVQLSEA  257 (549)
T ss_pred             -hhcCCcccCceeEecccHH
Confidence             6999999999999977553

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.58  E-value=0.00015  Score=68.75  Aligned_cols=81  Identities=22%  Similarity=0.419  Sum_probs=58.9

Q ss_pred             CCCcEEEEcC--CCCCHHH----H--HHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCc-e-EEEEeCCHHH
Q psy15187        143 KGGNTIFVQG--AGISEEF----L--RQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA-R-GFVTFDSPES  212 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~----L--~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skG-f-aFV~F~~~e~  212 (298)
                      -+-+-+||-|  +.+-.++    |  .++|++||.|..|.|-+.....-              .--| + .+|+|.+.++
T Consensus       112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~n--------------st~~h~gvYITy~~ked  177 (480)
T COG5175         112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLN--------------STASHAGVYITYSTKED  177 (480)
T ss_pred             eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccc--------------cccccceEEEEecchHH
Confidence            3446789988  4444444    3  58999999999987654321000              0011 2 3899999999


Q ss_pred             HHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        213 SDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      |..||.+.+|..++|+.|+..|...
T Consensus       178 AarcIa~vDgs~~DGr~lkatYGTT  202 (480)
T COG5175         178 AARCIAEVDGSLLDGRVLKATYGTT  202 (480)
T ss_pred             HHHHHHHhccccccCceEeeecCch
Confidence            9999999999999999999999754

>KOG0109|consensus

Probab=97.44  E-value=9.8e-05  Score=68.80  Aligned_cols=53  Identities=26%  Similarity=0.449  Sum_probs=48.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhh
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI  196 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai  196 (298)
                      ....++|+|||  ..++..+|+..|++||+|++|.|+  ++++||.|+-.++|..||
T Consensus        75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv--kdy~fvh~d~~eda~~ai  129 (346)
T KOG0109|consen   75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV--KDYAFVHFDRAEDAVEAI  129 (346)
T ss_pred             CCCccccccCCCCccccCHHHhhhhcccCCceeeeee--cceeEEEEeeccchHHHH
Confidence            44668999999  999999999999999999999987  579999999999888888

>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=97.42  E-value=0.00019  Score=57.73  Aligned_cols=69  Identities=25%  Similarity=0.522  Sum_probs=38.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC-
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN-  221 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln-  221 (298)
                      |+-|+|.|  ..++.++|+++|++||.|..|.+......                     |+|.|.+.+.|..|+..+. 
T Consensus         1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~---------------------g~VRf~~~~~A~~a~~~~~~   59 (105)
T PF08777_consen    1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTE---------------------GYVRFKTPEAAQKALEKLKE   59 (105)
T ss_dssp             --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SE---------------------EEEEESS---HHHHHHHHHH
T ss_pred             CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCE---------------------EEEEECCcchHHHHHHHHHh
Confidence            46788887  88999999999999999998877654444                     5555555657877777663 


Q ss_pred             ----CcEECCeEEEEEE
Q psy15187        222 ----GTHVQGVKLKVSL  234 (298)
Q Consensus       222 ----G~~i~Gr~L~V~~  234 (298)
                          +..|.+..+.+..
T Consensus        60 ~~~~~~~i~~~~~~~~v   76 (105)
T PF08777_consen   60 ANDGKLKIKGKEVTLEV   76 (105)
T ss_dssp             TTTS-B-TTSSSEEEE-
T ss_pred             ccCCceEEcCceEEEEE
Confidence                3345555555544

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

>KOG0120|consensus

Probab=97.40  E-value=0.00035  Score=69.96  Aligned_cols=66  Identities=21%  Similarity=0.276  Sum_probs=52.9

Q ss_pred             HHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        160 LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       160 L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      ++.-+++||.|..|.|.++-..++-++            ..|-.||+|.+.+++++|..+|+|..|.||++...|-..
T Consensus       426 vr~ec~k~g~v~~v~ipr~~~~~~~~~------------G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde  491 (500)
T KOG0120|consen  426 VRTECAKFGAVRSVEIPRPYPDENPVP------------GTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE  491 (500)
T ss_pred             HHHHhcccCceeEEecCCCCCCCCcCC------------CcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence            455577999999999987733332222            456699999999999999999999999999999988653

>KOG0131|consensus

Probab=97.40  E-value=0.00012  Score=64.00  Aligned_cols=44  Identities=27%  Similarity=0.408  Sum_probs=40.1

Q ss_pred             hhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       193 dkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      |+..+.+.|||||+|.+.++|+-||+-||...+.|++|+|..+.
T Consensus        44 Drv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen   44 DRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             hhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            34446799999999999999999999999999999999999987

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

Probab=97.40  E-value=0.001  Score=51.55  Aligned_cols=68  Identities=26%  Similarity=0.389  Sum_probs=45.8

Q ss_pred             cEEEEcC--CCCCHHH----HHHHHhccC-CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        146 NTIFVQG--AGISEEF----LRQHFSIFG-KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       146 ~tLfVgn--~~~te~~----L~~~F~~fG-~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      +.|||.|  .+.+-..    |++++.-|| .|..|.                         .|-|+|.|.+.+.|..|.+
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------------------------~~tAilrF~~~~~A~RA~K   57 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------------------------GGTAILRFPNQEFAERAQK   57 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------------------------TT-EEEEESSHHHHHHHHH
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------------------------CCEEEEEeCCHHHHHHHHH
Confidence            5799999  4455444    777888886 676651                         2337788888889999999


Q ss_pred             HhCCcEECCeEEEEEEcccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      .|+|..+.|+.|.|++....
T Consensus        58 RmegEdVfG~kI~v~~~~~~   77 (90)
T PF11608_consen   58 RMEGEDVFGNKISVSFSPKN   77 (90)
T ss_dssp             HHTT--SSSS--EEESS--S
T ss_pred             hhcccccccceEEEEEcCCc
Confidence            99999999999999998653

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

>KOG4210|consensus

Probab=97.37  E-value=0.00011  Score=69.21  Aligned_cols=81  Identities=23%  Similarity=0.375  Sum_probs=72.3

Q ss_pred             CCcEEE-EcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        144 GGNTIF-VQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       144 ~~~tLf-Vgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..-++| |+|  ..+++++|+.+|..+|.|..+.++.+...|-               ++|||+|.|.....+..++.. 
T Consensus       183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~---------------~kg~a~~~~~~~~~~~~~~~~-  246 (285)
T KOG4210|consen  183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGD---------------SKGFAYVDFSAGNSKKLALND-  246 (285)
T ss_pred             ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccc---------------hhhhhhhhhhhchhHHHHhhc-
Confidence            334566 888  9999999999999999999999998888876               899999999999999999887 


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ++..+.|+++.|.+..+.+.
T Consensus       247 ~~~~~~~~~~~~~~~~~~~~  266 (285)
T KOG4210|consen  247 QTRSIGGRPLRLEEDEPRPK  266 (285)
T ss_pred             ccCcccCcccccccCCCCcc
Confidence            89999999999999988765

>KOG1457|consensus

Probab=97.25  E-value=0.00028  Score=63.74  Aligned_cols=65  Identities=18%  Similarity=0.371  Sum_probs=52.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +...||||.|  ..++|++|+.+|+.|--...++|-...|..                   .|||+|++.+.|..|+..|
T Consensus       208 ~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~-------------------vaf~~~~~~~~at~am~~l  268 (284)
T KOG1457|consen  208 RACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMP-------------------VAFADFEEIEQATDAMNHL  268 (284)
T ss_pred             hhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcc-------------------eEeecHHHHHHHHHHHHHh
Confidence            3445899999  999999999999999766655554333333                   3999999999999999999


Q ss_pred             CCcEEC
Q psy15187        221 NGTHVQ  226 (298)
Q Consensus       221 nG~~i~  226 (298)
                      +|..|.
T Consensus       269 qg~~~s  274 (284)
T KOG1457|consen  269 QGNLLS  274 (284)
T ss_pred             hcceec
Confidence            988774

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

Probab=97.21  E-value=0.00086  Score=47.32  Aligned_cols=50  Identities=24%  Similarity=0.367  Sum_probs=36.5

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhh
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA  195 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adka  195 (298)
                      +.|-|.| ..-..+++..+|..||+|..+.+....+..+|+|.+..+|++|
T Consensus         2 ~wI~V~Gf~~~~~~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~A   52 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKA   52 (53)
T ss_pred             cEEEEEeECchHHHHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhh
Confidence            4677888 4445566788999999999988875567777666666655544

>KOG1190|consensus

Probab=96.95  E-value=0.0013  Score=63.96  Aligned_cols=73  Identities=22%  Similarity=0.454  Sum_probs=63.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      -.++|+|  +-++-+-|..+|++||.|..| |-..++.||                  .|.|.|.+.+.|..|-..|+|.
T Consensus       151 Lr~iie~m~ypVslDVLHqvFS~fG~VlKI-iTF~Knn~F------------------QALvQy~d~~sAq~AK~aLdGq  211 (492)
T KOG1190|consen  151 LRTIIENMFYPVSLDVLHQVFSKFGFVLKI-ITFTKNNGF------------------QALVQYTDAVSAQAAKLALDGQ  211 (492)
T ss_pred             EEEEeccceeeeEHHHHHHHHhhcceeEEE-EEEecccch------------------hhhhhccchhhHHHHHHhccCC
Confidence            4778889  999999999999999999997 444577777                  5899999999999999999999


Q ss_pred             EEC-C-eEEEEEEccc
Q psy15187        224 HVQ-G-VKLKVSLARR  237 (298)
Q Consensus       224 ~i~-G-r~L~V~~A~~  237 (298)
                      -|. | ++|+|+|..-
T Consensus       212 nIyngcCtLrId~Skl  227 (492)
T KOG1190|consen  212 NIYNGCCTLRIDFSKL  227 (492)
T ss_pred             cccCceeEEEeehhhc
Confidence            887 3 6889988754

>KOG1456|consensus

Probab=96.94  E-value=0.0051  Score=59.32  Aligned_cols=78  Identities=22%  Similarity=0.372  Sum_probs=66.3

Q ss_pred             CCCCCCcEEEEcC---CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       140 ~~~~~~~tLfVgn---~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .+..+++-+.|.|   -.++-+.|..+|..||.|..|+.|+.+. |                   -|.|++.+..+.++|
T Consensus       282 ~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-g-------------------tamVemgd~~aver~  341 (494)
T KOG1456|consen  282 GGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-G-------------------TAMVEMGDAYAVERA  341 (494)
T ss_pred             CCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-c-------------------eeEEEcCcHHHHHHH
Confidence            4556788999999   6788899999999999999999987643 2                   267777888899999


Q ss_pred             HHHhCCcEECCeEEEEEEccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      +..||+..+-|.+|.|.+.+.
T Consensus       342 v~hLnn~~lfG~kl~v~~SkQ  362 (494)
T KOG1456|consen  342 VTHLNNIPLFGGKLNVCVSKQ  362 (494)
T ss_pred             HHHhccCccccceEEEeeccc
Confidence            999999999999999988764

>KOG4206|consensus

Probab=96.83  E-value=0.0043  Score=55.99  Aligned_cols=75  Identities=17%  Similarity=0.319  Sum_probs=63.8

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      .+++..||+.|  ..++.+.|..+|.+|+-...|+++..+.                    |.|||+|.+...|..|...
T Consensus       143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~--------------------~iAfve~~~d~~a~~a~~~  202 (221)
T KOG4206|consen  143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRS--------------------GIAFVEFLSDRQASAAQQA  202 (221)
T ss_pred             CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCC--------------------ceeEEecchhhhhHHHhhh
Confidence            56678999999  8888889999999999999998876533                    3388888888899999999


Q ss_pred             hCCcEEC-CeEEEEEEcc
Q psy15187        220 VNGTHVQ-GVKLKVSLAR  236 (298)
Q Consensus       220 lnG~~i~-Gr~L~V~~A~  236 (298)
                      ++|..|- .+.+.|.++.
T Consensus       203 lq~~~it~~~~m~i~~a~  220 (221)
T KOG4206|consen  203 LQGFKITKKNTMQITFAK  220 (221)
T ss_pred             hccceeccCceEEecccC
Confidence            9999988 8899998875

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

Probab=96.53  E-value=0.0071  Score=48.35  Aligned_cols=82  Identities=24%  Similarity=0.332  Sum_probs=50.8

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +-|.|-| +......+-++|++||.|++..-......|+..+.        +.....+--|+|.++.+|.+||. -||..
T Consensus         7 ~wVtVFGfp~~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~--------~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i   77 (100)
T PF05172_consen    7 TWVTVFGFPPSASNQVLRHFSSFGTILEHFEVLRSSSGINPYP--------IPSGGNWIHITYDNPLSAQRALQ-KNGTI   77 (100)
T ss_dssp             CEEEEE---GGGHHHHHHHHHCCS-EECEEGGG------------------E-CCTTEEEEEESSHHHHHHHHT-TTTEE
T ss_pred             eEEEEEccCHHHHHHHHHHHHhcceEEEeeccccccccccccc--------CCCCCCEEEEECCCHHHHHHHHH-hCCeE
Confidence            5688889 66688889999999999988752222122211110        00123457888999999999987 69999


Q ss_pred             ECCe-EEEEEEcc
Q psy15187        225 VQGV-KLKVSLAR  236 (298)
Q Consensus       225 i~Gr-~L~V~~A~  236 (298)
                      |+|. .+-|.++.
T Consensus        78 ~~g~~mvGV~~~~   90 (100)
T PF05172_consen   78 FSGSLMVGVKPCD   90 (100)
T ss_dssp             ETTCEEEEEEE-H
T ss_pred             EcCcEEEEEEEcH
Confidence            9985 55577764

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.

>KOG0128|consensus

Probab=96.47  E-value=0.00034  Score=72.98  Aligned_cols=95  Identities=22%  Similarity=0.359  Sum_probs=82.6

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEee----e--cCceeEEecChhhhhhhh------------------
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEV----E--KGRGFVTFDSPESSDKAI------------------  196 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~----d--k~~gfV~f~~~~~adkai------------------  196 (298)
                      +..+++||.|  ..+.+.+|...|..||.|..+.+..    +  +|.|||.|...+.+.+||                  
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~g~  744 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAISGP  744 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhhhhheeCC
Confidence            3447899999  9999999999999999988876651    1  799999999999999999                  


Q ss_pred             -----------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        197 -----------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       197 -----------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                                                   ++++|-|||.|.+..++.+++..+++..+.-+.+.|....+
T Consensus       745 pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp  814 (881)
T KOG0128|consen  745 PFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP  814 (881)
T ss_pred             CCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence                                         34899999999999999999999998888877788877655

>KOG3152|consensus

Probab=96.32  E-value=0.002  Score=59.13  Aligned_cols=72  Identities=22%  Similarity=0.314  Sum_probs=58.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec---------CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHH
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK---------GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD  214 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk---------~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~  214 (298)
                      .-||+++  +.+.-..|+++|++||.|-.|.+-...         +.|+-...-.+            |.|+|.+...|.
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~E------------GWvEF~~KrvAK  142 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSE------------GWVEFISKRVAK  142 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchh------------HHHHHHHHHHHH
Confidence            4699999  999999999999999999999887542         22332333333            889999999999


Q ss_pred             HHHHHhCCcEECCeE
Q psy15187        215 KAITEVNGTHVQGVK  229 (298)
Q Consensus       215 ~Ai~~lnG~~i~Gr~  229 (298)
                      .+...|||..|+|+.
T Consensus       143 ~iAe~Lnn~~Iggkk  157 (278)
T KOG3152|consen  143 RIAELLNNTPIGGKK  157 (278)
T ss_pred             HHHHHhCCCccCCCC
Confidence            999999999999853

>KOG1996|consensus

Probab=96.17  E-value=0.014  Score=54.80  Aligned_cols=65  Identities=26%  Similarity=0.357  Sum_probs=49.4

Q ss_pred             HHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEc
Q psy15187        157 EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       157 e~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A  235 (298)
                      ++++.+-.++||.|..|.|...-++--         +.++     --||+|...++|.+|+-.|||..|+||.+...|-
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~---------deav-----RiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy  364 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPE---------DEAV-----RIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY  364 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCcc---------chhh-----eeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence            445778889999999987765522211         1111     1699999999999999999999999999887664

>KOG4849|consensus

Probab=96.06  E-value=0.0053  Score=58.73  Aligned_cols=71  Identities=10%  Similarity=0.152  Sum_probs=57.1

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccC--CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFG--KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG--~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .+||||  |++|++||.+.....|  .|.++++..++-.|.               ++|||+|...+.....+.+.-|--
T Consensus        82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQ---------------SKG~AL~~~~SdAa~Kq~MeiLP~  146 (498)
T KOG4849|consen   82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQ---------------SKGYALLVLNSDAAVKQTMEILPT  146 (498)
T ss_pred             EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCc---------------ccceEEEEecchHHHHHHHHhccc
Confidence            689999  9999999999988777  444555555555564               999999999999988999998999


Q ss_pred             cEECCeEEEE
Q psy15187        223 THVQGVKLKV  232 (298)
Q Consensus       223 ~~i~Gr~L~V  232 (298)
                      ..|+|..-.|
T Consensus       147 k~iHGQ~P~V  156 (498)
T KOG4849|consen  147 KTIHGQSPTV  156 (498)
T ss_pred             ceecCCCCee
Confidence            9999864433

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

Probab=96.01  E-value=0.03  Score=47.63  Aligned_cols=56  Identities=29%  Similarity=0.437  Sum_probs=39.9

Q ss_pred             HHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccc
Q psy15187        159 FLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       159 ~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      +|-+.|..||+|+-|+++-  +.-+                     |+|.+.+.|-+|+. |+|..++|+.|+|.+..+.
T Consensus        52 ~ll~~~~~~GevvLvRfv~--~~mw---------------------VTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd  107 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVG--DTMW---------------------VTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD  107 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEET--TCEE---------------------EEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred             HHHHHHHhCCceEEEEEeC--CeEE---------------------EEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence            5777899999998877653  3445                     45555558888876 9999999999999987763

; PDB: 1UFW_A 2DNR_A.

>KOG4307|consensus

Probab=95.95  E-value=0.022  Score=58.79  Aligned_cols=77  Identities=13%  Similarity=0.220  Sum_probs=60.7

Q ss_pred             CCCc-EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGN-TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~-tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++ -|-|.|  ++++-+|+-+||..|-.+-.-.+++-...|.               +.|-+.|.|++.++|..|...
T Consensus       864 ~pGp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~---------------pTGe~mvAfes~~eAr~A~~d  928 (944)
T KOG4307|consen  864 SPGPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGV---------------PTGECMVAFESQEEARRASMD  928 (944)
T ss_pred             CCCCeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCC---------------cccceeEeecCHHHHHhhhhc
Confidence            4455 555666  9999999999999997665433333333343               667799999999999999999


Q ss_pred             hCCcEECCeEEEEEE
Q psy15187        220 VNGTHVQGVKLKVSL  234 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~  234 (298)
                      |++..|..+.+.|.+
T Consensus       929 l~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  929 LDGQKIRNRVVSLRI  943 (944)
T ss_pred             cccCcccceeEEEEe
Confidence            999999999998865

>KOG2202|consensus

Probab=95.92  E-value=0.0038  Score=57.34  Aligned_cols=62  Identities=18%  Similarity=0.274  Sum_probs=47.5

Q ss_pred             HHHHHHh-ccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        159 FLRQHFS-IFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       159 ~L~~~F~-~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      +|...|+ +||+|++++|-.+  -+.              +-.|-++|.|...++|+.|+..|||..+.|++|...+..
T Consensus        84 d~f~E~~~kygEiee~~Vc~N--l~~--------------hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p  146 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDN--LGD--------------HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhcc--cch--------------hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence            3444444 8999999755433  222              245668888888889999999999999999999998853

>KOG2416|consensus

Probab=95.80  E-value=0.015  Score=59.00  Aligned_cols=77  Identities=12%  Similarity=0.198  Sum_probs=57.9

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHh-ccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFS-IFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~-~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....++-|||.|  .-+|.-.|+++++ .+|.|++.  ++|+-..                   .|||.|.+.++|...+
T Consensus       440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDkIKS-------------------hCyV~yss~eEA~atr  498 (718)
T KOG2416|consen  440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDKIKS-------------------HCYVSYSSVEEAAATR  498 (718)
T ss_pred             CCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHHhhc-------------------ceeEecccHHHHHHHH
Confidence            345567899999  8899999999999 56677665  3343222                   2667777777999999


Q ss_pred             HHhCCcEEC---CeEEEEEEcccc
Q psy15187        218 TEVNGTHVQ---GVKLKVSLARRQ  238 (298)
Q Consensus       218 ~~lnG~~i~---Gr~L~V~~A~~k  238 (298)
                      .+|||..|-   ++-|.|.|+...
T Consensus       499 ~AlhnV~WP~sNPK~L~adf~~~d  522 (718)
T KOG2416|consen  499 EALHNVQWPPSNPKHLIADFVRAD  522 (718)
T ss_pred             HHHhccccCCCCCceeEeeecchh
Confidence            999999875   678888887653

>KOG0129|consensus

Probab=95.53  E-value=0.029  Score=56.11  Aligned_cols=62  Identities=26%  Similarity=0.377  Sum_probs=46.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHh-ccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFS-IFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~-~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      -.+..||||||  .-++.++|..+|. -||-|..+-|.+|..+.|               ++|-|=|+|.+...-.+||.
T Consensus       367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KY---------------PkGaGRVtFsnqqsYi~AIs  431 (520)
T KOG0129|consen  367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKY---------------PKGAGRVTFSNQQAYIKAIS  431 (520)
T ss_pred             cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCC---------------CCCcceeeecccHHHHHHHh
Confidence            34457999999  8899999999999 799999999998854554               55555555555555555554

>KOG0112|consensus

Probab=95.49  E-value=0.0039  Score=65.66  Aligned_cols=106  Identities=16%  Similarity=0.250  Sum_probs=83.0

Q ss_pred             CCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHH
Q psy15187        138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD  214 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~  214 (298)
                      +......+.+||+||  ..+++.+|+..|..||.|.+|.|...+ +.+                 -.||||.|-+.+.+-
T Consensus       365 ~~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~e-----------------sa~~f~~~~n~dmtp  427 (975)
T KOG0112|consen  365 KLDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTE-----------------SAYAFVSLLNTDMTP  427 (975)
T ss_pred             cccchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcc-----------------cchhhhhhhccccCc
Confidence            344556678999999  999999999999999999999887652 222                 234899999999999


Q ss_pred             HHHHHhCCcEECCeEEEEEEcccccccccccccCCCCccchhhhcc
Q psy15187        215 KAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSAIACHQ  260 (298)
Q Consensus       215 ~Ai~~lnG~~i~Gr~L~V~~A~~k~~~~~~~~~~~~~~~~~~a~~~  260 (298)
                      .|..++.|..|..-.+++.+..++.......+..+...|.......
T Consensus       428 ~ak~e~s~~~I~~g~~r~glG~~kst~ttr~~sgglg~w~p~~~l~  473 (975)
T KOG0112|consen  428 SAKFEESGPLIGNGTHRIGLGQPKSTPTTRLQSGGLGPWSPVSRLN  473 (975)
T ss_pred             ccchhhcCCccccCcccccccccccccceeeccCCCCCCChHHHHH
Confidence            9999999999997678887775544444555667788888876655

>KOG2068|consensus

Probab=95.31  E-value=0.0046  Score=58.74  Aligned_cols=79  Identities=27%  Similarity=0.435  Sum_probs=60.2

Q ss_pred             CCCcEEEEcC---CCCCHHHHH--HHHhccCCeeEEEEeeec----CceeEEecChhhhhhhhhcCCceEEEEeCCHHHH
Q psy15187        143 KGGNTIFVQG---AGISEEFLR--QHFSIFGKICSVSMEVEK----GRGFVTFDSPESSDKAITDDCARGFVTFDSPESS  213 (298)
Q Consensus       143 ~~~~tLfVgn---~~~te~~L~--~~F~~fG~I~~v~i~~dk----~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A  213 (298)
                      -+.+-+||-|   .-..+..|.  ++|++||.|..|.+-.+.    +-++                ..-++|+|...++|
T Consensus        75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~----------------~~s~yITy~~~eda  138 (327)
T KOG2068|consen   75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGG----------------TCSVYITYEEEEDA  138 (327)
T ss_pred             hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCC----------------CCcccccccchHhh
Confidence            4446678877   335555564  589999999999877654    2221                12289999999999


Q ss_pred             HHHHHHhCCcEECCeEEEEEEccc
Q psy15187        214 DKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       214 ~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      ..||...+|..++|+.|+..++..
T Consensus       139 ~rci~~v~g~~~dg~~lka~~gtt  162 (327)
T KOG2068|consen  139 DRCIDDVDGFVDDGRALKASLGTT  162 (327)
T ss_pred             hhHHHHhhhHHhhhhhhHHhhCCC
Confidence            999999999999999988888765

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=95.28  E-value=0.09  Score=38.41  Aligned_cols=53  Identities=15%  Similarity=0.305  Sum_probs=39.3

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhcc---CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIF---GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~f---G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .+|+|.| ..++.++++.+|..|   .....|..+-|..                      +-|.|.+.+.|.+|+..|
T Consensus         6 eavhirGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdDtS----------------------cNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVDELSTDDIKAYFSEYFDEEGPFRIEWIDDTS----------------------CNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHhcccCCCceEEEecCCc----------------------EEEEECCHHHHHHHHHcC
Confidence            5799999 999999999999999   1244676666654                      334566666888887654

>KOG1365|consensus

Probab=95.15  E-value=0.049  Score=52.91  Aligned_cols=92  Identities=16%  Similarity=0.208  Sum_probs=71.8

Q ss_pred             CcEEEEc--C--CCCCHHHHHHHHhccC----CeeEEEEe-e-e---cCceeEEecChhhhhhhh---------------
Q psy15187        145 GNTIFVQ--G--AGISEEFLRQHFSIFG----KICSVSME-V-E---KGRGFVTFDSPESSDKAI---------------  196 (298)
Q Consensus       145 ~~tLfVg--n--~~~te~~L~~~F~~fG----~I~~v~i~-~-d---k~~gfV~f~~~~~adkai---------------  196 (298)
                      .+.+.|.  |  ++.++.++.+||.+--    -.+.|-.+ + |   .|-+||.|...++|+.|+               
T Consensus       159 ~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElF  238 (508)
T KOG1365|consen  159 ENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELF  238 (508)
T ss_pred             ccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHH
Confidence            3445554  6  9999999999997432    33344333 2 2   578999999999999999               


Q ss_pred             --------------------------------------------------------------------------------
Q psy15187        197 --------------------------------------------------------------------------------  196 (298)
Q Consensus       197 --------------------------------------------------------------------------------  196 (298)
                                                                                                      
T Consensus       239 RSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N  318 (508)
T KOG1365|consen  239 RSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN  318 (508)
T ss_pred             HHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc
Confidence                                                                                            


Q ss_pred             --hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        197 --TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       197 --~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                        |++.|-|||.|.+.+.|..|....+.+...+|-|.|--+.
T Consensus       319 ~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S  360 (508)
T KOG1365|consen  319 GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS  360 (508)
T ss_pred             CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence              3488999999999999999999998888878888875543

>KOG0129|consensus

Probab=95.10  E-value=0.051  Score=54.38  Aligned_cols=78  Identities=18%  Similarity=0.319  Sum_probs=53.1

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee---cCceeEEecChhhhhhhhhcCCc---eEEEEeCCHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE---KGRGFVTFDSPESSDKAITDDCA---RGFVTFDSPE  211 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d---k~~gfV~f~~~~~adkai~~skG---faFV~F~~~e  211 (298)
                      ..++-.++|||||  ++++|+.|...|..||.+.- .....   ++..               .++|   |+|+.|++..
T Consensus       254 ~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~V-dWP~k~~~~~~~---------------ppkGs~~YvflvFe~E~  317 (520)
T KOG0129|consen  254 RSPRYSRKVFVGGLPWDITEAQINASFGQFGSVKV-DWPGKANSRGRA---------------PPKGSYGYVFLVFEDER  317 (520)
T ss_pred             CccccccceeecCCCccccHHHHHhhcccccceEe-ecCCCccccccC---------------CCCCcccEEEEEecchH
Confidence            3445567999999  99999999999999998753 23211   1111               2566   9999999988


Q ss_pred             HHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        212 SSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       212 ~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      ....-|.++.-   +...+.+.+..
T Consensus       318 sV~~Ll~aC~~---~~~~~yf~vss  339 (520)
T KOG0129|consen  318 SVQSLLSACSE---GEGNYYFKVSS  339 (520)
T ss_pred             HHHHHHHHHhh---cccceEEEEec
Confidence            87776665532   44444444443

>KOG0112|consensus

Probab=94.54  E-value=0.11  Score=55.19  Aligned_cols=74  Identities=22%  Similarity=0.440  Sum_probs=61.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...+.|||||  .++....|...|..||.|..|.+  +++.-|                   ++|.|.+...|+.|+..|
T Consensus       453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy--~hgq~y-------------------ayi~yes~~~aq~a~~~~  511 (975)
T KOG0112|consen  453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDY--RHGQPY-------------------AYIQYESPPAAQAATHDM  511 (975)
T ss_pred             ccceeeccCCCCCCChHHHHHHHhhccCcceeeec--ccCCcc-------------------eeeecccCccchhhHHHH
Confidence            3457899999  88999999999999999998654  444444                   777777777999999999


Q ss_pred             CCcEECC--eEEEEEEccc
Q psy15187        221 NGTHVQG--VKLKVSLARR  237 (298)
Q Consensus       221 nG~~i~G--r~L~V~~A~~  237 (298)
                      -|..|+|  +.|.|.||..
T Consensus       512 rgap~G~P~~r~rvdla~~  530 (975)
T KOG0112|consen  512 RGAPLGGPPRRLRVDLASP  530 (975)
T ss_pred             hcCcCCCCCcccccccccC
Confidence            9999994  7899999875

>KOG1855|consensus

Probab=94.48  E-value=0.036  Score=54.41  Aligned_cols=74  Identities=23%  Similarity=0.210  Sum_probs=53.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      -++.+|.+.|  .+-.-+.|.++|+.||.|..|+|...     ...+|-.       ...+-..+-+|||+|...+.|.+
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~-------~~~~~~tk~~AlvEye~~~~A~K  301 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPK-------KYFELQTKECALVEYEEVEAARK  301 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCc-------cchhhhhhhhhhhhhhhhHHHHH
Confidence            4678999999  77777999999999999999998754     1222200       00000124469999999999999


Q ss_pred             HHHHhCCc
Q psy15187        216 AITEVNGT  223 (298)
Q Consensus       216 Ai~~lnG~  223 (298)
                      |...||..
T Consensus       302 A~e~~~~e  309 (484)
T KOG1855|consen  302 ARELLNPE  309 (484)
T ss_pred             HHHhhchh
Confidence            98877543

>KOG2193|consensus

Probab=94.26  E-value=0.017  Score=56.64  Aligned_cols=92  Identities=23%  Similarity=0.299  Sum_probs=73.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhc-------------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD-------------------------  198 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~-------------------------  198 (298)
                      +++|+||  +.++..+|..+|...-.-.+-.++...+++||.+.+...|.++|..                         
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrsr   81 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRSR   81 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHhh
Confidence            5799999  9999999999998763333334555689999999999999999910                         


Q ss_pred             ------------------------------------CCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        199 ------------------------------------DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       199 ------------------------------------skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                                                          -....-|+|...+.+..||..+||..+....++|.|-..
T Consensus        82 k~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPd  156 (584)
T KOG2193|consen   82 KIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPD  156 (584)
T ss_pred             hhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCch
Confidence                                                112234567788888999999999999999999999653

>KOG0106|consensus

Probab=94.02  E-value=0.027  Score=50.95  Aligned_cols=39  Identities=33%  Similarity=0.631  Sum_probs=36.9

Q ss_pred             CCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       199 skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      -.||+||+|.+..+|..||..+||..|.|-.+.|.|++.
T Consensus        34 k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~   72 (216)
T KOG0106|consen   34 KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG   72 (216)
T ss_pred             ecccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence            579999999999999999999999999998899999986

>KOG2135|consensus

Probab=93.47  E-value=0.048  Score=54.12  Aligned_cols=62  Identities=19%  Similarity=0.287  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEE
Q psy15187        155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSL  234 (298)
Q Consensus       155 ~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~  234 (298)
                      -+-.+|..+|.+||.|..|.|-..--.                     |.|+|.+..+|-.|.. ..|..|+|+.|+|-|
T Consensus       385 nt~a~ln~hfA~fG~i~n~qv~~~~~~---------------------a~vTF~t~aeag~a~~-s~~avlnnr~iKl~w  442 (526)
T KOG2135|consen  385 NTIADLNPHFAQFGEIENIQVDYSSLH---------------------AVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFW  442 (526)
T ss_pred             chHhhhhhhhhhcCccccccccCchhh---------------------heeeeeccccccchhc-cccceecCceeEEEE
Confidence            466789999999999999977544233                     5566666668866643 689999999999999


Q ss_pred             cccc
Q psy15187        235 ARRQ  238 (298)
Q Consensus       235 A~~k  238 (298)
                      ..+-
T Consensus       443 hnps  446 (526)
T KOG2135|consen  443 HNPS  446 (526)
T ss_pred             ecCC
Confidence            8763

>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=93.22  E-value=0.26  Score=43.56  Aligned_cols=62  Identities=27%  Similarity=0.308  Sum_probs=44.1

Q ss_pred             CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC--CcEECCeEEEEE
Q psy15187        156 SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN--GTHVQGVKLKVS  233 (298)
Q Consensus       156 te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln--G~~i~Gr~L~V~  233 (298)
                      ..+.|+++|..|+.+.....+  ++++-                   ..|.|.+.++|..|...|+  +..++|..|+|.
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L--~sFrR-------------------i~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~y   66 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPL--KSFRR-------------------IRVVFESPESAQRARQLLHWDGTSFNGKRLRVY   66 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEE--TTTTE-------------------EEEE-SSTTHHHHHHHTST--TSEETTEE-EEE
T ss_pred             hHHHHHHHHHhcCCceEEEEc--CCCCE-------------------EEEEeCCHHHHHHHHHHhcccccccCCCceEEE
Confidence            347899999999999887655  34444                   6777788889999999999  999999999999


Q ss_pred             Ecccc
Q psy15187        234 LARRQ  238 (298)
Q Consensus       234 ~A~~k  238 (298)
                      |+...
T Consensus        67 f~~~~   71 (184)
T PF04847_consen   67 FGQPT   71 (184)
T ss_dssp             ----S
T ss_pred             Ecccc
Confidence            98543

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.

>KOG0105|consensus

Probab=92.96  E-value=0.58  Score=41.58  Aligned_cols=70  Identities=17%  Similarity=0.324  Sum_probs=55.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +....|.|.|  ..-+++||+++..+-|.|....+.+|                      |+|.|+|-..++.+-||..|
T Consensus       113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD----------------------g~GvV~~~r~eDMkYAvr~l  170 (241)
T KOG0105|consen  113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD----------------------GVGVVEYLRKEDMKYAVRKL  170 (241)
T ss_pred             ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc----------------------cceeeeeeehhhHHHHHHhh
Confidence            4446899999  89999999999999999988877665                      33677777777999999999


Q ss_pred             CCcEEC--CeEEEEEE
Q psy15187        221 NGTHVQ--GVKLKVSL  234 (298)
Q Consensus       221 nG~~i~--Gr~L~V~~  234 (298)
                      +...+.  |-...+.+
T Consensus       171 d~~~~~seGe~~yirv  186 (241)
T KOG0105|consen  171 DDQKFRSEGETAYIRV  186 (241)
T ss_pred             ccccccCcCcEeeEEe
Confidence            887776  55444443

>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=91.80  E-value=0.8  Score=33.84  Aligned_cols=60  Identities=15%  Similarity=0.410  Sum_probs=47.6

Q ss_pred             EEcCCCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCe
Q psy15187        149 FVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGV  228 (298)
Q Consensus       149 fVgn~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr  228 (298)
                      ||-...++-++++..+..|+-.. |  . +..+||                    ||.|.+..+|++|....||..+.+.
T Consensus         6 ~vp~~~~~v~d~K~~Lr~y~~~~-I--~-~d~tGf--------------------YIvF~~~~Ea~rC~~~~~~~~~f~y   61 (66)
T PF11767_consen    6 FVPVHGVTVEDFKKRLRKYRWDR-I--R-DDRTGF--------------------YIVFNDSKEAERCFRAEDGTLFFTY   61 (66)
T ss_pred             cCCCCCccHHHHHHHHhcCCcce-E--E-ecCCEE--------------------EEEECChHHHHHHHHhcCCCEEEEE
Confidence            44446788999999999997542 2  2 356676                    8888888899999999999999988


Q ss_pred             EEEE
Q psy15187        229 KLKV  232 (298)
Q Consensus       229 ~L~V  232 (298)
                      .|.+
T Consensus        62 ~m~M   65 (66)
T PF11767_consen   62 RMQM   65 (66)
T ss_pred             EEEe
Confidence            8764

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

>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=91.22  E-value=0.89  Score=33.87  Aligned_cols=65  Identities=18%  Similarity=0.322  Sum_probs=38.1

Q ss_pred             EEEEcC---CCCCHHHHHHHHhccCCeeE-----EEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        147 TIFVQG---AGISEEFLRQHFSIFGKICS-----VSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       147 tLfVgn---~~~te~~L~~~F~~fG~I~~-----v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      +|||.-   ..++..+|-.++...+.|..     |.|.  ..+                     .||+-... .|..++.
T Consensus         2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~--~~~---------------------S~vev~~~-~a~~v~~   57 (74)
T PF03880_consen    2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF--DNF---------------------SFVEVPEE-VAEKVLE   57 (74)
T ss_dssp             EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE---SS----------------------EEEEE-TT--HHHHHH
T ss_pred             EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe--eeE---------------------EEEEECHH-HHHHHHH
Confidence            678774   89999999999998876543     3332  233                     55555544 5888999


Q ss_pred             HhCCcEECCeEEEEEEc
Q psy15187        219 EVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A  235 (298)
                      .|++..+.|+.|+|+.|
T Consensus        58 ~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   58 ALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             HHTT--SSS----EEE-
T ss_pred             HhcCCCCCCeeEEEEEC
Confidence            99999999999999875

; PDB: 2G0C_A 3MOJ_B.

>KOG4285|consensus

Probab=90.81  E-value=0.64  Score=44.05  Aligned_cols=71  Identities=18%  Similarity=0.229  Sum_probs=50.5

Q ss_pred             EEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        147 TIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       147 tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      =|-|-| .--.-..|..+|++||.|++....  .+..|                   -.|.|.+.-+|++||. -||..|
T Consensus       199 WVTVfGFppg~~s~vL~~F~~cG~Vvkhv~~--~ngNw-------------------MhirYssr~~A~KALs-kng~ii  256 (350)
T KOG4285|consen  199 WVTVFGFPPGQVSIVLNLFSRCGEVVKHVTP--SNGNW-------------------MHIRYSSRTHAQKALS-KNGTII  256 (350)
T ss_pred             eEEEeccCccchhHHHHHHHhhCeeeeeecC--CCCce-------------------EEEEecchhHHHHhhh-hcCeee
Confidence            355557 666777899999999999997554  33333                   6677788889999987 689999


Q ss_pred             CCeE-EEEEEccccc
Q psy15187        226 QGVK-LKVSLARRQL  239 (298)
Q Consensus       226 ~Gr~-L~V~~A~~k~  239 (298)
                      +|.. |-|.-+..+.
T Consensus       257 ~g~vmiGVkpCtDks  271 (350)
T KOG4285|consen  257 DGDVMIGVKPCTDKS  271 (350)
T ss_pred             ccceEEeeeecCCHH
Confidence            9754 3455444433

>KOG0115|consensus

Probab=90.48  E-value=0.27  Score=45.47  Aligned_cols=59  Identities=27%  Similarity=0.496  Sum_probs=45.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..|||.|  ..++.+.|.+.|..||+|....+..| ++.                 +.|-++|.|.+.-.|.+|+..++
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k-----------------~t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGK-----------------PTREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeeccccc-----------------ccccchhhhhcchhHHHHHHHhc
Confidence            5799999  88999999999999999998766655 221                 12237777777778888877774

>KOG4211|consensus

Probab=90.01  E-value=0.55  Score=46.99  Aligned_cols=72  Identities=21%  Similarity=0.275  Sum_probs=50.7

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeE-EEEeee-----cCceeEEecChhhhhhhhhcC---Cc--eEEEEeCCHHH
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICS-VSMEVE-----KGRGFVTFDSPESSDKAITDD---CA--RGFVTFDSPES  212 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~-v~i~~d-----k~~gfV~f~~~~~adkai~~s---kG--faFV~F~~~e~  212 (298)
                      ..|-+.|  +.+|++||.+||+---.|.. |.++.+     .+-+||+|.+.+.|++|++++   -|  |--|.-.+.++
T Consensus       104 ~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss~~e  183 (510)
T KOG4211|consen  104 GVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSSRAE  183 (510)
T ss_pred             ceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhHHHH
Confidence            3566668  99999999999998755555 444444     477999999999999999653   23  33344444455


Q ss_pred             HHHHH
Q psy15187        213 SDKAI  217 (298)
Q Consensus       213 A~~Ai  217 (298)
                      ...+.
T Consensus       184 ~~~~~  188 (510)
T KOG4211|consen  184 VKRAA  188 (510)
T ss_pred             HHhhc
Confidence            55544

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

Probab=89.53  E-value=1.6  Score=33.84  Aligned_cols=53  Identities=19%  Similarity=0.270  Sum_probs=33.2

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .-.||.= ...-..||.++|+.||.|. |..+ +-..                     |||...+.+.|..++..++
T Consensus        10 HVFhltFPkeWK~~DI~qlFspfG~I~-VsWi-~dTS---------------------AfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   10 HVFHLTFPKEWKTSDIYQLFSPFGQIY-VSWI-NDTS---------------------AFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             CEEEEE--TT--HHHHHHHCCCCCCEE-EEEE-CTTE---------------------EEEEECCCHHHHHHHHHHT
T ss_pred             eEEEEeCchHhhhhhHHHHhccCCcEE-EEEE-cCCc---------------------EEEEeecHHHHHHHHHHhc
Confidence            3466665 7788999999999999984 4333 2233                     5555555556666666554

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

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=88.25  E-value=1.6  Score=37.23  Aligned_cols=69  Identities=26%  Similarity=0.309  Sum_probs=46.2

Q ss_pred             CcEEEEcC---CCCCHHH---HHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        145 GNTIFVQG---AGISEEF---LRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       145 ~~tLfVgn---~~~te~~---L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      -.||.|.=   .--..+|   +-..++.||+|.+|.+. .+.                     -|.|.|.+..+|-.|+.
T Consensus        86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-Grq---------------------savVvF~d~~SAC~Av~  143 (166)
T PF15023_consen   86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-GRQ---------------------SAVVVFKDITSACKAVS  143 (166)
T ss_pred             ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-CCc---------------------eEEEEehhhHHHHHHHH
Confidence            35777763   1122334   44557889999998543 122                     26777777779999999


Q ss_pred             HhCCcEECCeEEEEEEcc
Q psy15187        219 EVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~  236 (298)
                      +++. ..-|..+.++|-.
T Consensus       144 Af~s-~~pgtm~qCsWqq  160 (166)
T PF15023_consen  144 AFQS-RAPGTMFQCSWQQ  160 (166)
T ss_pred             hhcC-CCCCceEEeeccc
Confidence            8876 5568888888854

>KOG4574|consensus

Probab=87.64  E-value=0.39  Score=50.89  Aligned_cols=71  Identities=24%  Similarity=0.294  Sum_probs=58.1

Q ss_pred             CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEEC--CeEE
Q psy15187        153 AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQ--GVKL  230 (298)
Q Consensus       153 ~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~--Gr~L  230 (298)
                      -..+-.-|..+|++||.|.+++..++-+.                     |.|+|...+.|..|+.+++|.++.  |-+.
T Consensus       308 v~~tSssL~~l~s~yg~v~s~wtlr~~N~---------------------alvs~~s~~sai~a~dAl~gkevs~~g~Ps  366 (1007)
T KOG4574|consen  308 VNLTSSSLATLCSDYGSVASAWTLRDLNM---------------------ALVSFSSVESAILALDALQGKEVSVTGAPS  366 (1007)
T ss_pred             ccchHHHHHHHHHhhcchhhheecccccc---------------------hhhhhHHHHHHHHhhhhhcCCcccccCCce
Confidence            56777889999999999999988776554                     456666666999999999999876  8899


Q ss_pred             EEEEcccccccccc
Q psy15187        231 KVSLARRQLKVAPI  244 (298)
Q Consensus       231 ~V~~A~~k~~~~~~  244 (298)
                      +|.+|+.-+..++.
T Consensus       367 ~V~~ak~~~~~ep~  380 (1007)
T KOG4574|consen  367 RVSFAKTLPMYEPP  380 (1007)
T ss_pred             eEEeccccccccCC
Confidence            99999987766644

>KOG0122|consensus

Probab=86.14  E-value=0.68  Score=42.65  Aligned_cols=47  Identities=30%  Similarity=0.447  Sum_probs=36.5

Q ss_pred             HHHHHHHhccCCeeEEEEe---eecCceeEEecChhhhhhhhhcCCceEE
Q psy15187        158 EFLRQHFSIFGKICSVSME---VEKGRGFVTFDSPESSDKAITDDCARGF  204 (298)
Q Consensus       158 ~~L~~~F~~fG~I~~v~i~---~dk~~gfV~f~~~~~adkai~~skGfaF  204 (298)
                      ++|..-|..+-.|.-+.=-   ..+|++||+|.+.++|.+||..-.|||+
T Consensus       207 ~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gy  256 (270)
T KOG0122|consen  207 EELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGY  256 (270)
T ss_pred             HHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCccc
Confidence            6666667766666554332   2389999999999999999998888886

>smart00361 RRM_1 RNA recognition motif

Probab=85.81  E-value=0.8  Score=33.37  Aligned_cols=38  Identities=29%  Similarity=0.505  Sum_probs=29.7

Q ss_pred             HHHhccCCee--EEEE----eeecCceeEEecChhhhhhhhhcC
Q psy15187        162 QHFSIFGKIC--SVSM----EVEKGRGFVTFDSPESSDKAITDD  199 (298)
Q Consensus       162 ~~F~~fG~I~--~v~i----~~dk~~gfV~f~~~~~adkai~~s  199 (298)
                      ..|+.++.|.  .+.-    ...+|+|||+|.+.++|.+|+..-
T Consensus        14 ~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l   57 (70)
T smart00361       14 EYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDL   57 (70)
T ss_pred             HhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHh
Confidence            3889999884  5533    234899999999999999999653

>KOG4676|consensus

Probab=84.58  E-value=1.1  Score=43.97  Aligned_cols=74  Identities=19%  Similarity=0.151  Sum_probs=50.6

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec--CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK--GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk--~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      -|-|.|  +.+|.++++.+|+-.|.|..+.|+..-  ...-|              ..-.|||-|.+...+..|- .|-+
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv--------------~sRtcyVkf~d~~sv~vaQ-hLtn   73 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPV--------------ISRTCYVKFLDSQSVTVAQ-HLTN   73 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcc--------------eeeeEEEeccCCcceeHHh-hhcc
Confidence            688999  999999999999999999999887531  11100              1223677777776666654 4556


Q ss_pred             cEECCeEEEEEEc
Q psy15187        223 THVQGVKLKVSLA  235 (298)
Q Consensus       223 ~~i~Gr~L~V~~A  235 (298)
                      ++|-++-|.|-..
T Consensus        74 tvfvdraliv~p~   86 (479)
T KOG4676|consen   74 TVFVDRALIVRPY   86 (479)
T ss_pred             ceeeeeeEEEEec
Confidence            6666666655443

>KOG4210|consensus

Probab=84.43  E-value=0.49  Score=44.66  Aligned_cols=81  Identities=19%  Similarity=0.046  Sum_probs=64.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..+++|||+  +.+.+.+...+|..+|.+..+.+....+.+-               ++||+.|.|...+.+..|+....
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~---------------sk~~~s~~f~~ks~~~~~l~~s~  151 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLS---------------SKGGLSVHFAGKSQFFAALEESG  151 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhccccc---------------cccceeeccccHHHHHHHHHhhh
Confidence            457899999  8888888899999999998887766555554               78999999999999999988665


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      .+.+.++.+...+.....
T Consensus       152 ~~~~~~~~~~~dl~~~~~  169 (285)
T KOG4210|consen  152 SKVLDGNKGEKDLNTRRG  169 (285)
T ss_pred             ccccccccccCccccccc
Confidence            567777777766655443

>KOG1548|consensus

Probab=82.04  E-value=1.5  Score=42.37  Aligned_cols=43  Identities=23%  Similarity=0.273  Sum_probs=40.1

Q ss_pred             hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccccc
Q psy15187        197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       197 ~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |..+|=|.++|...+++.-|+.-|++..|.|+.|+|+.|+-+.
T Consensus       180 G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~  222 (382)
T KOG1548|consen  180 GKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQM  222 (382)
T ss_pred             CCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhh
Confidence            7789999999999999999999999999999999999987543

>KOG2253|consensus

Probab=81.47  E-value=0.93  Score=46.91  Aligned_cols=66  Identities=23%  Similarity=0.283  Sum_probs=53.9

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      -+|||||  +.+..+-++.+...||.|.++..+.     |                   ||+.|.++..+..|+..++-.
T Consensus        41 ~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-----f-------------------gf~~f~~~~~~~ra~r~~t~~   96 (668)
T KOG2253|consen   41 DTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-----F-------------------GFCEFLKHIGDLRASRLLTEL   96 (668)
T ss_pred             ceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-----h-------------------cccchhhHHHHHHHHHHhccc
Confidence            5799999  7888888899999999999986543     3                   777777777999999999888


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .++|..|.+...
T Consensus        97 ~~~~~kl~~~~d  108 (668)
T KOG2253|consen   97 NIDDQKLIENVD  108 (668)
T ss_pred             CCCcchhhccch
Confidence            888887766543

>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=80.52  E-value=16  Score=29.55  Aligned_cols=56  Identities=20%  Similarity=0.240  Sum_probs=42.2

Q ss_pred             CCCCHHHHHHHHhccC-CeeEEEEeeecC-ceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        153 AGISEEFLRQHFSIFG-KICSVSMEVEKG-RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       153 ~~~te~~L~~~F~~fG-~I~~v~i~~dk~-~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                      +.++-++|..+.+.+- .|..++|++|.. .-|                  -+.+.|.+.+.|..-...+||..++
T Consensus        23 ~~~~~d~l~~f~~~~~~~i~~~riird~~pnry------------------mVLikF~~~~~Ad~Fy~~fNGk~Fn   80 (110)
T PF07576_consen   23 YMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRY------------------MVLIKFRDQESADEFYEEFNGKPFN   80 (110)
T ss_pred             ccccHHHHHHhhhcccccEEEEEEeeCCCCceE------------------EEEEEECCHHHHHHHHHHhCCCccC
Confidence            6677777876666664 556778887732 222                  2788999999999999999999988

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	298
2jx2_A	121	Solution Structure Of Nelf E Rrm Length = 121		5e-11
1x5p_A	97	Solution Structure Of Rrm Domain In Parp14 Length =		3e-10
2d9p_A	103	Solution Structure Of Rna Binding Domain 4 In Polya		7e-07

>pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm Length = 121

Iteration: 1
 Score = 65.1 bits (157), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 38/109 (34%), Positives = 59/109 (54%), Gaps = 25/109 (22%)
Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV                 
Sbjct: 36  PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV----------------- 78
Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS 250
               T++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ DAA+ 
Sbjct: 79  ----TYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDAATG 119

>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14 Length = 97

Iteration: 1
 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 37/110 (33%), Positives = 59/110 (53%), Gaps = 25/110 (22%)
Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV                 
Sbjct: 12  PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV----------------- 54
Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASST 251
               T++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ D+  S+
Sbjct: 55  ----TYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDSGPSS 96

>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In Polyadenylation Binding Protein 3 Length = 103

Iteration: 1
 Score = 51.2 bits (121), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 45/87 (51%), Gaps = 21/87 (24%)
Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDKAITDDCARGFVTFDSPE 211
           GI +E LR+ FS FG I S  + +E GR  GF                   GFV F SPE
Sbjct: 26  GIDDERLRKAFSPFGTITSAKVMMEGGRSKGF-------------------GFVCFSSPE 66
Query: 212 SSDKAITEVNGTHVQGVKLKVSLARRQ 238
            + KA+TE+NG  V    L V+LA+R+
Sbjct: 67  EATKAVTEMNGRIVATKPLYVALAQRK 93

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	298
1x5p_A	97	Negative elongation factor E; structure genomics,	1e-23
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	9e-22
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	1e-14
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	1e-14
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	1e-14
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	1e-14
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-14
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	2e-14
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	4e-14
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	1e-13
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	3e-13
1x5o_A	114	RNA binding motif, single-stranded interacting pro	6e-13
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	7e-13
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	8e-13
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	1e-12
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	1e-12
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-12
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-07
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-12
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-07
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-12
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	4e-10
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-12
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	4e-12
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	1e-06
1x4e_A	85	RNA binding motif, single-stranded interacting pro	4e-12
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	5e-12
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	5e-12
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	8e-12
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-07
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	8e-12
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	8e-12
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	9e-12
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	1e-11
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-11
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	8e-10
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-08
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-11
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	4e-10
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	2e-11
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	6e-09
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	3e-11
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	4e-11
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	5e-11
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	5e-11
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	6e-11
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	8e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-11
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-10
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-08
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-07
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	1e-10
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	1e-10
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-10
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-10
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-10
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-10
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	4e-10
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	4e-10
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	4e-10
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-07
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	5e-10
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	6e-10
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	6e-10
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	1e-06
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	7e-10
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	7e-10
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	8e-10
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	9e-10
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	9e-10
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	9e-10
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	1e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-09
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	4e-08
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-09
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	1e-09
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	2e-09
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-09
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-09
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-09
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	2e-09
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-09
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	2e-09
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	2e-09
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	3e-09
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-09
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	7e-09
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	4e-09
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	4e-09
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	6e-09
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	6e-09
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	8e-09
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	8e-09
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	1e-08
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	1e-08
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	1e-08
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	1e-08
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	1e-08
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-08
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	8e-07
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	2e-08
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	2e-08
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	2e-08
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	3e-08
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	3e-08
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	3e-08
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	4e-08
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	5e-08
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	5e-08
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	6e-08
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	6e-08
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	8e-08
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	8e-08
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	8e-08
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	8e-08
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	1e-05
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	8e-08
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	1e-07
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	1e-07
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	1e-07
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	1e-07
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	1e-07
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	1e-07
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	1e-07
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	1e-07
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	1e-07
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	2e-07
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-07
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	2e-07
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-07
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-06
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	2e-07
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	3e-07
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	3e-07
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	3e-07
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	5e-07
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	5e-07
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	5e-07
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	6e-07
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	6e-07
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	6e-07
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	7e-07
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	7e-07
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	7e-07
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	7e-07
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	8e-07
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	9e-07
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	9e-07
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	1e-06
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	2e-06
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	2e-06
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	2e-06
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	3e-06
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	3e-06
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	3e-06
2div_A	99	TRNA selenocysteine associated protein; structural	3e-06
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	7e-06
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	1e-05
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	1e-05
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	1e-05
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	1e-05
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	2e-05
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	2e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-05
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	3e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	3e-04
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	6e-04
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	6e-04
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	7e-04

>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 = 91.2 bits (227), Expect = 1e-23
 Identities = 37/113 (32%), Positives = 59/113 (52%), Gaps = 25/113 (22%)

Query: 139 NEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
              P+ GNT++V G  ++   LR  FS FG I  +SM+  +   FV              
Sbjct: 9   RRAPRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFV-------------- 54

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASST 251
                  T++  ES+D+A+ E+NGT V+ V+LKV++AR+Q    P+ D+  S+
Sbjct: 55  -------TYEKMESADQAVAELNGTQVESVQLKVNIARKQ----PMLDSGPSS 96

>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 = 68.1 bits (167), Expect = 1e-14
 Identities = 26/103 (25%), Positives = 45/103 (43%), Gaps = 23/103 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            N+      T++  G  +G++++ +RQ FS FG+I  +   V   +G+            
Sbjct: 18  VNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIR--VFPEKGY------------ 63

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   FV F + ES+  AI  VNGT ++G  +K    +  
Sbjct: 64  -------SFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES 99

>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 = 68.0 bits (167), Expect = 1e-14
 Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 23/100 (23%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGRGFVTFDSPESSDKAIT 197
           P G   IF++     I  + L   FS FG I  C V  +    +G+              
Sbjct: 2   PLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGY-------------- 47

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                GFV F++ E++++AI ++NG  +   K+ V   + 
Sbjct: 48  -----GFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS 82

>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 = 67.6 bits (166), Expect = 1e-14
 Identities = 36/102 (35%), Positives = 51/102 (50%), Gaps = 24/102 (23%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG--RGFVTFDSPESSDKA 195
            + +  N ++V+    GI +E LR+ FS FG I S  + +E G  +GF            
Sbjct: 11  TRYQVVN-LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGF------------ 57

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                  GFV F SPE + KA+TE+NG  V    L V+LA+R
Sbjct: 58  -------GFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQR 92

>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 = 68.1 bits (167), Expect = 1e-14
 Identities = 27/106 (25%), Positives = 43/106 (40%), Gaps = 26/106 (24%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR--GFVTFDSPES 191
             E P+G N +F+        ++ L Q F  FG +    V ++ +      F        
Sbjct: 19  QKEGPEGAN-LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCF-------- 69

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                      GFV++D+P S+  AI  +NG  +   +LKV L R 
Sbjct: 70  -----------GFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS 104

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 66.8 bits (164), Expect = 2e-14
 Identities = 22/103 (21%), Positives = 42/103 (40%), Gaps = 23/103 (22%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESSDK 194
           +    G   IFV+      + + L+  F+  G +    +++E G+  G            
Sbjct: 2   SSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGC----------- 50

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                   G V F+SPE +++A   +NG  + G ++ V + R 
Sbjct: 51  --------GVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN 85

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 67.4 bits (165), Expect = 2e-14
 Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 26/103 (25%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR--GFVTFDSPESSD 193
           E P+G N +F+       ++  L   F  FG +    V ++ +      F          
Sbjct: 36  EGPEGCN-LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCF---------- 84

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                    GFV+FD+P+S+  AI  +NG  V   +LKV L +
Sbjct: 85  ---------GFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLKK 118

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

 Score = 66.2 bits (162), Expect = 4e-14
 Identities = 16/103 (15%), Positives = 28/103 (27%), Gaps = 23/103 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
               P    T ++       +E  L   F  FG I          +G             
Sbjct: 20  IRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKH--YPEKGC------------ 65

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   F+ +D+ E +   I  +     QG  L+    + +
Sbjct: 66  -------CFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKER 101

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 65.0 bits (159), Expect = 1e-13
 Identities = 27/106 (25%), Positives = 43/106 (40%), Gaps = 23/106 (21%)

Query: 138 PNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVS--MEVEKGRGFVTFDSPESSD 193
             E       + V        +  LRQ F  FGKI  V         +GF          
Sbjct: 22  NTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGF---------- 71

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQL 239
                    GFVTF++   +D+A  +++GT V+G K++V+ A  ++
Sbjct: 72  ---------GFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV 108

>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 = 63.4 bits (155), Expect = 3e-13
 Identities = 20/103 (19%), Positives = 39/103 (37%), Gaps = 23/103 (22%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           +       ++V+      SEE + + F+           V+K R +              
Sbjct: 10  DTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVE--RVKKIRDY-------------- 53

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
                 FV F + E + +A+  +NG  + G  ++V+LA+   K
Sbjct: 54  -----AFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK 91

>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 = 63.4 bits (155), Expect = 6e-13
 Identities = 17/108 (15%), Positives = 34/108 (31%), Gaps = 25/108 (23%)

Query: 135 RLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSP 189
           ++A  ++    N +++      + E+ L      FG++ S   +    G  RG       
Sbjct: 16  QMAKQQEQDPTN-LYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGV------ 68

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                        GF   +S E  +  I   NG  ++      +    
Sbjct: 69  -------------GFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEP 103

>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 = 62.7 bits (153), Expect = 7e-13
 Identities = 20/102 (19%), Positives = 40/102 (39%), Gaps = 23/102 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
             +     + +FV      I+EE +R+ F  +GK   V +  +KG GF+           
Sbjct: 8   GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFI----------- 56

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                       ++   ++ A  E++   ++G +L+V  A  
Sbjct: 57  ----------RLETRTLAEIAKVELDNMPLRGKQLRVRFACH 88

>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 = 62.3 bits (152), Expect = 8e-13
 Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 28/111 (25%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG-----RGFVTFDSPESS 192
             G + +F++      +EE L+  FS  G I  C++S +  K       GF         
Sbjct: 2   SSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGF--------- 52

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
                     GFV +  PE + KA+ ++ G  V G KL+V ++ R  K A 
Sbjct: 53  ----------GFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISERATKPAS 93

>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 = 62.7 bits (153), Expect = 1e-12
 Identities = 21/106 (19%), Positives = 41/106 (38%), Gaps = 24/106 (22%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGR--GFVTFDSPES 191
              +  + G+T+FV      +  + L++ FS+ G +     +E + G+  G         
Sbjct: 7   GALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGI-------- 58

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                      G VTF+    + +AI+  NG  +    + V +  R
Sbjct: 59  -----------GTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDER 93

>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 = 62.3 bits (152), Expect = 1e-12
 Identities = 27/103 (26%), Positives = 42/103 (40%), Gaps = 23/103 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS--MEVEKGRGFVTFDSPESSD 193
            +E       + V        +  LRQ F  FGKI  V         +GF          
Sbjct: 8   NSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGF---------- 57

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                    GFVTF++   +D+A  +++GT V+G K++V+ A 
Sbjct: 58  ---------GFVTFENSADADRAREKLHGTVVEGRKIEVNNAT 91

>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 = 64.7 bits (158), Expect = 1e-12
 Identities = 21/133 (15%), Positives = 48/133 (36%), Gaps = 27/133 (20%)

Query: 109 LKVSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSI 166
           LK+  R  +D +            +  +     P   + +F+ G    ++++ +++  + 
Sbjct: 80  LKI--RRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTS 137

Query: 167 FGKI--CSVSMEVEKG--RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG 222
           FG +   ++  +   G  +G+                    F  +     +D+AI  +NG
Sbjct: 138 FGPLKAFNLVKDSATGLSKGY-------------------AFCEYVDINVTDQAIAGLNG 178

Query: 223 THVQGVKLKVSLA 235
             +   KL V  A
Sbjct: 179 MQLGDKKLLVQRA 191

>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 = 49.3 bits (118), Expect = 2e-07
 Identities = 17/134 (12%), Positives = 41/134 (30%), Gaps = 35/134 (26%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEV-----------EKGRGFVTFDSPESS 192
             ++V     GI+EE +   F+   ++  ++              +K   F+ F S + +
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTT 252
            +A+                        +G   QG  LK+        +  +++  S   
Sbjct: 65  TQAM----------------------AFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYV 102

Query: 253 WSAIACHQSLKGNH 266
              ++       + 
Sbjct: 103 PGVVSTVVPDSAHK 116

>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 = 63.7 bits (156), Expect = 1e-12
 Identities = 21/106 (19%), Positives = 38/106 (35%), Gaps = 25/106 (23%)

Query: 138 PNEKPKGGNTIFVQ--GAGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPES 191
                     +FV      + +E LR  F  F       V  +++ G  RG+        
Sbjct: 80  QQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGY-------- 131

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                      GFV+F S + +  A+  + G  + G  L+++ A +
Sbjct: 132 -----------GFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166

>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 = 48.3 bits (116), Expect = 3e-07
 Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 22/86 (25%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEK---GRGFVTFDSPESSDKAITDDCARGFVTFDSPE 211
           I+E+ L+Q+F + G I ++ + ++K      +                    FV +    
Sbjct: 12  ITEDILKQYFQVGGPIANIKIMIDKNNKNVNY-------------------AFVEYHQSH 52

Query: 212 SSDKAITEVNGTHVQGVKLKVSLARR 237
            ++ A+  +NG  ++   +K++ A +
Sbjct: 53  DANIALQTLNGKQIENNIVKINWAFQ 78

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

 Score = 64.3 bits (157), Expect = 2e-12
 Identities = 27/151 (17%), Positives = 59/151 (39%), Gaps = 38/151 (25%)

Query: 93  AIQPEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQG 152
           A++  +S  +  +   +KV +        P+  +             E+ +  N I+V  
Sbjct: 86  ALEQMNSVMLGGRN--IKVGRPSNIGQAQPIIDQ-----------LAEEARAFNRIYVAS 132

Query: 153 --AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPESSDKAITDDCARGFVT 206
               +S++ ++  F  FGKI   +++ +   G  +G+                   GF+ 
Sbjct: 133 VHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGY-------------------GFIE 173

Query: 207 FDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
           ++  +SS  A++ +N   + G  L+V  A  
Sbjct: 174 YEKAQSSQDAVSSMNLFDLGGQYLRVGKAVT 204

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

 Score = 57.7 bits (140), Expect = 4e-10
 Identities = 23/128 (17%), Positives = 47/128 (36%), Gaps = 29/128 (22%)

Query: 135 RLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDS 188
                      + ++V      + E+ +RQ F+ FG I S+ M  +      +GF     
Sbjct: 18  AAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGF----- 72

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA----RRQLKVAPI 244
                          FV ++ PE++  A+ ++N   + G  +KV       + Q  +  +
Sbjct: 73  --------------AFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQL 118

Query: 245 NDAASSTT 252
            + A +  
Sbjct: 119 AEEARAFN 126

>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 = 63.0 bits (154), Expect = 3e-12
 Identities = 16/102 (15%), Positives = 36/102 (35%), Gaps = 22/102 (21%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            ++K +   T+  +     I+E+ L++ F    +I  V  +  K +G             
Sbjct: 92  DSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGI------------ 138

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                   ++ F S   ++K + E  G  + G  + +     
Sbjct: 139 -------AYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE 173

>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 = 54.5 bits (132), Expect = 3e-09
 Identities = 18/109 (16%), Positives = 36/109 (33%), Gaps = 29/109 (26%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGR----GFVTFDSP 189
               +      +F+       S   L+   S       ++ ++V  G     G+V F+S 
Sbjct: 5   VEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESA 64

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           E  +KA+                      E+ G  V G ++K+   + +
Sbjct: 65  EDLEKAL----------------------ELTGLKVFGNEIKLEKPKGR 91

>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 = 63.5 bits (155), Expect = 4e-12
 Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 23/104 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGRGFVTFDSPESSD 193
           P+ +  G   IF++     I  + L   FS FG I  C V  +    +G+          
Sbjct: 96  PSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGY---------- 145

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                    GFV F++ E++++AI ++NG  +   K+ V   + 
Sbjct: 146 ---------GFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS 180

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

 Score = 47.3 bits (113), Expect = 1e-06
 Identities = 15/88 (17%), Positives = 35/88 (39%), Gaps = 23/88 (26%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEK----GRGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           ++E  L + FS  G I S+ +  +       G+                    +V F  P
Sbjct: 27  VTEAMLYEKFSPAGPILSIRVCRDMITRRSLGY-------------------AYVNFQQP 67

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             +++A+  +N   ++G  +++  ++R 
Sbjct: 68  ADAERALDTMNFDVIKGKPVRIMWSQRD 95

>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 = 59.8 bits (146), Expect = 4e-12
 Identities = 24/101 (23%), Positives = 43/101 (42%), Gaps = 25/101 (24%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDSPESSDKA 195
             G + ++++G   G +++ L +    +GKI S    ++K     +G+            
Sbjct: 2   SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGY------------ 49

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                  GFV FDSP ++ KA+T +  + VQ    K S   
Sbjct: 50  -------GFVDFDSPSAAQKAVTALKASGVQAQMAKQSGPS 83

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

 Score = 60.8 bits (148), Expect = 5e-12
 Identities = 24/103 (23%), Positives = 36/103 (34%), Gaps = 25/103 (24%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
             E       +FV+     + E  L + F  FG +  V +      GF            
Sbjct: 24  RQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL----NGF------------ 67

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   FV F+  ES+ KAI EV+G       L+V  ++  
Sbjct: 68  -------AFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLP 103

>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 = 60.0 bits (146), Expect = 5e-12
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 22/92 (23%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           T++V G    I+E  LR HF  FG+I ++++   +   F+ F + ++++ A         
Sbjct: 14  TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEK------ 67

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                           N   V G +L V   R
Sbjct: 68  --------------SFNKLIVNGRRLNVKWGR 85

>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 = 61.5 bits (150), Expect = 8e-12
 Identities = 18/107 (16%), Positives = 41/107 (38%), Gaps = 25/107 (23%)

Query: 135 RLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDS 188
           R    +   G + +F+ G    ++++ +++  + FG +   ++  +   G  +G+     
Sbjct: 84  RPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGY----- 138

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                          F  +     +D+AI  +NG  +   KL V  A
Sbjct: 139 --------------AFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171

>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 = 48.4 bits (116), Expect = 3e-07
 Identities = 16/105 (15%), Positives = 33/105 (31%), Gaps = 35/105 (33%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEV-----------EKGRGFVTFDSPESSD 193
            ++V     GI+EE +   F+   ++  ++              +K   F+ F S + + 
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           +A+                        +G   QG  LK+      
Sbjct: 66  QAM----------------------AFDGIIFQGQSLKIRRPHDY 88

>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 = 60.9 bits (148), Expect = 8e-12
 Identities = 29/105 (27%), Positives = 43/105 (40%), Gaps = 25/105 (23%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS--MEVEKGR--GFVTFDSPES 191
            N +P     + V      + E  LRQ F  +G I SV    + E  +  G+        
Sbjct: 35  MNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGY-------- 86

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                      GFV F S  S+ +AI  +NG ++   +LKV+LA 
Sbjct: 87  -----------GFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA 120

>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 = 59.6 bits (145), Expect = 8e-12
 Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 25/95 (26%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             +FV+     ++EE L + FS FGK+  V       + +                    
Sbjct: 12  KVLFVRNLANTVTEEILEKAFSQFGKLERVKKL----KDY-------------------A 48

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           F+ FD  + + KA+ E+NG  ++G  +++  A+  
Sbjct: 49  FIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPP 83

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

 Score = 59.5 bits (145), Expect = 9e-12
 Identities = 25/101 (24%), Positives = 41/101 (40%), Gaps = 26/101 (25%)

Query: 144 GGNTIFVQG--AGISEEFLRQHFSIFGKICS---VSMEVEKG--RGFVTFDSPESSDKAI 196
           G + IF+      I E+ L   FS FG I     +  + + G  +G+             
Sbjct: 4   GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGY------------- 50

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                  F+ F S ++SD AI  +NG ++    + VS A +
Sbjct: 51  ------AFINFASFDASDAAIEAMNGQYLCNRPITVSYAFK 85

>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 = 59.2 bits (144), Expect = 1e-11
 Identities = 26/104 (25%), Positives = 38/104 (36%), Gaps = 24/104 (23%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM---EVEKGRGFVTFDSPES 191
               + +   T+FV    A + EE L + F   G +  V++      K + F        
Sbjct: 8   MFPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSF-------- 59

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                      GFV F  PES   AI  +NG  + G  + VS  
Sbjct: 60  -----------GFVCFKHPESVSYAIALLNGIRLYGRPINVSGP 92

>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 = 62.7 bits (153), Expect = 1e-11
 Identities = 13/110 (11%), Positives = 33/110 (30%), Gaps = 25/110 (22%)

Query: 134 TRLAPNEKPKGGNTIFVQG--AGISE-EFLRQHFSIFGKICSVSM---EVEKGRGFVTFD 187
                         + V     G ++ + L +  S         +   +  + +GF    
Sbjct: 173 DAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGF---- 228

Query: 188 SPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                            + +++ E +++A  + +G  + G  L+VS    
Sbjct: 229 ---------------AVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAP 263

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

 Score = 57.7 bits (140), Expect = 8e-10
 Identities = 15/106 (14%), Positives = 35/106 (33%), Gaps = 24/106 (22%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
              + +    I ++G    ++ + +    S +         V+K +G             
Sbjct: 15  TERQFRNRRKILIRGLPGDVTNQEVHDLLSDYE---LKYCFVDKYKGT------------ 59

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKV 241
                   FVT  + E ++ AI   + + ++  +L V L      +
Sbjct: 60  -------AFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALL 98

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

 Score = 53.8 bits (130), Expect = 2e-08
 Identities = 11/88 (12%), Positives = 28/88 (31%), Gaps = 23/88 (26%)

Query: 155 ISEEFLRQHFSIFGKICSV----SMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           ++++   +    FG +       S    + +G+                   GF  +   
Sbjct: 107 LTQQQFEELVRPFGSLERCFLVYSERTGQSKGY-------------------GFAEYMKK 147

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           +S+ +A +++ G  +    L V      
Sbjct: 148 DSAARAKSDLLGKPLGPRTLYVHWTDAG 175

>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 = 60.7 bits (148), Expect = 2e-11
 Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 28/106 (26%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPES 191
             E  K  N ++V      I+++ L   F  +G I   ++  +   G  RG         
Sbjct: 83  GGESIKDTN-LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGV-------- 133

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGV--KLKVSLA 235
                       FV ++  E + +AI+ +N    +G    L V LA
Sbjct: 134 -----------AFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 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 = 56.8 bits (138), Expect = 4e-10
 Identities = 21/90 (23%), Positives = 33/90 (36%), Gaps = 23/90 (25%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           +++  L   F   G I +  +  +       G+                    FV F S 
Sbjct: 15  MTDRELYALFRAIGPINTCRIMRDYKTGYSYGY-------------------AFVDFTSE 55

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
             S +AI  +NG  V+  +LKVS AR   +
Sbjct: 56  MDSQRAIKVLNGITVRNKRLKVSYARPGGE 85

>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 = 60.3 bits (147), Expect = 2e-11
 Identities = 23/107 (21%), Positives = 42/107 (39%), Gaps = 28/107 (26%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPE 190
             +   +  N ++V G    ++++ L Q FS +G+I    + ++   G  RG        
Sbjct: 81  PSSASIRDAN-LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGV------- 132

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGV--KLKVSLA 235
                       GF+ FD    +++AI  +NG    G    + V  A
Sbjct: 133 ------------GFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 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 = 53.3 bits (129), Expect = 6e-09
 Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 23/90 (25%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEK----GRGFVTFDSPESSDKAITDDCARGFVTFDSP 210
           +++E  R  F   G+I S  +  +K      G+                   GFV +  P
Sbjct: 14  MTQEEFRSLFGSIGEIESCKLVRDKITGQSLGY-------------------GFVNYIDP 54

Query: 211 ESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
           + ++KAI  +NG  +Q   +KVS AR    
Sbjct: 55  KDAEKAINTLNGLRLQTKTIKVSYARPSSA 84

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

 Score = 58.6 bits (142), Expect = 3e-11
 Identities = 14/102 (13%), Positives = 28/102 (27%), Gaps = 25/102 (24%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKA 195
                 +        + E FL+     +G++  V +       K  G             
Sbjct: 3   QIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGL------------ 50

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                    V F S   + + +  ++ T V G  +   L  +
Sbjct: 51  -------ARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIK 85

>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 = 57.6 bits (140), Expect = 4e-11
 Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 28/108 (25%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQH----FSIFGKICSVS-MEVEKGRGFVTFDSPE 190
           P  +P   +TI++      I ++ L++     FS FG+I  +      K RG        
Sbjct: 3   PETRPN--HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ------- 53

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                        FV F    S+  A+  + G       +++  A+  
Sbjct: 54  ------------AFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTD 89

>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 = 57.6 bits (140), Expect = 5e-11
 Identities = 19/102 (18%), Positives = 38/102 (37%), Gaps = 25/102 (24%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           K      ++V G     S   L + F  FG I ++  +  KG  F               
Sbjct: 13  KANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTI--DHVKGDSF--------------- 55

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQG--VKLKVSLARRQ 238
                ++ ++S +++  A  ++ G  + G   +L+V  A+  
Sbjct: 56  ----AYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG 93

>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 = 57.2 bits (139), Expect = 5e-11
 Identities = 18/104 (17%), Positives = 37/104 (35%), Gaps = 25/104 (24%)

Query: 138 PNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
                   +T++V      ++   L + FS +GK+  V++    +  K +G         
Sbjct: 9   SGGLAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGV-------- 60

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                       F+ F   +S+      +N   + G  +K S+A
Sbjct: 61  -----------AFILFLDKDSAQNCTRAINNKQLFGRVIKASIA 93

>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 = 57.2 bits (139), Expect = 6e-11
 Identities = 24/106 (22%), Positives = 40/106 (37%), Gaps = 25/106 (23%)

Query: 138 PNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
               P     + V G     +E  LR+ FS +G I  VS+    +  + RGF        
Sbjct: 8   NRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGF-------- 59

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                       FV F++ + + +A    NG  + G +++VS    
Sbjct: 60  -----------AFVYFENVDDAKEAKERANGMELDGRRIRVSGPSS 94

>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 = 56.4 bits (137), Expect = 8e-11
 Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 25/97 (25%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDD 199
             ++V G    + ++ L   F  FG I  + +    E EK RGF                
Sbjct: 8   RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGF---------------- 51

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
               FV F+  E +  AI  +N + + G  ++V+LA+
Sbjct: 52  ---AFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 85

>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 = 61.8 bits (149), Expect = 9e-11
 Identities = 38/260 (14%), Positives = 85/260 (32%), Gaps = 53/260 (20%)

Query: 30  LKRPIEAKDAREVARKLLKSGAINPIVRPPKRCEQEGF-------KRPRGLERKLTETDR 82
                + KD +++ + +L    I+ I+                  K+   +++ + E  R
Sbjct: 29  FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR 88

Query: 83  STVSAYQPF--SAIQPEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTRL---A 137
                Y  F  S I+ E  +P      +++   R  ND++      V       +L    
Sbjct: 89  IN---Y-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144

Query: 138 PNEKPKGGNTIFVQG-AGISEEFLRQHFSIFGKICSV-------SMEVEKGRGF----VT 185
              +P     + + G  G             GK  +        S +V+    F    + 
Sbjct: 145 LELRPAKN--VLIDGVLG------------SGK--TWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 186 F---DSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVA 242
               +SPE+  + +     +  +  +    SD +       H    +L+  L  +  +  
Sbjct: 189 LKNCNSPETVLEMLQKLLYQ--IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 243 PI--NDAASSTTWSA--IAC 258
            +   +  ++  W+A  ++C
Sbjct: 247 LLVLLNVQNAKAWNAFNLSC 266

>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 = 60.0 bits (146), Expect = 1e-10
 Identities = 26/132 (19%), Positives = 55/132 (41%), Gaps = 40/132 (30%)

Query: 124 DKKVYGESLLTRLA-PNEKPKGGNTIFVQGAGI----------SEEFLRQHFSIFGKICS 172
             K+ G +L+T+++ P EK K  ++  ++G  I           E  LR+ F  FG I  
Sbjct: 181 GLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEK 240

Query: 173 VSM-------EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV 225
           +++              F+ F++ +S+++A+                      ++N + +
Sbjct: 241 INIPAGQKEHSFNNCCAFMVFENKDSAERAL----------------------QMNRSLL 278

Query: 226 QGVKLKVSLARR 237
              ++ VSLA +
Sbjct: 279 GNREISVSLADK 290

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

 Score = 53.1 bits (128), Expect = 3e-08
 Identities = 15/100 (15%), Positives = 34/100 (34%), Gaps = 24/100 (24%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGRGFVTFDSPESSD 193
              + +   T+ V+      ++  + ++F   G I    V+  ++K   F          
Sbjct: 34  ALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRF---------- 83

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVS 233
                      + F   + +  AIT+ +   V   ++ VS
Sbjct: 84  ---------ARIEFARYDGALAAITKTHKV-VGQNEIIVS 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 = 51.1 bits (123), Expect = 1e-07
 Identities = 12/101 (11%), Positives = 30/101 (29%), Gaps = 25/101 (24%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICS----VSMEVEKGRGFVTFDSPESSDKAITDD 199
            T+++       ++  +R        +       S+     R F                
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRF---------------- 161

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
               ++   S E +   + ++NG  ++G  L   ++    K
Sbjct: 162 ---AYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEK 199

>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 = 57.0 bits (138), Expect = 1e-10
 Identities = 24/117 (20%), Positives = 45/117 (38%), Gaps = 33/117 (28%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI----------CSVSMEVEKGR--GF 183
             ++    + I+VQG    ++ + L   F   G +            + ++ E G+  G 
Sbjct: 8   DPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGD 67

Query: 184 VTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
                                V+++ P ++  A+   +G   QG KLKVSLAR++  
Sbjct: 68  -------------------ATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 105

>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 = 56.6 bits (137), Expect = 1e-10
 Identities = 23/98 (23%), Positives = 40/98 (40%), Gaps = 24/98 (24%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE---KGRGFVTFDSPESSDKAITDD 199
              +F+ G     +E+ L+  F   G I  V +  +   K RGF                
Sbjct: 7   PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGF---------------- 50

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
               F+TF++P  +  A  ++NG  + G  +KV  A++
Sbjct: 51  ---AFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKK 85

>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 = 56.1 bits (136), Expect = 2e-10
 Identities = 24/106 (22%), Positives = 41/106 (38%), Gaps = 25/106 (23%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPE 190
             +        ++V G    + ++ L   F  FG I  + +    E EK RGF       
Sbjct: 4   GSSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGF------- 56

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                        FV F+  E +  AI  +N + + G  ++V+LA+
Sbjct: 57  ------------AFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK 90

>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 = 55.7 bits (135), Expect = 2e-10
 Identities = 19/105 (18%), Positives = 38/105 (36%), Gaps = 25/105 (23%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
             K    + V       + + LR  F  +G +    +E +  + +               
Sbjct: 6   SGKASTKLHVGNISPTCTNQELRAKFEEYGPV----IECDIVKDY--------------- 46

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
                FV  +  E + +AI  ++ T  QG ++ V L+  +L+ A 
Sbjct: 47  ----AFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAS 87

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

 Score = 55.2 bits (134), Expect = 2e-10
 Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 25/98 (25%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVS----MEVEKGRGFVTFDSPESSDKAITDD 199
             +FV      + +E LR  F  F    S      M+    RG+                
Sbjct: 2   FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGY---------------- 45

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
              GFV+F S + +  A+  + G  + G  L+++ A +
Sbjct: 46  ---GFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 80

>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 = 55.3 bits (134), Expect = 3e-10
 Identities = 28/104 (26%), Positives = 40/104 (38%), Gaps = 25/104 (24%)

Query: 139 NEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESS 192
           +    G   +FV+      SEE L + FS +G +  +        +K +GF         
Sbjct: 2   SSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGF--------- 52

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                      FVTF  PE + KA  EV+G   QG  L V  + 
Sbjct: 53  ----------AFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST 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 = 55.8 bits (135), Expect = 4e-10
 Identities = 17/107 (15%), Positives = 38/107 (35%), Gaps = 24/107 (22%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG---RGFVTFDSPES 191
              E  + G  + V     G+S+  +++ F+ FG +   +++ ++     G         
Sbjct: 27  GGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGT-------- 78

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                        V F+    + KA+ +  G  + G  + + L   Q
Sbjct: 79  -----------ADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 114

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 55.5 bits (134), Expect = 4e-10
 Identities = 28/118 (23%), Positives = 42/118 (35%), Gaps = 33/118 (27%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI----------CSVSMEVEKGR--GFVT 185
           +     NTIFVQG    ++ E +  +F   G I           ++  + E G+  G   
Sbjct: 2   QDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGE-- 59

Query: 186 FDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
                              V+FD P S+  AI   +G    G  +KVS A R+     
Sbjct: 60  -----------------ATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATRRADFNR 100

>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 = 57.2 bits (138), Expect = 4e-10
 Identities = 28/161 (17%), Positives = 53/161 (32%), Gaps = 33/161 (20%)

Query: 93  AIQPEDSEPVDSKPKFLKVSKRET-----NDDRTPVDKKVYGESLLTRLAPNEKPKGGN- 146
           A+   +   +  KP  + +SK +               K YG S L R          N 
Sbjct: 57  AMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNI 116

Query: 147 -----TIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDD 199
                T+ +      +SEE L+  FS  G +       +K R                  
Sbjct: 117 FPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKM---------------- 160

Query: 200 CARGFVTFDSPESSDKAITEVNGTHV-QGVKLKVSLARRQL 239
                +   S E + +A+ +++   + +   L+VS ++  +
Sbjct: 161 ---ALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKSTI 198

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 49.5 bits (118), Expect = 2e-07
 Identities = 15/103 (14%), Positives = 36/103 (34%), Gaps = 23/103 (22%)

Query: 144 GGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           G + + V       ++ + L   F ++G +  V                    K + +  
Sbjct: 2   GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRV--------------------KILFNKK 41

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
               V       +  A++ +NG  + G  ++++L++ Q    P
Sbjct: 42  ENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLP 84

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

 Score = 54.5 bits (132), Expect = 5e-10
 Identities = 20/108 (18%), Positives = 40/108 (37%), Gaps = 26/108 (24%)

Query: 136 LAPNEKPKGGNTIFV---QGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESS 192
           +         + +F+       +S+E L + FS +G I  ++++      F         
Sbjct: 1   MTEMHNIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK----NAF--------- 47

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
                     GF+ FD+P+S   AI   +     G KL + ++    +
Sbjct: 48  ----------GFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNAR 85

>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 = 54.1 bits (131), Expect = 6e-10
 Identities = 19/102 (18%), Positives = 37/102 (36%), Gaps = 25/102 (24%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           +        IFV    A  + + LR  F   G++    +E +  + +             
Sbjct: 3   SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRV----IECDVVKDY------------- 45

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                  FV  +    +  AI ++NG  V+G ++ V L+ + 
Sbjct: 46  ------AFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKG 81

>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 = 58.0 bits (139), Expect = 6e-10
 Identities = 21/109 (19%), Positives = 38/109 (34%), Gaps = 28/109 (25%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQH----FSIFGKICSVS-MEVEKGRGFVTFDSP 189
            P  +P   +TI++      I ++ L++     FS FG+I  +      K RG       
Sbjct: 3   VPETRPN--HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQ------ 54

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                         FV F    S+  A+  + G       +++  A+  
Sbjct: 55  -------------AFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTD 90

>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 = 47.9 bits (113), Expect = 1e-06
 Identities = 16/85 (18%), Positives = 27/85 (31%), Gaps = 21/85 (24%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
             +E  L   F+ F     V + V                          FV FD+   +
Sbjct: 218 ETNELMLSMLFNQFPGFKEVRL-VPGRHDI-------------------AFVEFDNEVQA 257

Query: 214 DKAITEVNGTHV-QGVKLKVSLARR 237
             A   + G  + Q   +K+S A++
Sbjct: 258 GAARDALQGFKITQNNAMKISFAKK 282

>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 = 54.1 bits (131), Expect = 7e-10
 Identities = 14/98 (14%), Positives = 39/98 (39%), Gaps = 26/98 (26%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSM-----EVEKGRGFVTFDSPESSDKAITD 198
             + +      ++++ + + FS +GKI  + M          +G+               
Sbjct: 5   TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGY--------------- 49

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                +V F++P+ ++KA+  ++G  + G ++  +   
Sbjct: 50  ----AYVEFENPDEAEKALKHMDGGQIDGQEITATAVL 83

>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 = 54.6 bits (132), Expect = 7e-10
 Identities = 18/99 (18%), Positives = 35/99 (35%), Gaps = 24/99 (24%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGR--GFVTFDSPESSDKAI 196
            + G  + V     G+S+  +++ F+ FG +   +      GR  G              
Sbjct: 26  VETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGT------------- 72

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                   V F+    + KA+ + NG  + G  + + L 
Sbjct: 73  ------ADVHFERKADALKAMKQYNGVPLDGRPMNIQLV 105

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 53.9 bits (130), Expect = 8e-10
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 3/53 (5%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR-GFVTFDSPESSDKAI 196
           ++FV G   G+    L ++F  FG + SV M+ +KG    V      + +  +
Sbjct: 10  SVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVL 62

>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 = 54.6 bits (132), Expect = 9e-10
 Identities = 17/100 (17%), Positives = 35/100 (35%), Gaps = 25/100 (25%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVS----MEVEKGRGFVTFDSPESSDKAITD 198
              ++++     ++E  L   F+ F +         M   + RG                
Sbjct: 25  NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQ--------------- 69

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                F+TF + E + +A+  VNG  + G  L +   + +
Sbjct: 70  ----AFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNK 105

>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 = 54.2 bits (131), Expect = 9e-10
 Identities = 21/107 (19%), Positives = 34/107 (31%), Gaps = 23/107 (21%)

Query: 134 TRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM--EVEKGRGFVTFDSP 189
                 E      T++V      ++E  + Q FS  G   S  M  E      +      
Sbjct: 4   GSSGMMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPY------ 57

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                         FV F     +  A+  +NG  + G ++KV+ A 
Sbjct: 58  -------------CFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT 91

>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 = 55.6 bits (135), Expect = 9e-10
 Identities = 23/107 (21%), Positives = 41/107 (38%), Gaps = 26/107 (24%)

Query: 135 RLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDS 188
           R  P ++      IFV G    +  +   + FS +G I    + ++K     RGF     
Sbjct: 77  RAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGF----- 131

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                         GFVT+DS ++ D+   +      +  K+++  A
Sbjct: 132 --------------GFVTYDSADAVDRVC-QNKFIDFKDRKIEIKRA 163

>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 = 44.1 bits (105), Expect = 1e-05
 Identities = 15/60 (25%), Positives = 30/60 (50%), Gaps = 8/60 (13%)

Query: 147 TIFVQGAG--ISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITD 198
            +F+ G     +E+ LR++F  +G +    +  +   GR    GF++F+ P S D+ +  
Sbjct: 5   KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64

>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 = 57.0 bits (138), Expect = 1e-09
 Identities = 20/121 (16%), Positives = 44/121 (36%), Gaps = 25/121 (20%)

Query: 123 VDKKVYGESLLTRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG 180
           +   +  +S L      +       +FV      I+EE  ++ F  +G+   V +  ++G
Sbjct: 2   MGFTIDIKSFLKP--GEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRG 59

Query: 181 RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
            GF+                       +S   ++ A  E++GT ++   L++  A     
Sbjct: 60  FGFI---------------------RLESRTLAEIAKAELDGTILKSRPLRIRFATHGAA 98

Query: 241 V 241
           +
Sbjct: 99  L 99

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

 Score = 52.4 bits (126), Expect = 4e-08
 Identities = 19/94 (20%), Positives = 29/94 (30%), Gaps = 25/94 (26%)

Query: 135 RLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSP 189
            L       G   + V+     +S E L Q FS FG +     +  ++G   G       
Sbjct: 87  PLRIRFATHGAA-LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGK------ 139

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGT 223
                        GFV F +   + KA+      
Sbjct: 140 -------------GFVEFAAKPPARKALERCGDG 160

>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 = 53.5 bits (129), Expect = 1e-09
 Identities = 27/112 (24%), Positives = 40/112 (35%), Gaps = 33/112 (29%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI----------CSVSMEVEKGR--GF 183
            +      NTIFVQG    ++ E +  +F   G I           ++  + E G+  G 
Sbjct: 6   HHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGE 65

Query: 184 VTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                                V+FD P S+  AI   +G    G  +KVS A
Sbjct: 66  -------------------ATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA 98

>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 = 53.4 bits (129), Expect = 1e-09
 Identities = 17/102 (16%), Positives = 37/102 (36%), Gaps = 22/102 (21%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
             ++K +   T+  +     I+E+ L++ F    +I  VS +  K +G            
Sbjct: 8   CTSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVS-QDGKSKGI----------- 55

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                    ++ F S   ++K + E  G  + G  + +    
Sbjct: 56  --------AYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG 89

>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 = 53.4 bits (129), Expect = 2e-09
 Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 26/103 (25%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE---KGRGFVTFDSPESSDK 194
           E     NT+FV G    + E  +R  F+ +G +  V +  +     +G+           
Sbjct: 4   EGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGY----------- 52

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                   GFV+F +     K +   +  +  G KLK+  A R
Sbjct: 53  --------GFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIR 85

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

 Score = 53.2 bits (128), Expect = 2e-09
 Identities = 15/100 (15%), Positives = 33/100 (33%), Gaps = 20/100 (20%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           K +    + ++     +  E L      +G + S                          
Sbjct: 11  KRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET---------------- 54

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             A   VT+ S + + +A+ ++NG  ++   LKV+    +
Sbjct: 55  --AVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE 92

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 54.4 bits (131), Expect = 2e-09
 Identities = 24/104 (23%), Positives = 39/104 (37%), Gaps = 25/104 (24%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
                     ++V G    + ++ L   F  FG I  + +    E EK RGF        
Sbjct: 56  SGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGF-------- 107

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                       FV F+  E +  AI  +N + + G  ++V+LA
Sbjct: 108 -----------AFVEFELAEDAAAAIDNMNESELFGRTIRVNLA 140

>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 = 52.9 bits (128), Expect = 2e-09
 Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 25/99 (25%)

Query: 144 GGNTIFVQGA--GISEEFLRQHFSIFGKICSVS--MEVEKGR--GFVTFDSPESSDKAIT 197
           G + ++V      I+E+ LR  F  FGKI ++    + + GR  G+              
Sbjct: 4   GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGY-------------- 49

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                GF+TF   E + +A+ ++NG  + G  ++V    
Sbjct: 50  -----GFITFSDSECARRALEQLNGFELAGRPMRVGHVT 83

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 22/106 (20%), Positives = 37/106 (34%), Gaps = 25/106 (23%)

Query: 138 PNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
                 G  T+ V       S + LR+ F  +G++  V +      +  RGF        
Sbjct: 6   SGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGF-------- 57

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                       FV F     +  A   ++G  + G +L+V +AR 
Sbjct: 58  -----------AFVRFHDRRDAQDAEAAMDGAELDGRELRVQVARY 92

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 11/97 (11%), Positives = 38/97 (39%), Gaps = 24/97 (24%)

Query: 145 GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKG---RGFVTFDSPESSDKAITDD 199
            + +F+ G     ++E L +     G +  + +   +    +G                 
Sbjct: 17  KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGL---------------- 60

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
               +V +++   + +A+ +++G  ++   +KV+++ 
Sbjct: 61  ---AYVEYENESQASQAVMKMDGMTIKENIIKVAISN 94

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 23/107 (21%), Positives = 37/107 (34%), Gaps = 25/107 (23%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
           PN +     TI V        E  L++ F  FG I  + +       + +GF        
Sbjct: 8   PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGF-------- 59

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                       F++F   E + +AI  V+G     + L V  A+  
Sbjct: 60  -----------AFISFHRREDAARAIAGVSGFGYDHLILNVEWAKPS 95

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 25/97 (25%)

Query: 146 NTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDD 199
             +FV G     +E+ L Q FS +G+I  V +    E ++ RGF                
Sbjct: 13  GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGF---------------- 56

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
              GFVTF++ + +  A+  +NG  V G +++V  A 
Sbjct: 57  ---GFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG 90

>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 = 52.8 bits (127), Expect = 3e-09
 Identities = 15/97 (15%), Positives = 35/97 (36%), Gaps = 26/97 (26%)

Query: 145 GNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
            + +F+     A + +  +   FS +G++   S+     +G+                  
Sbjct: 27  NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVH----KGY------------------ 64

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             FV + +   +  A+   NG  + G  L +++A   
Sbjct: 65  -AFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEP 100

>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 = 54.2 bits (131), Expect = 4e-09
 Identities = 15/98 (15%), Positives = 33/98 (33%), Gaps = 27/98 (27%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSM------EVEKGRGFVTFDSPESSDKAITD 198
            +FV       SE+ LR+ F  +G +  +++         + +G                
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGC--------------- 49

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                FVTF + +++ +A   ++   V          +
Sbjct: 50  ----CFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMK 83

>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 = 53.4 bits (129), Expect = 7e-09
 Identities = 20/105 (19%), Positives = 32/105 (30%), Gaps = 28/105 (26%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSPESSD 193
           N   +    +F+       +E  +R  FS FG+I     +    G  RG           
Sbjct: 90  NNAVEDRK-LFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGC---------- 138

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHV---QGVKLKVSLA 235
                     FVTF +   +  AI  ++           + V  A
Sbjct: 139 ---------AFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFA 174

>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 = 53.2 bits (128), Expect = 4e-09
 Identities = 23/107 (21%), Positives = 41/107 (38%), Gaps = 25/107 (23%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
               P     + V G     +E  LR+ FS +G I  VS+    +  + RGF        
Sbjct: 39  NRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGF-------- 90

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                       FV F++ + + +A    NG  + G +++V  +  +
Sbjct: 91  -----------AFVYFENVDDAKEAKERANGMELDGRRIRVDFSITK 126

>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 = 52.3 bits (126), Expect = 4e-09
 Identities = 25/105 (23%), Positives = 43/105 (40%), Gaps = 25/105 (23%)

Query: 138 PNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPES 191
             +   G   ++V      I+E+ LR  F  FG+I S+ +    E  + +G+        
Sbjct: 19  LQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGY-------- 70

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                      GF+TF   E + KA+ ++NG  + G  +KV    
Sbjct: 71  -----------GFITFSDSECAKKALEQLNGFELAGRPMKVGHVT 104

>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 = 51.0 bits (123), Expect = 6e-09
 Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 8/59 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITD 198
           IFV G      EE +R++F  FG++    + M+ +  +     F+TF   E   K +  
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60

>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 = 51.5 bits (124), Expect = 6e-09
 Identities = 16/101 (15%), Positives = 34/101 (33%), Gaps = 21/101 (20%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            +       T+ +       +EE L++ F     I     +  K +G+            
Sbjct: 8   NSTWSGESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGY------------ 55

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                   F+ F S E + +A+   N   ++G  +++ L  
Sbjct: 56  -------AFIEFASFEDAKEALNSCNKREIEGRAIRLELQG 89

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 53.3 bits (128), Expect = 8e-09
 Identities = 19/133 (14%), Positives = 45/133 (33%), Gaps = 24/133 (18%)

Query: 111 VSKRETNDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFG 168
            ++        P+  K   +   +     E  + G  + V     G+S+  +++ F+ FG
Sbjct: 54  RNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFG 113

Query: 169 KICSVSMEVEKG---RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV 225
            +   +++ ++     G                      V F+    + KA+ +  G  +
Sbjct: 114 TLKKAAVDYDRSGRSLGT-------------------ADVHFERRADALKAMKQYKGVPL 154

Query: 226 QGVKLKVSLARRQ 238
            G  + + L   Q
Sbjct: 155 DGRPMDIQLVASQ 167

>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 = 51.6 bits (124), Expect = 8e-09
 Identities = 18/95 (18%), Positives = 31/95 (32%), Gaps = 22/95 (23%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSM-EVEKGRGFVTFDSPESSDKAITDDCA 201
              I+V      I  + +   F  +G I  + +     G  F                  
Sbjct: 22  DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPF------------------ 63

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
             FV F+ P  ++ A+   +G    G +L+V   R
Sbjct: 64  -AFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR 97

>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 = 50.7 bits (122), Expect = 1e-08
 Identities = 13/83 (15%), Positives = 31/83 (37%), Gaps = 23/83 (27%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESS 213
             +E+ +R  F  +GK+    +     + +                   GFV  +   ++
Sbjct: 19  EATEQEIRSLFEQYGKVLECDII----KNY-------------------GFVHIEDKTAA 55

Query: 214 DKAITEVNGTHVQGVKLKVSLAR 236
           + AI  ++   + GV + V  ++
Sbjct: 56  EDAIRNLHHYKLHGVNINVEASK 78

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 50.8 bits (122), Expect = 1e-08
 Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 20/82 (24%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
             +  L + FS +G + +V +      GF                    FV F+ P  ++
Sbjct: 12  AGKGELERAFSYYGPLRTVWI-ARNPPGF-------------------AFVEFEDPRDAE 51

Query: 215 KAITEVNGTHVQGVKLKVSLAR 236
            A+  ++G  + G +++V L+ 
Sbjct: 52  DAVRGLDGKVICGSRVRVELST 73

>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 = 50.7 bits (122), Expect = 1e-08
 Identities = 16/96 (16%), Positives = 33/96 (34%), Gaps = 25/96 (26%)

Query: 147 TIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDC 200
            +++       +EE +    S  G + ++ M    +  + +G+                 
Sbjct: 4   VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGY----------------- 46

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
              F+ F   ESS  A+  +NG  +    LK   + 
Sbjct: 47  --AFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS 80

>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 = 50.7 bits (122), Expect = 1e-08
 Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 25/108 (23%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPE 190
            P  +     T++V G    +SE  L + F   G + +  M       + +G+       
Sbjct: 7   GPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGY------- 59

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                       GFV F S E +D AI  ++   + G  ++V+ A   
Sbjct: 60  ------------GFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAH 95

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 51.7 bits (124), Expect = 1e-08
 Identities = 23/128 (17%), Positives = 48/128 (37%), Gaps = 25/128 (19%)

Query: 117 NDDRTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVS 174
           +   +    +  G   ++   P    +G  ++ V       S + LR+ F  +G++  V 
Sbjct: 19  SHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVY 78

Query: 175 M----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKL 230
           +      ++ RGF                    FV F     ++ A+  ++G  + G +L
Sbjct: 79  IPRDRYTKESRGF-------------------AFVRFHDKRDAEDAMDAMDGAVLDGREL 119

Query: 231 KVSLARRQ 238
           +V +AR  
Sbjct: 120 RVQMARYG 127

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 53.1 bits (127), Expect = 2e-08
 Identities = 16/106 (15%), Positives = 35/106 (33%), Gaps = 22/106 (20%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
                     T+ +      +SEE L+  FS  G +       +K R             
Sbjct: 143 NFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKM----------- 191

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHV-QGVKLKVSLARRQL 239
                     +   S E + +A+ +++   + +   L+VS ++  +
Sbjct: 192 --------ALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKSTI 229

>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 = 48.1 bits (114), Expect = 8e-07
 Identities = 15/110 (13%), Positives = 37/110 (33%), Gaps = 23/110 (20%)

Query: 137 APNEKPKGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSD 193
            P     G + + V       ++ + L   F ++G +  V + +   +            
Sbjct: 26  IPGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKI-LFNKKEN---------- 74

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
                      V       +  A++ +NG  + G  ++++L++ Q    P
Sbjct: 75  ---------ALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLP 115

>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 = 50.3 bits (121), Expect = 2e-08
 Identities = 20/115 (17%), Positives = 38/115 (33%), Gaps = 29/115 (25%)

Query: 129 GESLLTRLAPNEKPKGGNTIFVQ--GAGISEEFLRQHFSIFGKICSVS-MEVEKGR---- 181
           G  +L       +      +F+       S   L+   S       ++ ++V  G     
Sbjct: 1   GSHMLEDPVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKF 60

Query: 182 GFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           G+V F+S E  +KA+                      E+ G  V G ++K+   +
Sbjct: 61  GYVDFESAEDLEKAL----------------------ELTGLKVFGNEIKLEKPK 93

>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 = 50.0 bits (120), Expect = 2e-08
 Identities = 22/110 (20%), Positives = 42/110 (38%), Gaps = 27/110 (24%)

Query: 134 TRLAPNEKPKGGNTIFV---QGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPE 190
           + L P       + +F+       +S+E L + FS +G I  ++++      F       
Sbjct: 12  SGLVPRGSH-MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK----NAF------- 59

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
                       GF+ FD+P+S   AI   +     G KL + ++    +
Sbjct: 60  ------------GFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSSNAR 97

>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 = 50.4 bits (121), Expect = 2e-08
 Identities = 23/108 (21%), Positives = 38/108 (35%), Gaps = 23/108 (21%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDS 188
                   G T+F++       EE L +    FG +  V + +       KG  F  F +
Sbjct: 7   GLPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMT 66

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
            E++ K +               ++     E  G  + G +LKV LA 
Sbjct: 67  QEAAQKCL---------------AAASLEAEGGGLKLDGRQLKVDLAV 99

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 49.0 bits (118), Expect = 3e-08
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 8/57 (14%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAI 196
           IFV G     + E ++ +F  FGK+    +  +    R    GFVTF+S +  +K  
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC 58

>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 = 49.9 bits (119), Expect = 3e-08
 Identities = 10/44 (22%), Positives = 17/44 (38%)

Query: 154 GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           G+S   L       G + ++ M   K   F  + + E S +A  
Sbjct: 38  GVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYV 81

>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 = 51.0 bits (122), Expect = 3e-08
 Identities = 25/151 (16%), Positives = 53/151 (35%), Gaps = 28/151 (18%)

Query: 96  PEDSEPVDSKPKFLKVSKRETNDDRTPVDKKVYGESLLTR---LAPNEKPKGGNTIFVQG 152
            E  +   ++  F + +     D     D      ++         +   +G  ++ V  
Sbjct: 18  TEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMDVEGMTSLKVDN 77

Query: 153 A--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDCARGFVT 206
                S + LR+ F  +G++  V +      ++ RGF                    FV 
Sbjct: 78  LTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGF-------------------AFVR 118

Query: 207 FDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
           F     ++ A+  ++G  + G +L+V +AR 
Sbjct: 119 FHDKRDAEDAMDAMDGAVLDGRELRVQMARY 149

>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 = 48.7 bits (117), Expect = 4e-08
 Identities = 20/96 (20%), Positives = 38/96 (39%), Gaps = 25/96 (26%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVS----MEVEKGRGFVTFDSPESSDKAITDDCA 201
           +FV      I+   +   F+ FG+I        M   K +G+                  
Sbjct: 9   VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGY------------------ 50

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
            GFV+F +   ++ AI ++ G  + G +++ + A R
Sbjct: 51  -GFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR 85

>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 = 49.7 bits (119), Expect = 5e-08
 Identities = 14/98 (14%), Positives = 32/98 (32%), Gaps = 22/98 (22%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGRGFVTFDSPESSDKAITD 198
           P+    ++++     I+ E +   F  +G I  +      + RG                
Sbjct: 5   PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGT--------------- 49

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                +V ++    +  A+  ++G +V    L V    
Sbjct: 50  ----AYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYN 83

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 49.1 bits (117), Expect = 5e-08
 Identities = 15/103 (14%), Positives = 35/103 (33%), Gaps = 22/103 (21%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           P E       ++V           L++     G +  + +  +  R              
Sbjct: 12  PGEGAPLAADVYVGNLPRDARVSDLKRALRELGSV-PLRLTWQGPRRR------------ 58

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   F+ +    ++ +A++ + G  +    L+V+LAR+Q
Sbjct: 59  -------AFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ 94

>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 = 49.3 bits (118), Expect = 6e-08
 Identities = 26/124 (20%), Positives = 49/124 (39%), Gaps = 26/124 (20%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS----MEVEKGRGFVTFDSPES 191
             +       +FV      I+ E ++  F+ FG+I        M   K +G+        
Sbjct: 8   QKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGY-------- 59

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASST 251
                      GFV+F +   ++ AI ++ G  + G +++ + A R+   AP +   S+T
Sbjct: 60  -----------GFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK-PPAPKSTYESNT 107

Query: 252 TWSA 255
             S 
Sbjct: 108 KQSG 111

>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 = 48.6 bits (116), Expect = 6e-08
 Identities = 14/102 (13%), Positives = 28/102 (27%), Gaps = 24/102 (23%)

Query: 144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           G + I V+      + + +      +         V++ +                    
Sbjct: 4   GSSGILVKNLPQDSNCQEVHDLLKDYDL---KYCYVDRNKRT------------------ 42

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
             FVT  + E +  AI   +    +G  L V L      +  
Sbjct: 43  -AFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDALLCS 83

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 47.9 bits (115), Expect = 8e-08
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 8/60 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITDD 199
           +F+ G     ++E LR++F  FG++  C V  +    R    GFVTF      DK +   
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62

>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 = 48.3 bits (116), Expect = 8e-08
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 8/57 (14%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAI 196
           IFV G      E  LR++F  FG +    +  + EK R    GF+TF+  +S D+A+
Sbjct: 13  IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69

>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 = 49.8 bits (119), Expect = 8e-08
 Identities = 19/110 (17%), Positives = 35/110 (31%), Gaps = 25/110 (22%)

Query: 134 TRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFD 187
                 +  K   T++V       +EE + + FS  G I  + M      +   GF    
Sbjct: 28  DNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGF---- 83

Query: 188 SPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
                           FV + S   ++ A+  +NGT +    ++      
Sbjct: 84  ---------------CFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG 118

>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 = 50.9 bits (121), Expect = 8e-08
 Identities = 20/160 (12%), Positives = 47/160 (29%), Gaps = 30/160 (18%)

Query: 93  AIQPEDSEPVDSKPKFLKVSKRETNDDR----TPVDKKVYGESLLTRLAPNEKPKG---- 144
           AI   ++  +  +   + VSK+                 Y +   +R      P+     
Sbjct: 58  AITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKN 117

Query: 145 -----GNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
                 N +    A   ++EE   +     G     S++V  G+                
Sbjct: 118 RIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKS--------------- 162

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
           +  + G + +DS   + + +  +N   ++          +
Sbjct: 163 ERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLK 202

>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 = 43.9 bits (103), Expect = 1e-05
 Identities = 16/98 (16%), Positives = 34/98 (34%), Gaps = 23/98 (23%)

Query: 144 GGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
               + V G   + ++ + +   F ++G +  V     K  G                  
Sbjct: 3   DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK-PGA----------------- 44

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
               V      + D+AIT +N   + G K+ V ++++ 
Sbjct: 45  --AMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQP 80

>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 = 48.6 bits (116), Expect = 8e-08
 Identities = 20/107 (18%), Positives = 37/107 (34%), Gaps = 21/107 (19%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             + V+G    + E  L +    FG IC V M   K +  V F++ +S+ + +T      
Sbjct: 16  PVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTF----- 70

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASS 250
                               ++ G +   + +  +    P N   SS
Sbjct: 71  --------------AADVPVYIAGQQAFFNYSTSKRITRPGNSGPSS 103

>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 = 48.4 bits (116), Expect = 1e-07
 Identities = 22/115 (19%), Positives = 36/115 (31%), Gaps = 28/115 (24%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKG--RGFVTFDSPES 191
           + +   +    +FV       SEE + + F  FG I   + +    G  +G         
Sbjct: 8   SESRGGRDRK-LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGC-------- 58

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHV---QGVKLKVSLARRQLKVAP 243
                       FV F S   +  AI  ++G+         L V  A    +  P
Sbjct: 59  -----------AFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFADTDKESGP 102

>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 = 48.0 bits (115), Expect = 1e-07
 Identities = 14/98 (14%), Positives = 33/98 (33%), Gaps = 24/98 (24%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDD 199
             G N +++      ++ + LRQ F       +  + ++ G  FV               
Sbjct: 5   SSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFV--------------- 49

Query: 200 CARGFVTFDSPESSDKAITEVNG-THVQGVKLKVSLAR 236
                  +     + +AI  ++G   + G  ++V  + 
Sbjct: 50  ------DYPDQNWAIRAIETLSGKVELHGKIMEVDYSV 81

>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 = 48.4 bits (116), Expect = 1e-07
 Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 8/70 (11%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDS 188
                 +  + + V G     +E+ L+++FS FG++    V  +++ G     GFV F  
Sbjct: 7   GVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTE 66

Query: 189 PESSDKAITD 198
            E+  K ++ 
Sbjct: 67  YETQVKVMSQ 76

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 48.3 bits (115), Expect = 1e-07
 Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 17/95 (17%)

Query: 146 NTIFVQG--AGISEEFL---RQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           N +FV G    +++  +    ++F  FGKI  V +            S   S        
Sbjct: 16  NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTS----YAGSQGPS-------- 63

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
           A  +VT+   E + +AI  VN   V G  LK SL 
Sbjct: 64  ASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG 98

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 48.3 bits (115), Expect = 1e-07
 Identities = 10/95 (10%), Positives = 32/95 (33%), Gaps = 21/95 (22%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             I ++     ++E  +      FGK+ ++ M   K + F+  ++ E+++  +       
Sbjct: 17  RVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYT--- 73

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                                ++G  + +  +  +
Sbjct: 74  ----------------SVTPVLRGQPIYIQFSNHK 92

>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 = 48.3 bits (115), Expect = 1e-07
 Identities = 11/109 (10%), Positives = 35/109 (32%), Gaps = 23/109 (21%)

Query: 134 TRLAPNEKPKG--GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSP 189
           +  +  +K  G     + ++     ++E  +      FGK+ ++ M   K + F+   + 
Sbjct: 2   SSGSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATE 61

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           E++   +                           H++   + +  +  +
Sbjct: 62  EAAITMVNY-------------------YSAVTPHLRNQPIYIQYSNHK 91

>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 = 48.0 bits (115), Expect = 1e-07
 Identities = 22/103 (21%), Positives = 37/103 (35%), Gaps = 25/103 (24%)

Query: 140 EKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSD 193
              +   ++FV       +EE L+  FS  G + S  +    E  K +G+          
Sbjct: 3   AVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGY---------- 52

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                    GF  +   E++  A+  +NG    G  L+V  A 
Sbjct: 53  ---------GFCEYQDQETALSAMRNLNGREFSGRALRVDNAA 86

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 48.0 bits (115), Expect = 1e-07
 Identities = 16/103 (15%), Positives = 38/103 (36%), Gaps = 25/103 (24%)

Query: 140 EKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSD 193
           ++   G  +FV G     +EE +   F+ +G+I ++ +         +G+          
Sbjct: 18  QRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY---------- 67

Query: 194 KAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                      V +++ + +  A+  +NG  + G  + V    
Sbjct: 68  ---------TLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF 101

>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 = 48.4 bits (115), Expect = 1e-07
 Identities = 10/95 (10%), Positives = 32/95 (33%), Gaps = 21/95 (22%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             I ++     ++E  +      FGK+ ++ M   K + F+  ++ E+++  +       
Sbjct: 32  RVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNY----- 86

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                                ++G  + +  +  +
Sbjct: 87  --------------YTSVTPVLRGQPIYIQFSNHK 107

>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 = 47.2 bits (113), Expect = 2e-07
 Identities = 14/64 (21%), Positives = 28/64 (43%), Gaps = 3/64 (4%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGRGFVTFDSPESSDKA 195
           +     G+ +FV      ++ E L+Q F  +G++  V   +  +   FVTF   + +   
Sbjct: 5   HHHHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSL 64

Query: 196 ITDD 199
             +D
Sbjct: 65  CGED 68

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 14/105 (13%), Positives = 31/105 (29%), Gaps = 31/105 (29%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAI 196
            +TI ++        + +    S +  +   ++ + K       RGF             
Sbjct: 9   MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGF------------- 55

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTH----VQGVKLKVSLARR 237
                  FV   S   + + +  +   H    + G  + V  A+ 
Sbjct: 56  ------AFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94

>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 = 46.8 bits (112), Expect = 2e-07
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGRGFVTFDSPESSDKAITDD 199
           +FV      ++E+ LR+ FS +G +  V   +  +   FVTF   + +     +D
Sbjct: 8   VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGED 62

>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 = 49.2 bits (118), Expect = 2e-07
 Identities = 27/104 (25%), Positives = 37/104 (35%), Gaps = 26/104 (25%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDSPES 191
                     IFV G      E  LR +F  +GKI  + +  ++G    RGF        
Sbjct: 97  RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGF-------- 148

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                       FVTFD  +S DK + +     V G   +V  A
Sbjct: 149 -----------AFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKA 180

>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 = 46.1 bits (110), Expect = 3e-06
 Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 8/74 (10%)

Query: 134 TRLAPNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVT 185
           ++    ++P+    +F+ G     ++E LR HF  +G +  C V  +    R    GFVT
Sbjct: 2   SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61

Query: 186 FDSPESSDKAITDD 199
           + + E  D A+   
Sbjct: 62  YATVEEVDAAMNAR 75

>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 = 46.7 bits (112), Expect = 2e-07
 Identities = 18/98 (18%), Positives = 35/98 (35%), Gaps = 30/98 (30%)

Query: 147 TIFVQGA--GISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD 198
           +I+V     G + E L  HF   G +  V++  +      KG  ++ F   ES   ++  
Sbjct: 8   SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-- 65

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                                ++ +  +G ++KV   R
Sbjct: 66  --------------------ALDESLFRGRQIKVIPKR 83

>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 = 46.8 bits (112), Expect = 3e-07
 Identities = 13/91 (14%), Positives = 23/91 (25%), Gaps = 25/91 (27%)

Query: 154 GISEEFLRQHFSIFGKI----CSVSMEVEKGR--GFVTFDSPESSDKAITDDCARGFVTF 207
             ++E L +     G               G+  GF                     V  
Sbjct: 12  WTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGF-------------------ALVGV 52

Query: 208 DSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
            S  SS K +  +    + G    V+ + + 
Sbjct: 53  GSEASSKKLMDLLPKRELHGQNPVVTPSNKL 83

>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 = 46.4 bits (111), Expect = 3e-07
 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 8/59 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITD 198
           +FV G     S++ L+ +F+ FG++  C++ M+   GR    GF+ F    S +K +  
Sbjct: 14  MFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQ 72

>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 = 46.9 bits (112), Expect = 3e-07
 Identities = 21/108 (19%), Positives = 35/108 (32%), Gaps = 30/108 (27%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDS 188
             + + +   T+F     A I    L   FS  GK+  V +  +      KG  +V F  
Sbjct: 17  NLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCE 76

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
            +S   AI                       + G  + GV + V  ++
Sbjct: 77  IQSVPLAI----------------------GLTGQRLLGVPIIVQASQ 102

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 46.5 bits (111), Expect = 5e-07
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 8/60 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITDD 199
           +F+ G     ++E LR++F  FG++  C V  +    R    GFVTF      DK +   
Sbjct: 28  MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 87

>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 = 46.0 bits (110), Expect = 5e-07
 Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 26/96 (27%)

Query: 147 TIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDKAITDDC 200
            I+V       + E +++ FS FGK+ +V +    E +K +GF                 
Sbjct: 3   NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGF----------------- 45

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
             GFV     ES  +AI +++ T   G  ++V+ A 
Sbjct: 46  --GFVEMQE-ESVSEAIAKLDNTDFMGRTIRVTEAN 78

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 46.8 bits (111), Expect = 5e-07
 Identities = 16/126 (12%), Positives = 36/126 (28%), Gaps = 28/126 (22%)

Query: 120 RTPVDKKVYGESLLTRLAPNEKPKGGNTIFVQG--AGISEEFLRQH----FSIFGKICSV 173
               +++      L    P+ +P     + +      + +E L+       S  G I  +
Sbjct: 6   AAKFERQHMDSPDLGSTPPHTEPS--QVVLITNINPEVPKEKLQALLYALASSQGDILDI 63

Query: 174 -SMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
                +   G                     ++ F + ES+   +    G   QG  L +
Sbjct: 64  VVDLSDDNSGK-------------------AYIVFATQESAQAFVEAFQGYPFQGNPLVI 104

Query: 233 SLARRQ 238
           + +   
Sbjct: 105 TFSETP 110

>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 = 46.5 bits (111), Expect = 6e-07
 Identities = 14/102 (13%), Positives = 36/102 (35%), Gaps = 25/102 (24%)

Query: 141 KPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDK 194
           +   G  +FV        E+ +++ F  +G+I ++ +         +G+           
Sbjct: 22  RSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGY----------- 70

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                     V +++ + +  A   +NG  + G  ++V    
Sbjct: 71  --------ALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF 104

>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 = 46.3 bits (110), Expect = 6e-07
 Identities = 20/119 (16%), Positives = 33/119 (27%), Gaps = 23/119 (19%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
               +    I  +   AG     +++ FS FG +  V +   +G                
Sbjct: 4   GSSGRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL--PEGGIT------------- 48

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPINDAASSTTWSA 255
                   V F  P  + KA   +  +    V L +  A   +  A      S     A
Sbjct: 49  ------AIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPA 101

>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 = 47.5 bits (113), Expect = 6e-07
 Identities = 17/131 (12%), Positives = 43/131 (32%), Gaps = 26/131 (19%)

Query: 113 KRETNDDRTPVDKKVYGESLLTRLAPN-EKPKGGNTIFVQGA--GISEEFLRQHFSIFGK 169
             ++N        +         L P  ++   G  +FV        E+ +++ F  +G+
Sbjct: 39  GSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGE 98

Query: 170 ICSVSM----EVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV 225
           I ++ +         +G+                     V +++ + +  A   +NG  +
Sbjct: 99  IKNIHLNLDRRTGFSKGY-------------------ALVEYETHKQALAAKEALNGAEI 139

Query: 226 QGVKLKVSLAR 236
            G  ++V    
Sbjct: 140 MGQTIQVDWCF 150

>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 = 46.1 bits (110), Expect = 7e-07
 Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 24/104 (23%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR--GFVTFDSPESS 192
            PN + +   T+FV+G     +EE L++ F    +   +  + E G   GF         
Sbjct: 7   GPNARSQPSKTLFVKGLSEDTTEETLKESFDGSVRA-RIVTDRETGSSKGF--------- 56

Query: 193 DKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                     GFV F+S E +  A   +    + G K+ +  A+
Sbjct: 57  ----------GFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAK 90

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 46.1 bits (110), Expect = 7e-07
 Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 8/59 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITD 198
           +FV G     ++E LR +FS +G++  C +  +    +    GFV F  P      +  
Sbjct: 19  LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 47.2 bits (112), Expect = 7e-07
 Identities = 17/108 (15%), Positives = 30/108 (27%), Gaps = 27/108 (25%)

Query: 139 NEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKI----CSVSMEVEKGR--GFVTFDSPE 190
           +        ++V       +++ L Q     G         +     G+  G+       
Sbjct: 49  SGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGY------- 101

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                         V   S  S  K +  + G  + G K+ V  A RQ
Sbjct: 102 ------------AEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQ 137

>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 = 46.7 bits (111), Expect = 7e-07
 Identities = 14/84 (16%), Positives = 29/84 (34%), Gaps = 10/84 (11%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
           + E+ L+  F  +    S +  +                +         F+   + +++ 
Sbjct: 57  VQEKDLKYIFGRYVDFSSETQRIM--FDIRLMKEGRMKGQ--------AFIGLPNEKAAA 106

Query: 215 KAITEVNGTHVQGVKLKVSLARRQ 238
           KA+ E NG  + G  + V  AR  
Sbjct: 107 KALKEANGYVLFGKPMVVQFARSA 130

>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 = 46.8 bits (111), Expect = 8e-07
 Identities = 17/82 (20%), Positives = 33/82 (40%), Gaps = 20/82 (24%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
            ++  L + F  +G + SV +      GF                    FV F+ P  + 
Sbjct: 85  GNKTELERAFGYYGPLRSVWV-ARNPPGF-------------------AFVEFEDPRDAA 124

Query: 215 KAITEVNGTHVQGVKLKVSLAR 236
            A+ E++G  + G +++V L+ 
Sbjct: 125 DAVRELDGRTLCGCRVRVELSN 146

>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 = 46.1 bits (110), Expect = 9e-07
 Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 8/60 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITDD 199
           IFV G     ++  LR++F  FG I    V  + + G+    GFVT     ++++A  D 
Sbjct: 20  IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP 79

>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 = 46.2 bits (110), Expect = 9e-07
 Identities = 16/102 (15%), Positives = 37/102 (36%), Gaps = 25/102 (24%)

Query: 141 KPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDSPESSDK 194
           +   G  +FV G     +EE +   F+ +G+I ++ +         +G+           
Sbjct: 18  RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY----------- 66

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                     V +++ + +  A+  +NG  + G  + V    
Sbjct: 67  --------TLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF 100

>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 = 45.4 bits (108), Expect = 1e-06
 Identities = 20/117 (17%), Positives = 39/117 (33%), Gaps = 28/117 (23%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKG--RGFVTFDSPE 190
           +   K      +F+      + E+ L+  F  FGKI   +V  +   G  +G        
Sbjct: 5   SSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGC------- 57

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV---QGVKLKVSLARRQLKVAPI 244
                        F+T+   ES+ KA + ++           ++V  A  + +    
Sbjct: 58  ------------AFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPADSESRGGSG 102

>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 = 47.0 bits (111), Expect = 2e-06
 Identities = 14/110 (12%), Positives = 26/110 (23%), Gaps = 27/110 (24%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI----CSVSMEVEKG--RGFVTFDS 188
                      +++       ++E L +     G               G  +GF     
Sbjct: 60  VVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGF----- 114

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                           V   S  SS K +  +    + G    V+   +Q
Sbjct: 115 --------------ALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNKQ 150

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

 Score = 44.3 bits (105), Expect = 2e-06
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 12/63 (19%)

Query: 146 NTIFVQGA--------GISEEFLRQHFSIFGKICSVSMEVE----KGRGFVTFDSPESSD 193
           + I V              +  + + FS FGKI +     E    KG  F+ + SP  + 
Sbjct: 2   SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAV 61

Query: 194 KAI 196
            A+
Sbjct: 62  DAV 64

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
            K      + ++G   G+ E  L +    FG I  V +  +K +  V F+    +  A+
Sbjct: 16  HKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAV 74

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

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 12/71 (16%)

Query: 138 PNEKPKGGNTIFVQGA--------GISEEFLRQHFSIFGKICSVSMEVE----KGRGFVT 185
           P E     + I V              +  + + FS FGKI +     E    KG  F+ 
Sbjct: 8   PQEADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLE 67

Query: 186 FDSPESSDKAI 196
           + SP  +  A+
Sbjct: 68  YASPAHAVDAV 78

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 44.6 bits (106), Expect = 3e-06
 Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGR----GFVTFDSPESSDKAITD 198
           +F+ G     +EE LR ++  +GK+  C V  +    R    GFVTF S    D A+  
Sbjct: 30  LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA 88

>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 = 44.7 bits (106), Expect = 3e-06
 Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 30/108 (27%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDS 188
           A  +K     +++V     G + + L  HFS  G I  +++  +      KG  ++ F  
Sbjct: 28  AEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAE 87

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
             S D A+                       ++ T  +G  +KV   R
Sbjct: 88  RNSVDAAV----------------------AMDETVFRGRTIKVLPKR 113

>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 = 43.8 bits (104), Expect = 3e-06
 Identities = 14/98 (14%), Positives = 31/98 (31%), Gaps = 28/98 (28%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFG------KICSVSMEVEKGRGFVTFDSPESSDKAI 196
             ++++      + E F+ + F+  G      KI   +       G+             
Sbjct: 9   AASLWMGDLEPYMDENFISRAFATMGETVMSVKIIR-NRLTGIPAGY------------- 54

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSL 234
                  FV F    +++K + ++NG  + G       
Sbjct: 55  ------CFVEFADLATAEKCLHKINGKPLPGATPAKRF 86

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 43.0 bits (102), Expect = 7e-06
 Identities = 21/112 (18%), Positives = 41/112 (36%), Gaps = 27/112 (24%)

Query: 147 TIFVQ--GAGISEEFLRQHFS-IFGKICSVSM---EVEKGRGFVTFDSPESSDKAITDDC 200
           ++FV      + +  L + F  ++       +   +    +G+                 
Sbjct: 11  SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGY----------------- 53

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVK-LKVSLA-RRQLKVAPINDAASS 250
             GFV F       +A+TE  G    G K +++S+A  +  +V P+    SS
Sbjct: 54  --GFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIPKASRVKPVESGPSS 103

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Length = 240

 Score = 45.2 bits (106), Expect = 1e-05
 Identities = 12/50 (24%), Positives = 17/50 (34%)

Query: 147 TIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
                     E  +R  FS  G I  +     K  GFV F    +++ A 
Sbjct: 147 NSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAK 196

>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 = 42.9 bits (101), Expect = 1e-05
 Identities = 16/96 (16%), Positives = 29/96 (30%), Gaps = 24/96 (25%)

Query: 143 KGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           +  N + V G     S + L+ H    G +C                          D  
Sbjct: 13  RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYA--------------------DVYRDGT 52

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
             G V F   E    A+ +++ T  +  + + +  R
Sbjct: 53  --GVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR 86

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 42.4 bits (100), Expect = 1e-05
 Identities = 22/118 (18%), Positives = 36/118 (30%), Gaps = 40/118 (33%)

Query: 142 PKG-GNTIFVQGA--------GISEEFLRQHFSIFGKICSVSM----EVEKGRGFVTFDS 188
           P G    I V GA         + ++ L   FS  GK+ ++         K +GF     
Sbjct: 2   PLGSDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGF----- 56

Query: 189 PESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAPIND 246
                          FV   S   + K I   +G  +          + +L +  + D
Sbjct: 57  --------------LFVECGSMNDAKKIIKSFHGKRLDL--------KHRLFLYTMKD 92

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 42.3 bits (100), Expect = 1e-05
 Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 25/106 (23%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKI-CSVSMEV-EKGR--GFVTFDSPE 190
             +    G   I VQ     +S + +   F  +  I  SV ++  EKG   G        
Sbjct: 7   GASSGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGE------- 59

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                         V F+S + +  A+ ++N   +   K+K+ L  
Sbjct: 60  ------------AMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS 93

>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 = 42.3 bits (100), Expect = 2e-05
 Identities = 21/106 (19%), Positives = 41/106 (38%), Gaps = 29/106 (27%)

Query: 140 EKPKGGNTIFVQGA--GISEEFLRQHFSIFGKICSVSMEVE-------KGRGFVTFDSPE 190
            K +  + I V+      ++  +R+ FS FG++ +V +  +       +G GFV F + +
Sbjct: 10  PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQ 69

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
            + KA                         + TH+ G +L +  A 
Sbjct: 70  DAKKAFN--------------------ALCHSTHLYGRRLVLEWAD 95

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 21/105 (20%), Positives = 37/105 (35%), Gaps = 25/105 (23%)

Query: 137 APNEKPKGGNTIFVQGA--GISEEFLRQHFSIFGKI-CSVSMEV-EKGR--GFVTFDSPE 190
             +    G   I VQ     +S + +   F  +  I  SV ++  EKG   G        
Sbjct: 7   GSSSGKPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGE------- 59

Query: 191 SSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                         V F+S + +  A+ ++N   +   K+K+S  
Sbjct: 60  ------------AMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP 92

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 7/61 (11%)

Query: 146 NTIFVQGAG--ISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAITD 198
            +++++G     + + +++     G++ ++ M        KG  FV FDS ES+ K +  
Sbjct: 12  RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVET 71

Query: 199 D 199
            
Sbjct: 72  P 72

>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 = 38.8 bits (90), Expect = 3e-04
 Identities = 11/63 (17%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 138 PNEKPKGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
            ++K + G  I +     +G S+  + +    +GKI +  +   K + F+  ++ E +  
Sbjct: 18  FDQKQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMA 77

Query: 195 AIT 197
            + 
Sbjct: 78  MVD 80

>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 = 39.0 bits (91), Expect = 3e-04
 Identities = 16/96 (16%), Positives = 29/96 (30%), Gaps = 24/96 (25%)

Query: 143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           +  N + V G     S + L+ H    G +C                          D  
Sbjct: 14  RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYA--------------------DVYRDGT 53

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
             G V F   E    A+ +++ T  +  + + +  R
Sbjct: 54  --GVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR 87

>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 = 37.4 bits (87), Expect = 6e-04
 Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 33/90 (36%)

Query: 154 GISEEFLRQHFSIFGK-----------ICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR 202
           GI+EE +   F+   +           + +V +  +K   F+ F S + + +A+      
Sbjct: 17  GITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM------ 70

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
                             +G   QG  LK+
Sbjct: 71  ----------------AFDGIIFQGQSLKI 84

>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 = 39.0 bits (90), Expect = 6e-04
 Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 5/46 (10%)

Query: 156 SEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAI 196
           + + +++     G++ ++ M        KG  FV FDS ES+ K +
Sbjct: 122 TLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV 167

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 37.5 bits (87), Expect = 7e-04
 Identities = 15/101 (14%), Positives = 29/101 (28%), Gaps = 22/101 (21%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS-MEVEKGRGFVTFDSPESSDKA 195
           ++ P     I ++    G S + L+          + S +      G             
Sbjct: 22  SKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGT------------ 69

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                  G + F S E   +A+  +N    +G  + V    
Sbjct: 70  -------GALEFPSEEILVEALERLNNIEFRGSVITVERDD 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	298
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.84
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.83
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.79
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.79
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.78
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.78
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.77
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.77
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.77
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.77
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.77
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.76
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.76
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.76
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.76
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.76
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.75
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.75
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.75
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.75
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.75
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.75
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.75
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.75
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.75
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.75
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.75
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.75
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.74
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.74
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.74
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.74
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.74
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.74
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.74
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.74
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.74
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.74
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.74
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.74
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.73
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.73
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.73
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.73
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.73
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.73
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.73
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.72
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.72
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.72
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.72
2div_A	99	TRNA selenocysteine associated protein; structural	99.72
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.72
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.72
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.72
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.72
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.72
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.72
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.71
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.71
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.71
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.71
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.71
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.71
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.71
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.71
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.71
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.71
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.71
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.71
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.71
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.7
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.7
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.7
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.7
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.7
1x5p_A	97	Negative elongation factor E; structure genomics,	99.7
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.7
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.7
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.7
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.7
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.7
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.7
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.7
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.7
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.7
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.69
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.69
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.69
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.69
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.69
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.69
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.69
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.69
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.69
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.68
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.68
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.68
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.68
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.67
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.67
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.67
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.67
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.67
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.67
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.67
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.67
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.67
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.67
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.66
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.66
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.66
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.66
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.66
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.66
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.66
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.47
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.66
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.66
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.66
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.65
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.65
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.65
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.65
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.65
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.65
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.65
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.65
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.65
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.65
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.64
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.64
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.64
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.64
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.64
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.64
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.64
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.64
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.64
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.64
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.64
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.64
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.63
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.63
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.63
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.63
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.63
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.63
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.63
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.62
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.62
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.62
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.62
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.62
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.62
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.62
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.61
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.61
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.61
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.61
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.6
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.6
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.6
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.6
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.59
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.57
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.57
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.56
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.56
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.56
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.56
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.55
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.54
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.54
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.53
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.53
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.53
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.51
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.5
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.48
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.46
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.46
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.44
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.44
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.39
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.37
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.36
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.3
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.22
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.01
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.96
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.87
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.81
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.78
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.77
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.76
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.76
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.75
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.74
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	98.72
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.71
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.7
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.68
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.67
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.62
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.59
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.57
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.36
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.73
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.29
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.23
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	95.83
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	95.34
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	94.83
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	94.38
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	93.92
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	93.3
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	93.01
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	90.18
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	85.8
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	85.72
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	85.16
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	84.02
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	83.82
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	83.46
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	83.44
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	83.43
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	81.63
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	81.36
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	81.28
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	80.77
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	80.52
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	80.23
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	80.23
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	80.22
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	80.15
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	80.08

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

Probab=99.84  E-value=4.2e-21  Score=169.06  Aligned_cols=101  Identities=24%  Similarity=0.438  Sum_probs=90.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-----------------
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-----------------  196 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-----------------  196 (298)
                      ..+.++|||+|  +++|+++|+++|++||+|.+|.|++|      +++|||+|.+.++|++||                 
T Consensus        12 ~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~   91 (213)
T 4f02_A           12 SYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMW   91 (213)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccc
Confidence            34568999999  99999999999999999999999986      479999999999999999                 


Q ss_pred             ------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCe
Q psy15187        197 ------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGV  228 (298)
Q Consensus       197 ------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr  228 (298)
                                                                      +.++|||||+|.+.++|.+||..|||..|+|+
T Consensus        92 ~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~  171 (213)
T 4f02_A           92 SQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR  171 (213)
T ss_dssp             CCCCTHHHHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             ccccccccccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCE
Confidence                                                            12689999999999999999999999999999


Q ss_pred             EEEEEEcccccccc
Q psy15187        229 KLKVSLARRQLKVA  242 (298)
Q Consensus       229 ~L~V~~A~~k~~~~  242 (298)
                      .|+|.||.++....
T Consensus       172 ~i~V~~a~~~~~~~  185 (213)
T 4f02_A          172 KVFVGRFKSRKERE  185 (213)
T ss_dssp             ECEEEECCCHHHHH
T ss_pred             EEEEEEcCCCcccc
Confidence            99999998765533

>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=99.83  E-value=2.4e-20  Score=146.35  Aligned_cols=82  Identities=28%  Similarity=0.431  Sum_probs=76.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      -..++++|||+|  +++|+++|+++|++||.|.+|.|+.|+..|.               ++|||||+|.+.++|.+||.
T Consensus        15 ~~~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~---------------~kG~afV~f~~~~~A~~Ai~   79 (99)
T 4fxv_A           15 LYFQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGH---------------SLGYGFVNYVTAKDAERAIN   79 (99)
T ss_dssp             -CCCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCC---------------EEEEEEEEESSHHHHHHHHH
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCc---------------ccccEEEEECCHHHHHHHHH
Confidence            346779999999  9999999999999999999999999988886               89999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccc
Q psy15187        219 EVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~  237 (298)
                      .|||..|+|++|+|.||+|
T Consensus        80 ~lng~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           80 TLNGLRLQSKTIKVSYARP   98 (99)
T ss_dssp             HHTTCEETTEECEEEECCB
T ss_pred             HhCCCEECCEEEEEEEeeC
Confidence            9999999999999999975

>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=99.79  E-value=3.1e-19  Score=149.13  Aligned_cols=94  Identities=24%  Similarity=0.498  Sum_probs=87.0

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-------------------  196 (298)
                      ++++|||+|  +++|+++|+++|++||.|.+|.|+.+      +++|||+|.+.++|++|+                   
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~g~~i~v~~~~~~   81 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQHILDGKVIDPKRAIPR   81 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHSCCEETTEECCCEECCCH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhcccccCCeEcccccccch
Confidence            347999999  99999999999999999999999876      489999999999999998                   


Q ss_pred             --------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEE
Q psy15187        197 --------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV  232 (298)
Q Consensus       197 --------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V  232 (298)
                                                                  +.++|||||+|.+.++|.+|+. +||..|+|+.|.|
T Consensus        82 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V  160 (167)
T 2cjk_A           82 DEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEI  160 (167)
T ss_dssp             HHHHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEE
T ss_pred             hhccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEE
Confidence                                                        2268999999999999999998 8999999999999


Q ss_pred             EEcccc
Q psy15187        233 SLARRQ  238 (298)
Q Consensus       233 ~~A~~k  238 (298)
                      .||.++
T Consensus       161 ~~a~pk  166 (167)
T 2cjk_A          161 KRAEPR  166 (167)
T ss_dssp             EECCCC
T ss_pred             eecCCC
Confidence            999875

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

Probab=99.79  E-value=6.9e-19  Score=140.80  Aligned_cols=85  Identities=14%  Similarity=0.182  Sum_probs=78.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +.+.++|||+|  +++++++|+++|++||.|.+|.|+.|+.+|.               ++|||||+|.+.++|.+||..
T Consensus         3 ~~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~---------------~rG~aFV~f~~~~~A~~Ai~~   67 (110)
T 3s8s_A            3 QIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRK---------------HLGLARVLFTSTRGAKETVKN   67 (110)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCc---------------eeeEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999999999999988775               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.++......
T Consensus        68 lng~~~~gr~i~V~~a~~~~~~   89 (110)
T 3s8s_A           68 LHLTSVMGNIIHAQLDIKGQQR   89 (110)
T ss_dssp             HTTCEETTEECEEEECSTTHHH
T ss_pred             hCCCEECCeEEEEEECCCCcHH
Confidence            9999999999999999865443

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

Probab=99.78  E-value=1.1e-18  Score=144.77  Aligned_cols=92  Identities=23%  Similarity=0.521  Sum_probs=85.5

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhh----------------------
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAI----------------------  196 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai----------------------  196 (298)
                      .+|||+|  .++++++|+++|++||.|.+|.|+.+     +++|||+|.+.++|++|+                      
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~   80 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQ   80 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCC
Confidence            3799999  99999999999999999999999876     479999999999999999                      


Q ss_pred             ---------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEE
Q psy15187        197 ---------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLK  231 (298)
Q Consensus       197 ---------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~  231 (298)
                                                                   +.++|||||+|.+.++|..|+..|||..|+|+.|+
T Consensus        81 ~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~  160 (166)
T 3md3_A           81 QSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLR  160 (166)
T ss_dssp             CCCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEE
Confidence                                                         12689999999999999999999999999999999


Q ss_pred             EEEccc
Q psy15187        232 VSLARR  237 (298)
Q Consensus       232 V~~A~~  237 (298)
                      |.||++
T Consensus       161 v~~a~~  166 (166)
T 3md3_A          161 INWAAK  166 (166)
T ss_dssp             EEESCC
T ss_pred             EEecCC
Confidence            999863

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

Probab=99.78  E-value=2.1e-18  Score=133.70  Aligned_cols=85  Identities=29%  Similarity=0.368  Sum_probs=78.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .+.++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l   70 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKK---------------PKGFAFVTFMFPEHAVKAYAEV   70 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCC---------------CCSEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCC---------------cCeEEEEEECCHHHHHHHHHHh
Confidence            4568999999  8999999999999999999999999887775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ||..|+|+.|+|.++.++....
T Consensus        71 ~g~~~~g~~l~V~~a~~~~~~~   92 (99)
T 1whw_A           71 DGQVFQGRMLHVLPSTIKKEAS   92 (99)
T ss_dssp             TTEESSSCEEEEEECCCCSTTC
T ss_pred             CCCEECCcEEEEEEcCCCcccc
Confidence            9999999999999999876643

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.77  E-value=3.5e-19  Score=137.41  Aligned_cols=81  Identities=16%  Similarity=0.282  Sum_probs=74.9

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccC-CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh-C
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFG-KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV-N  221 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG-~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l-n  221 (298)
                      ++|||+|  +++|+++|+++|++|| .|.+|.|++|+.+|.               ++|||||+|.+.++|.+||..| |
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~---------------~rg~aFV~F~~~~~A~~Ai~~~~~   66 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQ---------------SRGFAFVEFSHLQDATRWMEANQH   66 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCC---------------CSSEEEEECSSHHHHHHHHHTTTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCC---------------cCceEEEEecCHHHHHHHHHhcCC
Confidence            6899999  9999999999999999 899999999988886               9999999999999999999988 4


Q ss_pred             CcEECCeEEEEEEccccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      +..|+|++|+|.||.+++..
T Consensus        67 ~~~~~gr~i~V~~a~~~~~~   86 (91)
T 2lxi_A           67 SLNILGQKVSMHYSDPKPKI   86 (91)
T ss_dssp             EEEETTEEEEEECCCSCCCC
T ss_pred             CeEECCEEEEEEEcCCCCCC
Confidence            66899999999999987653

>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=99.77  E-value=1.5e-18  Score=131.16  Aligned_cols=81  Identities=22%  Similarity=0.389  Sum_probs=73.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..|+..||
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A~~~l~   69 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGK---------------SKGYGFVSFFNKWDAENAIQQMG   69 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHHcC
Confidence            457999999  8999999999999999999999999877665               78999999999999999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|+|.|+.+++
T Consensus        70 g~~~~g~~l~v~~a~~kp   87 (87)
T 3bs9_A           70 GQWLGGRQIRTNWATRKP   87 (87)
T ss_dssp             TCEETTEECEEEEEC---
T ss_pred             CCEECCeEEEEEecCCCC
Confidence            999999999999998764

>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=99.77  E-value=1.2e-18  Score=149.14  Aligned_cols=101  Identities=30%  Similarity=0.482  Sum_probs=87.0

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh----------------
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI----------------  196 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai----------------  196 (298)
                      .+...++|||+|  +++|+++|+++|+.||.|.+|.|+.+      +++|||+|.+.++|++||                
T Consensus         9 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v~~   88 (196)
T 1l3k_A            9 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKR   88 (196)
T ss_dssp             CCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeec
Confidence            345568999999  99999999999999999999999976      569999999999999998                


Q ss_pred             ------------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        197 ------------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       197 ------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                                                                            +.++|||||+|.+.++|.+|+.. +|
T Consensus        89 ~~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~  167 (196)
T 1l3k_A           89 AVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KY  167 (196)
T ss_dssp             CCC-----------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SC
T ss_pred             ccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CC
Confidence                                                                  12589999999999999999986 89


Q ss_pred             cEECCeEEEEEEcccccccc
Q psy15187        223 THVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ..|+|+.|.|.||.++....
T Consensus       168 ~~~~G~~i~v~~a~~k~~~~  187 (196)
T 1l3k_A          168 HTVNGHNCEVRKALSKQEMA  187 (196)
T ss_dssp             CEETTEECEEEECC------
T ss_pred             cEECCEEEEEEecCChhHhc
Confidence            99999999999999876644

>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=99.77  E-value=2.7e-18  Score=137.63  Aligned_cols=82  Identities=28%  Similarity=0.505  Sum_probs=72.7

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      |...++|||+|  +++++++|+++|++||.|.+|.|+.+++.                 ++|||||+|.+.++|..||..
T Consensus         2 P~~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~-----------------~kg~afV~f~~~~~A~~Ai~~   64 (115)
T 4f25_A            2 PLGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-----------------SKGYGFVHFETQEAAERAIEK   64 (115)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTE-----------------EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCC-----------------CCceEEEEECCHHHHHHHHHH
Confidence            34557999999  99999999999999999999999988642                 468899999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.++.++..
T Consensus        65 l~~~~~~g~~i~V~~a~~~~~   85 (115)
T 4f25_A           65 MNGMLLNDRKVFVGRFKSRKE   85 (115)
T ss_dssp             HTTCEETTEECEEEESSCCCC
T ss_pred             cCCCEECCEEEEEEECCCccc
Confidence            999999999999999987654

>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=99.77  E-value=2.4e-18  Score=128.89  Aligned_cols=79  Identities=24%  Similarity=0.399  Sum_probs=74.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|.+|.|+.+...|.               ++|||||+|.+.++|..|+..|||.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~---------------~~g~afV~f~~~~~a~~a~~~l~g~   66 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGS---------------SRGYGFVSFTSQDDAQNAMDSMQGQ   66 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCC---------------EEEEEEEEESCHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCC---------------ccceEEEEECCHHHHHHHHHHhcCC
Confidence            6899999  9999999999999999999999999877775               7899999999999999999999999


Q ss_pred             EECCeEEEEEEccccc
Q psy15187        224 HVQGVKLKVSLARRQL  239 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~  239 (298)
                      .|+|+.|+|.|+.+++
T Consensus        67 ~~~g~~l~v~~a~~~~   82 (83)
T 3md1_A           67 DLNGRPLRINWAAKLE   82 (83)
T ss_dssp             EETTEECEEEECCCCC
T ss_pred             eeCCcEEEEEecCcCC
Confidence            9999999999999764

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

Probab=99.76  E-value=6e-18  Score=134.75  Aligned_cols=88  Identities=22%  Similarity=0.383  Sum_probs=79.6

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ......++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~   74 (115)
T 2dgo_A           10 KDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGK---------------SKGYGFVSFFNKWDAENAI   74 (115)
T ss_dssp             CCSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHH
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCC---------------cceEEEEEECCHHHHHHHH
Confidence            3445668999999  9999999999999999999999999877765               7899999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ..|||..|+|+.|+|.|+.++....
T Consensus        75 ~~l~g~~~~g~~l~V~~a~~~~~~~   99 (115)
T 2dgo_A           75 QQMGGQWLGGRQIRTNWATRKPPAP   99 (115)
T ss_dssp             HHTTTCEETTEECEEEESSCCCCCS
T ss_pred             HHhCCCEECCEEEEEEEccCCCCCC
Confidence            9999999999999999999876543

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

Probab=99.76  E-value=2.8e-18  Score=134.13  Aligned_cols=88  Identities=25%  Similarity=0.359  Sum_probs=79.7

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ......+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A   73 (103)
T 2cq0_A            9 NRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ---------------SKGFAFISFHRREDAARA   73 (103)
T ss_dssp             CCCCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCS---------------EEEEEEEEESSHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCc---------------eeeEEEEEECCHHHHHHH
Confidence            34455678999999  9999999999999999999999999877775               789999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |..|||..|+|+.|+|.|+.++...
T Consensus        74 ~~~l~g~~~~g~~l~v~~a~~~~~~   98 (103)
T 2cq0_A           74 IAGVSGFGYDHLILNVEWAKPSTNS   98 (103)
T ss_dssp             HHHTTTCEETTEECEEEESSCCCCS
T ss_pred             HHHcCCCeeCCcEEEEEECCCCCCC
Confidence            9999999999999999999986553

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

Probab=99.76  E-value=4.7e-18  Score=130.59  Aligned_cols=83  Identities=28%  Similarity=0.534  Sum_probs=77.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..|+..|
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l   67 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGR---------------SKGYGFITFSDSECARRALEQL   67 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCC---------------CCSEEEEEESCHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCc---------------eeeEEEEEECCHHHHHHHHHHh
Confidence            4568999999  8999999999999999999999999887775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.++..
T Consensus        68 ~g~~~~g~~l~V~~a~~~~~   87 (95)
T 2dnz_A           68 NGFELAGRPMRVGHVTERLD   87 (95)
T ss_dssp             TTCCSSSSCCEEEESSCCCC
T ss_pred             CCCeeCCcEEEEEEcccccC
Confidence            99999999999999987655

>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=6.1e-18  Score=127.19  Aligned_cols=79  Identities=23%  Similarity=0.440  Sum_probs=73.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+..|
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l   69 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK---------------HRGFAFVEFELAEDAAAAIDNM   69 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTE---------------ECSEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCc---------------cccEEEEEECCHHHHHHHHHHh
Confidence            4558999999  9999999999999999999999999877775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcc
Q psy15187        221 NGTHVQGVKLKVSLAR  236 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~  236 (298)
                      ||..|+|+.|+|.||+
T Consensus        70 ~g~~~~g~~l~v~~ak   85 (85)
T 3mdf_A           70 NESELFGRTIRVNLAK   85 (85)
T ss_dssp             TTCEETTEECEEEECC
T ss_pred             CCCEECCcEEEEEEcC
Confidence            9999999999999985

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

Probab=99.76  E-value=3.4e-18  Score=131.60  Aligned_cols=84  Identities=29%  Similarity=0.412  Sum_probs=77.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEE-EEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSV-SMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v-~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      .++++|||+|  +++++++|+++|++||.|..| .|+.++..|.               ++|||||+|.+.++|..|+..
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~---------------~~g~afV~f~~~~~A~~A~~~   67 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGN---------------SKGYAFINFASFDASDAAIEA   67 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCS---------------CCSEEEEEBSSHHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCC---------------cCeEEEEEECCHHHHHHHHHH
Confidence            4568999999  999999999999999999999 9998877775               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.|+.++...
T Consensus        68 l~g~~~~g~~l~v~~a~~~~~~   89 (96)
T 1x5t_A           68 MNGQYLCNRPITVSYAFKKDSK   89 (96)
T ss_dssp             TTTCEETTEECEEEESCCCCCC
T ss_pred             cCCCEECCEEEEEEEecccCCC
Confidence            9999999999999999986553

>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=5.5e-18  Score=130.92  Aligned_cols=82  Identities=20%  Similarity=0.258  Sum_probs=76.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      +++|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..|+..|||
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~A~~Ai~~l~g   66 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGR---------------SKGYAFIEFRDLESSASAVRNLNG   66 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCC---------------BCSEEEEEESSHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCc---------------cceEEEEEECCHHHHHHHHHHhCC
Confidence            47999999  9999999999999999999999999877775               899999999999999999999999


Q ss_pred             cEECCeEEEEEEccccccc
Q psy15187        223 THVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ..|+|+.|+|.|+.++...
T Consensus        67 ~~~~g~~l~V~~a~~~~~~   85 (96)
T 2x1f_A           67 YQLGSRFLKCGYSSNSDIS   85 (96)
T ss_dssp             CEETTEECEEEECSCSSGG
T ss_pred             CeECCeEEEEEEcCCCCCC
Confidence            9999999999999986553

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=5.6e-18  Score=131.99  Aligned_cols=86  Identities=21%  Similarity=0.375  Sum_probs=78.6

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||..
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A~~~   73 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK---------------HRGFAFVEFELAEDAAAAIDN   73 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCC---------------CSSEEEECCSSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCC---------------cceEEEEEECCHHHHHHHHHH
Confidence            34568999999  8999999999999999999999999877775               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |||..|+|+.|+|.|+.++....
T Consensus        74 l~g~~~~g~~l~V~~a~~~~~~~   96 (102)
T 2cqb_A           74 MNESELFGRTIRVNLAKPMRIKE   96 (102)
T ss_dssp             HTTEEETTEEEEEEECCCCCCCC
T ss_pred             hCCCEECCcEEEEEeCCCCCCCC
Confidence            99999999999999999866533

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.75  E-value=7.3e-18  Score=130.39  Aligned_cols=83  Identities=31%  Similarity=0.530  Sum_probs=75.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecC---ceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKG---RGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~---~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      .++++|||+|  +++++++|+++|++||.|..|.|+.++.   ++.               ++|||||+|.+.++|..||
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~---------------~~g~afV~f~~~~~a~~A~   67 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLL---------------SMGFGFVEYKKPEQAQKAL   67 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEE---------------EEEEEEEEESSHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcC---------------cccEEEEEECCHHHHHHHH
Confidence            4558999999  8999999999999999999999998865   555               7899999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.|+.++..
T Consensus        68 ~~l~g~~~~g~~l~V~~a~~~~~   90 (98)
T 2cpf_A           68 KQLQGHTVDGHKLEVRISERATK   90 (98)
T ss_dssp             HHSTTCEETTEECEEECSSCSSC
T ss_pred             HHhCCCeeCCeEEEEEEccCCCC
Confidence            99999999999999999987655

>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=99.75  E-value=6.3e-18  Score=132.34  Aligned_cols=86  Identities=27%  Similarity=0.370  Sum_probs=78.8

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ......++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~   74 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQ---------------HQGYGFVEFLSEEDADYAI   74 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCS---------------BCSCEEEEESSHHHHHHHH
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc---------------CCcEEEEEECCHHHHHHHH
Confidence            3445668999999  9999999999999999999999999877775               8999999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.|+.++..
T Consensus        75 ~~l~g~~~~g~~l~v~~a~~~~~   97 (105)
T 1x5u_A           75 KIMDMIKLYGKPIRVNKASAHNK   97 (105)
T ss_dssp             HHSSSCBCSSCBCEEEETTTTSC
T ss_pred             HHhCCCeECCeEEEEEECCCCCc
Confidence            99999999999999999998655

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

Probab=99.75  E-value=5.1e-18  Score=147.37  Aligned_cols=96  Identities=28%  Similarity=0.475  Sum_probs=88.7

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh--------------------
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai--------------------  196 (298)
                      .++|||+|  +++++++|+++|+.||.|.+|.|+.+      +++|||+|.+.++|++|+                    
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~  107 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN  107 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCC
Confidence            37999999  99999999999999999999999865      689999999999999999                    


Q ss_pred             --------------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        197 --------------------------------------------------------TDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       197 --------------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                                                                              +.++|||||+|.+.++|.+|+..|
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l  187 (216)
T 2qfj_A          108 IGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM  187 (216)
T ss_dssp             CGGGHHHHHHHHHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             ccccchhhhhhhcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHc
Confidence                                                                    114899999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.+++.
T Consensus       188 ~g~~~~g~~i~V~~a~~~~~  207 (216)
T 2qfj_A          188 NLFDLGGQYLRVGKAVTPPM  207 (216)
T ss_dssp             TTCBCSSSBCEEEECSSCSS
T ss_pred             cCCEeCCcEEEEEEecCCCC
Confidence            99999999999999998654

>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=1e-17  Score=132.30  Aligned_cols=87  Identities=24%  Similarity=0.376  Sum_probs=79.3

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~A~~A~~   75 (111)
T 1x4h_A           11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH---------------SKGCAFAQFMTQEAAQKCLA   75 (111)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCC---------------BCSEEEEEESSHHHHHHHHH
T ss_pred             cCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC---------------CccEEEEEECCHHHHHHHHH
Confidence            345568999999  9999999999999999999999999987775               89999999999999999999


Q ss_pred             HhC------CcEECCeEEEEEEcccccccc
Q psy15187        219 EVN------GTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       219 ~ln------G~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .||      |..|+|+.|+|.|+.++....
T Consensus        76 ~~~~~~~~~~~~~~g~~l~v~~a~~~~~~~  105 (111)
T 1x4h_A           76 AASLEAEGGGLKLDGRQLKVDLAVTRDEAA  105 (111)
T ss_dssp             HHCTTTTTCCEESSSCEEEEECCCCCCCCC
T ss_pred             HhccccccCCcEEcCEEEEEEECCCCccCC
Confidence            999      999999999999999876543

>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=99.75  E-value=4.1e-18  Score=141.47  Aligned_cols=91  Identities=30%  Similarity=0.517  Sum_probs=83.8

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec------CceeEEecChhhhhhhh--------------------
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk------~~gfV~f~~~~~adkai--------------------  196 (298)
                      .++|||+|  +++++++|+++|+.||.|.+|.|+.++      ++|||+|.+.++|++|+                    
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   81 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCC
Confidence            47999999  899999999999999999999999875      89999999999999999                    


Q ss_pred             ---------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeE--
Q psy15187        197 ---------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVK--  229 (298)
Q Consensus       197 ---------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~--  229 (298)
                                                                   +.++|||||+|.+.++|.+|+..|||..|+|+.  
T Consensus        82 ~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~  161 (167)
T 1fxl_A           82 SSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEP  161 (167)
T ss_dssp             CCGGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSC
T ss_pred             CcccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccc
Confidence                                                         114899999999999999999999999999964  


Q ss_pred             EEEEEc
Q psy15187        230 LKVSLA  235 (298)
Q Consensus       230 L~V~~A  235 (298)
                      |.|.||
T Consensus       162 i~v~~A  167 (167)
T 1fxl_A          162 ITVKFA  167 (167)
T ss_dssp             CEEEEC
T ss_pred             eEEEeC
Confidence            888886

>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=99.75  E-value=4.5e-18  Score=141.87  Aligned_cols=92  Identities=26%  Similarity=0.392  Sum_probs=84.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-------------------  196 (298)
                      ++++|||+|  +++++++|+++|++||.|.+|.|+.+      +++|||+|.+.++|++|+                   
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            357999999  99999999999999999999999877      379999999999999999                   


Q ss_pred             ----------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECC--e
Q psy15187        197 ----------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQG--V  228 (298)
Q Consensus       197 ----------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G--r  228 (298)
                                                                    +.++|||||+|.+.++|.+|+..|||..|+|  +
T Consensus        82 ~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~  161 (168)
T 1b7f_A           82 PGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQ  161 (168)
T ss_dssp             CCSSTTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CCcccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCe
Confidence                                                          1146999999999999999999999999988  9


Q ss_pred             EEEEEEc
Q psy15187        229 KLKVSLA  235 (298)
Q Consensus       229 ~L~V~~A  235 (298)
                      +|+|.||
T Consensus       162 ~l~V~~A  168 (168)
T 1b7f_A          162 PLSVRLA  168 (168)
T ss_dssp             CCEEEEC
T ss_pred             EEEEEeC
Confidence            9999986

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=4.1e-18  Score=133.64  Aligned_cols=83  Identities=19%  Similarity=0.391  Sum_probs=76.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+..|
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l   85 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY---------------LKGYTLVEYETYKEAQAAMEGL   85 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS---------------EEEEEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCc---------------eeeEEEEEECCHHHHHHHHHHh
Confidence            4558999999  9999999999999999999999999987775               7899999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.||.+++.
T Consensus        86 ~g~~~~g~~l~V~~a~~~~~  105 (106)
T 1p27_B           86 NGQDLMGQPISVDWCFVRGP  105 (106)
T ss_dssp             TTCBSSSSBCEEEESEESSC
T ss_pred             cCCEECCcEEEEEeecCCCC
Confidence            99999999999999987653

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.75  E-value=9.3e-18  Score=130.19  Aligned_cols=83  Identities=29%  Similarity=0.407  Sum_probs=76.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||. |
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~-~   71 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQR---------------PRGFGFITFEDEQSVDQAVN-M   71 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCS---------------CCSEEEEEESSHHHHHHHHH-H
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCC---------------CCceEEEEECCHHHHHHHHH-h
Confidence            4558999999  8999999999999999999999999877775               89999999999999999998 9


Q ss_pred             CCcEECCeEEEEEEccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ||..|+|+.|+|.++.++...
T Consensus        72 ~~~~~~g~~l~V~~a~~~~~~   92 (99)
T 2dgs_A           72 HFHDIMGKKVEVKRAEPRDSK   92 (99)
T ss_dssp             CCCBSSSCBCEEEECCCCCCC
T ss_pred             CCCEECCeEEEEEECCCCccc
Confidence            999999999999999986553

>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=99.75  E-value=4.9e-18  Score=142.33  Aligned_cols=93  Identities=25%  Similarity=0.336  Sum_probs=84.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee--------cCceeEEecChhhhhhhh-----------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE--------KGRGFVTFDSPESSDKAI-----------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d--------k~~gfV~f~~~~~adkai-----------------  196 (298)
                      +.++|||+|  +++++++|+++|++||+|.+|.|+.+        +++|||+|.+.++|++|+                 
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~   81 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQ   81 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceE
Confidence            347999999  99999999999999999999999865        568999999999999998                 


Q ss_pred             ---------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        197 ---------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       197 ---------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                                                                         +.++|||||+|.+.++|..|+..|||..+
T Consensus        82 ~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~  161 (175)
T 3nmr_A           82 MKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT  161 (175)
T ss_dssp             EEECGGGCCSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCC
T ss_pred             EccccccccccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcc
Confidence                                                               12589999999999999999999999877


Q ss_pred             C---CeEEEEEEcc
Q psy15187        226 Q---GVKLKVSLAR  236 (298)
Q Consensus       226 ~---Gr~L~V~~A~  236 (298)
                      .   |++|+|.||.
T Consensus       162 ~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          162 MEGCSSPMVVKFAD  175 (175)
T ss_dssp             CTTCSSCCEEEECC
T ss_pred             cCCCCCCeEEEecC
Confidence            7   4999999984

>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=7.7e-18  Score=134.27  Aligned_cols=84  Identities=29%  Similarity=0.466  Sum_probs=77.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||..|
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~~l   87 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL---------------SKCFGFVSYDNPVSAQAAIQSM   87 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCS---------------EEEEEEEECSSHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCC---------------cCccEEEEECCHHHHHHHHHHc
Confidence            3457999999  9999999999999999999999999877675               7899999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ||..|+|+.|+|.|+.++...
T Consensus        88 ~g~~~~g~~l~V~~a~~~~~~  108 (115)
T 2cpz_A           88 NGFQIGMKRLKVQLKRSKNDS  108 (115)
T ss_dssp             TTCEETTEECEEECCCCSCCC
T ss_pred             CCCEECCEEEEEEEcCCCCcC
Confidence            999999999999999986653

>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=5.9e-18  Score=132.23  Aligned_cols=85  Identities=24%  Similarity=0.336  Sum_probs=77.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ...+.++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||.
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A~~   73 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKA---------------PRGFAFVRFHDRRDAQDAEA   73 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCS---------------BCSCEEEEESSSSHHHHHHH
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCC---------------CCeEEEEEECCHHHHHHHHH
Confidence            345568999999  8999999999999999999999999887775               89999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.|+.....
T Consensus        74 ~l~g~~~~g~~l~V~~a~~~~~   95 (103)
T 2dnm_A           74 AMDGAELDGRELRVQVARYGRR   95 (103)
T ss_dssp             HHSSCCBTTBCCEEEECSSCCS
T ss_pred             HcCCCEECCcEEEEEECCcCCC
Confidence            9999999999999999997554

>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=1.1e-17  Score=128.23  Aligned_cols=81  Identities=21%  Similarity=0.338  Sum_probs=75.2

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+...++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..|+.
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A~~   76 (94)
T 2e5h_A           12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRK---------------SKGVAFILFLDKDSAQNCTR   76 (94)
T ss_dssp             CCCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCC---------------CTTCEEEEESCHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCC---------------cccEEEEEECCHHHHHHHHH
Confidence            345668999999  8999999999999999999999999887775               89999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcc
Q psy15187        219 EVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~  236 (298)
                      .|||..|+|+.|+|.||+
T Consensus        77 ~l~g~~~~g~~l~v~~ak   94 (94)
T 2e5h_A           77 AINNKQLFGRVIKASIAI   94 (94)
T ss_dssp             HTTTEEETTEEEEEEECC
T ss_pred             HcCCCeeCCcEEEEEecC
Confidence            999999999999999985

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

Probab=99.74  E-value=1.2e-17  Score=129.80  Aligned_cols=83  Identities=13%  Similarity=0.312  Sum_probs=75.7

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..|+..
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~---------------~~g~afV~f~~~~~a~~A~~~   77 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGK---------------PKGLAYVEYENESQASQAVMK   77 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TSC---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCC---------------EEeEEEEEECCHHHHHHHHHH
Confidence            34567999999  899999999999999999999999887 554               788999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.+++.
T Consensus        78 l~g~~~~g~~l~v~~a~~~~~   98 (100)
T 2do4_A           78 MDGMTIKENIIKVAISNSGPS   98 (100)
T ss_dssp             HTTEESSSCEEEEEECCCCSC
T ss_pred             hCCCEECCEEEEEEECCCCCC
Confidence            999999999999999987654

>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=99.74  E-value=1.3e-17  Score=125.98  Aligned_cols=82  Identities=18%  Similarity=0.417  Sum_probs=74.1

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..++|||+|  +++++++|+++|++||.|..|.|+.++..+-              .++|||||+|.+.++|..|+..||
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~--------------~~~g~afV~f~~~~~a~~A~~~l~   68 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPH--------------LSKGYAYVEFENPDEAEKALKHMD   68 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEE--------------EECSEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCC--------------CCCcEEEEEEecHHHHHHHHHHcC
Confidence            347999999  9999999999999999999999998875542              368899999999999999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|+|.++.+..
T Consensus        69 g~~~~g~~l~v~~a~~~~   86 (88)
T 4a8x_A           69 GGQIDGQEITATAVLAPW   86 (88)
T ss_dssp             TCEETTEECEEEEECCCC
T ss_pred             CCeECCeEEEEEECCCCC
Confidence            999999999999998643

>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=99.74  E-value=5.7e-18  Score=142.03  Aligned_cols=93  Identities=25%  Similarity=0.397  Sum_probs=86.4

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhcc----C-------CeeEEEEeeecCceeEEecChhhhhhhh--------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIF----G-------KICSVSMEVEKGRGFVTFDSPESSDKAI--------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~f----G-------~I~~v~i~~dk~~gfV~f~~~~~adkai--------------  196 (298)
                      +.++|||+|  +++|+++|+++|++|    |       .|.++.+..++++|||+|.+.++|++|+              
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v   82 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKI   82 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHGGGTTCEETTEECEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHHHhCCcEecCceeee
Confidence            347999999  999999999999999    7       8999999999999999999999999998              


Q ss_pred             --------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        197 --------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       197 --------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                                                                        +.++|||||+|.+.++|.+|+..|||..|+
T Consensus        83 ~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~  162 (172)
T 2g4b_A           83 RRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG  162 (172)
T ss_dssp             ECCSSCCCCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEET
T ss_pred             cCCcccCCCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEEC
Confidence                                                              124899999999999999999999999999


Q ss_pred             CeEEEEEEcc
Q psy15187        227 GVKLKVSLAR  236 (298)
Q Consensus       227 Gr~L~V~~A~  236 (298)
                      |+.|.|.||.
T Consensus       163 g~~l~V~~As  172 (172)
T 2g4b_A          163 DKKLLVQRAS  172 (172)
T ss_dssp             TEECEEEECC
T ss_pred             CeEEEEEeCC
Confidence            9999999973

>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=9e-18  Score=128.82  Aligned_cols=84  Identities=25%  Similarity=0.352  Sum_probs=76.3

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ...+.++++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..|
T Consensus         9 ~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A   73 (95)
T 2cqc_A            9 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---------------SRGFAFVYFENVDDAKEA   73 (95)
T ss_dssp             CCSCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSS---------------EEEEEEEEESSHHHHHHH
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCC---------------cccEEEEEECCHHHHHHH
Confidence            34455668999999  8999999999999999999999999877665               788999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      +..|||..|+|+.|+|.|++.
T Consensus        74 ~~~l~g~~~~g~~l~v~~a~~   94 (95)
T 2cqc_A           74 KERANGMELDGRRIRVSGPSS   94 (95)
T ss_dssp             HHHHTTEEETTEEEEEECCSC
T ss_pred             HHHhCCCEECCEEEEEEecCC
Confidence            999999999999999999874

>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=99.74  E-value=9.1e-18  Score=132.66  Aligned_cols=83  Identities=18%  Similarity=0.379  Sum_probs=77.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~Ai~~l   88 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF---------------SKGYALVEYETHKQALAAKEAL   88 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSS---------------BCSEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCC---------------cceEEEEEECCHHHHHHHHHHc
Confidence            4558999999  9999999999999999999999999887776               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.++..
T Consensus        89 ~g~~~~g~~l~V~~a~~~~~  108 (110)
T 1oo0_B           89 NGAEIMGQTIQVDWCFVKGP  108 (110)
T ss_dssp             TTCEETTEECEEEESEESSC
T ss_pred             CCCEECCcEEEEEEcccCCC
Confidence            99999999999999987654

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.74  E-value=6.3e-18  Score=131.32  Aligned_cols=84  Identities=30%  Similarity=0.436  Sum_probs=77.0

Q ss_pred             CCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeE--------EEEeeecCceeEEecChhhhhhhhhcCCceEEEEe
Q psy15187        138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICS--------VSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTF  207 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~--------v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F  207 (298)
                      ....+...++|||+|  +++++++|+++|++||.|..        |.|+.++..|.               ++|||||+|
T Consensus         6 ~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~---------------~~G~afV~f   70 (99)
T 2la6_A            6 HHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGK---------------LKGEATVSF   70 (99)
T ss_dssp             SCCSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCS---------------EEEEEEEEB
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCC---------------eeeEEEEEE
Confidence            344566778999999  99999999999999999999        99999887775               889999999


Q ss_pred             CCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        208 DSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       208 ~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      .+.++|..|+..|||..|+|+.|+|.+|+
T Consensus        71 ~~~~~a~~Ai~~l~g~~~~g~~l~V~~A~   99 (99)
T 2la6_A           71 DDPPSAKAAIDWFDGKEFSGNPIKVSFAT   99 (99)
T ss_dssp             SSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             CCHHHHHHHHHHhCCCEeCCcEEEEEecC
Confidence            99999999999999999999999999984

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.74  E-value=1.1e-17  Score=131.28  Aligned_cols=88  Identities=26%  Similarity=0.440  Sum_probs=79.2

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ......++|||+|  +++++++|+++|++||.|..|.|+.+ +..|.               ++|||||+|.+.++|..|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~---------------~~g~afV~f~~~~~a~~A   74 (107)
T 2cph_A           10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGA---------------HRGFGFVDFITKQDAKKA   74 (107)
T ss_dssp             CCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCS---------------SCSEEEEEESSHHHHHHH
T ss_pred             ccCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCC---------------cCceEEEEECCHHHHHHH
Confidence            3345668999999  89999999999999999999999988 66775               899999999999999999


Q ss_pred             HHHh-CCcEECCeEEEEEEcccccccc
Q psy15187        217 ITEV-NGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       217 i~~l-nG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |..| ||..|+|+.|+|.|+.++....
T Consensus        75 ~~~l~~~~~~~g~~l~v~~a~~~~~~~  101 (107)
T 2cph_A           75 FNALCHSTHLYGRRLVLEWADSEVTVQ  101 (107)
T ss_dssp             HHHHHTCCBSSSCBCEEEECCCCCCCC
T ss_pred             HHHhccCCeECCCEEEEEeCCCCCCCC
Confidence            9999 9999999999999999876533

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.74  E-value=2.3e-17  Score=135.62  Aligned_cols=86  Identities=30%  Similarity=0.409  Sum_probs=78.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|+.||.|.+|.|+.++..|.               ++|||||+|.+.++|.+||.
T Consensus        38 ~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~  102 (139)
T 1u6f_A           38 EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ---------------SRGYGFVKFQSGSSAQQAIA  102 (139)
T ss_dssp             CTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTE---------------EEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCC---------------cceEEEEEECCHHHHHHHHH
Confidence            344568999999  9999999999999999999999999987776               78999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      .|||..|+|+.|+|.|+.++...
T Consensus       103 ~l~g~~~~g~~l~v~~a~~~~~~  125 (139)
T 1u6f_A          103 GLNGFNILNKRLKVALAASGHQR  125 (139)
T ss_dssp             HTTTEECSSCEEEEEESSCCCCC
T ss_pred             HhCCCEECCeEEEEEECCCCCCC
Confidence            99999999999999999986553

>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=1e-17  Score=131.32  Aligned_cols=87  Identities=21%  Similarity=0.301  Sum_probs=79.0

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .......++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|
T Consensus         7 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~A~~A   71 (106)
T 2dgp_A            7 GMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGM---------------HKGCAFLTYCERESALKA   71 (106)
T ss_dssp             SCCCTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCS---------------CCSEEEEEESSHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCC---------------cceEEEEEECCHHHHHHH
Confidence            34455668999999  9999999999999999999999999887775               899999999999999999


Q ss_pred             HHHhCCcEE---CCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHV---QGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i---~Gr~L~V~~A~~k~~  240 (298)
                      |..|||..+   +|+.|+|.|+.++..
T Consensus        72 ~~~l~g~~~~~~~g~~l~v~~a~~~~~   98 (106)
T 2dgp_A           72 QSALHEQKTLPGMNRPIQVKPADSESR   98 (106)
T ss_dssp             HHHHTTTCCCTTCSSCCEEEECCCCSC
T ss_pred             HHHhcCCcccCCCCceEEEEECCcccc
Confidence            999999998   899999999997654

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

Probab=99.74  E-value=1.9e-18  Score=135.32  Aligned_cols=81  Identities=20%  Similarity=0.264  Sum_probs=75.8

Q ss_pred             CcEEEEcC--C------CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        145 GNTIFVQG--A------GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       145 ~~tLfVgn--~------~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      +++|||+|  +      ++++++|+++|++||.|.+|.|+.++.+|.               ++|||||+|.+.++|.+|
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~---------------~kG~afV~f~~~~~A~~A   70 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGK---------------TKGFLFVECGSMNDAKKI   70 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTE---------------ECSEEEEEESSHHHHHHH
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCc---------------cceEEEEEECCHHHHHHH
Confidence            47999999  7      899999999999999999999999988886               899999999999999999


Q ss_pred             HHHhCCcEECC-eEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQG-VKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~G-r~L~V~~A~~k~~  240 (298)
                      |..|||..|+| +.|+|.+|.++..
T Consensus        71 i~~lng~~~~g~r~l~V~~a~~~~~   95 (100)
T 3ns6_A           71 IKSFHGKRLDLKHRLFLYTMKDVER   95 (100)
T ss_dssp             HHHHTTCBSSSSCBCEEEESHHHHH
T ss_pred             HHHhCCcccCCCeEEEEEECchhhh
Confidence            99999999999 9999999987544

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.73  E-value=3.5e-18  Score=133.55  Aligned_cols=78  Identities=13%  Similarity=0.236  Sum_probs=72.1

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCC--eeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGK--ICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~--I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      -+||||+|  +++|+++|+++|++||.  |.+|.|++|+.+|.               ++|||||+|.+.++|.+||..|
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~---------------srG~aFV~f~~~~~A~~Ai~~l   73 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQ---------------NRGFAFVQLSSAMDASQLLQIL   73 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSS---------------CSSEEEEECSSSHHHHHHHHHH
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCC---------------CceEeEEEECCHHHHHHHHHHh
Confidence            36999999  99999999999999995  67899999988886               9999999999999999999999


Q ss_pred             CCc----EECCeEEEEEEccc
Q psy15187        221 NGT----HVQGVKLKVSLARR  237 (298)
Q Consensus       221 nG~----~i~Gr~L~V~~A~~  237 (298)
                      ||.    .|+|++|.|+||+.
T Consensus        74 ng~~~~~~i~Gr~i~V~~Aks   94 (95)
T 2lkz_A           74 QSLHPPLKIDGKTIGVDFAKS   94 (95)
T ss_dssp             HSSSSCEEETTEEEEEEECCC
T ss_pred             cCCCCCceECCEEEEEEEccC
Confidence            996    59999999999974

>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=9.9e-18  Score=133.17  Aligned_cols=87  Identities=28%  Similarity=0.489  Sum_probs=79.3

Q ss_pred             CCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ........++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..
T Consensus        19 ~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~F~~~~~A~~   83 (108)
T 2jrs_A           19 LQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGR---------------SKGYGFITFSDSECAKK   83 (108)
T ss_dssp             SCCSCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTE---------------EEEEEEEEESCHHHHHH
T ss_pred             cccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCc---------------cceEEEEEECCHHHHHH
Confidence            344556678999999  8999999999999999999999999987776               88999999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEccccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |+..|||..|+|+.|+|.++.++.
T Consensus        84 Ai~~l~g~~i~g~~l~V~~a~~k~  107 (108)
T 2jrs_A           84 ALEQLNGFELAGRPMKVGHVTERT  107 (108)
T ss_dssp             HHHHHTTCCSSSSCCEEECSCSSC
T ss_pred             HHHHcCCCEECCEEEEEEEcccCC
Confidence            999999999999999999998754

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=1.1e-17  Score=130.24  Aligned_cols=84  Identities=27%  Similarity=0.459  Sum_probs=77.5

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||..
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~A~~~   73 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQR---------------SRGFGFVTFENIDDAKDAMMA   73 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCS---------------CCSEEEEECSSHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCC---------------cccEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999999999999877775               889999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        74 l~g~~~~g~~l~v~~a~~~~~   94 (102)
T 1x5s_A           74 MNGKSVDGRQIRVDQAGKSSD   94 (102)
T ss_dssp             HTTCCTTSCCCEEEEEECCCC
T ss_pred             hCCCEECCeEEEEEECCCCCC
Confidence            999999999999999997655

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=1.5e-17  Score=131.95  Aligned_cols=86  Identities=27%  Similarity=0.453  Sum_probs=78.1

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCee--------EEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKIC--------SVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP  210 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~--------~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~  210 (298)
                      .....++|||+|  +++++++|+++|++||.|.        .|.|+.++..|.               ++|||||+|.+.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~---------------~~g~afV~f~~~   75 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGK---------------PKGDATVSYEDP   75 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCS---------------BCSEEEEEBSSH
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCC---------------eeeEEEEEECCH
Confidence            345668999999  8999999999999999999        699998877775               899999999999


Q ss_pred             HHHHHHHHHhCCcEECCeEEEEEEccccccc
Q psy15187        211 ESSDKAITEVNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       211 e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ++|..||..|||..|+|+.|+|.|+.++...
T Consensus        76 ~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~~  106 (113)
T 2cpe_A           76 PTAKAAVEWFDGKDFQGSKLKVSLARKKPPM  106 (113)
T ss_dssp             HHHHHHHHHHTTCEETTEECEEECSSCCCCS
T ss_pred             HHHHHHHHHcCCCccCCCEEEEEECCCCCCC
Confidence            9999999999999999999999999986653

>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=1.2e-17  Score=130.53  Aligned_cols=87  Identities=38%  Similarity=0.511  Sum_probs=77.1

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .......++|||+|  +++++++|+++|++||.|..|.|+.+  .|.               ++|||||+|.+.++|..|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~--~g~---------------~~g~afV~f~~~~~A~~A   71 (103)
T 2d9p_A            9 RITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGR---------------SKGFGFVCFSSPEEATKA   71 (103)
T ss_dssp             CCCCSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC--SSS---------------EEEEEEEEESSHHHHHHH
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CCC---------------cCEEEEEEECCHHHHHHH
Confidence            34445678999999  99999999999999999999999987  443               678899999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |..|||..|+|+.|+|.|+.++....
T Consensus        72 ~~~l~g~~~~g~~l~V~~a~~~~~~~   97 (103)
T 2d9p_A           72 VTEMNGRIVATKPLYVALAQRKEERQ   97 (103)
T ss_dssp             HHHHTTCBSSSSBCEEEECSSCCCCC
T ss_pred             HHHhCCCEeCCcEEEEEEecccccCC
Confidence            99999999999999999999876533

>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=99.73  E-value=2e-17  Score=129.44  Aligned_cols=84  Identities=24%  Similarity=0.268  Sum_probs=76.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..||..|
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~---------------~~g~afV~f~~~~~A~~Ai~~l   76 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGS---------------SKGCAFVKFSSHTEAQAAIHAL   76 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECS-SSC---------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCC---------------cCcEEEEEeCCHHHHHHHHHHH
Confidence            4568999999  999999999999999999999999886 454               7889999999999999999999


Q ss_pred             CCcEECC---eEEEEEEcccccccc
Q psy15187        221 NGTHVQG---VKLKVSLARRQLKVA  242 (298)
Q Consensus       221 nG~~i~G---r~L~V~~A~~k~~~~  242 (298)
                      ||..|.|   +.|+|.||.++....
T Consensus        77 ~g~~~~gg~~~~l~V~~a~~~~~~~  101 (105)
T 2dnh_A           77 HGSQTMPGASSSLVVKFADTDKESG  101 (105)
T ss_dssp             SSCCCCTTCSSCCEEEESCSSCCCS
T ss_pred             cCCccCCCCCccEEEEECccCcccC
Confidence            9999998   999999999876533

>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=99.73  E-value=1.7e-17  Score=133.48  Aligned_cols=82  Identities=23%  Similarity=0.438  Sum_probs=75.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..||..|
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~---------------~~g~afV~F~~~~~A~~Ai~~l   68 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSK---------------SRGFAFITFENPADAKNAAKDM   68 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST-TTT---------------CCCEEEEECSSHHHHHHHHHHC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCC---------------cccEEEEEECCHHHHHHHHHHh
Confidence            3457999999  899999999999999999999999887 554               8899999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.++..
T Consensus        69 ~g~~~~g~~l~V~~a~~~~~   88 (116)
T 2fy1_A           69 NGKSLHGKAIKVEQAKKPSF   88 (116)
T ss_dssp             SSCBCSSSBCEEEECCCSSC
T ss_pred             CCCEECCEEEEEEECCCCCC
Confidence            99999999999999987544

>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=99.72  E-value=6.4e-17  Score=126.30  Aligned_cols=87  Identities=29%  Similarity=0.423  Sum_probs=76.5

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .......++|||+|  +++++++|+++|++||.|..|.|+.+...                 ++|||||+|.+.++|..|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~-----------------~~g~afV~f~~~~~a~~A   71 (103)
T 2cq3_A            9 SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-----------------SKGFGFVTFENSADADRA   71 (103)
T ss_dssp             SCCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT-----------------TCCEEEEEESCHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC-----------------CcEEEEEEECCHHHHHHH
Confidence            34445668999999  99999999999999999999999887531                 478899999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |..|||..|+|+.|+|.|+.++....
T Consensus        72 ~~~l~g~~~~g~~l~v~~a~~~~~~~   97 (103)
T 2cq3_A           72 REKLHGTVVEGRKIEVNNATARVMTN   97 (103)
T ss_dssp             HHHHTTCEETTEECEEEECCSSCCCC
T ss_pred             HHHhCCCEECCEEEEEEEcccCCCCC
Confidence            99999999999999999999876533

>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=99.72  E-value=1.9e-18  Score=132.33  Aligned_cols=80  Identities=15%  Similarity=0.174  Sum_probs=69.6

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccC--CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFG--KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG--~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+|||+|  +++++++|+++|++||  .|.+|.|+.++..|.               ++|||||+|.+.++|.+||..||
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~---------------~kG~afV~f~~~~~a~~Ai~~l~   66 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ---------------SKGFALVGVGSEASSKKLMDLLP   66 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCC---------------EEEEEEECC-CHHHHHHHHHHGG
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCc---------------cCcEEEEEECCHHHHHHHHHHcC
Confidence            4799999  9999999999999999  999999999988776               89999999999999999999999


Q ss_pred             CcEECCeEEEEEEcccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|+|+.|+|.++.+.+.
T Consensus        67 g~~~~gr~i~V~~~~~~~~   85 (90)
T 3p5t_L           67 KRELHGQNPVVTPSNKLEH   85 (90)
T ss_dssp             GSCSSSCCCEECCC-----
T ss_pred             CCeeCCEEEEEEECCCCcc
Confidence            9999999999999987654

>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=1.4e-17  Score=134.75  Aligned_cols=85  Identities=19%  Similarity=0.376  Sum_probs=78.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..
T Consensus        19 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~   83 (126)
T 3ex7_B           19 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY---------------LKGYTLVEYETYKEAQAAMEG   83 (126)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSS---------------BCSCEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999999999999877775               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.|+.++...
T Consensus        84 l~g~~~~g~~l~v~~a~~~~~~  105 (126)
T 3ex7_B           84 LNGQDLMGQPISVDWCFVRGPP  105 (126)
T ss_dssp             HTTCBSSSSBCEEEESEESSSC
T ss_pred             hCCCeeCCeEEEEEEecCCCCC
Confidence            9999999999999999876553

>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=99.72  E-value=7.7e-17  Score=125.85  Aligned_cols=83  Identities=24%  Similarity=0.325  Sum_probs=74.2

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|..|.|+.++..                 ++|||||+|.+.++|..||.
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~-----------------~~g~afV~f~~~~~a~~A~~   73 (103)
T 2cqi_A           11 DDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS-----------------NDPYCFVEFYEHRDAAAALA   73 (103)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCS-----------------SCCEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCC-----------------CCCEEEEEECCHHHHHHHHH
Confidence            345568999999  99999999999999999999999987432                 46789999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.|+.++..
T Consensus        74 ~l~g~~~~g~~l~V~~a~~~~~   95 (103)
T 2cqi_A           74 AMNGRKILGKEVKVNWATTPSS   95 (103)
T ss_dssp             HHTTEEETTEEEEEEECCCTTC
T ss_pred             HhCCCCcCCCeEEEEECCCCcc
Confidence            9999999999999999998654

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.72  E-value=1.3e-17  Score=129.17  Aligned_cols=82  Identities=20%  Similarity=0.403  Sum_probs=76.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCee-EEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKIC-SVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~-~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....++|||+|  +++++++|+++|++||.|. .|.|+.++..|.               ++|||||+|.+.++|..|+.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~   70 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGI---------------PAGYCFVEFADLATAEKCLH   70 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCC---------------EEEEEEEECSCHHHHHHHHH
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCC---------------cCCEEEEEeCCHHHHHHHHH
Confidence            34568999999  9999999999999999999 999999987775               88999999999999999999


Q ss_pred             HhCCcEECCeE----EEEEEcccc
Q psy15187        219 EVNGTHVQGVK----LKVSLARRQ  238 (298)
Q Consensus       219 ~lnG~~i~Gr~----L~V~~A~~k  238 (298)
                      .|||..|+|+.    |+|.||.+.
T Consensus        71 ~l~g~~~~g~~~~~~l~v~~a~~~   94 (99)
T 2div_A           71 KINGKPLPGATPAKRFKLNYATYS   94 (99)
T ss_dssp             TTTTSEESSCSSCEECCEEETTCC
T ss_pred             HHcCCccCCCCcceeEEEeecCCC
Confidence            99999999999    999999864

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.72  E-value=1.2e-17  Score=133.51  Aligned_cols=79  Identities=30%  Similarity=0.513  Sum_probs=73.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus        38 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~---------------~~g~afV~f~~~~~A~~A~~~l  102 (118)
T 2khc_A           38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSL---------------SKCFGFVSFDNPDSAQVAIKAM  102 (118)
T ss_dssp             CCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSC---------------CCCEEEEEEESSHHHHHHHHHC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCC---------------cCcEEEEEECCHHHHHHHHHHc
Confidence            4458999999  9999999999999999999999999887775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcc
Q psy15187        221 NGTHVQGVKLKVSLAR  236 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~  236 (298)
                      ||..|+|+.|+|.|++
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            9999999999999985

>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=99.72  E-value=3.2e-17  Score=128.38  Aligned_cols=82  Identities=18%  Similarity=0.267  Sum_probs=75.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCc-eeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR-GFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~-gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...++|||+|  +++++++|+++|++|| |..|.|+.++.. |.               ++|||||+|.+.++|.+|| .
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~---------------~~g~afV~f~~~~~a~~A~-~   75 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPER---------------LKGFGYAEFEDLDSLLSAL-S   75 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTS---------------BCSCEEEEESSHHHHHHHH-G
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCC---------------cCeEEEEEECCHHHHHHHH-h
Confidence            4458999999  9999999999999999 999999988776 65               8999999999999999999 9


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.++.++...
T Consensus        76 l~g~~~~g~~l~V~~a~~~~~~   97 (104)
T 1wi8_A           76 LNEESLGNKRIRVDVADQAQDK   97 (104)
T ss_dssp             GGTCEETTEECEEEECCCCCCC
T ss_pred             cCCCEeCCcEEEEEEccCCCCC
Confidence            9999999999999999986653

>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=5.7e-17  Score=129.37  Aligned_cols=84  Identities=29%  Similarity=0.366  Sum_probs=76.5

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|.+||.
T Consensus        13 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~Ai~   77 (116)
T 2cqd_A           13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGK---------------SRGYGFVTMADRAAAERACK   77 (116)
T ss_dssp             CSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCC---------------CCSEEEEEESSHHHHHHHHT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCc---------------cceEEEEEECCHHHHHHHHH
Confidence            345568999999  9999999999999999999999999887776               89999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .||+ .|+|+.|+|.|+.....
T Consensus        78 ~~~~-~~~g~~l~V~~a~~~~~   98 (116)
T 2cqd_A           78 DPNP-IIDGRKANVNLAYLGAK   98 (116)
T ss_dssp             CSSC-EETTEECEEEESTTTCC
T ss_pred             hCCC-cCCCEEEEEEEcccCCC
Confidence            9998 89999999999986544

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.72  E-value=4.2e-17  Score=127.53  Aligned_cols=82  Identities=20%  Similarity=0.210  Sum_probs=75.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++|| |..|.|+.++..|.               ++|||||+|.+.++|..|| .
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~-~   74 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDK---------------FKGFCYVEFDEVDSLKEAL-T   74 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCS---------------EEEEEEEEESSHHHHHHHG-G
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCc---------------cceEEEEEECCHHHHHHHH-h
Confidence            34568999999  9999999999999997 99999999987775               7899999999999999999 9


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        75 l~g~~~~g~~l~V~~a~~~~~   95 (103)
T 2dng_A           75 YDGALLGDRSLRVDIAEGRKQ   95 (103)
T ss_dssp             GTTCEETTEECEEEECCCCCC
T ss_pred             hCCCeECCeEEEEEEecCCCC
Confidence            999999999999999997654

>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=99.72  E-value=3.9e-17  Score=137.67  Aligned_cols=100  Identities=17%  Similarity=0.288  Sum_probs=86.7

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEE-----eeecCceeEEecChhhhhhhh----------------
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSM-----EVEKGRGFVTFDSPESSDKAI----------------  196 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i-----~~dk~~gfV~f~~~~~adkai----------------  196 (298)
                      ..+...++|||+|  +++++++|+++|..||.|..+.|     -..+++|||+|.+.++|++|+                
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~   87 (175)
T 1fje_B            8 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEK   87 (175)
T ss_dssp             SSCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEEC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEec
Confidence            3456678999999  99999999999999997655222     223799999999999999999                


Q ss_pred             ---------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEE
Q psy15187        197 ---------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLK  231 (298)
Q Consensus       197 ---------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~  231 (298)
                                                                   +.++|||||+|.+.++|.+|+..|||..|+|+.|+
T Consensus        88 ~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~  167 (175)
T 1fje_B           88 PKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVS  167 (175)
T ss_dssp             CCCSSCSTTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEECSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEE
T ss_pred             CCCccccccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEecCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence                                                         13689999999999999999999999999999999


Q ss_pred             EEEccccc
Q psy15187        232 VSLARRQL  239 (298)
Q Consensus       232 V~~A~~k~  239 (298)
                      |.||.+++
T Consensus       168 v~~a~~k~  175 (175)
T 1fje_B          168 LYYTGEKG  175 (175)
T ss_dssp             EEECSSCC
T ss_pred             EEecCCCC
Confidence            99998763

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

Probab=99.72  E-value=6.4e-17  Score=128.40  Aligned_cols=83  Identities=25%  Similarity=0.357  Sum_probs=74.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...+++|||+|  +++++++|+++|++||.|..|.|+.++. |.               ++|||||+|.+.++|..||..
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~-g~---------------~~g~afV~f~~~~~a~~A~~~   75 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GK---------------SRGIGTVTFEQSIEAVQAISM   75 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-CS---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-CC---------------eeeEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999999999998864 54               788999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.....
T Consensus        76 l~g~~~~g~~l~v~~a~~~~~   96 (114)
T 2do0_A           76 FNGQLLFDRPMHVKMDERALP   96 (114)
T ss_dssp             HTTCEETTEECEEEECSCCCC
T ss_pred             hCCCEeCCCEEEEEEcccCCC
Confidence            999999999999999986443

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.71  E-value=1.5e-17  Score=130.03  Aligned_cols=85  Identities=18%  Similarity=0.313  Sum_probs=77.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhc-cCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSI-FGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~-fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      +..+++|||+|  +++++++|+++|++ ||.|..|.|+.++ .|.               ++|||||+|.+.++|..||.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~-~g~---------------~~g~afV~f~~~~~a~~A~~   69 (104)
T 2dhg_A            6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGV---------------SKGYGFVKFTDELEQKRALT   69 (104)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT-TCC---------------EEEEEEEEESCHHHHHHHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC-CCC---------------ccceEEEEECCHHHHHHHHH
Confidence            34568999999  99999999999999 9999999999987 665               78999999999999999999


Q ss_pred             HhCCcE-ECCeEEEEEEcccccccc
Q psy15187        219 EVNGTH-VQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       219 ~lnG~~-i~Gr~L~V~~A~~k~~~~  242 (298)
                      .|||.. |+|+.|+|.|+.++....
T Consensus        70 ~l~g~~~~~g~~l~v~~a~~~~~~~   94 (104)
T 2dhg_A           70 ECQGAVGLGSKPVRLSVAIPKASRV   94 (104)
T ss_dssp             HTTTCCSSSSSCCCCCBCCCCCSCC
T ss_pred             HccCCcccCCEeEEEEEccCCCcCC
Confidence            999999 999999999998765533

>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=99.71  E-value=2.7e-17  Score=126.26  Aligned_cols=80  Identities=31%  Similarity=0.440  Sum_probs=73.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++. |.               ++|||||+|.+.++|..|+..
T Consensus        13 ~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-g~---------------~~g~afV~f~~~~~a~~A~~~   76 (95)
T 2ywk_A           13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GK---------------PKSFGFVCFKHPESVSYAIAL   76 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-SC---------------EEEEEEEEESSTHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-CC---------------CceEEEEEECCHHHHHHHHHH
Confidence            34558999999  8999999999999999999999998865 54               788999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccc
Q psy15187        220 VNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~  237 (298)
                      |||..|+|+.|+|.|++.
T Consensus        77 l~g~~~~g~~l~V~~a~~   94 (95)
T 2ywk_A           77 LNGIRLYGRPINVSGPSS   94 (95)
T ss_dssp             HTTCEETTEECEEECCCC
T ss_pred             hCCCEECCCEEEEEEcCC
Confidence            999999999999999863

>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=99.71  E-value=4.4e-17  Score=136.70  Aligned_cols=85  Identities=22%  Similarity=0.284  Sum_probs=77.7

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++..+.               ++|||||+|.+.++|..||..
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~Ai~~  100 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT---------------ACGFCFVEYYSRADAENAMRY  100 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999999999999987775               789999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.||.+....
T Consensus       101 l~g~~~~g~~l~V~~a~~~~~~  122 (156)
T 1h2v_Z          101 INGTRLDDRIIRTDWDAGFKEG  122 (156)
T ss_dssp             TTTSEETTEECEEEEESCCCTT
T ss_pred             hCCCEECCeEEEEEECCCCCCc
Confidence            9999999999999999875543

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.71  E-value=2e-17  Score=140.27  Aligned_cols=81  Identities=20%  Similarity=0.229  Sum_probs=75.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccC--CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFG--KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG--~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++|||+|  +++++++|+++|++||  .|.+|.|+.|+..|.               ++|||||+|.+.++|..||..
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~---------------skGfaFV~f~~~~~A~~Ai~~  118 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQ---------------SKGYAEVVVASENSVHKLLEL  118 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCC---------------EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            347999999  9999999999999999  999999999988886               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |||..|+|+.|.|.+|.++.
T Consensus       119 lng~~~~Gr~l~V~~a~~~~  138 (156)
T 3n9u_C          119 LPGKVLNGEKVDVRPATRQN  138 (156)
T ss_dssp             STTCEETTEECEEEECCHHH
T ss_pred             cCCCEECCeEeEEEEcCCCc
Confidence            99999999999999998754

>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=99.71  E-value=4.7e-17  Score=123.16  Aligned_cols=79  Identities=20%  Similarity=0.404  Sum_probs=71.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+.
T Consensus         7 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~   71 (87)
T 3s7r_A            7 NEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGR---------------SRGFGFILFKDAASVEKVLD   71 (87)
T ss_dssp             CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC---------------EEEEEEEEESSTHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCc---------------cccEEEEEECCHHHHHHHHH
Confidence            345668999999  9999999999999999999999999887775               88999999999999999995


Q ss_pred             HhCCcEECCeEEEEEEc
Q psy15187        219 EVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A  235 (298)
                       ++|..|+|+.|.|.+|
T Consensus        72 -~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A           72 -QKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             -SSCEEETTEEEEEEEC
T ss_pred             -hCCCEECCEEEEEEeC
Confidence             5889999999999986

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.71  E-value=9.8e-18  Score=137.23  Aligned_cols=83  Identities=11%  Similarity=0.245  Sum_probs=76.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeE--EEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICS--VSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~--v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ...+++|||+|  +++|+++|+++|++||.|..  |.|+.|+.+|.               ++|||||+|.+. +|.+||
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~---------------~rG~aFV~f~~~-~a~~Ai   83 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQL---------------NRGFAFIQLSTI-EAAQLL   83 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSS---------------BCSCEEEECCHH-HHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCC---------------cceEEEEEECCH-HHHHHH
Confidence            35567999999  99999999999999999976  99999988886               899999999999 999999


Q ss_pred             HHhCCc----EECCeEEEEEEcccccc
Q psy15187        218 TEVNGT----HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~----~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||.    .|+|+.|+|.|+.++..
T Consensus        84 ~~l~g~~~~~~~~gr~l~V~~a~~~~~  110 (131)
T 2m2b_A           84 QILQALHPPLTIDGKTINVEFAKGSKR  110 (131)
T ss_dssp             HHHTTCCCSCCGGGCCCCCEECCCSCC
T ss_pred             HHhcCCCCCccCCCEEEEEEECCCCCC
Confidence            999999    99999999999987544

>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=99.71  E-value=4.9e-17  Score=123.23  Aligned_cols=77  Identities=23%  Similarity=0.384  Sum_probs=72.5

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+ .|||.
T Consensus         7 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~a~-~~~g~   70 (89)
T 3ucg_A            7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGH---------------PKGFAYIEFSDKESVRTSL-ALDES   70 (89)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSS---------------CCEEEEEEESSTHHHHHHG-GGTTC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCC---------------cceEEEEEECCHHHHHHHH-hcCCC
Confidence            6899999  9999999999999999999999999877775               8999999999999999999 99999


Q ss_pred             EECCeEEEEEEcccc
Q psy15187        224 HVQGVKLKVSLARRQ  238 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k  238 (298)
                      .|+|+.|+|.++++.
T Consensus        71 ~~~g~~l~V~~a~~~   85 (89)
T 3ucg_A           71 LFRGRQIKVIPKRTN   85 (89)
T ss_dssp             EETTEECEEEETTTT
T ss_pred             EECCcEEEEEEccCC
Confidence            999999999999863

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.71  E-value=3.8e-17  Score=129.84  Aligned_cols=87  Identities=20%  Similarity=0.256  Sum_probs=73.7

Q ss_pred             CCCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ....+..+++|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|.+
T Consensus        18 ~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~---------------~kg~afV~f~~~~~A~~   82 (109)
T 2rs2_A           18 GSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR---------------SRGFGFVTFMDQAGVDK   82 (109)
T ss_dssp             --------CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCC---------------CTTCEEEEESSHHHHHH
T ss_pred             ccccCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCC---------------cCcEEEEEECCHHHHHH
Confidence            334456668999999  9999999999999999999999999887776               89999999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEcccccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..+ |..|+|+.|.|.++.++..
T Consensus        83 Ai~~~-~~~l~g~~l~V~~a~~~~~  106 (109)
T 2rs2_A           83 VLAQS-RHELDSKTIDPKVAFPRRA  106 (109)
T ss_dssp             HHHSS-CEEETTEEEEEEECCCCCC
T ss_pred             HHHHC-CCcCCCEEEEEEEccCCCC
Confidence            99986 5999999999999987654

>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=99.71  E-value=5.2e-17  Score=127.51  Aligned_cols=80  Identities=20%  Similarity=0.399  Sum_probs=73.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....+++|||+|  +.+++++|+++|++||.|..|.|+.+. .|.               ++|||||+|.+.++|..||.
T Consensus        25 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~---------------~~g~afV~f~~~~~a~~A~~   88 (107)
T 3ulh_A           25 GVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGR---------------SLGTADVHFERKADALKAMK   88 (107)
T ss_dssp             CCCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT-TSC---------------EEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCC---------------cceEEEEEECCHHHHHHHHH
Confidence            345568999999  999999999999999999999999887 664               78899999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcc
Q psy15187        219 EVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~  236 (298)
                      .|||..|+|+.|+|.|+.
T Consensus        89 ~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           89 QYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             HHTTCEETTEECEEEEEC
T ss_pred             HhCCCEeCCcEEEEEEeC
Confidence            999999999999999985

>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=99.71  E-value=3.4e-17  Score=130.33  Aligned_cols=87  Identities=28%  Similarity=0.329  Sum_probs=76.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHH---HHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLR---QHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~---~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ....++|||+|  +++++++|+   ++|++||.|..|.|+.++.++.            .+.++|||||+|.+.++|..|
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~------------~~~~~G~afV~f~~~~~A~~A   79 (111)
T 2cpi_A           12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAG------------SQGPSASAYVTYIRSEDALRA   79 (111)
T ss_dssp             CCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCS------------SSCCCEEEEEEESSHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCc------------cCCCCeEEEEEECcHHHHHHH
Confidence            34567999999  999999999   9999999999999998876542            012678999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|||..|+|+.|+|.||.+++.
T Consensus        80 i~~lng~~~~gr~l~V~~a~~k~~  103 (111)
T 2cpi_A           80 IQCVNNVVVDGRTLKASLGTTKYC  103 (111)
T ss_dssp             HHHHTTEEETTEEEEEESCCCCSC
T ss_pred             HHHhCCCEECCEEEEEEecccccc
Confidence            999999999999999999998753

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=3.3e-17  Score=128.40  Aligned_cols=84  Identities=19%  Similarity=0.311  Sum_probs=77.1

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||.
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~a~~   76 (105)
T 2dh8_A           12 GADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQ---------------SRGFGFVKFKDPNCVGTVLA   76 (105)
T ss_dssp             CSSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCC---------------EEEEEEEEESSTTHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCC---------------cceEEEEEECCHHHHHHHHH
Confidence            345668999999  9999999999999999999999999987775               88999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      . ||..|+|+.|.|.++.++..
T Consensus        77 ~-~~~~~~g~~l~V~~a~~~~~   97 (105)
T 2dh8_A           77 S-RPHTLDGRNIDPKPCTPRGM   97 (105)
T ss_dssp             H-CSEEETTEEEBCCCSCCSSC
T ss_pred             h-CCCeECCEEEEEEEccCCCC
Confidence            8 99999999999999987655

>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=99.71  E-value=7.9e-17  Score=124.82  Aligned_cols=80  Identities=20%  Similarity=0.255  Sum_probs=71.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHH----HHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLR----QHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~----~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ..+++|||+|  +++++++|+    ++|++||.|.+|.|+.++..                  +|||||+|.+.++|.+|
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~------------------rg~afV~f~~~~~A~~A   68 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY------------------QLKAVVQMENLQDAIGA   68 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST------------------TCCEEEEESSHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC------------------CeEEEEEECCHHHHHHH
Confidence            4568999999  999999999    99999999999999877431                  35699999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|||..|+|+.|+|.+|++...
T Consensus        69 i~~l~g~~~~gr~l~V~~a~~~~~   92 (96)
T 2dgx_A           69 VNSLHRYKIGSKKILVSLATGASG   92 (96)
T ss_dssp             HHHHTTEEETTEEEEEEECCCSSC
T ss_pred             HHHhCCCEECCeEEEEEEcCCCCC
Confidence            999999999999999999987544

>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=99.71  E-value=3.8e-17  Score=128.72  Aligned_cols=84  Identities=15%  Similarity=0.228  Sum_probs=75.7

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCC-eeEEEEe-eecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGK-ICSVSME-VEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~-I~~v~i~-~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+.++|||+|  +++++++|+++|++||. |..|.|+ .++..|.               ++|||||+|.+.++|..|+.
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~---------------~~g~afV~f~~~~~A~~A~~   70 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMK---------------NRGFAFVEYESHRAAAMARR   70 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTT---------------TCCEEEEEESSHHHHHHHHT
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCC---------------cCcEEEEEecCHHHHHHHHH
Confidence            4568999999  89999999999999998 9999988 6777665               89999999999999999999


Q ss_pred             HhC--CcEECCeEEEEEEccccccc
Q psy15187        219 EVN--GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~ln--G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      .||  +..|+|+.|+|.||.++...
T Consensus        71 ~l~~g~~~~~g~~l~V~~a~~~~~~   95 (109)
T 2dis_A           71 KLMPGRIQLWGHQIAVDWAEPEIDV   95 (109)
T ss_dssp             TTTTCCSCBTTBCCEEEESCSSCST
T ss_pred             HhhCCCceecCCeEEEEEcCCCCCc
Confidence            996  59999999999999986653

>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=99.70  E-value=2.8e-17  Score=127.10  Aligned_cols=82  Identities=20%  Similarity=0.247  Sum_probs=75.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.++.++..|.               ++|||||+|.+.++|.+||..
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~---------------~~g~afV~f~~~~~a~~Ai~~   76 (98)
T 2cqp_A           12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM---------------PTGEAMVAFESRDEATAAVID   76 (98)
T ss_dssp             CCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSC---------------EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCC---------------eeeEEEEEECCHHHHHHHHHH
Confidence            34558999999  9999999999999999999888888877775               789999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||..|+|+.|+|.++..+
T Consensus        77 l~g~~~~g~~l~V~~a~~~   95 (98)
T 2cqp_A           77 LNDRPIGSRKVKLVLGSGP   95 (98)
T ss_dssp             TTTCEETTEECEEEESSCS
T ss_pred             hCCCeeCCeEEEEEEcCCC
Confidence            9999999999999999864

>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=99.70  E-value=2.4e-17  Score=135.29  Aligned_cols=84  Identities=24%  Similarity=0.361  Sum_probs=77.3

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+.++++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||.
T Consensus        42 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~---------------~~G~afV~F~~~~~A~~Ai~  106 (129)
T 2kxn_B           42 NPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---------------SRGFAFVYFENVDDAKEAKE  106 (129)
T ss_dssp             CCCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSC---------------CCCEEEEEESCHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHH
Confidence            345568999999  9999999999999999999999999887775               89999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      .|||..|+|+.|+|.|+.++.
T Consensus       107 ~lng~~i~g~~l~V~~a~~~~  127 (129)
T 2kxn_B          107 RANGMELDGRRIRVDFSITKR  127 (129)
T ss_dssp             HHTTCCSSSSCCEESCCSSSS
T ss_pred             HhCCCEECCEEEEEEEecCCC
Confidence            999999999999999998754

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

Probab=99.70  E-value=4.5e-17  Score=128.34  Aligned_cols=82  Identities=20%  Similarity=0.223  Sum_probs=71.8

Q ss_pred             CCCCCcEEEEcC--CCC------CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHH
Q psy15187        141 KPKGGNTIFVQG--AGI------SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPES  212 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~------te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~  212 (298)
                      ....+++|||+|  +.+      ++++|+++|++||.|..|.|+  +..|.               ++|||||+|.+.++
T Consensus        11 ~~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~--~~~g~---------------~~G~afV~f~~~~~   73 (105)
T 2nlw_A           11 ADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGK---------------TKGYIFLEYASPAH   73 (105)
T ss_dssp             CCSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECC--CBTTB---------------SCCEEEEEECSSSH
T ss_pred             CCCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEee--CCCCC---------------eeeEEEEEECCHHH
Confidence            344568999999  777      789999999999999999887  34454               88999999999999


Q ss_pred             HHHHHHHhCCcEECCe-EEEEEEccccc
Q psy15187        213 SDKAITEVNGTHVQGV-KLKVSLARRQL  239 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr-~L~V~~A~~k~  239 (298)
                      |..||..|||..|+|+ .|+|.++....
T Consensus        74 A~~Ai~~l~g~~~~g~~~l~V~~a~~~~  101 (105)
T 2nlw_A           74 AVDAVKNADGYKLDKQHTFRVNLFTDFD  101 (105)
T ss_dssp             HHHHHHHCSSEECSTTCEEEEECSCCCC
T ss_pred             HHHHHHHhCCcccCCCceEEEEEcchHh
Confidence            9999999999999998 99999998643

>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=99.70  E-value=1.2e-17  Score=130.26  Aligned_cols=82  Identities=24%  Similarity=0.389  Sum_probs=76.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+..|||.
T Consensus         9 ~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~~l~g~   73 (104)
T 1p1t_A            9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGK---------------PKGYGFCEYQDQETALSAMRNLNGR   73 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTE---------------EEEEEEEECSCHHHHHHHHHHSSSB
T ss_pred             cEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCc---------------cceEEEEEECCHHHHHHHHHHhCCC
Confidence            6899999  9999999999999999999999999987776               8899999999999999999999999


Q ss_pred             EECCeEEEEEEcccccccc
Q psy15187        224 HVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .|+|+.|+|.|+.++....
T Consensus        74 ~~~g~~l~v~~a~~~~~~~   92 (104)
T 1p1t_A           74 EFSGRALRVDNAASEKNKE   92 (104)
T ss_dssp             SCSSSCBEEEETTCTTHHH
T ss_pred             eeCCcEEEEEeCCCccchh
Confidence            9999999999999865543

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

Probab=99.70  E-value=5.4e-17  Score=139.04  Aligned_cols=97  Identities=25%  Similarity=0.364  Sum_probs=88.1

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhcc----C-------CeeEEEEeeecCceeEEecChhhhhhhh--------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIF----G-------KICSVSMEVEKGRGFVTFDSPESSDKAI--------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~f----G-------~I~~v~i~~dk~~gfV~f~~~~~adkai--------------  196 (298)
                      ..++|||+|  +++++++|+++|++|    |       .|.++.+..++++|||+|.+.++|++||              
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al~l~g~~~~g~~i~v   82 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKI   82 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHGGGTTEEETTEEEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHHHhcCCEEcCceEEE
Confidence            357999999  999999999999999    6       7888888888999999999999999997              


Q ss_pred             ----------------------------------------------------------------------hcCCceEEEE
Q psy15187        197 ----------------------------------------------------------------------TDDCARGFVT  206 (298)
Q Consensus       197 ----------------------------------------------------------------------~~skGfaFV~  206 (298)
                                                                                            +.++|||||+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~  162 (198)
T 2yh0_A           83 RRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCE  162 (198)
T ss_dssp             ECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEE
T ss_pred             eCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEE
Confidence                                                                                  0148999999


Q ss_pred             eCCHHHHHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        207 FDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       207 F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |.+.++|..|+..|||..|+|+.|.|.|+.++..
T Consensus       163 f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  196 (198)
T 2yh0_A          163 YVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAK  196 (198)
T ss_dssp             ESSSSHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             ECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            9999999999999999999999999999987644

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.70  E-value=1.5e-16  Score=123.24  Aligned_cols=84  Identities=40%  Similarity=0.684  Sum_probs=73.3

Q ss_pred             CCCCCCCCcEEEEcCCCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        138 PNEKPKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       138 ~~~~~~~~~tLfVgn~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....+..+++|||+|.++++++|+++|++||.|..|.|.                     .++|||||+|.+.++|..||
T Consensus         8 ~~~~~~~~~~l~V~n~~~t~~~l~~~F~~~G~i~~v~i~---------------------~~~g~afV~f~~~~~a~~Ai   66 (97)
T 1x5p_A            8 ERRAPRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMD---------------------PPRNCAFVTYEKMESADQAV   66 (97)
T ss_dssp             CCCCCCCCSEEEEECSSCCHHHHHHHHTTTSCEEEEEEE---------------------TTTTEEEEEESSHHHHHHHH
T ss_pred             ccCCCCCCCEEEEcCCCCCHHHHHHHHhhCCCEEEEEec---------------------CCCCEEEEEECCHHHHHHHH
Confidence            344456778999999999999999999999999999873                     25667999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ..|||..|+|+.|+|.|+.+++...
T Consensus        67 ~~l~g~~~~g~~l~v~~a~~~~~~~   91 (97)
T 1x5p_A           67 AELNGTQVESVQLKVNIARKQPMLD   91 (97)
T ss_dssp             HHTTTEEETTEEEEEECCSSCCCCC
T ss_pred             HHhCCCeECCeEEEEEECCCCCCCC
Confidence            9999999999999999999876543

>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=5.7e-17  Score=135.83  Aligned_cols=83  Identities=22%  Similarity=0.370  Sum_probs=77.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~~l  132 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE---------------SRGFAFVRFHDKRDAEDAMDAM  132 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTT---------------SCCEEEEEESBHHHHHHHHHHS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCc---------------cceEEEEEECCHHHHHHHHHHh
Confidence            4457999999  9999999999999999999999999887775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.++..
T Consensus       133 ~g~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A          133 DGAVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             TTEESSSSEEEEEEECCSSC
T ss_pred             CCCEECCeEEEEEECCCCCC
Confidence            99999999999999997644

>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=9.1e-17  Score=129.82  Aligned_cols=84  Identities=19%  Similarity=0.393  Sum_probs=76.9

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....+++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..|+.
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~g~---------------~~g~afV~f~~~~~A~~Ai~   94 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGR---------------SLGTADVHFERRADALKAMK   94 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS-SSS---------------CCSEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC-CCC---------------EeeEEEEEECCHHHHHHHHH
Confidence            345668999999  999999999999999999999999887 665               88999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.||.....
T Consensus        95 ~l~g~~~~g~~l~V~~a~~~~~  116 (124)
T 2kt5_A           95 QYKGVPLDGRPMDIQLVASQID  116 (124)
T ss_dssp             HHTTEESSSCEEEEEEECCTTC
T ss_pred             HcCCCEECCcEEEEEEeCCCCC
Confidence            9999999999999999987554

>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=99.70  E-value=1.1e-17  Score=130.66  Aligned_cols=84  Identities=18%  Similarity=0.245  Sum_probs=72.1

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      .......++|||+|  +++++++|+++|++|| |.+|.|+.++ ..|.               ++|||||+|.+.++|..
T Consensus        13 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~---------------~~g~afV~f~~~~~a~~   76 (100)
T 2j76_E           13 RLPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPER---------------LKGFGYAEFEDLDSLLS   76 (100)
T ss_dssp             -------CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCC---------------CCSCEEEEECCHHHHHH
T ss_pred             cCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCc---------------cCeEEEEEECCHHHHHH
Confidence            34456668999999  9999999999999999 9999999887 4665               89999999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEccccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      || .|||..|+|+.|+|.++.++.
T Consensus        77 Ai-~l~g~~~~g~~l~V~~a~~~~   99 (100)
T 2j76_E           77 AL-SLNEESLGNRRIRVDVADQAQ   99 (100)
T ss_dssp             HH-HTTTCCBTTBCCCCEECCCSC
T ss_pred             HH-hcCCCEECCeEEEEEeccCCC
Confidence            99 899999999999999998754

>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=99.70  E-value=2.9e-17  Score=130.73  Aligned_cols=79  Identities=24%  Similarity=0.323  Sum_probs=74.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|| .|||.
T Consensus        26 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~-~l~g~   89 (114)
T 2cq4_A           26 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR---------------SKGIAYVEFCEIQSVPLAI-GLTGQ   89 (114)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSS---------------CCCCEEEEESCGGGHHHHH-HHTTE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCc---------------cCcEEEEEeCcHHHHHHHH-HcCCC
Confidence            7999999  9999999999999999999999999887775               8999999999999999999 99999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.|+.++..
T Consensus        90 ~~~g~~l~V~~a~~~~~  106 (114)
T 2cq4_A           90 RLLGVPIIVQASQAEKN  106 (114)
T ss_dssp             EETTEEEEEEEHHHHHH
T ss_pred             EeCCeEEEEEecCCCcc
Confidence            99999999999987654

>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=99.70  E-value=1.7e-16  Score=125.20  Aligned_cols=80  Identities=21%  Similarity=0.429  Sum_probs=71.6

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.+..                  ++|||||+|.+.++|..||..|
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~------------------~~g~afV~f~~~~~A~~A~~~l   81 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG------------------GPPFAFVEFEDPRDAEDAVYGR   81 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSS------------------SSCCEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC------------------CCcEEEEEECCHHHHHHHHHHc
Confidence            4558999999  9999999999999999999998865421                  5778999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+.++..
T Consensus        82 ~g~~~~g~~l~V~~a~~~~~  101 (109)
T 1x4a_A           82 DGYDYDGYRLRVEFPRSGRG  101 (109)
T ss_dssp             TTCEETTEECEEECCCCCCC
T ss_pred             CCCEECCeEEEEEEcccCCC
Confidence            99999999999999987654

>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=99.70  E-value=1.5e-16  Score=124.23  Aligned_cols=84  Identities=21%  Similarity=0.312  Sum_probs=75.5

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||.
T Consensus        11 ~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~   75 (103)
T 2cqg_A           11 AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGH---------------SKGFGFVRFTEYETQVKVMS   75 (103)
T ss_dssp             CCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCS---------------EEEEEEEEESSHHHHHHHHH
T ss_pred             ccCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCC---------------ccceEEEEECCHHHHHHHHH
Confidence            334567999999  9999999999999999999999999987775               88999999999999999998


Q ss_pred             HhCCcEECCeEEEEEEccccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                        +++.|+|+.|.|.|+.++...
T Consensus        76 --~~~~~~g~~l~v~~a~~~~~~   96 (103)
T 2cqg_A           76 --QRHMIDGRWCDCKLPNSKQSQ   96 (103)
T ss_dssp             --SCEEETTEEEEEECCCTTCCC
T ss_pred             --cCCeeCCeEEEEEecCCCCcC
Confidence              588999999999999987653

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.70  E-value=8e-17  Score=127.87  Aligned_cols=82  Identities=30%  Similarity=0.471  Sum_probs=73.7

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  .++++++|+++|++||.|..|.|+.+++ +                ++|||||+|.+.++|..|+.
T Consensus        25 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~----------------~kg~afV~f~~~~~A~~Ai~   87 (109)
T 2err_A           25 NKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER-G----------------SKGFGFVTFENSADADRARE   87 (109)
T ss_dssp             CTTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT-B----------------CTTEEEEECCCSHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC-C----------------CceEEEEEECCHHHHHHHHH
Confidence            344568999999  9999999999999999999999988753 1                57889999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      .|||..|+|+.|+|.++.++.
T Consensus        88 ~l~g~~~~g~~l~V~~a~~~~  108 (109)
T 2err_A           88 KLHGTVVEGRKIEVNNATARV  108 (109)
T ss_dssp             HHTTCEETTEECEEEECCCSC
T ss_pred             HcCCCEECCEEEEEEECCCCc
Confidence            999999999999999998753

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.70  E-value=8.7e-17  Score=124.32  Aligned_cols=72  Identities=15%  Similarity=0.212  Sum_probs=66.1

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+.-|||+|  +.+||++|+++|.+||+|.+|.+..                     ++|||||+|.+.++|..|++.||
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~---------------------~kGfaFVey~~~~eA~~Ai~~Ln   64 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL---------------------NQGIALCKYTTREEANKAQMALN   64 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET---------------------TTTEEEEEESSHHHHHHHHHHHT
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC---------------------CCcEEEEEECCHHHHHHHHHHhc
Confidence            346899999  9999999999999999999998753                     57779999999999999999999


Q ss_pred             CcEECCeEEEEEEcc
Q psy15187        222 GTHVQGVKLKVSLAR  236 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~  236 (298)
                      |..++|++|+|.+|.
T Consensus        65 ~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A           65 NCVLANTTIFAESPS   79 (89)
T ss_dssp             TEEETTEEEEEECCC
T ss_pred             CCEECCcEEEEEECC
Confidence            999999999999994

>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=99.70  E-value=1.2e-16  Score=145.89  Aligned_cols=101  Identities=16%  Similarity=0.225  Sum_probs=87.2

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee----cCceeEEecChhhhhhhh-----------------
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE----KGRGFVTFDSPESSDKAI-----------------  196 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d----k~~gfV~f~~~~~adkai-----------------  196 (298)
                      ...+.+++|||+|  +++|+++|+++|+.||+|.+|.|+.+    +++|||+|.+.++|++|+                 
T Consensus        36 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~~  115 (292)
T 2ghp_A           36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHL  115 (292)
T ss_dssp             ------CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEEC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEEEEC
Confidence            3456678999999  99999999999999999999999985    789999999999999998                 


Q ss_pred             --------------------------h--------------cCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        197 --------------------------T--------------DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       197 --------------------------~--------------~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                                                |              .++|||||+|.+.++|..|+..|||..|+|+.|.|.|+.
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence                                      2              268999999999999999999999999999999999998


Q ss_pred             cccc
Q psy15187        237 RQLK  240 (298)
Q Consensus       237 ~k~~  240 (298)
                      ++..
T Consensus       196 ~~~~  199 (292)
T 2ghp_A          196 PLEK  199 (292)
T ss_dssp             CC--
T ss_pred             CCcc
Confidence            7654

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=2.4e-17  Score=130.40  Aligned_cols=77  Identities=17%  Similarity=0.262  Sum_probs=71.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..++|||+|  +++|+++|+++|++||+|.+|.|+.++. |.               ++|||||+|.+.++|..||. +|
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g~---------------~rG~aFV~F~~~e~a~~Ai~-~~   72 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KA---------------FKGSIFVVFDSIESAKKFVE-TP   72 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-TS---------------CCCEEEEEESSHHHHHHHHT-SS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC-CC---------------CccEEEEEECCHHHHHHHHH-cC
Confidence            347899999  9999999999999999999999998876 65               89999999999999999999 99


Q ss_pred             CcEECCeEEEEEEccc
Q psy15187        222 GTHVQGVKLKVSLARR  237 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~  237 (298)
                      |..|+|+.|.|.|+..
T Consensus        73 ~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           73 GQKYKETDLLILFKDD   88 (103)
T ss_dssp             CCCCTTTTCEEEEHHH
T ss_pred             CCEECCEEEEEEEchH
Confidence            9999999999999765

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=5.3e-17  Score=129.52  Aligned_cols=80  Identities=11%  Similarity=0.177  Sum_probs=69.4

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+..+++|||+|  +++++++|+++|++||.|.+|.|+.+                     +|||||+|.+.++|..||.
T Consensus        12 ~~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~---------------------kGfaFVeF~~~~~A~~Ai~   70 (105)
T 1sjq_A           12 SGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG---------------------KNQAFIEMNTEEAANTMVN   70 (105)
T ss_dssp             CCCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC---------------------CCEEEEEECCHHHHHHHHH
Confidence            345678999999  99999999999999999999998865                     3458888888889999999


Q ss_pred             HhC--CcEECCeEEEEEEccccccc
Q psy15187        219 EVN--GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~ln--G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      .|+  |..|+|++|+|.||.++...
T Consensus        71 ~l~~~~~~l~Gr~l~V~~A~~~~~~   95 (105)
T 1sjq_A           71 YYTSVTPVLRGQPIYIQFSNHKELK   95 (105)
T ss_dssp             HHTTSCCEETTEECCBCCCSSSSCC
T ss_pred             HhccCCceECCEEEEEEEcCCCCCC
Confidence            986  47999999999999876553

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=8.2e-18  Score=126.83  Aligned_cols=79  Identities=29%  Similarity=0.442  Sum_probs=72.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .++++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+..|
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l   67 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNK---------------CKGYGFVDFDSPSAAQKAVTAL   67 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCS---------------CCSEEEEEESCHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC---------------cCcEEEEEECCHHHHHHHHHHh
Confidence            4568999999  9999999999999999999999999877775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcc
Q psy15187        221 NGTHVQGVKLKVSLAR  236 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~  236 (298)
                      ||..|+|+.|+|.+++
T Consensus        68 ~g~~~~g~~~~~~~~~   83 (85)
T 1x4e_A           68 KASGVQAQMAKQSGPS   83 (85)
T ss_dssp             HHHTCCEESCCSSCCC
T ss_pred             cCCeEeeEEEeecCCC
Confidence            9999999999887654

>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=9.8e-17  Score=129.31  Aligned_cols=80  Identities=24%  Similarity=0.390  Sum_probs=73.9

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..|| .|||
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~-~l~g   99 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGH---------------PKGYAYIEFAERNSVDAAV-AMDE   99 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSS---------------CEEEEEEEESSHHHHHHHH-TTTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCC---------------cccEEEEEECCHHHHHHHH-hcCC
Confidence            37999999  9999999999999999999999999877775               8899999999999999999 8999


Q ss_pred             cEECCeEEEEEEcccccc
Q psy15187        223 THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|+|+.|+|.|++....
T Consensus       100 ~~~~g~~l~V~~a~~~~~  117 (124)
T 2jwn_A          100 TVFRGRTIKVLPKRTNMP  117 (124)
T ss_dssp             CEETTEECEEEESSCCCS
T ss_pred             CeECCeEEEEEECCCCCC
Confidence            999999999999986443

>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=99.69  E-value=9.8e-17  Score=136.22  Aligned_cols=83  Identities=18%  Similarity=0.379  Sum_probs=76.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +.+++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~A~~Ai~~l  134 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF---------------SKGYALVEYETHKQALAAKEAL  134 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS---------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCc---------------EeeEEEEEECCHHHHHHHHHHh
Confidence            4457999999  9999999999999999999999999987776               8899999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|.|.|+.++..
T Consensus       135 ~g~~~~g~~l~V~~a~~~~~  154 (165)
T 1rk8_A          135 NGAEIMGQTIQVDWCFVKGP  154 (165)
T ss_dssp             TTCEETTEECEEEESEECC-
T ss_pred             CCCEECCEEEEEEEecCCCC
Confidence            99999999999999987655

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.69  E-value=6.4e-17  Score=123.46  Aligned_cols=81  Identities=26%  Similarity=0.484  Sum_probs=72.7

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|..|.|+.+  .|.               ++|||||+|.+.++|..|+..|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~--~g~---------------~~g~afV~f~~~~~a~~a~~~l   68 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGK---------------SKGCGVVKFESPEVAERACRMM   68 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES--SSC---------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc--CCC---------------cceEEEEEECCHHHHHHHHHHh
Confidence            4558999999  99999999999999999999999874  333               6788999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+++...
T Consensus        69 ~g~~~~g~~l~v~~a~~~~~   88 (92)
T 2dgv_A           69 NGMKLSGREIDVRIDRNASG   88 (92)
T ss_dssp             TTCCBTTBCCCCEECSCCSS
T ss_pred             CCCEECCcEEEEEEcCCCCC
Confidence            99999999999999987544

>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=99.69  E-value=2.9e-17  Score=126.10  Aligned_cols=81  Identities=20%  Similarity=0.235  Sum_probs=72.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.++.++..|.               ++|||||+|.+.++|.+||..
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~---------------~~g~afV~f~~~~~a~~Ai~~   76 (95)
T 2ek1_A           12 KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM---------------PTGEAMVAFESRDEATAAVID   76 (95)
T ss_dssp             ---CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSC---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCC---------------EeeEEEEEECCHHHHHHHHHH
Confidence            34458999999  9999999999999999999998888877765               789999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccc
Q psy15187        220 VNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~  237 (298)
                      |||..|+|+.|+|.++..
T Consensus        77 l~g~~~~gr~l~v~~a~s   94 (95)
T 2ek1_A           77 LNDRPIGSRKVKLSGPSS   94 (95)
T ss_dssp             HTTCEETTEECEEECCC-
T ss_pred             hCCCeECCcEEEEEeccC
Confidence            999999999999998763

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=1e-16  Score=127.90  Aligned_cols=81  Identities=22%  Similarity=0.297  Sum_probs=75.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||.. ||
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~---------------~~g~afV~f~~~~~a~~Ai~~-~~   90 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKR---------------SRGFGFVTFSSMAEVDAAMAA-RP   90 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSS---------------CCSEEEEECSSHHHHHHHHTS-CS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCC---------------cCceEEEEeCCHHHHHHHHHh-CC
Confidence            37999999  9999999999999999999999999887775               899999999999999999998 99


Q ss_pred             cEECCeEEEEEEccccccc
Q psy15187        223 THVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ..|+|+.|+|.++.++...
T Consensus        91 ~~~~g~~l~V~~a~~~~~~  109 (116)
T 1x4b_A           91 HSIDGRVVEPKRAVAREES  109 (116)
T ss_dssp             EEETTEEEEEECCSSCCCC
T ss_pred             cEECCEEEEEEECCCCccC
Confidence            9999999999999987653

>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=1.7e-16  Score=121.18  Aligned_cols=81  Identities=16%  Similarity=0.224  Sum_probs=73.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +...++|||+|  +++++++|+++|+.| .|..|.|+.+ ..|.               ++|||||+|.+.++|..||. 
T Consensus         7 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~-~~g~---------------~~g~afV~f~~~~~a~~A~~-   68 (91)
T 2dgw_A            7 GTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRN-AHGN---------------KTGYIFVDFSNEEEVKQALK-   68 (91)
T ss_dssp             CCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEEC-TTSC---------------EEEEEEEECSSHHHHHHHHH-
T ss_pred             CCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEEC-CCCC---------------CceEEEEEECCHHHHHHHHH-
Confidence            34568999999  999999999999999 9999999988 5554               78899999999999999999 


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|.|.++.+++.
T Consensus        69 ~~g~~~~gr~i~v~~a~~~~~   89 (91)
T 2dgw_A           69 CNREYMGGRYIEVFREKSGPS   89 (91)
T ss_dssp             SCSEEETTEEEEEEEESSCCC
T ss_pred             hCCceeCCcEEEEEECCcCCC
Confidence            999999999999999987644

>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=99.68  E-value=9.3e-17  Score=145.51  Aligned_cols=100  Identities=21%  Similarity=0.346  Sum_probs=89.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhh----------------------
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI----------------------  196 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai----------------------  196 (298)
                      .....++|||+|  +++|+++|+++|+.||.|..|.|..++++|||+|.+.++|++|+                      
T Consensus        18 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~~~~   97 (261)
T 3sde_A           18 TYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATHGA   97 (261)
T ss_dssp             SSCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCSS
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecccCC
Confidence            345568999999  99999999999999999999999999999999999999999998                      


Q ss_pred             ------------------------------------hcCCceEEEEeCCHHHHHHHHHHh-CCcEEC---CeEEEEEEcc
Q psy15187        197 ------------------------------------TDDCARGFVTFDSPESSDKAITEV-NGTHVQ---GVKLKVSLAR  236 (298)
Q Consensus       197 ------------------------------------~~skGfaFV~F~~~e~A~~Ai~~l-nG~~i~---Gr~L~V~~A~  236 (298)
                                                          +.++|||||+|.+.++|..||..| +|..+.   |++|.|.++.
T Consensus        98 ~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~  177 (261)
T 3sde_A           98 ALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPME  177 (261)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECC
T ss_pred             cccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecc
Confidence                                                226999999999999999999999 555655   9999999998


Q ss_pred             cccc
Q psy15187        237 RQLK  240 (298)
Q Consensus       237 ~k~~  240 (298)
                      ....
T Consensus       178 ~~~~  181 (261)
T 3sde_A          178 QFDD  181 (261)
T ss_dssp             CEES
T ss_pred             ccCc
Confidence            7543

>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=99.68  E-value=1.9e-16  Score=144.01  Aligned_cols=96  Identities=19%  Similarity=0.285  Sum_probs=88.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhh-------------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI-------------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai-------------------------  196 (298)
                      ..++|||+|  +++|+++|+++|+.|| |.+|.+...+++|||+|.+.++|++|+                         
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~~~~~l~   99 (284)
T 3smz_A           21 NRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLC   99 (284)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCSCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEEecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecCCCCEEE
Confidence            447999999  9999999999999999 999999878999999999999999999                         


Q ss_pred             ----------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        197 ----------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       197 ----------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                                                        +.++|||||+|.+.++|..|+..|||..|+|+.|.|.|+.+...
T Consensus       100 v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~  177 (284)
T 3smz_A          100 VANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQL  177 (284)
T ss_dssp             EESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGC
T ss_pred             EcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCC
Confidence                                              22689999999999999999999999999999999999987543

>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=99.68  E-value=1.1e-16  Score=126.97  Aligned_cols=79  Identities=16%  Similarity=0.194  Sum_probs=67.7

Q ss_pred             CCCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       141 ~~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ...++++|||+|  + ++++++|+++|++||.|.+|.|+.++                     |||||+|.+.++|..||
T Consensus        11 ~~~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k---------------------g~aFVef~~~~~A~~Ai   69 (102)
T 1x4d_A           11 RVETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI---------------------NEAFIEMATTEDAQAAV   69 (102)
T ss_dssp             CCCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS---------------------SCEEEEESSHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC---------------------CEEEEEECCHHHHHHHH
Confidence            345678999999  8 99999999999999999999998654                     34778888888999999


Q ss_pred             HHhCCc--EECCeEEEEEEcccccc
Q psy15187        218 TEVNGT--HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~--~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||.  .|.|++|+|.||.....
T Consensus        70 ~~l~~~~~~~~Gr~l~V~~a~~~~~   94 (102)
T 1x4d_A           70 DYYTTTPALVFGKPVRVHLSQKYKR   94 (102)
T ss_dssp             HHHHHSCCEETTEECEEEEECCCTT
T ss_pred             HHHcCCCceECCcEEEEEECCCCCC
Confidence            999864  59999999999996544

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.68  E-value=2.2e-16  Score=129.19  Aligned_cols=78  Identities=23%  Similarity=0.434  Sum_probs=72.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|.+|+..|
T Consensus        61 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~A~~~l  125 (140)
T 2ku7_A           61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK---------------HRGFAFVEFELAEDAAAAIDNM  125 (140)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCC---------------CCSEEEEEESCHHHHHHHHHHS
T ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCC---------------cCcEEEEEECCHHHHHHHHHHh
Confidence            3458999999  8999999999999999999999999877775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEc
Q psy15187        221 NGTHVQGVKLKVSLA  235 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A  235 (298)
                      ||..|+|+.|+|.||
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            999999999999986

>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=99.67  E-value=3.7e-16  Score=121.63  Aligned_cols=77  Identities=26%  Similarity=0.407  Sum_probs=67.5

Q ss_pred             CCCCCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ......+++|||+|  + ++++++|+++|++||.|..|.|.                       +|||||+|.+.++|..
T Consensus        16 ~~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~-----------------------~g~afV~f~~~~~A~~   72 (97)
T 2xnq_A           16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-----------------------NAFGFIQFDNPQSVRD   72 (97)
T ss_dssp             ---CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC-----------------------SSEEEEEESSHHHHHH
T ss_pred             cCCCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-----------------------CCEEEEEECCHHHHHH
Confidence            34456678999999  6 89999999999999999999872                       4569999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEcccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |+..|||..|+|+.|+|.|++.+
T Consensus        73 Ai~~l~g~~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           73 AIEXESQEMNFGKKLILEVSSSN   95 (97)
T ss_dssp             HHHHHTTSEETTEECEEEECCCC
T ss_pred             HHHHcCCCEECCEEEEEEecCCC
Confidence            99999999999999999999864

>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=99.67  E-value=4.5e-16  Score=123.04  Aligned_cols=77  Identities=21%  Similarity=0.345  Sum_probs=69.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +...++|||+|  +++++++|+++|++||.|..|.|+.+   ||                   |||+|.+.++|..||..
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~---g~-------------------afV~f~~~~~a~~Ai~~   69 (108)
T 1x4c_A           12 RRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD---GT-------------------GVVEFVRKEDMTYAVRK   69 (108)
T ss_dssp             CSCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT---TE-------------------EEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC---CE-------------------EEEEECCHHHHHHHHHH
Confidence            34568999999  99999999999999999999999876   44                   89999999999999999


Q ss_pred             hCCcEECC-----eEEEEEEcccccc
Q psy15187        220 VNGTHVQG-----VKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~G-----r~L~V~~A~~k~~  240 (298)
                      |||..|+|     +.|+|.+|.++..
T Consensus        70 l~g~~~~g~~~~~~~i~V~~a~~~~~   95 (108)
T 1x4c_A           70 LDNTKFRSHEGETAYIRVKVDGPRSP   95 (108)
T ss_dssp             SSSEEEECTTSCEEEEEEEESSCCSC
T ss_pred             HCcCCccCCcCcceEEEEEeCCCCCC
Confidence            99999999     9999999998654

>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=2e-17  Score=126.01  Aligned_cols=79  Identities=23%  Similarity=0.376  Sum_probs=70.7

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  .++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.+ |..|+..|||.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~-a~~a~~~l~g~   65 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKK---------------PKGFGFVEMQEES-VSEAIAKLDNT   65 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCC---------------CCEEEEEEECTTH-HHHHHHTSCSS
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCC---------------cceEEEEEECCHH-HHHHHHHhCCC
Confidence            5899999  9999999999999999999999999887775               8999999999999 99999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.+|.+...
T Consensus        66 ~~~g~~l~V~~a~~~~~   82 (90)
T 2ki2_A           66 DFMGRTIRVTEANPKKS   82 (90)
T ss_dssp             CCSSSSCSEEEC-----
T ss_pred             EECCeEEEEEEcCCCCC
Confidence            99999999999987554

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.67  E-value=3.9e-17  Score=120.24  Aligned_cols=73  Identities=25%  Similarity=0.371  Sum_probs=68.4

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+. |||..
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~a~~-~~~~~   64 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR---------------HRGFGFVTFESEDIVEKVCE-IHFHE   64 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTT---------------SCBEEEEECSCHHHHHHHHS-SSCCC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCC---------------cCcEEEEEECCHHHHHHHHH-CCCCE
Confidence            499999  9999999999999999999999998877675               89999999999999999997 99999


Q ss_pred             ECCeEEEEEEc
Q psy15187        225 VQGVKLKVSLA  235 (298)
Q Consensus       225 i~Gr~L~V~~A  235 (298)
                      |+|+.|.|.+|
T Consensus        65 ~~g~~l~v~~A   75 (75)
T 2mss_A           65 INNKMVECKKA   75 (75)
T ss_dssp             SSSCCCEEECC
T ss_pred             ECCEEEEEEeC
Confidence            99999999886

>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=99.67  E-value=3.4e-16  Score=142.33  Aligned_cols=98  Identities=16%  Similarity=0.283  Sum_probs=89.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh-------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI-------------------  196 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai-------------------  196 (298)
                      .+++|||+|  +++++++|+++|+.||.|..|.|+.+      +++|||+|.+.++|++|+                   
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            347999999  99999999999999999999999876      468999999999999999                   


Q ss_pred             -------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEECC
Q psy15187        197 -------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQG  227 (298)
Q Consensus       197 -------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~G  227 (298)
                                                                       +.++|||||+|.+.++|..|+..|||..|+|
T Consensus       174 ~~~~~~~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  253 (284)
T 3smz_A          174 AGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGG  253 (284)
T ss_dssp             GGGCCTTTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCcccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCC
Confidence                                                             1258999999999999999999999999999


Q ss_pred             eEEEEEEccccccc
Q psy15187        228 VKLKVSLARRQLKV  241 (298)
Q Consensus       228 r~L~V~~A~~k~~~  241 (298)
                      +.|+|.|+.++...
T Consensus       254 ~~l~v~~a~~~~~~  267 (284)
T 3smz_A          254 SHLRVSFCAPGPPG  267 (284)
T ss_dssp             EECEEEECCSSSCH
T ss_pred             eEEEEEEecCCCcc
Confidence            99999999886653

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.67  E-value=3.1e-17  Score=127.64  Aligned_cols=83  Identities=20%  Similarity=0.243  Sum_probs=73.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+...++|||+|  +++++++|+++|++||.|.. .++.+...|.               ++|||||+|.+.++|..||.
T Consensus        13 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~---------------~~g~afV~f~~~~~a~~A~~   76 (101)
T 1fj7_A           13 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGT---------------NRKFGYVDFESAEDLEKALE   76 (101)
T ss_dssp             TCSCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEET---------------TTTEEEEEESSHHHHHHHHH
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCC---------------cCcEEEEEECCHHHHHHHHh
Confidence            344568999999  99999999999999999988 6666666664               89999999999999999998


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                       |||..|+|+.|+|.++.++..
T Consensus        77 -l~g~~~~g~~l~V~~a~~~~~   97 (101)
T 1fj7_A           77 -LTGLKVFGNEIKLEKPKGRDG   97 (101)
T ss_dssp             -GGGCCBTTBCCEEECCSCCCC
T ss_pred             -cCCcEECCcEEEEEEcCCCCC
Confidence             999999999999999987654

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.67  E-value=5.8e-17  Score=133.86  Aligned_cols=84  Identities=21%  Similarity=0.358  Sum_probs=77.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||..
T Consensus        44 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~---------------~~G~afV~F~~~~~A~~Ai~~  108 (135)
T 2lea_A           44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE---------------SRGFAFVRFHDKRDAEDAMDA  108 (135)
T ss_dssp             GGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSS---------------CCSCCEEECSCHHHHHHHHTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            34567999999  8999999999999999999999998877775               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|++++..
T Consensus       109 l~g~~i~g~~l~V~~a~~~~~  129 (135)
T 2lea_A          109 MDGAVLDGRELRVQMARYGRP  129 (135)
T ss_dssp             TTTCCSSSSCCEEEECCCCCC
T ss_pred             cCCCEECCEEEEEEECCCCCC
Confidence            999999999999999997654

>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=99.67  E-value=2.2e-16  Score=140.26  Aligned_cols=97  Identities=16%  Similarity=0.339  Sum_probs=89.0

Q ss_pred             CCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhh--------------------
Q psy15187        142 PKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAIT--------------------  197 (298)
Q Consensus       142 ~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~--------------------  197 (298)
                      ..++++|||+|  + ++++++|+++|++||.|.+|.|+.+ +++|||+|.+.++|++|+.                    
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~  110 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ  110 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCc
Confidence            35668999999  6 8999999999999999999999988 5999999999999999880                    


Q ss_pred             ----------------------------------------c------------------------------------CCc
Q psy15187        198 ----------------------------------------D------------------------------------DCA  201 (298)
Q Consensus       198 ----------------------------------------~------------------------------------skG  201 (298)
                                                              .                                    ++|
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~g  190 (229)
T 2adc_A          111 NVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRK  190 (229)
T ss_dssp             CCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTT
T ss_pred             cccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECCCc
Confidence                                                    0                                    578


Q ss_pred             eEEEEeCCHHHHHHHHHHhCCcEEC-CeEEEEEEcccc
Q psy15187        202 RGFVTFDSPESSDKAITEVNGTHVQ-GVKLKVSLARRQ  238 (298)
Q Consensus       202 faFV~F~~~e~A~~Ai~~lnG~~i~-Gr~L~V~~A~~k  238 (298)
                      ||||+|.+.++|.+|+..|||..|+ |+.|+|.|++++
T Consensus       191 ~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~~  228 (229)
T 2adc_A          191 MALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  228 (229)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSSC
T ss_pred             EEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecCC
Confidence            9999999999999999999999999 999999999864

>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=99.67  E-value=2.2e-16  Score=125.29  Aligned_cols=81  Identities=20%  Similarity=0.271  Sum_probs=68.7

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ...++++|||+|  +++++++|+++|++||.|.+|.|+.+                     +|||||+|.+.++|..|+.
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~---------------------kg~aFVef~~~~~A~~Ai~   69 (104)
T 1wex_A           11 KVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF---------------------KRQALVEFENIDSAKECVT   69 (104)
T ss_dssp             CCCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHH
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC---------------------CCEEEEEECCHHHHHHHHH
Confidence            345568999999  99999999999999999999988753                     3458888888889999999


Q ss_pred             HhCCc--EECCeEEEEEEcccccccc
Q psy15187        219 EVNGT--HVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       219 ~lnG~--~i~Gr~L~V~~A~~k~~~~  242 (298)
                      .|||.  .|+|++|+|.|+..+....
T Consensus        70 ~l~~~~~~i~Gr~l~V~~a~~~~~~~   95 (104)
T 1wex_A           70 FAADVPVYIAGQQAFFNYSTSKRITR   95 (104)
T ss_dssp             HHHHSCCBSSSSBCEEEECSSSSCCC
T ss_pred             HhccCCceECCEEEEEEEccCccccC
Confidence            98764  5899999999999765543

>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=99.67  E-value=1.3e-16  Score=127.40  Aligned_cols=84  Identities=12%  Similarity=0.101  Sum_probs=75.7

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCe-eEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKI-CSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I-~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ..+.+.++|||+|  +++++++|+++|+.||.| ..|.|+.++ .|.               ++|||||+|.+.++|..|
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~-~g~---------------~~G~afV~F~~~~~a~~A   73 (114)
T 2cpy_A           10 DVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-NGQ---------------GLGQALVQFKNEDDARKS   73 (114)
T ss_dssp             SCCSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT-TSS---------------CSSCEEEECSSHHHHHHH
T ss_pred             CCCCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC-CCC---------------cceEEEEEECCHHHHHHH
Confidence            3445668999999  999999999999999999 889999887 665               899999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |.. ||..|+|+.|.|.++.++..
T Consensus        74 l~~-~~~~~~gr~i~v~~a~~~~~   96 (114)
T 2cpy_A           74 ERL-HRKKLNGREAFVHVVTLEDM   96 (114)
T ss_dssp             GGG-CSEEETTEEEEEEEECHHHH
T ss_pred             HHh-CCCccCCeEEEEEECCHHHH
Confidence            987 99999999999999987654

>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=99.66  E-value=2.2e-16  Score=121.58  Aligned_cols=80  Identities=20%  Similarity=0.354  Sum_probs=71.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHH----HHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLR----QHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~----~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .++++|||+|  +++++++|+    ++|++||.|..|.|+.   .|               .++|||||+|.+.++|..|
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~---~~---------------~~~g~afV~f~~~~~A~~A   67 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SL---------------KMRGQAFVIFKEVSSATNA   67 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH---HH---------------HHTTCEEEEESSHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc---CC---------------CcCcEEEEEeCCHHHHHHH
Confidence            4568999999  999999999    9999999999998763   22               2678899999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      +..|||..|+|+.|+|.|+.++..
T Consensus        68 ~~~l~g~~~~g~~l~v~~a~~~~~   91 (97)
T 1nu4_A           68 LRSMQGFPFYDKPMRIQYAKTDSD   91 (97)
T ss_dssp             HHHHTTCEETTEECEEEECSSCCT
T ss_pred             HHHhCCCEECCcEEEEEEccCCCc
Confidence            999999999999999999997654

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.66  E-value=2.9e-16  Score=126.19  Aligned_cols=81  Identities=17%  Similarity=0.123  Sum_probs=69.6

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccC-CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFG-KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG-~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      .+..+++|||+|  +++++++|+++|++|| .|..|.|+.++                   ++|||||+|.+.++|.+||
T Consensus        24 ~p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~-------------------~rGfaFV~F~~~e~A~~Ai   84 (111)
T 2jvr_A           24 LPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD-------------------FDGTGALEFPSEEILVEAL   84 (111)
T ss_dssp             -CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCS-------------------SSCCEEEEESSHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCC-------------------CCCEEEEEECCHHHHHHHH
Confidence            455678999999  9999999999999999 89999876432                   5667999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.++...+.
T Consensus        85 ~~lng~~l~Gr~i~V~~a~~~p~  107 (111)
T 2jvr_A           85 ERLNNIEFRGSVITVERDDNPPP  107 (111)
T ss_dssp             HHTTTEEETTEEEEEEESCC---
T ss_pred             HHcCCCEECCeEEEEEECCCCCC
Confidence            99999999999999999986543

>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=99.66  E-value=8e-17  Score=128.01  Aligned_cols=86  Identities=17%  Similarity=0.268  Sum_probs=71.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++++|||+|  +++++++|+++|++||.|..|.+..+...|.               ++|||||+|.+.++|..||..
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~---------------~~g~afV~f~~~~~a~~Ai~~   86 (115)
T 2cpx_A           22 GEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGR---------------MRGQAFITFPNKEIAWQALHL   86 (115)
T ss_dssp             CSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSS---------------SCSEEEEECSSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            34568999999  9999999999999999995443322222332               678899999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |||..|+|+.|+|.|+.++....
T Consensus        87 l~g~~~~g~~l~v~~a~~~~~~~  109 (115)
T 2cpx_A           87 VNGYKLYGKILVIEFGKNKKQRS  109 (115)
T ss_dssp             STTCBCSSCBCEEEECCCCSCCC
T ss_pred             hCCCEeCCcEEEEEEccCCCCCC
Confidence            99999999999999999866533

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.66  E-value=5.5e-17  Score=119.69  Aligned_cols=74  Identities=22%  Similarity=0.313  Sum_probs=69.8

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+..+| .
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~a~~~~~-~   64 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR---------------SRGFGFVTFMDQAGVDKVLAQSR-H   64 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSS---------------CSSEEEECCCCTTHHHHHHHTTT-C
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCC---------------cCceEEEEEcCHHHHHHHHHhCC-C
Confidence            4799999  8999999999999999999999999877775               89999999999999999999999 9


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .++|+.|.|.+|
T Consensus        65 ~~~g~~l~v~~a   76 (77)
T 1uaw_A           65 ELDSKTIDPKVA   76 (77)
T ss_dssp             CCSSCCCEEEEC
T ss_pred             ccCCEEEEEEec
Confidence            999999999987

>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=99.66  E-value=2.4e-16  Score=125.19  Aligned_cols=80  Identities=18%  Similarity=0.347  Sum_probs=72.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..||..|
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~-~g~---------------~~g~afV~f~~~~~a~~A~~~l   86 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGT---------------SRGVGFARMESTEKCEAVIGHF   86 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSC---------------EEEEEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCC---------------cceEEEEEECCHHHHHHHHHHh
Confidence            3458999999  899999999999999999999999987 664               7899999999999999999999


Q ss_pred             CCcEE--------CCeEEEEEEcccc
Q psy15187        221 NGTHV--------QGVKLKVSLARRQ  238 (298)
Q Consensus       221 nG~~i--------~Gr~L~V~~A~~k  238 (298)
                      ||..|        .|++|.|.||.++
T Consensus        87 ~g~~~~~~~~~~~~~~~l~v~~a~p~  112 (114)
T 1x5o_A           87 NGKFIKTPPGVSAPTEPLLCKFSGPS  112 (114)
T ss_dssp             BTCCCCCCTTSCCCSSCBEEEECCCS
T ss_pred             CCCEEcCCccccCCCCceeEEccCCC
Confidence            99999        5888999999853

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.66  E-value=2.3e-16  Score=129.57  Aligned_cols=81  Identities=16%  Similarity=0.353  Sum_probs=70.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHH----HHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLR----QHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~----~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ..++++|||+|  +.+++++|+    ++|++||.|.+|.|..   .|               .++|||||+|.+.++|..
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~---~~---------------~~rG~aFV~F~~~~~A~~   87 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL---SD---------------DNSGKAYIVFATQESAQA   87 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC---CC---------------SSCCCEEEEESSHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc---CC---------------CcCCEEEEEECCHHHHHH
Confidence            34568999999  899999876    6999999999987753   22               278889999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEcccccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|||..|.|++|+|.||..+..
T Consensus        88 Ai~~lng~~l~gr~l~V~~a~~~~~  112 (127)
T 2a3j_A           88 FVEAFQGYPFQGNPLVITFSETPQS  112 (127)
T ss_dssp             HHHHSTTCCCTTSCCEEEECCCCCH
T ss_pred             HHHHHCCCEeCCCEEEEEEccCcch
Confidence            9999999999999999999997654

>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=99.66  E-value=7e-16  Score=121.79  Aligned_cols=79  Identities=10%  Similarity=0.136  Sum_probs=68.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++++|||+|  +++++++|+++|++||.|.+|.|+.+                     +|||||+|.+.++|..|+..
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~---------------------kg~aFVef~~~~~A~~Ai~~   70 (101)
T 2cq1_A           12 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG---------------------KNQAFLELATEEAAITMVNY   70 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC---------------------CCEEEEEECCHHHHHHHHHH
Confidence            34568999999  99999999999999999999988754                     34588888888899999998


Q ss_pred             h--CCcEECCeEEEEEEccccccc
Q psy15187        220 V--NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 l--nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |  ++..|.|++|+|.|+..+...
T Consensus        71 l~~~~~~~~Gr~l~V~~a~~~~~~   94 (101)
T 2cq1_A           71 YSAVTPHLRNQPIYIQYSNHKELK   94 (101)
T ss_dssp             HHHSCCEETTEECEEEECSCSSCC
T ss_pred             hccCCceECCcEEEEEEcCcccCc
Confidence            7  578899999999999976553

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.47  E-value=6.5e-18  Score=135.06  Aligned_cols=85  Identities=31%  Similarity=0.454  Sum_probs=77.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeE--------EEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICS--------VSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPES  212 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~--------v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~  212 (298)
                      .+.++|||+|  +++++++|+++|++||.|..        |.|+.++..|.               ++|||||+|.+.++
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~---------------~~g~afV~f~~~~~   69 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGK---------------LKGEATVSFDDPPS   69 (116)
Confidence            3457999999  99999999999999999999        88888877675               89999999999999


Q ss_pred             HHHHHHHhCCcEECCeEEEEEEcccccccc
Q psy15187        213 SDKAITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |..||..|||..|+|+.|+|.|+.+++...
T Consensus        70 A~~Ai~~l~g~~~~g~~l~V~~a~~~~~~~   99 (116)
T 2lcw_A           70 AKAAIDWFDGKEFSGNPIKVSFATRRADFN   99 (116)
Confidence            999999999999999999999999876644

>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=99.66  E-value=3e-16  Score=124.81  Aligned_cols=81  Identities=15%  Similarity=0.278  Sum_probs=72.3

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +..+++|||+|  +++++++|+++|++||.|..|.|+.+.                  .++|||||+|.+.++|..|+..
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~------------------~~~g~afV~f~~~~~A~~A~~~   66 (115)
T 3lqv_A            5 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP------------------ETRGTAYVVYEDIFDAKNAVDH   66 (115)
T ss_dssp             TTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST------------------TTTTCEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC------------------CCCcEEEEEECCHHHHHHHHHH
Confidence            34568999999  999999999999999999999998652                  1467799999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        67 l~g~~~~g~~l~v~~a~~~~~   87 (115)
T 3lqv_A           67 LSGFNVSNRYLVVLYYNANRA   87 (115)
T ss_dssp             HTTCBSSSCBCEEEECCHHHH
T ss_pred             cCCCEECCeEEEEEEecCChh
Confidence            999999999999999987544

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=1.1e-15  Score=116.98  Aligned_cols=76  Identities=22%  Similarity=0.420  Sum_probs=68.5

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+++                       ||||+|.+.++|..|+..
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~-----------------------~afV~f~~~~~a~~A~~~   63 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD-----------------------YAFVHMERAEDAVEAIRG   63 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSS-----------------------EEEEEESCHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECC-----------------------EEEEEECCHHHHHHHHHH
Confidence            45568999999  99999999999999999999988632                       488999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        64 l~g~~~~g~~l~V~~a~~~~~   84 (92)
T 2dgt_A           64 LDNTEFQGKRMHVQLSTSRLR   84 (92)
T ss_dssp             HTTEEETTEEEEEEESSCCCS
T ss_pred             hCCCeeCCcEEEEEEccCCCC
Confidence            999999999999999987655

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=7e-16  Score=119.93  Aligned_cols=81  Identities=19%  Similarity=0.257  Sum_probs=70.1

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .....++|||+|  +++++++|+++|++||.|   .|+.+ ..|.               ++|||||+|.+.++|.+||.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~-~~g~---------------~~g~afV~f~~~~~A~~A~~   71 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQN-QNGK---------------SKGYAFIEFASFEDAKEALN   71 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBC-SSSC---------------BCSEEEEECSSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEEC-CCCC---------------EeeEEEEEECCHHHHHHHHH
Confidence            345568999999  999999999999999987   34544 3443               78899999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.|+.++..
T Consensus        72 ~l~g~~~~g~~l~v~~a~~~~~   93 (101)
T 2fc9_A           72 SCNKREIEGRAIRLELQGPRGS   93 (101)
T ss_dssp             HTSSEEETTEEEEEEECSSCCC
T ss_pred             HhCCCEeCCeEEEEEEcCCCCC
Confidence            9999999999999999988654

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

Probab=99.65  E-value=1.7e-15  Score=117.54  Aligned_cols=77  Identities=25%  Similarity=0.390  Sum_probs=68.2

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhcc--CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIF--GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~f--G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .....++|||+|  +++++++|+++|++|  |.|..|.++                       +|||||+|.+.++|..|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~-----------------------~g~afV~f~~~~~A~~A   67 (99)
T 2cpd_A           11 TMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI-----------------------RDYAFVHFSNREDAVEA   67 (99)
T ss_dssp             CSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC-----------------------SSEEEEEESSHHHHHHH
T ss_pred             ccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe-----------------------CCeEEEEeCCHHHHHHH
Confidence            345568999999  899999999999999  999988653                       45699999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|||..|+|+.|+|.|++++..
T Consensus        68 ~~~l~g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpd_A           68 MKALNGKVLDGSPIEVTLAKPVDK   91 (99)
T ss_dssp             HHHHSSEEETTEEEEEECCCCCCC
T ss_pred             HHHhCCCEeCCcEEEEEECCCCCC
Confidence            999999999999999999997654

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.65  E-value=5.5e-16  Score=120.58  Aligned_cols=84  Identities=24%  Similarity=0.395  Sum_probs=73.0

Q ss_pred             CCCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       139 ~~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .......++|||+|  +++++++|+++|+.|+   .|.++.++..+.               ++|||||+|.+.++|..|
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~---------------~~g~afV~f~~~~~A~~A   70 (102)
T 2fc8_A            9 NARSQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGS---------------SKGFGFVDFNSEEDAKAA   70 (102)
T ss_dssp             SSSSCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCS---------------EEEEEEEECSSHHHHHHH
T ss_pred             CCCCCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCC---------------cCcEEEEEECCHHHHHHH
Confidence            34455668999999  9999999999999884   667777766664               788999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..|||..|+|+.|+|.|+.++..
T Consensus        71 ~~~l~g~~~~g~~l~V~~a~~~~~   94 (102)
T 2fc8_A           71 KEAMEDGEIDGNKVTLDWAKPKGE   94 (102)
T ss_dssp             HHHHTTCEETTEECEEEECCCCCS
T ss_pred             HHHhCCCeECCeEEEEEEecCCCC
Confidence            999999999999999999998655

>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=99.65  E-value=8e-16  Score=121.51  Aligned_cols=80  Identities=30%  Similarity=0.533  Sum_probs=70.7

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|.|+.+                     +|||||+|.+.++|..||..
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~---------------------~g~afV~f~~~~~a~~A~~~   80 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE---------------------KGYSFVRFSTHESAAHAIVS   80 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC---------------------CCEEEEEECCHHHHHHHHHH
Confidence            34568999999  99999999999999999999998865                     34588888888899999999


Q ss_pred             hCCcEECCeEEEEEEcccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |||..|+|+.|+|.|+++++...
T Consensus        81 l~g~~~~g~~l~v~~a~~~~~~~  103 (109)
T 1x4g_A           81 VNGTTIEGHVVKCYWGKESPDMT  103 (109)
T ss_dssp             HTTCEETTEECEEECCCCCCSSC
T ss_pred             cCCCEECCcEEEEEecCCCCCCC
Confidence            99999999999999999876543

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.65  E-value=4.3e-16  Score=120.57  Aligned_cols=79  Identities=16%  Similarity=0.299  Sum_probs=69.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|. +.++.++                   ++|||||+|.+.++|..|+..
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~-------------------~~g~afV~f~~~~~a~~A~~~   75 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQG-------------------PRRRAFLHYPDSAAAQQAVSC   75 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEET-------------------TTTEEEEECSSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCC-------------------CCcEEEEEECCHHHHHHHHHH
Confidence            34568999999  8999999999999999996 6666543                   566699999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.++.++..
T Consensus        76 l~g~~~~g~~l~V~~a~~~~~   96 (97)
T 2e5j_A           76 LQGLRLGTDTLRVALARQQRD   96 (97)
T ss_dssp             HTTCCSSSSCCEEEECCCCCC
T ss_pred             hCCCEECCcEEEEEEcCCCCC
Confidence            999999999999999987643

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.65  E-value=4.9e-16  Score=122.89  Aligned_cols=77  Identities=18%  Similarity=0.269  Sum_probs=67.5

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++++|||+|  +++|+++|+++|++||.|.+|.|+++                     ||||||+|.+.++|..||..
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~---------------------kg~AFVef~~~~~A~~Av~~   76 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK---------------------KRQALVEFEDVLGACNAVNY   76 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcC---------------------CCEEEEEECCHHHHHHHHHH
Confidence            34668999999  89999999999999999999988743                     45588888888899999999


Q ss_pred             hCCcE--ECCeEEEEEEccccc
Q psy15187        220 VNGTH--VQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~--i~Gr~L~V~~A~~k~  239 (298)
                      |||..  |+|++|+|+|++.+.
T Consensus        77 ln~~~~~i~Gr~i~V~~S~~k~   98 (100)
T 3r27_A           77 AADNQIYIAGHPAFVNYSTSQK   98 (100)
T ss_dssp             HHHSCEEETTEEEEEEECSCSC
T ss_pred             hcCCCceeCCcEEEEEeccccc
Confidence            99875  789999999998754

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.65  E-value=2.8e-16  Score=126.69  Aligned_cols=81  Identities=16%  Similarity=0.173  Sum_probs=73.8

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCC---eeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGK---ICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~---I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ....++|||+|  +++|+++|+++|+.||.   |..|.|+.++. |.               ++|||||+|.+.++|.+|
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g~---------------~~G~afV~F~~~~~a~~A   77 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-GR---------------QSGEAFVELESEDDVKLA   77 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-SC---------------EEEEEEEEBSSHHHHHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-CC---------------CCeEEEEEECCHHHHHHH
Confidence            34568999999  99999999999999999   89999998876 65               789999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |. |||..|+|+.|.|.++..+.
T Consensus        78 l~-~~g~~~~gr~i~V~~a~~~~   99 (118)
T 2db1_A           78 LK-KDRESMGHRYIEVFKSHRTE   99 (118)
T ss_dssp             GG-GTTEEETTEEEEEEEECHHH
T ss_pred             Hh-cCCCeECCeEEEEEECCHHH
Confidence            99 99999999999999997643

>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=99.65  E-value=7.3e-16  Score=119.14  Aligned_cols=79  Identities=19%  Similarity=0.341  Sum_probs=69.4

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+.+.++|||+|  +++++++|+++|++||.|.+|.|+.+                     +|||||+|.+.++|..|+.
T Consensus        13 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~---------------------~g~afV~f~~~~~A~~A~~   71 (97)
T 1why_A           13 KANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG---------------------DSFAYIQYESLDAAQAACA   71 (97)
T ss_dssp             CCCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS---------------------SCCEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC---------------------CCEEEEEECCHHHHHHHHH
Confidence            345568999999  89999999999999999999988754                     3458888888889999999


Q ss_pred             HhCCcEEC--CeEEEEEEcccccc
Q psy15187        219 EVNGTHVQ--GVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~--Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+  |+.|+|.|+.+++.
T Consensus        72 ~l~g~~~~~~g~~l~V~~a~~~~~   95 (97)
T 1why_A           72 KMRGFPLGGPDRRLRVDFAKSGPS   95 (97)
T ss_dssp             HHTTCBCSSSSCBCEEEECCCCCC
T ss_pred             HHCCCEeCCCCcEEEEEECCCCCC
Confidence            99999999  99999999998654

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.65  E-value=2.6e-16  Score=135.56  Aligned_cols=94  Identities=16%  Similarity=0.333  Sum_probs=86.9

Q ss_pred             CcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhh-----------------------
Q psy15187        145 GNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAIT-----------------------  197 (298)
Q Consensus       145 ~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~-----------------------  197 (298)
                      +++|||+|  + ++++++|+++|++||.|.+|.|+.+ +++|||+|.+.++|++|+.                       
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~~~   82 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQ   82 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCSCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCCcC
Confidence            47999999  6 8999999999999999999999988 5999999999999999980                       


Q ss_pred             -------------------------------------c------------------------------------CCceEE
Q psy15187        198 -------------------------------------D------------------------------------DCARGF  204 (298)
Q Consensus       198 -------------------------------------~------------------------------------skGfaF  204 (298)
                                                           .                                    ++||||
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~~g~af  162 (198)
T 1qm9_A           83 LPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMAL  162 (198)
T ss_dssp             CSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTTSSCEE
T ss_pred             CCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCCCcEEE
Confidence                                                 0                                    578999


Q ss_pred             EEeCCHHHHHHHHHHhCCcEEC-CeEEEEEEcccc
Q psy15187        205 VTFDSPESSDKAITEVNGTHVQ-GVKLKVSLARRQ  238 (298)
Q Consensus       205 V~F~~~e~A~~Ai~~lnG~~i~-Gr~L~V~~A~~k  238 (298)
                      |+|.+.++|..|+..|||..|+ |+.|+|.|++++
T Consensus       163 V~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~  197 (198)
T 1qm9_A          163 IQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  197 (198)
T ss_dssp             EECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECCC
T ss_pred             EEeCCHHHHHHHHHHhcCCccCCCCeEEEEeeccc
Confidence            9999999999999999999999 999999999864

>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=99.65  E-value=4.9e-16  Score=120.56  Aligned_cols=80  Identities=23%  Similarity=0.380  Sum_probs=70.1

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....+.++|||+|  +++++++|+++|++||.|..|.|+.+                     +|||||+|.+.++|.+|+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~---------------------kg~afV~f~~~~~a~~a~   68 (99)
T 2cpj_A           10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD---------------------KGFGFIRLETRTLAEIAK   68 (99)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT---------------------TTEEEEECSSSHHHHHHH
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC---------------------CCEEEEEECCHHHHHHHH
Confidence            3445668999999  89999999999999999999988743                     455888888888999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.|+.++..
T Consensus        69 ~~l~g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpj_A           69 VELDNMPLRGKQLRVRFACHSAS   91 (99)
T ss_dssp             HHHTTCCBTTBCCEEEESSCCSC
T ss_pred             HHhCCCEeCCceEEEEEcCCCCC
Confidence            99999999999999999997654

>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=99.65  E-value=6.9e-16  Score=115.99  Aligned_cols=73  Identities=30%  Similarity=0.474  Sum_probs=65.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.+                     +|||||+|.+.++|..|+..|
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~---------------------kg~afV~f~~~~~A~~a~~~l   68 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR---------------------QQCAFIQFATRQAAEVAAEKS   68 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG---------------------GTEEEEEESSHHHHHHHHHTT
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC---------------------CCEEEEEECCHHHHHHHHHHh
Confidence            4557999999  89999999999999999999998864                     455888888888999999999


Q ss_pred             -CCcEECCeEEEEEEcc
Q psy15187        221 -NGTHVQGVKLKVSLAR  236 (298)
Q Consensus       221 -nG~~i~Gr~L~V~~A~  236 (298)
                       ||..++|+.|+|.||+
T Consensus        69 ~~~~~~~g~~l~v~~ak   85 (85)
T 2ytc_A           69 FNKLIVNGRRLNVKWGR   85 (85)
T ss_dssp             TTTCEETTEECCEEECC
T ss_pred             cCCeeECCCEEEEEecC
Confidence             9999999999999985

>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=99.64  E-value=5.7e-16  Score=126.16  Aligned_cols=80  Identities=13%  Similarity=0.210  Sum_probs=68.8

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++++|||+|  +++++++|+++|++||.|.+|.|+.++                     |||||+|.+.++|..||..
T Consensus        28 ~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~k---------------------G~AFVeF~~~e~A~~Ai~~   86 (119)
T 2ad9_A           28 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK---------------------NQAFIEMNTEEAANTMVNY   86 (119)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGG---------------------TEEEEECSCHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCC---------------------CEEEEEECCHHHHHHHHHH
Confidence            34568999999  999999999999999999999988653                     4477888888899999999


Q ss_pred             hCC--cEECCeEEEEEEcccccccc
Q psy15187        220 VNG--THVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       220 lnG--~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      |++  ..|.|++|+|.||..+....
T Consensus        87 l~~~~~~l~Gr~l~V~~a~~k~~~~  111 (119)
T 2ad9_A           87 YTSVTPVLRGQPIYIQFSNHKELKT  111 (119)
T ss_dssp             HHHHCCCBTTBCCEEEECSSSSCCC
T ss_pred             hccCCceECCeEEEEEEccCCCCCc
Confidence            984  68999999999999866543

>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=99.64  E-value=5.8e-16  Score=118.64  Aligned_cols=76  Identities=17%  Similarity=0.297  Sum_probs=66.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCC-eeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGK-ICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~-I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...++|||+|  +++++++|+++|++||. |..+.+.                      ++|||||+|.+.++|..|+..
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~----------------------~~g~afV~f~~~~~A~~A~~~   63 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL----------------------KSGYAFVDYPDQNWAIRAIET   63 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE----------------------ETTEEEECCSCHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            4557999999  99999999999999999 5555441                      356789999999999999999


Q ss_pred             hCC-cEECCeEEEEEEcccccc
Q psy15187        220 VNG-THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG-~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||| ..|+|+.|+|.|+.++..
T Consensus        64 l~g~~~~~g~~l~v~~a~~~~~   85 (93)
T 2cqh_A           64 LSGKVELHGKIMEVDYSVSKKL   85 (93)
T ss_dssp             HTTTCEETTEECEEEECCCCCC
T ss_pred             ccCCeeECCEEEEEEEccCccc
Confidence            999 999999999999997654

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

Probab=99.64  E-value=1.3e-15  Score=116.16  Aligned_cols=76  Identities=25%  Similarity=0.419  Sum_probs=67.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +...++|||+|  +++++++|+++|++||.|..|.|+.+                       ||||+|.+.++|..||..
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~-----------------------~afV~f~~~~~a~~A~~~   62 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-----------------------YAFVHMEKEADAKAAIAQ   62 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSS-----------------------CEEEEESCHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECC-----------------------EEEEEECCHHHHHHHHHH
Confidence            45568999999  99999999999999999999988732                       488888888899999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        63 l~g~~~~g~~l~v~~a~~~~~   83 (90)
T 2dnp_A           63 LNGKEVKGKRINVELSTKGQK   83 (90)
T ss_dssp             HTTCEETTEECEEEESCCCCC
T ss_pred             hCCCEECCcEEEEEECCCCCC
Confidence            999999999999999987644

>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=99.64  E-value=1.1e-15  Score=120.91  Aligned_cols=75  Identities=17%  Similarity=0.358  Sum_probs=66.7

Q ss_pred             CCCcEEEEcC--CC-CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AG-ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~-~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..+++|||+|  ++ +++++|+++|++||.|..|.|                       ++|||||+|.+.++|..||..
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i-----------------------~~g~afV~f~~~~~A~~A~~~   81 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-----------------------HKGYAFVQYSNERHARAAVLG   81 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE-----------------------ETTEEEEECSSSHHHHHHHHH
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE-----------------------eCCEEEEEECCHHHHHHHHHH
Confidence            3457999999  77 999999999999999999987                       256689999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.....
T Consensus        82 l~g~~~~g~~l~V~~a~~~~~  102 (110)
T 1wf1_A           82 ENGRVLAGQTLDINMAGEPKP  102 (110)
T ss_dssp             HTTCEETTEECCEEESCCCCS
T ss_pred             cCCCEECCeEEEEEECCCCCC
Confidence            999999999999999986433

>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=99.64  E-value=1.5e-16  Score=142.78  Aligned_cols=81  Identities=16%  Similarity=0.194  Sum_probs=74.8

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccC--CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFG--KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG--~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++|||+|  +++|+++|+++|++||  .|.+|.|+.|+.+|.               ++|||||+|.+.++|.+||..
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~---------------skGfaFV~f~~~~~a~~Ai~~  131 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ---------------SKGFALVGVGSEASSKKLMDL  131 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCC---------------EEEEEEEEESCTTHHHHHHTT
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCc---------------cceEEEEEECCHHHHHHHHHH
Confidence            347999999  9999999999999999  999999999988886               899999999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |||+.|+|+.|+|.||.++.
T Consensus       132 lng~~~~Gr~l~V~~a~~~~  151 (229)
T 3q2s_C          132 LPKRELHGQNPVVTPVNKQF  151 (229)
T ss_dssp             STTSCBTTBCCEEEECCHHH
T ss_pred             cCCCeECCEEeEEEECCCCc
Confidence            99999999999999997643

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

Probab=99.64  E-value=8.8e-16  Score=118.15  Aligned_cols=77  Identities=17%  Similarity=0.289  Sum_probs=71.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEE-EEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSV-SMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v-~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..+++|||+|  +++++++|+++|++||.|..| .|+.++..|.                   |||+|.+.++|..||..
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~-------------------afV~f~~~~~a~~Ai~~   73 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAV-------------------VNVTYSSKDQARQALDK   73 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEE-------------------EEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCE-------------------EEEEECCHHHHHHHHHH
Confidence            4468999999  999999999999999999999 5888877775                   99999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||..|+|+.|+|.++.++
T Consensus        74 l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           74 LNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             HTTCBCSSCBCEEEECCCC
T ss_pred             hCCCEECCcEEEEEEcCcc
Confidence            9999999999999999976

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

Probab=99.64  E-value=1.2e-16  Score=119.81  Aligned_cols=71  Identities=21%  Similarity=0.309  Sum_probs=63.4

Q ss_pred             CcEEEEcC--CCC------CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        145 GNTIFVQG--AGI------SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       145 ~~tLfVgn--~~~------te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      +++|||+|  +++      ++++|+++|++||.|.+|.|+  +..|.               ++|||||+|.+.++|..|
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~--~~~g~---------------~~g~afV~f~~~~~A~~A   63 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGK---------------TKGYIFLEYASPAHAVDA   63 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECC--CBTTB---------------CCCEEEEEESSHHHHHHH
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEec--CCCCc---------------EeEEEEEEECCHHHHHHH
Confidence            37899999  777      679999999999999999887  34444               789999999999999999


Q ss_pred             HHHhCCcEECCe-EEEE
Q psy15187        217 ITEVNGTHVQGV-KLKV  232 (298)
Q Consensus       217 i~~lnG~~i~Gr-~L~V  232 (298)
                      +..|||..|+|+ +|+|
T Consensus        64 i~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           64 VKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             HTTSSSCCCSSSSCCCC
T ss_pred             HHHhcCcccCCceeEEe
Confidence            999999999999 8877

>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=99.64  E-value=6.1e-16  Score=121.60  Aligned_cols=81  Identities=21%  Similarity=0.296  Sum_probs=72.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeE-EEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICS-VSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~-v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....++|||+|  +++++++|+++|++||.|.. |.|+.+ ..|.               ++|||||+|.+.++|..||.
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~-~~g~---------------~~G~afV~F~~~~~a~~A~~   75 (104)
T 1wg5_A           12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVD-FQGR---------------STGEAFVQFASQEIAEKALK   75 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBC-SSSC---------------BCSEEEEEESSHHHHHHHHT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEEC-CCCC---------------cceEEEEEECCHHHHHHHHH
Confidence            34568999999  99999999999999999998 888877 5564               88999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      . ||..|+|+.|.|.++..+.
T Consensus        76 ~-~~~~~~gr~i~v~~~~~~~   95 (104)
T 1wg5_A           76 K-HKERIGHRYIEIFKSSRAE   95 (104)
T ss_dssp             T-TTCCSSSSCCEEEEECTTT
T ss_pred             h-CcchhCCcEEEEEECCHHH
Confidence            7 9999999999999987654

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

Probab=99.64  E-value=5.6e-16  Score=120.48  Aligned_cols=76  Identities=20%  Similarity=0.266  Sum_probs=68.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +..+++|||+|  .++++++|+++|++||.|.+|.|+.                     ++|||||+|.+.++|..|+..
T Consensus        24 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~---------------------~~g~afV~f~~~~~A~~Ai~~   82 (101)
T 2la4_A           24 PPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP---------------------EKGCCFIKYDTHEQAAVCIVA   82 (101)
T ss_dssp             CSSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET---------------------TTTEEEEECSSHHHHHHHHHH
T ss_pred             CCCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec---------------------CCCEEEEEECCHHHHHHHHHH
Confidence            34458999999  9999999999999999999998862                     456689999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||..|+|+.|+|.|++++
T Consensus        83 l~g~~~~g~~l~V~~a~~~  101 (101)
T 2la4_A           83 LANFPFQGRNLRTGWGKER  101 (101)
T ss_dssp             HTTCEETTEECCCCBCCCC
T ss_pred             hCCCeECCeEEEEEeccCC
Confidence            9999999999999999863

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=3.2e-16  Score=125.44  Aligned_cols=77  Identities=22%  Similarity=0.257  Sum_probs=70.6

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||+|  +++++++|+++|+.| .|..|.|+.++. |.               ++|||||+|.+.++|.+|| .||
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~-g~---------------~~G~afV~F~~~~~a~~Al-~~~   76 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV-GR---------------NNGNGLVKFLSPQDTFEAL-KRN   76 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT-CC---------------CCSEEEEECSSHHHHHHHH-HTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC-CC---------------CCeEEEEEECCHHHHHHHH-hcC
Confidence            346999999  999999999999999 899999998876 65               8999999999999999999 799


Q ss_pred             CcEECCeEEEEEEcccc
Q psy15187        222 GTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k  238 (298)
                      |..|+|+.|.|..+..+
T Consensus        77 ~~~~~gr~i~V~~a~~~   93 (109)
T 2dnn_A           77 RMLMIQRYVEVSPATER   93 (109)
T ss_dssp             TEEETTEEEEEEECCHH
T ss_pred             CCeECCeEEEEEECCcc
Confidence            99999999999888754

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.64  E-value=4.1e-16  Score=121.27  Aligned_cols=75  Identities=21%  Similarity=0.452  Sum_probs=68.8

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.+                    ++|||||+|.+.++|..|+..|||.
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~--------------------~~g~afV~f~~~~~a~~A~~~l~g~   60 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN--------------------PPGFAFVEFEDPRDAEDAVRGLDGK   60 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS--------------------SSSEEEEECSSHHHHHHHHHHHHHS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC--------------------CCCEEEEEECCHHHHHHHHHHHCCC
Confidence            5899999  89999999999999999999999876                    2556999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.|+.+++.
T Consensus        61 ~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A           61 VICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CSSSCCCEEEESSSCCC
T ss_pred             eECCcEEEEEEccCCCC
Confidence            99999999999998664

>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=99.64  E-value=8.9e-17  Score=130.17  Aligned_cols=82  Identities=12%  Similarity=0.169  Sum_probs=73.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|+.||.|..|.++.+...|.               ++|||||+|.+.++|..||. |
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~---------------~~G~afV~F~~~~~a~~Al~-~   86 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGK---------------ATGEGFVEFRNEADYKAALC-R   86 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSS---------------EEEEEEEEBSSSHHHHHHHT-S
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCC---------------CCeEEEEEECCHHHHHHHHH-h
Confidence            4457999999  9999999999999999999876776666664               78999999999999999999 9


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|.|.++..+..
T Consensus        87 ~g~~~~gr~i~V~~a~~~~~  106 (124)
T 1wel_A           87 HKQYMGNRFIQVHPITKKGM  106 (124)
T ss_dssp             CSBCSTTSCBEEEEECHHHH
T ss_pred             CCCeECCcEEEEEECCHHHH
Confidence            99999999999999987543

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.63  E-value=1.4e-15  Score=115.94  Aligned_cols=77  Identities=21%  Similarity=0.422  Sum_probs=68.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..+.++|||+|  +++++++|+++|++||.|..|.|+                       +|||||+|.+.++|..|+..
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~-----------------------~g~afV~f~~~~~A~~A~~~   61 (90)
T 2dnq_A            5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII-----------------------KNYGFVHIEDKTAAEDAIRN   61 (90)
T ss_dssp             SSCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE-----------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE-----------------------CCEEEEEECCHHHHHHHHHH
Confidence            34568999999  999999999999999999999886                       34588999999999999999


Q ss_pred             hCCcEECCeEEEEEEccccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |||..|+|+.|+|.|+.++...
T Consensus        62 l~g~~~~g~~l~v~~a~~~~~~   83 (90)
T 2dnq_A           62 LHHYKLHGVNINVEASKNKSKA   83 (90)
T ss_dssp             HTTCBCSSCBCEEECSSCCCCC
T ss_pred             hcCCccCCcEEEEEECCCCCCC
Confidence            9999999999999999986653

>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=99.63  E-value=5.5e-16  Score=129.20  Aligned_cols=77  Identities=21%  Similarity=0.384  Sum_probs=69.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|.+|.|+.+                    ++|||||+|.+.++|..||..|
T Consensus        71 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~--------------------~~g~afV~f~~~~~a~~A~~~l  130 (150)
T 2i2y_A           71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN--------------------PPGFAFVEFEDPRDAADAVREL  130 (150)
T ss_dssp             TTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS--------------------SCSEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC--------------------CCcEEEEEECCHHHHHHHHHHc
Confidence            4458999999  99999999999999999999998865                    3566999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..|+|++|+|.|+.++.
T Consensus       131 ~g~~~~g~~l~v~~a~~~~  149 (150)
T 2i2y_A          131 DGRTLCGCRVRVELSNGEK  149 (150)
T ss_dssp             SSSCSSSSCCEEEECCCCC
T ss_pred             CCCEECCeEEEEEEcCCCC
Confidence            9999999999999998753

>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=99.63  E-value=3.2e-15  Score=116.85  Aligned_cols=77  Identities=27%  Similarity=0.472  Sum_probs=68.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+                       +|||||+|.+.++|.+||..|
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~-----------------------~~~afV~f~~~~~a~~A~~~l   65 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL-----------------------KDYAFIHFDERDGAVKAMEEM   65 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC-----------------------SSCEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE-----------------------CCEEEEEeCCHHHHHHHHHHH
Confidence            4458999999  899999999999999999999875                       234888888888999999999


Q ss_pred             CCcEECCeEEEEEEcccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ||..|+|+.|+|.|+.++....
T Consensus        66 ~g~~~~g~~l~v~~a~~~~~~~   87 (103)
T 2dgu_A           66 NGKDLEGENIEIVFAKPPDQKR   87 (103)
T ss_dssp             TTEEETTEEEEEEECCCCCCCC
T ss_pred             CCCccCCCEEEEEEcCCCcccc
Confidence            9999999999999998866543

>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=99.63  E-value=2.9e-16  Score=130.54  Aligned_cols=81  Identities=16%  Similarity=0.146  Sum_probs=73.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCC---eeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGK---ICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~---I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      +..+++|||+|  +++|+++|+++|++||.   |..|.|+.++. |.               ++|||||+|.+.++|.+|
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~-g~---------------srG~aFV~F~~~e~a~~A  104 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-GR---------------QSGEAFVELGSEDDVKMA  104 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-SC---------------EEEEEEEECSSHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-CC---------------CCeEEEEEECCHHHHHHH
Confidence            34568999999  99999999999999999   89999999877 75               889999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |. |||..|+|+.|.|.++.++.
T Consensus       105 l~-~~g~~l~gr~i~V~~a~~~e  126 (136)
T 2hgl_A          105 LK-KDRESMGHRYIEVFKSHRTE  126 (136)
T ss_dssp             HT-TTEEESSSSEEEEEECCHHH
T ss_pred             Hh-cCCCEECCEEEEEEECChHH
Confidence            99 99999999999999987643

>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=99.63  E-value=2.8e-16  Score=123.69  Aligned_cols=81  Identities=17%  Similarity=0.219  Sum_probs=71.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+...++|||+|  +++|+++|+++|++||. +.|.|+.++ .|.               ++|||||+|.+.++|.+|| 
T Consensus        11 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~v~i~~d~-~g~---------------~~G~afV~F~~~~~a~~Al-   72 (102)
T 1wez_A           11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGP-DGR---------------VTGEADVEFATHEDAVAAM-   72 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESS-SSC---------------EEEEEEEECSSSHHHHHHH-
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eEEEEEECC-CCC---------------EeeEEEEEECCHHHHHHHH-
Confidence            345568999999  99999999999999995 599999887 665               8899999999999999999 


Q ss_pred             HhCCcEECCeEEEEEEccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      .+|+..|+|+.|.|.++....
T Consensus        73 ~~~~~~~~gr~i~V~~~~~~~   93 (102)
T 1wez_A           73 AKDKANMQHRYVELFLNSTAG   93 (102)
T ss_dssp             TTSSCCSSSSCCEEEEECCCC
T ss_pred             HhCCCeECCcEEEEEECCCCC
Confidence            589999999999999988644

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.63  E-value=2.7e-16  Score=122.49  Aligned_cols=80  Identities=28%  Similarity=0.460  Sum_probs=72.0

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..|+.  |
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~---------------~~g~afV~f~~~~~a~~Ai~--~   69 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGV---------------SKGYGFVSFYNDVDVQKIVE--S   69 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TSC---------------EEEEEEEEESSCCCHHHHTT--C
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCC---------------ccceEEEEECCHHHHHHHHh--C
Confidence            347999999  899999999999999999999999987 664               78999999999999999998  9


Q ss_pred             CcEECCeEEEEEEccccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |..|+|+.|.|.++.++...
T Consensus        70 ~~~~~g~~l~v~~a~~~~~~   89 (102)
T 2xs2_A           70 QINFHGKKLKLGPAIRKQNL   89 (102)
T ss_dssp             CCEETTEECEEEEEEECC--
T ss_pred             CCeECCEEEEEEECCcCcch
Confidence            99999999999999876543

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.63  E-value=6.8e-16  Score=118.80  Aligned_cols=79  Identities=18%  Similarity=0.285  Sum_probs=68.4

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ....++|||+|  +++++++|+++|++||.|..|     ...|.               ++|||||+|.+.++|..|+..
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-----~~~~~---------------~~g~afV~f~~~~~a~~A~~~   72 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGK---------------SKGIAYIEFKSEADAEKNLEE   72 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-----EETTE---------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-----CCCCC---------------cceEEEEEECCHHHHHHHHHH
Confidence            34568999999  999999999999999988766     22232               678899999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||..|+|+.|+|.|+.++..
T Consensus        73 l~g~~~~g~~l~v~~a~~~~~   93 (96)
T 1fjc_A           73 KQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             TTEEEETTEEEEEEECSSSCC
T ss_pred             hCCCEECCeEEEEEEcCCCCC
Confidence            999999999999999987644

>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=99.62  E-value=1.3e-15  Score=123.09  Aligned_cols=78  Identities=21%  Similarity=0.309  Sum_probs=67.5

Q ss_pred             CCCcEEEE--cC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        143 KGGNTIFV--QG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       143 ~~~~tLfV--gn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .++++|||  ||  +++++++|+++|++||.|.+|.|+.+                     +|||||+|.+.++|.+|+.
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~---------------------rgfaFV~f~~~~~A~~Ai~   81 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN---------------------KPYSFARYRTTEESKRAYV   81 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT---------------------CSCEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC---------------------CCEEEEEECCHHHHHHHHH
Confidence            44678999  88  89999999999999999999987643                     4558888888889999999


Q ss_pred             HhCCcEE-----CCeEEEEEEccccccc
Q psy15187        219 EVNGTHV-----QGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~lnG~~i-----~Gr~L~V~~A~~k~~~  241 (298)
                      .|||..|     .|++|.|.|+...+..
T Consensus        82 ~lnG~~~~~~lg~g~~l~v~~a~~~p~~  109 (114)
T 2cq2_A           82 TLNGKEVVDDLGQKITLYLNFVEKVQWS  109 (114)
T ss_dssp             HTTTCEEECTTSCEEECEEEEESCCCCS
T ss_pred             HhCCCEEccccCCCcEEEEEecccCccc
Confidence            9999999     6999999999875543

>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=99.62  E-value=1.9e-15  Score=137.94  Aligned_cols=95  Identities=15%  Similarity=0.287  Sum_probs=85.9

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccC-CeeEEEEeee-----cCceeEEecChhhhhhhhh------------------
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFG-KICSVSMEVE-----KGRGFVTFDSPESSDKAIT------------------  197 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG-~I~~v~i~~d-----k~~gfV~f~~~~~adkai~------------------  197 (298)
                      ..++|||+|  +++++++|+++|+.|| .|..|.|+.+     +++|||+|.+.++|++|+.                  
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            357999999  8999999999999999 9999999874     6899999999999999981                  


Q ss_pred             --------------------------------------------------------cCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        198 --------------------------------------------------------DDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       198 --------------------------------------------------------~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                                                                              .++|||||+|.+.++|..|+ .||
T Consensus       196 ~~~~~~~~~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~  274 (292)
T 2ghp_A          196 PLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMN  274 (292)
T ss_dssp             CC---------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGT
T ss_pred             CCcccccccccCCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-Hhc
Confidence                                                                    13799999999999999999 999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|.|.||.+++
T Consensus       275 g~~~~g~~i~V~~a~~k~  292 (292)
T 2ghp_A          275 RSLLGNREISVSLADKKP  292 (292)
T ss_dssp             TEEETTEEEEEEECCCCC
T ss_pred             CCEECCcEEEEEEecCCC
Confidence            999999999999999764

>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=99.62  E-value=1.8e-16  Score=125.24  Aligned_cols=81  Identities=14%  Similarity=0.059  Sum_probs=74.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCC---eeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGK---ICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~---I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ...+++|||+|  +++|+++|+++|+.||.   |..|.|+.++. |.               ++|||||+|.+.++|..|
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g~---------------~~G~afV~F~~~~~a~~A   71 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-GK---------------RRGDALIEMESEQDVQKA   71 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-ST---------------TCSEEEEEBSSHHHHHHH
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-CC---------------EeeEEEEEECCHHHHHHH
Confidence            45568999999  99999999999999998   89999998877 75               899999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |. |||..|+|+.|.|.++.++.
T Consensus        72 l~-~~~~~~~gr~i~V~~a~~~~   93 (107)
T 2lmi_A           72 LE-KHRMYMGQRYVEVYEINNED   93 (107)
T ss_dssp             HT-TTTCCSSSSCCCCEECCHHH
T ss_pred             HH-hCcceeCCeEEEEEECCHHH
Confidence            99 99999999999999998654

>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=99.62  E-value=2.3e-16  Score=115.91  Aligned_cols=73  Identities=26%  Similarity=0.388  Sum_probs=67.9

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..|+.. +|..
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~a~~Ai~~-~~~~   64 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNK---------------RRGFCFITFKEEEPVKKIMEK-KYHN   64 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSS---------------SCCCEEEECSSSHHHHHHHTT-SSCC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC---------------cCCEEEEEECCHHHHHHHHHh-CCCe
Confidence            599999  9999999999999999999999998877775               899999999999999999985 9999


Q ss_pred             ECCeEEEEEEc
Q psy15187        225 VQGVKLKVSLA  235 (298)
Q Consensus       225 i~Gr~L~V~~A  235 (298)
                      |+|+.|.|.+|
T Consensus        65 ~~g~~l~v~~a   75 (75)
T 1iqt_A           65 VGLSKCEIKVA   75 (75)
T ss_dssp             BTTBCCCEEEC
T ss_pred             ECCEEEEEEEC
Confidence            99999999886

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

Probab=99.62  E-value=2e-15  Score=119.85  Aligned_cols=77  Identities=29%  Similarity=0.407  Sum_probs=68.0

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ....+++|||+|  +++++++|+++|++||.|..|.|+                       +|||||+|.+.++|..|+.
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~-----------------------kg~afV~f~~~~~A~~Ai~   83 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-----------------------NGFAFVEFEEAESAAKAIE   83 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE-----------------------TTEEEEECSSHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE-----------------------CCEEEEEECCHHHHHHHHH
Confidence            345568999999  999999999999999999999886                       3458888888999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|.|.|+.+++.
T Consensus        84 ~l~g~~~~g~~l~V~~a~~~~~  105 (108)
T 2jvo_A           84 EVHGKSFANQPLEVVYSKLPAK  105 (108)
T ss_dssp             HHTTCEETTEECEEESCSCCC-
T ss_pred             HcCCCEECCeEEEEEEecCCCC
Confidence            9999999999999999987654

>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=99.62  E-value=5.3e-16  Score=128.29  Aligned_cols=84  Identities=20%  Similarity=0.305  Sum_probs=70.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEE--Eeee---cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS--MEVE---KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD  214 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~--i~~d---k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~  214 (298)
                      ..++++|||+|  +++|+++|+++|++||.|..|.  ++.+   ...|               .++|||||+|.+.++|.
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g---------------~~~g~afV~f~~~~~A~  106 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEG---------------RMKGQAFIGLPNEKAAA  106 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEET---------------TTEEEEEEECSSHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCC---------------CcccEEEEEeCCHHHHH
Confidence            45668999999  9999999999999999998751  1111   1223               36788999999999999


Q ss_pred             HHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        215 KAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       215 ~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .||..|||..|+|+.|+|.||++...
T Consensus       107 ~Ai~~lng~~~~g~~l~V~~a~~~~~  132 (143)
T 3egn_A          107 KALKEANGYVLFGKPMVVQFARSARP  132 (143)
T ss_dssp             HHHHHHTTBEETTEECEEEECCCSCC
T ss_pred             HHHHHhCCCEeCCcEEEEEECCCCCC
Confidence            99999999999999999999987544

>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=3.5e-15  Score=135.41  Aligned_cols=54  Identities=28%  Similarity=0.548  Sum_probs=49.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHH----HHHhccCCeeEEEEeee---cCceeEEecChhhhhhhh
Q psy15187        143 KGGNTIFVQG--AGISEEFLR----QHFSIFGKICSVSMEVE---KGRGFVTFDSPESSDKAI  196 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~----~~F~~fG~I~~v~i~~d---k~~gfV~f~~~~~adkai  196 (298)
                      .++++|||+|  +++++++|+    ++|++||.|.+|.|+.+   +++|||+|.+.++|++||
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~   69 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNAL   69 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCCCCcceEEEEEECCHHHHHHHH
Confidence            4568999999  999999976    89999999999998863   789999999999999998

>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=99.61  E-value=7.2e-16  Score=122.93  Aligned_cols=73  Identities=22%  Similarity=0.274  Sum_probs=66.0

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      +++|||+|  +++++++|+++|++||.|..|.|+.                     ++|||||+|.+.++|..||..|||
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~---------------------~~g~afV~f~~~~~A~~Ai~~l~g   68 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE---------------------GGITAIVEFLEPLEARKAFRHLAY   68 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS---------------------SSSCEEEEESCHHHHHHHHHHHTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC---------------------CCCEEEEEeCCHHHHHHHHHHhCC
Confidence            47999999  9999999999999999999998864                     345588888888899999999999


Q ss_pred             cEECCeEEEEEEcccc
Q psy15187        223 THVQGVKLKVSLARRQ  238 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k  238 (298)
                      ..|+|+.|+|.||...
T Consensus        69 ~~~~g~~l~V~~a~~~   84 (111)
T 1whx_A           69 SKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             CBSSSSBCEEEEEETT
T ss_pred             CEECCeEEEEEECCCC
Confidence            9999999999999864

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.61  E-value=1.3e-15  Score=131.58  Aligned_cols=84  Identities=19%  Similarity=0.393  Sum_probs=76.5

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+..+++|||+|  +++++++|+++|++||.|..|.|+.++ .|.               ++|||||+|.+.++|..||.
T Consensus        84 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~-~g~---------------~kG~afV~F~~~~~A~~Ai~  147 (177)
T 2f3j_A           84 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGR---------------SLGTADVHFERRADALKAMK  147 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT-TSS---------------CSCCEEEEESCHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCC---------------EeeEEEEEeCCHHHHHHHHH
Confidence            445678999999  999999999999999999999999887 564               88999999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..|+|+.|+|.||.....
T Consensus       148 ~lng~~l~Gr~l~V~~a~~~~~  169 (177)
T 2f3j_A          148 QYKGVPLDGRPMDIQLVASQID  169 (177)
T ss_dssp             HSTTCBCSSSBCEEEEESSGGG
T ss_pred             HhCCCEECCEEEEEEEecCCCC
Confidence            9999999999999999986543

>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=99.61  E-value=4.1e-15  Score=145.27  Aligned_cols=83  Identities=22%  Similarity=0.392  Sum_probs=76.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .+.++|||+|  +.+|+++|.++|++||.|+.|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~---------------~kG~aFV~F~~~e~A~~Ai~~l  164 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGK---------------PRGYAFIEYEHERDMHSAYKHA  164 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCC---------------ccceEEEeeccHHHHHHHHHHc
Confidence            4557999999  9999999999999999999999999877775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|.|.|+.++..
T Consensus       165 ng~~i~gr~i~V~~a~~~~~  184 (437)
T 3pgw_S          165 DGKKIDGRRVLVDVERGRTV  184 (437)
T ss_pred             CCCEECCEEEEEEEeCCCCC
Confidence            99999999999999987544

>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=99.60  E-value=9.6e-16  Score=123.52  Aligned_cols=79  Identities=18%  Similarity=0.230  Sum_probs=67.5

Q ss_pred             CCCCcEEEEcC--CC-CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AG-ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~~-~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ..++++|||+|  ++ +++++|+++|++||.|.+|.|++                     ++|||||+|.+.++|..||.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~---------------------~kg~aFVef~~~~~A~~Ai~   80 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR---------------------MKSQAFIEMETREDAMAMVD   80 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET---------------------TTTEEEEECSSHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec---------------------CCCEEEEEECCHHHHHHHHH
Confidence            45578999999  77 99999999999999999998863                     35568888888889999999


Q ss_pred             HhC--CcEECCeEEEEEEccccccc
Q psy15187        219 EVN--GTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       219 ~ln--G~~i~Gr~L~V~~A~~k~~~  241 (298)
                      .||  +..|+|++|+|.||..+...
T Consensus        81 ~l~~~~~~l~Gr~l~V~~a~~~~~~  105 (112)
T 1x4f_A           81 HCLKKALWFQGRCVKVDLSEKYKKL  105 (112)
T ss_dssp             HHHHSCCCSSSSCCEEEEECSCSSS
T ss_pred             HhccCCceECCEEEEEEECcccccc
Confidence            886  45699999999999875543

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

Probab=99.60  E-value=1.4e-15  Score=117.67  Aligned_cols=76  Identities=26%  Similarity=0.401  Sum_probs=67.3

Q ss_pred             CCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       142 ~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ..++++|||+|  + ++++++|+++|++||.|..|.|.                       +|||||+|.+.++|..|+.
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~-----------------------~g~afV~f~~~~~A~~A~~   63 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-----------------------NAFGFIQFDNPQSVRDAIE   63 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE-----------------------TTEEEEEESCHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-----------------------CCEEEEEECCHHHHHHHHH
Confidence            34568999999  6 89999999999999999999873                       4569999999999999999


Q ss_pred             HhCCcEECCeEEEEEEcccccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      .|||..+.|+.|+|.|+.++..
T Consensus        64 ~l~g~~~~g~~l~V~~a~~~~~   85 (96)
T 2kvi_A           64 CESQEMNFGKKLILEVSSSNAR   85 (96)
T ss_dssp             HHTCSSCBTTTBCEEEEECCCC
T ss_pred             HcCCCeeCCcEEEEEEcCcCCC
Confidence            9999999999999999987654

>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=99.60  E-value=3.3e-15  Score=114.65  Aligned_cols=76  Identities=24%  Similarity=0.411  Sum_probs=60.0

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+...++|||+|  +++|+++|+++|++||.|.+|.|+.+                    ++|||||+|.+.++|..   
T Consensus         7 ~~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~--------------------srGfaFV~F~~~~~A~~---   63 (89)
T 3d2w_A            7 HHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP--------------------FRAFAFVTFADDKVAQS---   63 (89)
T ss_dssp             ----CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS--------------------CCSEEEEEESCHHHHHH---
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC--------------------CCCEEEEEECCHHHHHH---
Confidence            345568999999  99999999999999999999998863                    56779999999999873   


Q ss_pred             HhCCcEE--CCeEEEEEEcccccc
Q psy15187        219 EVNGTHV--QGVKLKVSLARRQLK  240 (298)
Q Consensus       219 ~lnG~~i--~Gr~L~V~~A~~k~~  240 (298)
                       |+|..+  .|+.|.|.+|.++..
T Consensus        64 -~~~~~~~~~g~~v~v~~a~~k~~   86 (89)
T 3d2w_A           64 -LCGEDLIIKGISVHISNAEPKHN   86 (89)
T ss_dssp             -HTTCEEEETTEEEEEEECC----
T ss_pred             -HcCCCcccCCEEEEEEEcCCCCc
Confidence             666655  499999999987643

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

Probab=99.60  E-value=4.9e-15  Score=117.65  Aligned_cols=81  Identities=21%  Similarity=0.291  Sum_probs=70.4

Q ss_pred             CCCcEEEEcC-CC------CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        143 KGGNTIFVQG-AG------ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       143 ~~~~tLfVgn-~~------~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      .++++|+|.| .+      -++++|+++|++||.|.+|.|+.++..+              ++++|||||+|.+.++|.+
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~--------------~~~~G~~FV~f~~~~~A~~   71 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAP--------------DDEAVRIFLEFERVESAIK   71 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCC--------------TTTSEEEEEEESSHHHHHH
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCC--------------CCCcEEEEEEECCHHHHHH
Confidence            4457999999 42      3789999999999999999999876432              1378999999999999999


Q ss_pred             HHHHhCCcEECCeEEEEEEccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      |+..|||..++|+.|+|.++..
T Consensus        72 Ai~~lnG~~~~Gr~i~v~~a~~   93 (105)
T 2pe8_A           72 AVVDLNGRYFGGRVVKACFYNL   93 (105)
T ss_dssp             HHHHHTTCEETTEECEEEECCH
T ss_pred             HHHHHCCCEECCcEEEEEEcCH
Confidence            9999999999999999999975

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.59  E-value=7e-15  Score=121.48  Aligned_cols=75  Identities=17%  Similarity=0.328  Sum_probs=67.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCce-EEEEeCCHHHHHHHHHHhCC
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR-GFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGf-aFV~F~~~e~A~~Ai~~lnG  222 (298)
                      ..|||+|  +.+|+++|+++|++||.|.+|.|+.+                    ++|| |||+|.+.++|..|+..|||
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~--------------------~~gfqAFVef~~~~~A~~Ai~~LnG   88 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--------------------NNQFQALLQYADPVSAQHAKLSLDG   88 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE--------------------TTEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC--------------------CCCcEEEEEECCHHHHHHHHHHcCC
Confidence            5889999  99999999999999999999987653                    2344 99999999999999999999


Q ss_pred             cEECC--eEEEEEEcccccc
Q psy15187        223 THVQG--VKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~G--r~L~V~~A~~k~~  240 (298)
                      ..|.|  +.|+|+|+++...
T Consensus        89 ~~i~g~~~~LrI~~ak~~~l  108 (130)
T 3zzy_A           89 QNIYNACCTLRIDFSKLTSL  108 (130)
T ss_dssp             CEEETTEEEEEEEECSCSSC
T ss_pred             CeecCCCcEEEEEecCCCce
Confidence            99998  9999999998654

>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=99.57  E-value=8.3e-15  Score=128.98  Aligned_cols=76  Identities=18%  Similarity=0.334  Sum_probs=68.1

Q ss_pred             CCcEEEEcC-C--CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        144 GGNTIFVQG-A--GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       144 ~~~tLfVgn-~--~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ++++|||+| .  .+++++|+++|++||.|.+|.|+.+                    ++|||||+|.+.++|..||..|
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~--------------------~~g~afV~f~~~~~A~~Ai~~l   62 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS--------------------KPGAAMVEMADGYAVDRAITHL   62 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT--------------------STTCEEEEESSHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC--------------------CCCEEEEEECCHHHHHHHHHHh
Confidence            468999999 4  7999999999999999999998764                    3566999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..|.|+.|+|.+++.+.
T Consensus        63 ng~~~~g~~l~v~~s~~~~   81 (205)
T 3tyt_A           63 NNNFMFGQKMNVCVSKQPA   81 (205)
T ss_dssp             TTCEETTEECEEEECSCSC
T ss_pred             CCCEECCceEEEEEccCCc
Confidence            9999999999999997643

>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=99.57  E-value=9.1e-15  Score=125.26  Aligned_cols=78  Identities=17%  Similarity=0.299  Sum_probs=68.4

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .-.+|||+|  +.+|+++|+++|++||.|.+|.|..++.                   +|||||+|.+.++|..|+..||
T Consensus        45 ~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~-------------------rgfAFVeF~d~~~A~~Ai~~Ln  105 (164)
T 1sjr_A           45 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNN-------------------QFQALLQYADPVSAQHAKLSLD  105 (164)
T ss_dssp             CEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSS-------------------CEEEEEEESCHHHHHHHHHHST
T ss_pred             ceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCC-------------------CCEEEEEECCHHHHHHHHHHhC
Confidence            346899999  9999999999999999999998865433                   3459999999999999999999


Q ss_pred             CcEECC--eEEEEEEcccccc
Q psy15187        222 GTHVQG--VKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~G--r~L~V~~A~~k~~  240 (298)
                      |..|.|  +.|+|.|++++..
T Consensus       106 G~~i~g~g~~L~V~~Ak~~~l  126 (164)
T 1sjr_A          106 GQNIYNACCTLRIDFSKLTSL  126 (164)
T ss_dssp             TBCSSSSCSCEEEEECSSSSC
T ss_pred             CCEecCCCcEEEEEEecCCcc
Confidence            999965  9999999998643

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.56  E-value=1.2e-14  Score=111.66  Aligned_cols=77  Identities=22%  Similarity=0.414  Sum_probs=66.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|.+|  +.++..|.                  ||||+|.+.++|..||. |
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~------------------~afV~f~~~~~a~~ai~-l   64 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGV------------------FAIVEMGDVGAREAVLS-Q   64 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCC------------------EEEEEESSHHHHHHHHT-C
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCc------------------EEEEEECCHHHHHHHHh-c
Confidence            3447999999  999999999999999999987  44544431                  49999999999999999 9


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|.|.++..+..
T Consensus        65 ~g~~~~g~~l~V~~a~~~~~   84 (94)
T 2e5g_A           65 SQHSLGGHRLRVRPREQKEF   84 (94)
T ss_dssp             SCCEETTEECCCBCSCCSCC
T ss_pred             CCeEECCEEEEEEECCcCCC
Confidence            99999999999998876544

>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=99.56  E-value=1e-15  Score=127.67  Aligned_cols=81  Identities=17%  Similarity=0.213  Sum_probs=72.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +...++|||+|  +++|+++|+++|++|| |+.|.|+.++. |.               ++|||||+|.+.++|.+|| .
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~-g~---------------srGfaFV~F~~~e~A~~Al-~  104 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD-GR---------------VTGEADVEFATHEEAVAAM-S  104 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS-SC---------------SSCCCEEECSHHHHHHHHT-T
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC-CC---------------CceEEEEEeCCHHHHHHHH-h
Confidence            34567999999  9999999999999999 77999998876 75               8999999999999999999 8


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      +|+..|+|+.|.|.++.....
T Consensus       105 ~~g~~l~gR~i~V~~a~~~~~  125 (139)
T 2hgn_A          105 KDRANMQHRYIELFLNSTTGA  125 (139)
T ss_dssp             CCSCSSSSCCCCCEECCCSCC
T ss_pred             hCCCEECCEEEEEEECCCCCC
Confidence            999999999999999887543

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.56  E-value=5.5e-15  Score=121.90  Aligned_cols=77  Identities=18%  Similarity=0.288  Sum_probs=69.4

Q ss_pred             cEEEEcC------CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCC----HHH---
Q psy15187        146 NTIFVQG------AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDS----PES---  212 (298)
Q Consensus       146 ~tLfVgn------~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~----~e~---  212 (298)
                      ++|||+|      +.+++.+|+++|+.||+|.+|.++.|+.+|.               ++|||||+|.+    +++   
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~---------------slGfgfVef~d~~g~~d~a~k   67 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSAL---------------PLHVYLIKYASSDGKINDAAK   67 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCC---------------EEEEEEEECC------CCHHH
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc---------------eeeEEEEEECCCCCCcchHHH
Confidence            6899998      6899999999999999999999999999997               99999999996    333   


Q ss_pred             -HHHHHH--HhCCcEECCeEEEEEEccc
Q psy15187        213 -SDKAIT--EVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       213 -A~~Ai~--~lnG~~i~Gr~L~V~~A~~  237 (298)
                       |.+||.  .|||..|+|++|+|.+.+.
T Consensus        68 AA~kAi~~~~lng~~I~Gr~irV~ln~~   95 (136)
T 2j8a_A           68 AAFSAVRKHESSGCFIMGFKFEVILNKH   95 (136)
T ss_dssp             HHHHHHHHTTTTCEEETTEEEEEEECCT
T ss_pred             HHHHHHHHhhhcCCeecCcEEEEEECcc
Confidence             889998  8899999999999998764

>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=99.56  E-value=1.2e-14  Score=110.58  Aligned_cols=75  Identities=17%  Similarity=0.241  Sum_probs=67.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +..++|||+|  +++++++|+++|++| .|.+|.|.  +                   ++|||||+|.+.++|..|+..|
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~--~-------------------~~g~afV~f~~~~~a~~Ai~~l   60 (88)
T 1wg1_A            3 SGSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD--R-------------------NKRTAFVTLLNGEQAQNAIQMF   60 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE--G-------------------GGTEEEECCSCHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe--C-------------------CCcEEEEEECCHHHHHHHHHHh
Confidence            4557999999  999999999999999 99999874  2                   5667999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..++|+.|+|.|+....
T Consensus        61 ~g~~~~g~~l~V~~a~~~~   79 (88)
T 1wg1_A           61 HQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             TTEEETTEEEEEEECCCCC
T ss_pred             CCCeECCcEEEEEEcCCCc
Confidence            9999999999999997643

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.55  E-value=2.2e-14  Score=117.45  Aligned_cols=75  Identities=23%  Similarity=0.313  Sum_probs=66.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ..|||+|  +.+++++|+++|++||.|.+|.|+. + .||                  +|||+|.+.++|..|+..|||.
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~-~-~Gf------------------~aFVef~~~~~A~~A~~~LnG~   85 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK-R-NGI------------------QAMVEFESVLCAQKAKAALNGA   85 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE-S-SSE------------------EEEEEESSHHHHHHHHHHHTTC
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe-C-CCC------------------EEEEEECCHHHHHHHHHHhCCC
Confidence            4678999  9999999999999999999998864 2 243                  3999999999999999999999


Q ss_pred             EECC--eEEEEEEcccccc
Q psy15187        224 HVQG--VKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~G--r~L~V~~A~~k~~  240 (298)
                      .|.|  +.|+|.||+++..
T Consensus        86 ~i~g~~~~l~V~~Ak~~~l  104 (124)
T 2e5i_A           86 DIYAGCCTLKIEYARPTRL  104 (124)
T ss_dssp             CCBTTBSEEEEECCSCSCC
T ss_pred             EecCCCeEEEEEEecCCcc
Confidence            9987  7999999997653

>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=99.54  E-value=8.4e-15  Score=117.30  Aligned_cols=74  Identities=22%  Similarity=0.381  Sum_probs=62.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.+   ||                   |||+|.+.++|..||..|
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~---g~-------------------afV~f~~~~~a~~Ai~~l   71 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD---GT-------------------GVVEFVRKEDMTYAVRKL   71 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT---SE-------------------EEEEESSHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC---CE-------------------EEEEECCHHHHHHHHHHh
Confidence            3458999999  99999999999999999999998765   44                   999999999999999999


Q ss_pred             CCcEECCeE-----EEEEEcccc
Q psy15187        221 NGTHVQGVK-----LKVSLARRQ  238 (298)
Q Consensus       221 nG~~i~Gr~-----L~V~~A~~k  238 (298)
                      ||..|+|+.     |+|..+.++
T Consensus        72 ~g~~~~gr~~~~~~i~v~~~~~~   94 (115)
T 3beg_B           72 DNTKFRSHEGETAYIRVKVDGPR   94 (115)
T ss_dssp             TTCBCCCTTSCCCBCEEEECC--
T ss_pred             CCCEECCcEeeeEEEEeccCCCC
Confidence            999999998     677666653

>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=99.54  E-value=1.2e-14  Score=110.36  Aligned_cols=76  Identities=25%  Similarity=0.400  Sum_probs=62.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++++++|+++|++||.|.+|.|+.+                    ++|||||+|.+.++|++|+.. 
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~--------------------~~g~afV~f~~~~~a~~~~~~-   61 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--------------------FRAFAFVTFADDQIAQSLCGE-   61 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS--------------------CCSCCEEECSCHHHHHHTTTC-
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC--------------------CCCEEEEEECCHHHHHHHhcC-
Confidence            3458999999  99999999999999999999998754                    466799999999898754221 


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                       +..+.|+.|.|.++.++..
T Consensus        62 -~~~~~g~~l~v~~a~~~~~   80 (88)
T 1wf0_A           62 -DLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             -EEEETTEEEEEECCCCCCC
T ss_pred             -CceeCCEEEEEEecCCCCC
Confidence             3445899999999987655

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.53  E-value=2.3e-14  Score=114.36  Aligned_cols=77  Identities=19%  Similarity=0.248  Sum_probs=66.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCc---eeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGR---GFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~---gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ...++|||+|  +++++++|+++|++||.|. +.++.++..   |.               ++|||||+|.+.++|.+||
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~---------------~~G~aFV~f~~~~~a~~Ai   69 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFP---------------PKGYAFLLFQEESSVQALI   69 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSC---------------TTSEEEECCSSHHHHHHHH
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCC---------------cccEEEEEECCHHHHHHHH
Confidence            4458999999  9999999999999999999 888877554   54               8999999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      ..|+  .++|+.|.+..+..
T Consensus        70 ~~~~--~~~G~~~~~~~~~~   87 (114)
T 2dnl_A           70 DACL--EEDGKLYLCVSSPT   87 (114)
T ss_dssp             HHSE--EETTEEEEEECCSS
T ss_pred             Hhhh--hcCCcEEEeccCCC
Confidence            9994  47888888876553

>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=99.53  E-value=6.1e-15  Score=121.09  Aligned_cols=80  Identities=21%  Similarity=0.331  Sum_probs=70.8

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCee--EEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKIC--SVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~--~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      .+...++|||+|  +++|+++|+++|++| .|+  .|.|+.|+. |.               ++|||||+|.+.++|.+|
T Consensus        38 ~~~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~-Gr---------------srGfaFV~F~~~e~A~~A  100 (126)
T 2hgm_A           38 DSANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE-GK---------------ITGEAFVQFASQELAEKA  100 (126)
T ss_dssp             CSSSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS-SS---------------SCSEEEEEESSTTHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC-CC---------------CceEEEEEECCHHHHHHH
Confidence            345568999999  999999999999999 677  899998876 75               899999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |.. ++..|+|+.|.|.++.++
T Consensus       101 l~~-~~~~l~gR~I~V~~a~~~  121 (126)
T 2hgm_A          101 LGK-HKERIGHRYIEVFKSSQE  121 (126)
T ss_dssp             HTT-TTCCBTTBCCCCEEECHH
T ss_pred             HHH-CCCEECCEEEEEEECCHH
Confidence            984 789999999999988754

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.53  E-value=6.2e-15  Score=120.42  Aligned_cols=80  Identities=13%  Similarity=0.111  Sum_probs=70.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCe----eEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKI----CSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I----~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ...++|||+|  +++|+++|+++|++||.|    ..|.|+.+. .|.               ++|||||+|.+.++|.+|
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~-~gr---------------~~G~aFV~F~~~~~A~~A   84 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP-DGR---------------PTGDAFVLFACEEYAQNA   84 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT-TSC---------------EEEEEEECCSSHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC-CCC---------------EeeEEEEEECCHHHHHHH
Confidence            3457999999  999999999999999986    689888874 564               789999999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |.. |+..|+|+.|.|..+.++.
T Consensus        85 l~~-~~~~l~gR~i~V~~a~~~e  106 (123)
T 2dha_A           85 LRK-HKDLLGKRYIELFRSTAAE  106 (123)
T ss_dssp             HTT-TTEESSSCEECCEEECHHH
T ss_pred             HHh-CCCeeCCeEEEEEECCHHH
Confidence            986 9999999999999987643

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.51  E-value=4.2e-14  Score=110.49  Aligned_cols=74  Identities=19%  Similarity=0.302  Sum_probs=63.9

Q ss_pred             CCcEEEEcC--CCCCHHH----HHHHHhcc-CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEF----LRQHFSIF-GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA  216 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~----L~~~F~~f-G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~A  216 (298)
                      ..+.|||+|  +++++++    |+++|++| |+|.+|.                         .|||||.|.+.++|..|
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt-------------------------gG~AfV~F~~~esA~~A   62 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT-------------------------GCSAILRFINQDSAERA   62 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC-------------------------TTCEEEEESSHHHHHHH
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe-------------------------cCEEEEEECCHHHHHHH
Confidence            334599999  9999988    56899999 5999971                         15599999999999999


Q ss_pred             HHHhCCcEECCeEEEEEEcccccccc
Q psy15187        217 ITEVNGTHVQGVKLKVSLARRQLKVA  242 (298)
Q Consensus       217 i~~lnG~~i~Gr~L~V~~A~~k~~~~  242 (298)
                      ++.|||..|.|++|+|+||..+...-
T Consensus        63 ~~~l~G~~l~gr~i~v~~A~~~sd~~   88 (96)
T 2diu_A           63 QKRMENEDVFGNRIIVSFTPKNRELC   88 (96)
T ss_dssp             HHHHTTCCSSSSCCEEESSCCSCCCC
T ss_pred             HHHhcCCccCCceEEEEecCCCccee
Confidence            99999999999999999999876644

>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=99.50  E-value=4.9e-14  Score=106.07  Aligned_cols=69  Identities=25%  Similarity=0.448  Sum_probs=61.3

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhcc----C-------CeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCH
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIF----G-------KICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP  210 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~f----G-------~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~  210 (298)
                      ..++|||+|  +++++++|+++|++|    |       .|.+|.++.+                     +|||||+|.+.
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~---------------------kg~afV~f~~~   63 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD---------------------KNFAFLEFRSV   63 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS---------------------SSEEEEEESSH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC---------------------CcEEEEEcCCH
Confidence            447999999  999999999999999    8       8999988754                     45588888888


Q ss_pred             HHHHHHHHHhCCcEECCeEEEEEE
Q psy15187        211 ESSDKAITEVNGTHVQGVKLKVSL  234 (298)
Q Consensus       211 e~A~~Ai~~lnG~~i~Gr~L~V~~  234 (298)
                      ++|..|+ .|||..|+|+.|+|+.
T Consensus        64 ~~a~~A~-~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           64 DETTQAM-AFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             HHHHHHG-GGTTCEETTEECEEEC
T ss_pred             HHHHHHH-hcCCCEECCeEEEEeC
Confidence            8999999 9999999999999963

>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=99.48  E-value=3.6e-13  Score=107.13  Aligned_cols=83  Identities=18%  Similarity=0.269  Sum_probs=69.8

Q ss_pred             CCCCCCcEEEEcC-CCCC------------HHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEE
Q psy15187        140 EKPKGGNTIFVQG-AGIS------------EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVT  206 (298)
Q Consensus       140 ~~~~~~~tLfVgn-~~~t------------e~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~  206 (298)
                      ..+..+++|+|.| +...            +++|+++|++||.|..|.| .++.                  ++|||||+
T Consensus        10 ~~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~------------------~~G~afV~   70 (112)
T 2dit_A           10 SRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRH------------------PDGVASVS   70 (112)
T ss_dssp             CCCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC------------------TTCEEEEE
T ss_pred             CCCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC------------------CCEEEEEE
Confidence            3456678999999 5544            4899999999999999955 4421                  57789999


Q ss_pred             eCCHHHHHHHHHHhCCcEECCeEEEEEEccccccc
Q psy15187        207 FDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       207 F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |.+.++|..|+..|||..|+|++|+|.|+.++...
T Consensus        71 f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~~~~~~  105 (112)
T 2dit_A           71 FRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDY  105 (112)
T ss_dssp             CSCHHHHHHHHHHSTTCEETTEECEEEECCSCCCS
T ss_pred             ECCHHHHHHHHHHcCCCEECCcEEEEEEeCCCCCc
Confidence            99999999999999999999999999999876553

>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=99.46  E-value=1.7e-13  Score=119.74  Aligned_cols=75  Identities=16%  Similarity=0.240  Sum_probs=67.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.+.. |-               ++|||||+|.+.++|..|+..++ .
T Consensus       110 ~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~-~~---------------~kG~aFVeF~~~e~A~~A~~~~~-~  172 (193)
T 2voo_A          110 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KA---------------FKGSIFVVFDSIESAKKFVETPG-Q  172 (193)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-CC---------------EEEEEEEEESSHHHHHHHHHCTT-C
T ss_pred             CEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC-CC---------------cccEEEEEECCHHHHHHHHHhCC-C
Confidence            6899999  9999999999999999999999998754 32               68999999999999999998665 5


Q ss_pred             EECCeEEEEEEccc
Q psy15187        224 HVQGVKLKVSLARR  237 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~  237 (298)
                      .|+|+.|.|.|+..
T Consensus       173 ~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          173 KYKETDLLILFKDD  186 (193)
T ss_dssp             EETTEECEEEETTT
T ss_pred             eECCEEEEEEEhHH
Confidence            99999999998764

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.46  E-value=6.3e-14  Score=126.94  Aligned_cols=77  Identities=25%  Similarity=0.352  Sum_probs=64.7

Q ss_pred             CCCcEEEEcC--CCC---------CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHH
Q psy15187        143 KGGNTIFVQG--AGI---------SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE  211 (298)
Q Consensus       143 ~~~~tLfVgn--~~~---------te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e  211 (298)
                      ..+++|||||  ..+         ++++|+++|++||+|.+|.|+.+                     +|||||+|.+.+
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~---------------------kG~AFV~F~~~~  190 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES---------------------KNCGFVKFKYQA  190 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGG---------------------GTEEEEEESSHH
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECC---------------------CCEEEEEeCCHH
Confidence            4568999999  666         79999999999999999998853                     455778888888


Q ss_pred             HHHHHHHHhCCcEE------------CCeEEEEEEcccccc
Q psy15187        212 SSDKAITEVNGTHV------------QGVKLKVSLARRQLK  240 (298)
Q Consensus       212 ~A~~Ai~~lnG~~i------------~Gr~L~V~~A~~k~~  240 (298)
                      +|+.|+..|||..|            .|+.|.|.||...+.
T Consensus       191 ~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~pn  231 (240)
T 3u1l_A          191 NAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWANEDPD  231 (240)
T ss_dssp             HHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC----
T ss_pred             HHHHHHHHhCCCEEeccccccccccCCCCEEEEEEccCCCC
Confidence            99999999999999            899999999987554

>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=99.44  E-value=3.8e-13  Score=106.64  Aligned_cols=81  Identities=16%  Similarity=0.202  Sum_probs=67.6

Q ss_pred             CCcEEEEcC----CCC--------CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHH
Q psy15187        144 GGNTIFVQG----AGI--------SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPE  211 (298)
Q Consensus       144 ~~~tLfVgn----~~~--------te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e  211 (298)
                      +++.|.+.|    .++        .+++|++.|++||.|.+|.|+.++..+-             +.++|||||+|.+.+
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~-------------~~~~G~~fV~f~~~~   70 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE-------------VPGCGKIFVEFTSVF   70 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBC-------------CTTTTEEEEEESSHH
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCC-------------cCCcEEEEEEECCHH
Confidence            346788988    222        2478999999999999999998864321             136889999999999


Q ss_pred             HHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        212 SSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       212 ~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      +|.+|+..|||..++||+|+|.|+..
T Consensus        71 ~A~~Ai~~lnG~~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           71 DCQKAMQGLTGRKFANRVVVTKYCDP   96 (105)
T ss_dssp             HHHHHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHHHHhCCCEeCCCEEEEEEeCH
Confidence            99999999999999999999999865

>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=99.44  E-value=3.6e-13  Score=109.16  Aligned_cols=79  Identities=20%  Similarity=0.250  Sum_probs=68.1

Q ss_pred             CCcEEEEcC-CC------CCHHHHHHHHhccCCeeEEEEeeecC----ceeEEecChhhhhhhhhcCCceEEEEeCCHHH
Q psy15187        144 GGNTIFVQG-AG------ISEEFLRQHFSIFGKICSVSMEVEKG----RGFVTFDSPESSDKAITDDCARGFVTFDSPES  212 (298)
Q Consensus       144 ~~~tLfVgn-~~------~te~~L~~~F~~fG~I~~v~i~~dk~----~gfV~f~~~~~adkai~~skGfaFV~F~~~e~  212 (298)
                      +++.|++.| .+      --+++|++.|++||.|.+|.|+.++.    .+-               ++||+||+|.+.++
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~---------------~~G~~FV~F~~~e~   83 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAE---------------IIVKIFVEFSIASE   83 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCE---------------EEEEEEEEESSHHH
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCc---------------ceEEEEEEECCHHH
Confidence            457899999 22      23789999999999999999998853    233               67889999999999


Q ss_pred             HHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        213 SDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      |.+|+..|||..|+||.|+|.|+..
T Consensus        84 A~~Ai~~LnGr~f~GR~i~v~~~~~  108 (118)
T 3ue2_A           84 THKAIQALNGRWFAGRKVVAEVYDQ  108 (118)
T ss_dssp             HHHHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHHHHCCCEECCcEEEEEEcCh
Confidence            9999999999999999999999864

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.39  E-value=5.9e-13  Score=105.27  Aligned_cols=67  Identities=18%  Similarity=0.408  Sum_probs=57.7

Q ss_pred             CCCCHHHHHHHH------------hccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        153 AGISEEFLRQHF------------SIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       153 ~~~te~~L~~~F------------~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +.+++++|+++|            ++||.|.+|.|+.+.. +.               ++|||||+|.+.++|.+|+..|
T Consensus        25 ~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~-~~---------------~~G~~fV~f~~~~~A~~A~~~l   88 (104)
T 1jmt_A           25 SAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG-DH---------------LVGNVYVKFRREEDAEKAVIDL   88 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS-SS---------------SEEEEEEEESCHHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC-CC---------------ccEEEEEEECCHHHHHHHHHHH
Confidence            445666666555            9999999999987754 43               7889999999999999999999


Q ss_pred             CCcEECCeEEEEEEc
Q psy15187        221 NGTHVQGVKLKVSLA  235 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A  235 (298)
                      ||..++|+.|+|.|+
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            999999999999986

>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=99.37  E-value=8.4e-13  Score=116.12  Aligned_cols=76  Identities=16%  Similarity=0.181  Sum_probs=65.7

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCe--eEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKI--CSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I--~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .++++|||+|  +.+|+++|+++|++||.|  .+|.|+.+++  -               ++|||||+|.+.++|..||.
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~--~---------------~~g~gfV~f~~~~~A~~Ai~  183 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKS--E---------------RSSSGLLEWDSKSDALETLG  183 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCS--S---------------SSEEEEEECSSHHHHHHHHH
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCC--C---------------CceEEEEEeCCHHHHHHHHH
Confidence            4567999999  999999999999999999  8998887752  1               45779999999999999999


Q ss_pred             HhCCcEECCe----EEEEEEc
Q psy15187        219 EVNGTHVQGV----KLKVSLA  235 (298)
Q Consensus       219 ~lnG~~i~Gr----~L~V~~A  235 (298)
                      .|||+.|+|.    ++.|.||
T Consensus       184 ~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          184 FLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             HHTTCEECCSSSSSCEECEEE
T ss_pred             HhCCCCccCCCCCcceEEEec
Confidence            9999999976    6777665

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.36  E-value=1.3e-12  Score=102.98  Aligned_cols=66  Identities=18%  Similarity=0.321  Sum_probs=57.6

Q ss_pred             CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEE
Q psy15187        153 AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV  232 (298)
Q Consensus       153 ~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V  232 (298)
                      .++++++|+++|++||.|.+|.|+.                    .++|||||+|.+.++|..||..++|  +.|++|+|
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~--------------------~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V   84 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS--------------------KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKI   84 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES--------------------SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEE
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc--------------------CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEE
Confidence            5689999999999999999998872                    2678899999999999999998655  67999999


Q ss_pred             EEcccccc
Q psy15187        233 SLARRQLK  240 (298)
Q Consensus       233 ~~A~~k~~  240 (298)
                      .|+..++.
T Consensus        85 ~~a~~~~~   92 (100)
T 2d9o_A           85 SWLEGQPQ   92 (100)
T ss_dssp             ECSSCCCC
T ss_pred             EEccCCCC
Confidence            99987654

>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=99.30  E-value=8.1e-12  Score=100.65  Aligned_cols=77  Identities=8%  Similarity=0.107  Sum_probs=63.8

Q ss_pred             CCCcEEEEcC-CCCC-----------HHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCH
Q psy15187        143 KGGNTIFVQG-AGIS-----------EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP  210 (298)
Q Consensus       143 ~~~~tLfVgn-~~~t-----------e~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~  210 (298)
                      .++..|.+.| .+..           +++|++.|++||.|.+|.|+.+..                   +|||||+|.+.
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~~-------------------~G~~fV~f~~~   65 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSA-------------------QGNVYVKCPSI   65 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTCT-------------------TCCEEEECSSH
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCCC-------------------cEEEEEEECCH
Confidence            4456788888 3322           346899999999999998876543                   55699999999


Q ss_pred             HHHHHHHHHhCCcEECCeEEEEEEcccc
Q psy15187        211 ESSDKAITEVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       211 e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k  238 (298)
                      ++|.+|+..|||..++|+.|+|.|+...
T Consensus        66 e~A~~Ai~~lnG~~f~GR~i~v~~~~~~   93 (114)
T 3s6e_A           66 AAAIAAVNALHGRWFAGKMITAAYVPLP   93 (114)
T ss_dssp             HHHHHHHHHHTTCEETTEECEEEEECHH
T ss_pred             HHHHHHHHHhCCCEECCEEEEEEEEcHH
Confidence            9999999999999999999999998753

>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=99.22  E-value=2.9e-11  Score=114.73  Aligned_cols=74  Identities=20%  Similarity=0.326  Sum_probs=63.0

Q ss_pred             CCCCcEEEEcC----CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        142 PKGGNTIFVQG----AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       142 ~~~~~tLfVgn----~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ..++.+|||||    +.+||++|+++|++||.|.+|.|..                     +||||||+|.+.++|.+||
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~---------------------~kgfaFV~f~~~~~A~~Ai   73 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP---------------------NKPYSFARYRTTEESKRAY   73 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT---------------------TCSEEEEEESSHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC---------------------CCCEEEEEECCHHHHHHHH
Confidence            45667999998    7899999999999999999987653                     2455999999999999999


Q ss_pred             HHhCCcEEC---Ce--EEEEEEcc
Q psy15187        218 TEVNGTHVQ---GV--KLKVSLAR  236 (298)
Q Consensus       218 ~~lnG~~i~---Gr--~L~V~~A~  236 (298)
                      ..|||..+.   |+  .|.|.|+.
T Consensus        74 ~~lnG~~~~~~~g~~~~ly~~~~~   97 (345)
T 3tht_A           74 VTLNGKEVVDDLGQKITLYLNFVE   97 (345)
T ss_dssp             HHTTTCEEECTTSCEEECEEEECS
T ss_pred             HHhCCCccccccCCceEEEEEEee
Confidence            999999983   45  68888885

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.01  E-value=9e-10  Score=85.19  Aligned_cols=57  Identities=23%  Similarity=0.385  Sum_probs=49.0

Q ss_pred             HHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        158 EFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       158 ~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      .+|.+.|.+||.|..++|+.++                       +||+|.+.++|.+||. |||..++|+.|+|.++.+
T Consensus        30 ~~L~~~F~~~G~Vi~vr~~~d~-----------------------~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt~   85 (91)
T 2dnr_A           30 DELLQQFASFGEVILIRFVEDK-----------------------MWVTFLEGSSALNVLS-LNGKELLNRTITIALKSP   85 (91)
T ss_dssp             HHHHHHHHTTCCEEEEEECSSS-----------------------EEEEESSHHHHHHGGG-GTTCEETTEEEEEEECCC
T ss_pred             HHHHHHHHhCCCeEEEEEecCC-----------------------EEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCCC
Confidence            5689999999999999998754                       4566666669999998 999999999999999986


Q ss_pred             c
Q psy15187        238 Q  238 (298)
Q Consensus       238 k  238 (298)
                      .
T Consensus        86 d   86 (91)
T 2dnr_A           86 S   86 (91)
T ss_dssp             S
T ss_pred             C
Confidence            4

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.96  E-value=1.1e-09  Score=89.13  Aligned_cols=76  Identities=16%  Similarity=0.195  Sum_probs=63.2

Q ss_pred             CCCCcEEEEcC--CC-CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCC-HHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AG-ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDS-PESSDKAI  217 (298)
Q Consensus       142 ~~~~~tLfVgn--~~-~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~-~e~A~~Ai  217 (298)
                      -..|+-|||+|  ++ +++++|+++|++||.|..|.++.+..+||                     |.|.+ .++|..|+
T Consensus        15 ~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~tgf---------------------Vrf~~~~~~A~~av   73 (121)
T 1owx_A           15 EKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGI---------------------ILFKEKAKEALGKA   73 (121)
T ss_dssp             CCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEE---------------------EEESSCHHHHHHHH
T ss_pred             ccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCEEE---------------------EEECCChHHHHHHH
Confidence            46779999999  88 99999999999999999999987766555                     55555 45999999


Q ss_pred             HHhC--CcEECCeEEEEEEcccc
Q psy15187        218 TEVN--GTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       218 ~~ln--G~~i~Gr~L~V~~A~~k  238 (298)
                      ..||  |..|.|..+++.+-...
T Consensus        74 ~~ln~~~~~i~g~~~~~evL~Ge   96 (121)
T 1owx_A           74 KDANNGNLQLRNKEVTWEVLEGE   96 (121)
T ss_dssp             HHTTTSCBCTTSSSEEEEECCHH
T ss_pred             HHhhcCCcEEeCcEEEEEECCCH
Confidence            9994  88899988888776643

>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=98.87  E-value=2.5e-09  Score=94.09  Aligned_cols=74  Identities=22%  Similarity=0.225  Sum_probs=61.6

Q ss_pred             CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEE
Q psy15187        153 AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV  232 (298)
Q Consensus       153 ~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V  232 (298)
                      .+-.+++|++.|++||.|.+|.|+.+...+.           ..+.++||+||+|.+.++|.+|+..|||..++||+|.|
T Consensus       139 ~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~-----------~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~  207 (222)
T 3dxb_A          139 DDDLEGEVTEECGKFGAVNRVIIYQEKQGEE-----------EDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVA  207 (222)
T ss_dssp             CTTHHHHHHHHHTTTSCEEEEEEEEEECCSS-----------TTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEE
T ss_pred             HHHHHHHHHHHHHccCCeEEEEEecCCCCcc-----------cCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEE
Confidence            4456788999999999999999986643220           11237889999999999999999999999999999999


Q ss_pred             EEccc
Q psy15187        233 SLARR  237 (298)
Q Consensus       233 ~~A~~  237 (298)
                      .+...
T Consensus       208 ~~~~~  212 (222)
T 3dxb_A          208 EVYDQ  212 (222)
T ss_dssp             EECCH
T ss_pred             EEcCH
Confidence            99763

>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=98.81  E-value=9e-09  Score=80.07  Aligned_cols=55  Identities=27%  Similarity=0.382  Sum_probs=46.2

Q ss_pred             HHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        158 EFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       158 ~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      .+|.+.|.+||.|..++++.|+  +||+|                     .+.++|.+||. |||..++||.|+|.+..
T Consensus        39 ~~L~~~F~~~G~Vilvr~v~d~--~fVtF---------------------~d~~sAl~AI~-ldG~~v~Gr~L~V~~k~   93 (95)
T 1ufw_A           39 TELMQTLGSYGTIVLVRINQGQ--MLVTF---------------------ADSHSALSVLD-VDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETTE--EEEEC---------------------SCSHHHHHHHH-GGGSEETTEEEEEECCC
T ss_pred             HHHHHHHHHCCCEEEEEEecCc--EEEEE---------------------cChHHHHHHHh-cCCeeeCCeEEEEeccC
Confidence            4589999999999999998775  55555                     44559999998 99999999999998754

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=98.78  E-value=7.5e-09  Score=85.98  Aligned_cols=54  Identities=28%  Similarity=0.417  Sum_probs=50.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhhh
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai~  197 (298)
                      .+++|||+|  +++|+++|+++|++||.|..|.|+.+     +++|||+|.+.++|.+|+.
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~  154 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIK  154 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHH
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHH
Confidence            457999999  99999999999999999999999987     6789999999999999993

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

Probab=98.77  E-value=9.5e-09  Score=89.78  Aligned_cols=72  Identities=31%  Similarity=0.490  Sum_probs=59.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee----cCceeEEecChhhhhhhhhcCCc------eEEEEeCCHHH
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE----KGRGFVTFDSPESSDKAITDDCA------RGFVTFDSPES  212 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d----k~~gfV~f~~~~~adkai~~skG------faFV~F~~~e~  212 (298)
                      .++|||+|  +.+++++|+++|++||.|..|.|+.+    +++|||+|.+.++|++||..--|      .-.|.|.....
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~~~  182 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK  182 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCHH
T ss_pred             cccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCCCc
Confidence            36899999  99999999999999999999999976    68999999999999999943222      23678877654


Q ss_pred             HHHH
Q psy15187        213 SDKA  216 (298)
Q Consensus       213 A~~A  216 (298)
                      ...+
T Consensus       183 ~~~~  186 (213)
T 4f02_A          183 EREA  186 (213)
T ss_dssp             HHHH
T ss_pred             ccch
Confidence            4443

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

Probab=98.76  E-value=1.4e-08  Score=91.75  Aligned_cols=76  Identities=20%  Similarity=0.322  Sum_probs=68.1

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...+++|||+|  .++++++|+++|++||.|.+|.|+.++                    +|||||+|.+.++|..|+..
T Consensus       204 ~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~--------------------~g~afV~f~~~~~A~~A~~~  263 (282)
T 3pgw_A          204 NPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR--------------------HDIAFVEFDNEVQAGAARDA  263 (282)
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC--------------------CcEEEEEeCCHHHHHHHHHH
Confidence            34568999999  999999999999999999999988653                    34599999999999999999


Q ss_pred             hCCcEEC-CeEEEEEEccc
Q psy15187        220 VNGTHVQ-GVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~-Gr~L~V~~A~~  237 (298)
                      |||..|+ |+.|+|.||+.
T Consensus       264 l~g~~~~~g~~l~v~~akk  282 (282)
T 3pgw_A          264 LQGFKITQNNAMKISFAKK  282 (282)
T ss_pred             cCCcEeCCCCEEEEEEecC
Confidence            9999999 99999999873

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=98.76  E-value=1.5e-08  Score=85.97  Aligned_cols=55  Identities=36%  Similarity=0.602  Sum_probs=50.7

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      ..++|||+|  +++++++|+++|++||.|..|.|+.+      +++|||+|.+.++|++|+..
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~  165 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ  165 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh
Confidence            447999999  89999999999999999999999976      57899999999999999954

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

Probab=98.75  E-value=1.9e-08  Score=82.61  Aligned_cols=57  Identities=26%  Similarity=0.456  Sum_probs=51.6

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      ...+++|||+|  .++++++|+++|++||.|..|.++.+      +++|||+|.+.++|++|+..
T Consensus        84 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~  148 (166)
T 3md3_A           84 SDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS  148 (166)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHH
Confidence            34567999999  89999999999999999999999877      57899999999999999953

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=98.74  E-value=1.6e-08  Score=84.08  Aligned_cols=56  Identities=20%  Similarity=0.487  Sum_probs=51.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      ...++|||+|  +++++++|+++|++||.|..|.|+.+      +++|||+|.+.++|++|+..
T Consensus        92 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~  155 (172)
T 2g4b_A           92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG  155 (172)
T ss_dssp             TTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHH
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHH
Confidence            4468999999  89999999999999999999999987      57999999999999999954

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

Probab=98.72  E-value=1.7e-08  Score=86.89  Aligned_cols=54  Identities=31%  Similarity=0.618  Sum_probs=50.3

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhh
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~  197 (298)
                      ..++|||+|  +++++++|+++|++||.|..|.|+.+      +++|||+|.+.++|.+|+.
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~  185 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS  185 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHH
Confidence            447999999  89999999999999999999999987      6899999999999999995

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

Probab=98.71  E-value=2.1e-08  Score=85.15  Aligned_cols=57  Identities=19%  Similarity=0.493  Sum_probs=52.2

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      +...++|||+|  +++++++|+++|++||.|..|.|+.+      +++|||+|.+.++|++|+..
T Consensus       111 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~  175 (198)
T 2yh0_A          111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG  175 (198)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHH
Confidence            35668999999  89999999999999999999999987      67999999999999999954

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

Probab=98.70  E-value=3.3e-08  Score=81.59  Aligned_cols=56  Identities=23%  Similarity=0.471  Sum_probs=51.0

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec------CceeEEecChhhhhhhhh
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk------~~gfV~f~~~~~adkai~  197 (298)
                      ....++|||+|  ..+++++|+++|++||.|..|.|+.+.      ++|||+|.+.++|.+|+.
T Consensus        86 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~  149 (168)
T 1b7f_A           86 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS  149 (168)
T ss_dssp             TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH
T ss_pred             cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHH
Confidence            34557999999  899999999999999999999998874      789999999999999995

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=98.68  E-value=1.5e-08  Score=83.79  Aligned_cols=53  Identities=30%  Similarity=0.612  Sum_probs=49.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhh
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~  197 (298)
                      .++|||+|  +++++++|+++|++||.|..|.|+.+      +|+|||+|.+.++|++|+.
T Consensus        87 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~  147 (167)
T 2cjk_A           87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ  147 (167)
T ss_dssp             CEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH
T ss_pred             CCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh
Confidence            46899999  99999999999999999999999876      4799999999999999995

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

Probab=98.67  E-value=3.3e-08  Score=81.25  Aligned_cols=55  Identities=29%  Similarity=0.585  Sum_probs=50.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~  197 (298)
                      ..+++|||+|  .++++++|+++|++||.|..|.|+.+      +++|||+|.+.++|.+|+.
T Consensus        86 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~  148 (167)
T 1fxl_A           86 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK  148 (167)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHH
Confidence            3457899999  89999999999999999999999876      5789999999999999994

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

Probab=98.62  E-value=5e-08  Score=87.86  Aligned_cols=55  Identities=33%  Similarity=0.571  Sum_probs=50.9

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee-----cCceeEEecChhhhhhhhhc
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE-----KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d-----k~~gfV~f~~~~~adkai~~  198 (298)
                      ++++|||+|  +.+|+++|+++|+.||.|..|.|+.+     +++|||+|.+.++|.+||..
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~  156 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALER  156 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHH
Confidence            357999999  99999999999999999999999988     78999999999999999944

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.59  E-value=5.6e-08  Score=83.07  Aligned_cols=55  Identities=20%  Similarity=0.257  Sum_probs=50.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccC-CeeEEEEee-ecCceeEEecChhhhhhhhh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFG-KICSVSMEV-EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG-~I~~v~i~~-dk~~gfV~f~~~~~adkai~  197 (298)
                      .++++|||+|  ..+++++|+++|++|| .|..|.|+. ++++|||+|.+.++|.+|+.
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~~g~afV~f~~~~~A~~A~~  176 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALI  176 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTTSSCEEEECSSHHHHHHHHH
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCCCcEEEEEeCCHHHHHHHHH
Confidence            4568999999  8999999999999999 999999965 58999999999999999994

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=98.57  E-value=8.1e-08  Score=84.72  Aligned_cols=55  Identities=20%  Similarity=0.257  Sum_probs=50.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccC-CeeEEEEee-ecCceeEEecChhhhhhhhh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFG-KICSVSMEV-EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG-~I~~v~i~~-dk~~gfV~f~~~~~adkai~  197 (298)
                      .++++|||+|  .++++++|+++|++|| .|..|.|+. ++++|||+|.+.++|.+|+.
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~  207 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALI  207 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECCCcEEEEEECCHHHHHHHHH
Confidence            4568999999  8999999999999999 999999955 79999999999999999994

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

Probab=98.36  E-value=3.2e-07  Score=76.53  Aligned_cols=55  Identities=22%  Similarity=0.385  Sum_probs=47.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEe--eecCceeEEecChhhhhhhhhc
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSME--VEKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~--~dk~~gfV~f~~~~~adkai~~  198 (298)
                      ...++|||+|  +++++++|+++|++||.|..+ ..  ..+++|||+|.+.++|.+|+..
T Consensus        97 ~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~A~~A~~~  155 (175)
T 1fje_B           97 RAARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEE  155 (175)
T ss_dssp             GGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE-CSSSSCCSEEEEECSSHHHHHHHHHH
T ss_pred             ccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe-cCCCCCceEEEEEECCHHHHHHHHHH
Confidence            3457999999  899999999999999999887 22  2278999999999999999964

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.73  E-value=0.00019  Score=57.13  Aligned_cols=70  Identities=14%  Similarity=0.198  Sum_probs=59.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhcc-----CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIF-----GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~f-----G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ..+|-+-|  -.++...++.+...|     |.|..|.+..|.+.                     |+|+|.+...|-+|.
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~G---------------------Aivef~d~~~AgKas   79 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNG---------------------AIIIFRDSKFAAKML   79 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTE---------------------EEEECSCHHHHHHHH
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCCc---------------------eEEEEccchhhHHHH
Confidence            35788889  778899999999999     99999988887654                     556666666999999


Q ss_pred             HHhCCcEECCeEEEEEEc
Q psy15187        218 TEVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A  235 (298)
                      -+|||..|+|++|+|.-.
T Consensus        80 LaL~G~ef~gr~Lr~gTv   97 (117)
T 2l9w_A           80 MILNGSQFQGKVIRSGTI   97 (117)
T ss_dssp             HHHSSEEETTEEEEEECH
T ss_pred             hhcCCeeecCeEEEecCH
Confidence            999999999999999654

>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=97.29  E-value=0.0024  Score=50.21  Aligned_cols=71  Identities=15%  Similarity=0.165  Sum_probs=55.7

Q ss_pred             cEEEEcC------CCCCH-HHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        146 NTIFVQG------AGISE-EFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       146 ~tLfVgn------~~~te-~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      ++|+|.|      ..-.. +.++++|..|+++......+.-..                     ..|.|.+.++|.+|-.
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFRR---------------------irv~F~~~~~A~~AR~   64 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKR---------------------VRINFSNPLSAADARL   64 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTE---------------------EEEECSSTTHHHHHHH
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcceE---------------------EEEEeCChHHHHHHHH
Confidence            6899999      12222 578999999999998766544333                     4556666669999999


Q ss_pred             HhCCcEECCeEEEEEEccc
Q psy15187        219 EVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~  237 (298)
                      .|+|..++|..|+|-++.+
T Consensus        65 ~Lh~~~f~g~~~r~YFgq~   83 (104)
T 1wey_A           65 RLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             TSTTSEETTEECEEECCCC
T ss_pred             HhccceecCceeEEEecCC
Confidence            9999999999999999984

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=96.23  E-value=0.013  Score=47.08  Aligned_cols=71  Identities=17%  Similarity=0.273  Sum_probs=54.7

Q ss_pred             CCcEEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        144 GGNTIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       144 ~~~tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      ..+-|-|-| ..-.-..+-.+|++||.|++...  ..+..+                   -.|.|.+..+|++||. .||
T Consensus        23 ~~~wVtVFGFp~~~~~~VL~~F~~~G~Iv~~~~--~~~~NW-------------------ihI~Y~s~~~A~rAL~-kNG   80 (119)
T 1wwh_A           23 DDTWVTVFGFPQASASYILLQFAQYGNILKHVM--SNTGNW-------------------MHIRYQSKLQARKALS-KDG   80 (119)
T ss_dssp             GGGEEEEECCCGGGHHHHHHHHHTTSCEEEEEE--CSSSSE-------------------EEEEESSHHHHHHHHT-TTT
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHhhCcEEEecc--CCCCCe-------------------EEEEeCCHHHHHHHHH-hCC
Confidence            346788889 55667888999999999999765  233333                   6778888889999997 599


Q ss_pred             cEECC-eEEEEEEcc
Q psy15187        223 THVQG-VKLKVSLAR  236 (298)
Q Consensus       223 ~~i~G-r~L~V~~A~  236 (298)
                      ..|+| ..|-|....
T Consensus        81 ~ii~g~~mIGV~p~~   95 (119)
T 1wwh_A           81 RIFGESIMIGVKPCI   95 (119)
T ss_dssp             CEETTTEECEEEECC
T ss_pred             eEecCCEEEEEEECC
Confidence            99984 677776654

>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=95.83  E-value=0.0034  Score=51.18  Aligned_cols=40  Identities=13%  Similarity=0.114  Sum_probs=36.4

Q ss_pred             CCceEEEEeCCHHHHHHHHHHh-CCcEECCeEEEEEEccccc
Q psy15187        199 DCARGFVTFDSPESSDKAITEV-NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       199 skGfaFV~F~~~e~A~~Ai~~l-nG~~i~Gr~L~V~~A~~k~  239 (298)
                      .+|+++|+|.+.++|++|+..| ||..++| .|.+.++..+.
T Consensus        12 l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~   52 (150)
T 2i2y_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTF   52 (150)
T ss_dssp             SCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEE
T ss_pred             ccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcc
Confidence            5788999999999999999999 9999999 99999887643

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=95.34  E-value=0.018  Score=47.02  Aligned_cols=85  Identities=21%  Similarity=0.187  Sum_probs=56.0

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhccCCeeEEE-EeeecCceeEEecChhhhhhhhh----cCCceEEEEeCCHHHHHHHHHH
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIFGKICSVS-MEVEKGRGFVTFDSPESSDKAIT----DDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~fG~I~~v~-i~~dk~~gfV~f~~~~~adkai~----~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +-|.|-| .......+-++|++||.|++-. +..+.. .    .+.. ..+...    ...++--|+|.+..+|.+|+. 
T Consensus         8 ~~VtVFGFp~~~~~~VI~~Fs~~G~IlE~~~~~~~~~-~----~~~~-~~~~k~yP~f~g~NWikItYds~~~A~rAL~-   80 (132)
T 3p3d_A            8 LAILVFGYPETMANQVIAYFQEFGTILEDFEVLRKPQ-A----MTVG-LQDRQFVPIFSGNSWTKITYDNPASAVDALL-   80 (132)
T ss_dssp             CEEEEECCCGGGHHHHHHHHGGGSCBCSCCGGGCCC-----------------CCCCCEETTEEEEEBSSHHHHHHHHT-
T ss_pred             eEEEEEecCHHHHHHHHHHHHhhceEeeecccccccc-c----cccc-cccccccCccCCCcEEEEEcCCHHHHHHHHH-
Confidence            5677889 7777888899999999998732 111000 0    0000 000000    124567899999999999987 


Q ss_pred             hCCcEECCeEEEEEEccc
Q psy15187        220 VNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~  237 (298)
                      .||..|+|..|-|....+
T Consensus        81 ~NG~ii~G~mIGV~Py~~   98 (132)
T 3p3d_A           81 ENGAVFNGVLLGVIPYTK   98 (132)
T ss_dssp             TTTCEETTEECEEEECCH
T ss_pred             hCCeEeCcEEEEEEECCH
Confidence            699999999888877653

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=94.83  E-value=0.016  Score=56.71  Aligned_cols=50  Identities=26%  Similarity=0.256  Sum_probs=33.0

Q ss_pred             cEEEEcC-CCCCHHHHHHHHhccCCeeEEEEeeecC-ceeEEecChhhhhhh
Q psy15187        146 NTIFVQG-AGISEEFLRQHFSIFGKICSVSMEVEKG-RGFVTFDSPESSDKA  195 (298)
Q Consensus       146 ~tLfVgn-~~~te~~L~~~F~~fG~I~~v~i~~dk~-~gfV~f~~~~~adka  195 (298)
                      ..|||.. ..+++.+|.++|++||+|.++.+..++| ++.|+|.+.++++.+
T Consensus        54 rsv~v~~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g~~~~vef~~~~~~~~~  105 (464)
T 3pq1_A           54 RTVLIHCPEKISENKFLKYLSQFGPINNHFFYESFGLYAVVEFCQKESIGSL  105 (464)
T ss_dssp             TEEEEEECCC---CHHHHHHGGGSCCCCEEEECSSSEEEEEECC---CCHHH
T ss_pred             ceEEEEcCCCCCHHHHHHHHHhcCCcceEEEEccCCeEEEEEeCCHHHHHHH
Confidence            4799998 9999999999999999999988776544 344444444444433

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.38  E-value=0.17  Score=39.56  Aligned_cols=71  Identities=23%  Similarity=0.388  Sum_probs=52.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhcc-----CCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIF-----GKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~f-----G~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ..+++|.|.|  ..+.++.|.-+|+.-     |+|..+....  +.                     |+|+|.+.+.|+.
T Consensus         6 ~~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~--~~---------------------AvItF~d~~va~r   62 (104)
T 2dhx_A            6 SGGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG--CG---------------------GVLTFREPADAER   62 (104)
T ss_dssp             CCCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET--TE---------------------EEEEESSHHHHHH
T ss_pred             cCccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC--Cc---------------------EEEEEcChHHHHH
Confidence            3457999999  899999999999972     6888876543  33                     5666666668877


Q ss_pred             HHHHhCCcEECCeEEEEEEccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      .++ -.-+.|+|..|.|.-..+
T Consensus        63 VL~-k~~H~L~~~~LsV~P~~~   83 (104)
T 2dhx_A           63 VLA-QADHELHGAQLSLRPAPP   83 (104)
T ss_dssp             HHT-CSCCBSSSSBCEEEECCC
T ss_pred             Hhc-CCcceecCeEEEEEcCCC
Confidence            655 235788888898866444

>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=93.92  E-value=0.023  Score=46.32  Aligned_cols=26  Identities=4%  Similarity=-0.024  Sum_probs=23.0

Q ss_pred             CCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        199 DCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       199 skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      ++|||||+|.+.++|++|+..+++..
T Consensus        12 ~~G~~fV~f~~~~~A~~al~~~~~~~   37 (158)
T 2kn4_A           12 LKGETTTEAVDAATAEKVFKQYANDN   37 (158)
T ss_dssp             CEEEEEEECSSHHHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHhHHHHHHhhcccC
Confidence            57889999999999999999988643

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=93.30  E-value=0.51  Score=35.92  Aligned_cols=68  Identities=12%  Similarity=0.139  Sum_probs=50.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|-|.+  +.+||+++.+.++.++.+........+...           +  ...-+-|+|.|.+.+++..-...++|+
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~-----------~--~~~~SRaYi~f~~~e~v~~f~~~~~g~   68 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL-----------Y--PHMYARAYINFKNQEDIILFRDRFDGY   68 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS-----------T--TCCCEEEEEEESSSHHHHHHHHHHTTC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCC-----------C--CCcceEEEEEeCCHHHHHHHHHHhCCc
Confidence            5789999  999999999999999876554443321100           0  012234899999999999999999999


Q ss_pred             EEC
Q psy15187        224 HVQ  226 (298)
Q Consensus       224 ~i~  226 (298)
                      .+.
T Consensus        69 ~F~   71 (91)
T 1uw4_A           69 VFL   71 (91)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            886

>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=93.01  E-value=0.29  Score=37.98  Aligned_cols=51  Identities=27%  Similarity=0.382  Sum_probs=36.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .-++| +  ..+...||.++|+.||.| .|..+-| -.                     |||.|.+++.|..|+..+
T Consensus        17 HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidD-Ts---------------------Alvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           17 HVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-TS---------------------AFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             SEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEET-TE---------------------EEEECSCHHHHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcC-Ce---------------------EEEEecCHHHHHHHHHhc
Confidence            34666 7  899999999999999954 3444433 22                     667777777888777765

>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=90.18  E-value=0.29  Score=38.00  Aligned_cols=50  Identities=28%  Similarity=0.384  Sum_probs=34.8

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ++| +  ..+...||.++|+.||.| .|..+-| ..                     |||.|.+++.|..|+..++
T Consensus         9 ~~l-~FP~ewKt~Di~~lFs~fggv-~I~WidD-Ts---------------------Alvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            9 LHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-TS---------------------AFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEE-ECCTTCCHHHHHHHTTTSEEE-EEEEEET-TE---------------------EEEEEEEECHHHHHHHHHT
T ss_pred             EEE-eCChhhhhHHHHHHHhccCCE-EEEEEcC-Ce---------------------EEEEecCHHHHHHHHHhcc
Confidence            455 7  889999999999999943 4444433 33                     5566666668888777664

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=85.80  E-value=0.86  Score=35.28  Aligned_cols=44  Identities=18%  Similarity=0.183  Sum_probs=33.4

Q ss_pred             ecCceeEEecChhhhhhhhhcCC----c-eEEEEeCCHHHHHHHHHHhC
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDC----A-RGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~sk----G-faFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||+|.+.++|++||..+.    | +-.|.+.+..+...++....
T Consensus        60 ~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~~~~~~~~~~~~~  108 (118)
T 2db1_A           60 QSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTEMDWVLKHSG  108 (118)
T ss_dssp             EEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEEEEECHHHHHHHHHTTS
T ss_pred             CCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECCHHHHHHHHHHhC
Confidence            47999999999999999996321    1 34688888888777766443

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=85.72  E-value=0.58  Score=34.53  Aligned_cols=21  Identities=19%  Similarity=0.423  Sum_probs=19.1

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        43 ~rg~aFV~F~~~~~A~~Ai~~   63 (91)
T 2lxi_A           43 SRGFAFVEFSHLQDATRWMEA   63 (91)
T ss_dssp             CSSEEEEECSSHHHHHHHHHT
T ss_pred             cCceEEEEecCHHHHHHHHHh
Confidence            489999999999999999954

>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=85.16  E-value=0.79  Score=34.80  Aligned_cols=40  Identities=23%  Similarity=0.218  Sum_probs=30.2

Q ss_pred             HHHHHHhccCCe-eEEEEeee--cCceeEEecChhhhhhhhhc
Q psy15187        159 FLRQHFSIFGKI-CSVSMEVE--KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       159 ~L~~~F~~fG~I-~~v~i~~d--k~~gfV~f~~~~~adkai~~  198 (298)
                      +|..-|+..-.| ..+.++..  +++|||+|.+.++|++||..
T Consensus        44 ~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~   86 (115)
T 2cpx_A           44 SLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHL   86 (115)
T ss_dssp             HHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHH
T ss_pred             HHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHH
Confidence            455667776444 56666644  69999999999999999954

>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=84.02  E-value=1.5  Score=33.43  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=31.7

Q ss_pred             ecCceeEEecChhhhhhhhhcCCc------eEEEEeCCHHHHHHHHH
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDCA------RGFVTFDSPESSDKAIT  218 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~skG------faFV~F~~~e~A~~Ai~  218 (298)
                      .+++|||+|.+.++|++||.. .|      .-.|.+....+...+..
T Consensus        56 ~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~~~~~~~~~~  101 (114)
T 2cpy_A           56 GLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVTLEDMREIEK  101 (114)
T ss_dssp             CSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEECHHHHHHHHH
T ss_pred             cceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECCHHHHHHHHh
Confidence            479999999999999999966 33      34688888887666543

>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=83.82  E-value=0.96  Score=35.10  Aligned_cols=42  Identities=19%  Similarity=0.164  Sum_probs=32.6

Q ss_pred             cCceeEEecChhhhhhhhhcC-----CceEEEEeCCHHHHHHHHHHh
Q psy15187        179 KGRGFVTFDSPESSDKAITDD-----CARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       179 k~~gfV~f~~~~~adkai~~s-----kGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +++|||+|.+.++|++||..+     --.-.|.+....+...++..+
T Consensus        67 ~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~~~~~~~~~~~~  113 (124)
T 1wel_A           67 TGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMI  113 (124)
T ss_dssp             EEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEECHHHHHHHHHHH
T ss_pred             CeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECCHHHHHHHHHHH
Confidence            789999999999999999531     114678898888876666554

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=83.46  E-value=0.62  Score=35.64  Aligned_cols=21  Identities=19%  Similarity=0.495  Sum_probs=18.4

Q ss_pred             CceeEEecChhhhhhhhhcCC
Q psy15187        180 GRGFVTFDSPESSDKAITDDC  200 (298)
Q Consensus       180 ~~gfV~f~~~~~adkai~~sk  200 (298)
                      ++|||+|.+.++|+.||....
T Consensus        55 GfaFVeF~~~~~A~~Ai~~~~   75 (100)
T 2d9o_A           55 GTAVVEFATVKAAELAVQNEV   75 (100)
T ss_dssp             SEEEEEESCHHHHHHHHHTCC
T ss_pred             CEEEEEECCHHHHHHHHHhcC
Confidence            689999999999999996633

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=83.44  E-value=0.45  Score=35.86  Aligned_cols=20  Identities=20%  Similarity=0.436  Sum_probs=18.3

Q ss_pred             ecCceeEEecChhhhhhhhh
Q psy15187        178 EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~  197 (298)
                      .+|+|||+|.+.++|++||.
T Consensus        52 srG~aFV~f~~~~~A~~Ai~   71 (95)
T 2lkz_A           52 NRGFAFVQLSSAMDASQLLQ   71 (95)
T ss_dssp             CSSEEEEECSSSHHHHHHHH
T ss_pred             CceEeEEEECCHHHHHHHHH
Confidence            48999999999999999994

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

Probab=83.43  E-value=0.51  Score=33.71  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=19.9

Q ss_pred             ecCceeEEecChhhhhhhhhcCC
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDC  200 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~sk  200 (298)
                      .+++|||+|.+.++|++||..--
T Consensus        46 ~~g~afV~f~~~~~A~~Ai~~ln   68 (81)
T 2krb_A           46 TKGYIFLEYASPAHAVDAVKNAD   68 (81)
T ss_dssp             CCCEEEEEESSHHHHHHHHTTSS
T ss_pred             EeEEEEEEECCHHHHHHHHHHhc
Confidence            47999999999999999996533

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=81.63  E-value=0.66  Score=35.34  Aligned_cols=20  Identities=50%  Similarity=0.571  Sum_probs=18.7

Q ss_pred             ecCceeEEecChhhhhhhhh
Q psy15187        178 EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~  197 (298)
                      .+|+|||+|.+.++|++||.
T Consensus        51 ~rG~aFV~F~~~e~a~~Ai~   70 (103)
T 1s79_A           51 FKGSIFVVFDSIESAKKFVE   70 (103)
T ss_dssp             CCCEEEEEESSHHHHHHHHT
T ss_pred             CccEEEEEECCHHHHHHHHH
Confidence            48999999999999999996

>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=81.36  E-value=1.3  Score=35.55  Aligned_cols=42  Identities=19%  Similarity=0.190  Sum_probs=32.3

Q ss_pred             ecCceeEEecChhhhhhhhhcC-----CceEEEEeCCHHHHHHHHHH
Q psy15187        178 EKGRGFVTFDSPESSDKAITDD-----CARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~s-----kGfaFV~F~~~e~A~~Ai~~  219 (298)
                      .+++|||+|.+.++|++||..+     --.--|.+.+..+...++..
T Consensus        87 srG~aFV~F~~~e~a~~Al~~~g~~l~gr~i~V~~a~~~e~~~~~~~  133 (136)
T 2hgl_A           87 QSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRTEMDWVLKH  133 (136)
T ss_dssp             EEEEEEEECSSHHHHHHHHTTTEEESSSSEEEEEECCHHHHHHHHTT
T ss_pred             CCeEEEEEECCHHHHHHHHhcCCCEECCEEEEEEECChHHHHHHHhh
Confidence            4799999999999999999621     11456888888887776643

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

Probab=81.28  E-value=0.96  Score=33.05  Aligned_cols=22  Identities=41%  Similarity=0.572  Sum_probs=19.4

Q ss_pred             ecCceeEEecChhhhhhhhhcC
Q psy15187        178 EKGRGFVTFDSPESSDKAITDD  199 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~s  199 (298)
                      .+++|||+|.+.++|++||..-
T Consensus        47 ~~g~afV~f~~~~~A~~A~~~l   68 (96)
T 1x5t_A           47 SKGYAFINFASFDASDAAIEAM   68 (96)
T ss_dssp             CCSEEEEEBSSHHHHHHHHHTT
T ss_pred             cCeEEEEEECCHHHHHHHHHHc
Confidence            4799999999999999999643

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=80.77  E-value=4.1  Score=31.24  Aligned_cols=79  Identities=13%  Similarity=0.132  Sum_probs=49.6

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      +-+|-|..  +.+||+++.+.++.+-.+........        .   ...+...-+|  |+|.|.+.++...-...++|
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G--------~---~s~~~~~~SR--AYI~F~~~edv~~F~~~f~g   75 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAA--------D---LSLYPHLYSR--AYINFRNPDDILLFRDRFDG   75 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCC--------C---SSSCCSCCCC--CEEEESCHHHHHHHHHHSTT
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCC--------c---cCCCCCcceE--EEEEeCCHHHHHHHHHHcCC
Confidence            35899999  99999998877776544321111110        0   0001111133  89999999999999999999


Q ss_pred             cEECC-----eEEEEEEcc
Q psy15187        223 THVQG-----VKLKVSLAR  236 (298)
Q Consensus       223 ~~i~G-----r~L~V~~A~  236 (298)
                      +.+-+     .+-.|++|.
T Consensus        76 ~~F~D~kg~~~~a~VE~AP   94 (97)
T 2l08_A           76 YIFLDSKGLEYPAVVEFAP   94 (97)
T ss_dssp             EEEECTTCCEEEEEEEECC
T ss_pred             cEEEeCCCCEeeeEEEecC
Confidence            98862     244555554

>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=80.52  E-value=0.59  Score=35.99  Aligned_cols=21  Identities=43%  Similarity=0.855  Sum_probs=18.9

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+++|||+|.+.++|++||..
T Consensus        44 ~kg~afV~f~~~~~A~~Ai~~   64 (115)
T 4f25_A           44 SKGYGFVHFETQEAAERAIEK   64 (115)
T ss_dssp             EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCceEEEEECCHHHHHHHHHH
Confidence            479999999999999999954

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

Probab=80.23  E-value=0.8  Score=34.29  Aligned_cols=20  Identities=35%  Similarity=0.351  Sum_probs=18.5

Q ss_pred             ecCceeEEecChhhhhhhhh
Q psy15187        178 EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~  197 (298)
                      .+|+|||+|.+.++|++||.
T Consensus        53 ~kG~afV~f~~~~~A~~Ai~   72 (100)
T 3ns6_A           53 TKGFLFVECGSMNDAKKIIK   72 (100)
T ss_dssp             ECSEEEEEESSHHHHHHHHH
T ss_pred             cceEEEEEECCHHHHHHHHH
Confidence            48999999999999999994

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=80.23  E-value=0.68  Score=36.88  Aligned_cols=34  Identities=18%  Similarity=0.332  Sum_probs=25.1

Q ss_pred             eecCceeEEecChhhhhhhhhcCCc------eEEEEeCCH
Q psy15187        177 VEKGRGFVTFDSPESSDKAITDDCA------RGFVTFDSP  210 (298)
Q Consensus       177 ~dk~~gfV~f~~~~~adkai~~skG------faFV~F~~~  210 (298)
                      ..+|+|||+|.+.++|+.||..--|      --.|.|...
T Consensus        70 ~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~~  109 (127)
T 2a3j_A           70 DNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSET  109 (127)
T ss_dssp             SSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECCC
T ss_pred             CcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEccC
Confidence            4689999999999999999944222      225666654

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=80.22  E-value=1.1  Score=33.21  Aligned_cols=28  Identities=29%  Similarity=0.536  Sum_probs=22.3

Q ss_pred             eeEEEEeeecCceeEEecChhhhhhhhh
Q psy15187        170 ICSVSMEVEKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       170 I~~v~i~~dk~~gfV~f~~~~~adkai~  197 (298)
                      |.....-..+++|||+|.+.++|++||.
T Consensus        49 ~~~~~~g~~~g~afV~f~~~~~a~~A~~   76 (101)
T 1fj7_A           49 VVDVRTGTNRKFGYVDFESAEDLEKALE   76 (101)
T ss_dssp             CCEEEEETTTTEEEEEESSHHHHHHHHH
T ss_pred             EecCCCCCcCcEEEEEECCHHHHHHHHh
Confidence            3444444558999999999999999995

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.15  E-value=1.1  Score=35.48  Aligned_cols=42  Identities=14%  Similarity=0.184  Sum_probs=31.9

Q ss_pred             ecCceeEEecChhhhhhhhhcCCc-----eEEEEeCCHHHHHHHHHH
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDCA-----RGFVTFDSPESSDKAITE  219 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~skG-----faFV~F~~~e~A~~Ai~~  219 (298)
                      .+++|||+|.+.++|++||..+..     +--|...+..+...++..
T Consensus        67 ~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~V~~a~~~e~~~~~~~  113 (123)
T 2dha_A           67 PTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQVLNR  113 (123)
T ss_dssp             EEEEEEECCSSHHHHHHHHTTTTEESSSCEECCEEECHHHHHHHHHH
T ss_pred             EeeEEEEEECCHHHHHHHHHhCCCeeCCeEEEEEECCHHHHHHHHHh
Confidence            479999999999999999965211     344667788888777655

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.08  E-value=1.1  Score=33.29  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=19.4

Q ss_pred             ecCceeEEecChhhhhhhhhcC
Q psy15187        178 EKGRGFVTFDSPESSDKAITDD  199 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~s  199 (298)
                      .+++|||+|.+.++|++||..-
T Consensus        52 ~~g~afV~f~~~~~A~~A~~~l   73 (101)
T 2fc9_A           52 SKGYAFIEFASFEDAKEALNSC   73 (101)
T ss_dssp             BCSEEEEECSSHHHHHHHHHHT
T ss_pred             EeeEEEEEECCHHHHHHHHHHh
Confidence            4799999999999999999643

---

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	298
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	1e-12
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-11
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	6e-10
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-09
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-09
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-09
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	2e-09
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	5e-09
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	5e-09
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	6e-09
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	1e-08
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	1e-08
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	2e-08
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	2e-08
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-08
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	3e-08
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	3e-08
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	5e-08
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	5e-08
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	7e-08
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	9e-08
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-07
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	1e-07
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	2e-07
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	2e-07
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	2e-07
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	4e-07
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	7e-07
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	8e-07
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	1e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	3e-06
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	6e-06
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	7e-06
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	1e-05
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	1e-05
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-05
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	1e-05
d2adca1	109	d.58.7.1 (A:335-443) Polypyrimidine tract-binding	2e-05
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-05
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	2e-05
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	5e-05
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	6e-05
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	6e-05
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	7e-05
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	9e-05
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	9e-05
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	2e-04
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	2e-04
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	2e-04
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-04
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	2e-04
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	3e-04
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 3e-04
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	4e-04
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	5e-04
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	5e-04
d1x4da1	89	d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [	5e-04
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	7e-04
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	7e-04
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	8e-04
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	8e-04
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	0.001
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	0.002
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	0.003
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	0.003

>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 = 60.0 bits (145), Expect = 1e-12
 Identities = 34/97 (35%), Positives = 53/97 (54%), Gaps = 21/97 (21%)

Query: 142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           P+ GNT++V G  ++   LR  FS FG I  +SM+  +                      
Sbjct: 2   PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRN--------------------- 40

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             FVT++  ES+D+A+ E+NGT V+ V+LKV++AR+Q
Sbjct: 41  CAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ 77

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.6 bits (139), Expect = 1e-11
 Identities = 18/93 (19%), Positives = 40/93 (43%), Gaps = 17/93 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           +++V      ++E  L + FS  G I S+ +     R  +T  S               +
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRV----CRDMITRRS-----------LGYAY 46

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
           V F  P  +++A+  +N   ++G  +++  ++R
Sbjct: 47  VNFQQPADAERALDTMNFDVIKGKPVRIMWSQR 79

>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 = 53.1 bits (127), Expect = 6e-10
 Identities = 26/97 (26%), Positives = 44/97 (45%), Gaps = 14/97 (14%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           +F++      +EE L+  FS  G I S ++  +K            +   +      GFV
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKK------------NKAGVLLSMGFGFV 48

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVA 242
            +  PE + KA+ ++ G  V G KL+V ++ R  K A
Sbjct: 49  EYKKPEQAQKALKQLQGHTVDGHKLEVRISERATKPA 85

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 52.3 bits (125), Expect = 1e-09
 Identities = 22/92 (23%), Positives = 34/92 (36%), Gaps = 17/92 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
            + V      +++  L   F   G I +  +  +   G+                    F
Sbjct: 4   NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGY---------------SYGYAF 48

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           V F S   S +AI  +NG  V+  +LKVS AR
Sbjct: 49  VDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR 80

>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 = 51.9 bits (124), Expect = 1e-09
 Identities = 20/96 (20%), Positives = 35/96 (36%), Gaps = 17/96 (17%)

Query: 143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           K   T++V       +EE + + FS  G I  + M +               DK     C
Sbjct: 5   KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGL---------------DKMKKTAC 49

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
              FV + S   ++ A+  +NGT +    ++     
Sbjct: 50  GFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA 85

>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 = 51.1 bits (122), Expect = 2e-09
 Identities = 14/90 (15%), Positives = 33/90 (36%), Gaps = 18/90 (20%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           + V     G+S+  +++ F+ FG +   ++  ++                         V
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRS----------------LGTADV 46

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
            F+    + KA+ + NG  + G  + + L 
Sbjct: 47  HFERKADALKAMKQYNGVPLDGRPMNIQLV 76

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 51.1 bits (122), Expect = 2e-09
 Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 19/95 (20%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR 202
              ++V      I+++ L   F  +G I   ++     R  +T                 
Sbjct: 6   DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNIL----RDKLTGRP-----------RGV 50

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGV--KLKVSLA 235
            FV ++  E + +AI+ +N    +G    L V LA
Sbjct: 51  AFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 85

>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 = 50.5 bits (120), Expect = 5e-09
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 17/95 (17%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
             P     + V G     +E  LR+ FS +G I  VS+                 D+   
Sbjct: 4   ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVY---------------DQQSR 48

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKV 232
                 FV F++ + + +A    NG  + G +++V
Sbjct: 49  RSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 83

>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 = 50.4 bits (120), Expect = 5e-09
 Identities = 23/101 (22%), Positives = 36/101 (35%), Gaps = 17/101 (16%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           PN +     TI V        E  L++ F  FG I  + +  +K  G             
Sbjct: 1   PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ------------ 48

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                   F++F   E + +AI  V+G     + L V  A+
Sbjct: 49  ---SKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK 86

>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 = 50.3 bits (120), Expect = 6e-09
 Identities = 17/103 (16%), Positives = 36/103 (34%), Gaps = 26/103 (25%)

Query: 139 NEKPKGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            +     + +F+       + +  +   FS +GKI   S+     +GF            
Sbjct: 9   TDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH----KGF------------ 52

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   FV + +  ++  A+   +G  + G  L ++LA   
Sbjct: 53  -------AFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP 88

>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 = 49.6 bits (118), Expect = 1e-08
 Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 17/103 (16%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           P  +     T++V G    +SE  L + F   G + +  M  ++  G             
Sbjct: 2   PISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQ------------ 49

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                  GFV F S E +D AI  ++   + G  ++V+ A   
Sbjct: 50  ---HQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAH 89

>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 = 49.8 bits (118), Expect = 1e-08
 Identities = 25/103 (24%), Positives = 42/103 (40%), Gaps = 10/103 (9%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           P+E     + I+VQG    ++ + L   F   G +       +              DK 
Sbjct: 2   PDEDSDN-SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYL-------DKE 53

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                    V+++ P ++  A+   +G   QG KLKVSLAR++
Sbjct: 54  TGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKK 96

>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 = 48.9 bits (116), Expect = 2e-08
 Identities = 23/103 (22%), Positives = 43/103 (41%), Gaps = 19/103 (18%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
           P+ +  G   IF++     I  + L   FS FG I S  +  ++                
Sbjct: 1   PSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGS------------- 47

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                  GFV F++ E++++AI ++NG  +   K+ V   + +
Sbjct: 48  ----KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR 86

>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 = 48.6 bits (115), Expect = 2e-08
 Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 17/92 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
            + V      +++E  R  F   G+I S  +  +K  G                    GF
Sbjct: 4   NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQ---------------SLGYGF 48

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           V +  P+ ++KAI  +NG  +Q   +KVS AR
Sbjct: 49  VNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR 80

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.8 bits (116), Expect = 2e-08
 Identities = 21/104 (20%), Positives = 43/104 (41%), Gaps = 17/104 (16%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           K +  + I V+      ++  +R+ FS FG++ +V          +      +       
Sbjct: 4   KKQTTSKILVRNIPFQANQREIRELFSTFGELKTV---------RLPKKMTGTGAH---- 50

Query: 199 DCARGFVTFDSPESSDKAITEV-NGTHVQGVKLKVSLARRQLKV 241
               GFV F + + + KA   + + TH+ G +L +  A  ++ V
Sbjct: 51  -RGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTV 93

>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 = 48.4 bits (115), Expect = 3e-08
 Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 23/102 (22%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           N+      T++  G  +G++++ +RQ FS FG+I  +                      +
Sbjct: 12  NQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIR---------------------V 50

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             +    FV F + ES+  AI  VNGT ++G  +K    +  
Sbjct: 51  FPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES 92

>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 = 48.1 bits (114), Expect = 3e-08
 Identities = 20/95 (21%), Positives = 33/95 (34%), Gaps = 19/95 (20%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
            T++V      ++E  + Q FS  G   S  M  E                    +    
Sbjct: 9   RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS-----------------NDPYC 51

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           FV F     +  A+  +NG  + G ++KV+ A   
Sbjct: 52  FVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP 86

>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 = 47.7 bits (113), Expect = 5e-08
 Identities = 19/99 (19%), Positives = 38/99 (38%), Gaps = 23/99 (23%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           +     + +FV      I+EE +R+ F  +GK   V +                      
Sbjct: 3   KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI---------------------H 41

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
            D   GF+  ++   ++ A  E++   ++G +L+V  A 
Sbjct: 42  KDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC 80

>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 = 48.5 bits (115), Expect = 5e-08
 Identities = 14/100 (14%), Positives = 31/100 (31%), Gaps = 22/100 (22%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITD 198
           P+    ++++     I+ E +   F  +G I  + +      RG                
Sbjct: 4   PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGT--------------- 48

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                +V ++    +  A   ++G +V    L V      
Sbjct: 49  ----AYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNAN 84

>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 = 47.4 bits (112), Expect = 7e-08
 Identities = 26/99 (26%), Positives = 37/99 (37%), Gaps = 17/99 (17%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDD 199
             G   +FV+      SEE L + FS +G +  +   +               D      
Sbjct: 5   SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPI---------------DSLTKKP 49

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
               FVTF  PE + KA  EV+G   QG  L V  +  +
Sbjct: 50  KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIK 88

>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 = 46.7 bits (110), Expect = 9e-08
 Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 16/93 (17%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           IF+      I E+ L   FS FG I       +  R   T +S               F+
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVIL---QTPKIMRDPDTGNS-----------KGYAFI 46

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
            F S ++SD AI  +NG ++    + VS A ++
Sbjct: 47  NFASFDASDAAIEAMNGQYLCNRPITVSYAFKK 79

>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 = 46.5 bits (110), Expect = 1e-07
 Identities = 18/99 (18%), Positives = 39/99 (39%), Gaps = 17/99 (17%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
           + +F+ G    ++++ +++  + FG + + ++  +      T  S               
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDS----ATGLS-----------KGYA 46

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVA 242
           F  +     +D+AI  +NG  +   KL V  A    K A
Sbjct: 47  FCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKNA 85

>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 = 46.6 bits (110), Expect = 1e-07
 Identities = 19/95 (20%), Positives = 36/95 (37%), Gaps = 17/95 (17%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             ++V G    + ++ L   F  FG I  + + +               D          
Sbjct: 6   RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPL---------------DYETEKHRGFA 50

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           FV F+  E +  AI  +N + + G  ++V+LA+  
Sbjct: 51  FVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPM 85

>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 = 45.8 bits (108), Expect = 2e-07
 Identities = 15/104 (14%), Positives = 34/104 (32%), Gaps = 22/104 (21%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
             ++K +   T+  +     I+E+ L++ F    +I  VS                    
Sbjct: 8   CTSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ------------------- 48

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                    ++ F S   ++K + E  G  + G  + +     +
Sbjct: 49  -DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK 91

>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 = 45.4 bits (107), Expect = 2e-07
 Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 19/95 (20%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR 202
              ++V G    ++++ L Q FS +G+I +  + V               D+        
Sbjct: 6   DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILV---------------DQVTGVSRGV 50

Query: 203 GFVTFDSPESSDKAITEVNGTHVQG--VKLKVSLA 235
           GF+ FD    +++AI  +NG    G    + V  A
Sbjct: 51  GFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 85

>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 = 45.8 bits (108), Expect = 2e-07
 Identities = 24/96 (25%), Positives = 40/96 (41%), Gaps = 17/96 (17%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR 202
           G  +F+        ++ L Q F  FG + S  + ++K                       
Sbjct: 18  GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL---------------SKCF 62

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           GFV++D+P S+  AI  +NG  +   +LKV L R +
Sbjct: 63  GFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK 98

>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 = 45.1 bits (106), Expect = 4e-07
 Identities = 15/99 (15%), Positives = 39/99 (39%), Gaps = 17/99 (17%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           ++   G  +FV        E+ +++ F  +G+I ++ + +++  GF              
Sbjct: 2   QRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF-------------- 47

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                  V +++ + +  A   +NG  + G  ++V    
Sbjct: 48  -SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF 85

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.5 bits (105), Expect = 7e-07
 Identities = 16/80 (20%), Positives = 25/80 (31%), Gaps = 19/80 (23%)

Query: 157 EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKA 216
            E LR   S FG+I  + +      G                      V+F  PE +D  
Sbjct: 33  REDLRVECSKFGQIRKLLLFDRHPDGV-------------------ASVSFRDPEEADYC 73

Query: 217 ITEVNGTHVQGVKLKVSLAR 236
           I  ++G    G ++      
Sbjct: 74  IQTLDGRWFGGRQITAQAWD 93

>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 = 44.3 bits (104), Expect = 8e-07
 Identities = 24/100 (24%), Positives = 40/100 (40%), Gaps = 19/100 (19%)

Query: 139 NEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           +E       + V        +  LRQ F  FGKI  V +   +                 
Sbjct: 5   SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFG---------- 54

Query: 197 TDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                  FVTF++   +D+A  +++GT V+G K++V+ A 
Sbjct: 55  -------FVTFENSADADRAREKLHGTVVEGRKIEVNNAT 87

>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 = 43.4 bits (102), Expect = 1e-06
 Identities = 17/96 (17%), Positives = 32/96 (33%), Gaps = 30/96 (31%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK------GRGFVTFDSPESSDKAITDD 199
           +F+ G     ++E LR++F  FG++    +  +       G GFVTF      DK +   
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL--- 59

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                                +   +    +   +A
Sbjct: 60  -------------------AQSRHELDSKTIDPKVA 76

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.3 bits (99), Expect = 3e-06
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 18/90 (20%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           IFV G      EE +R++F  FG++ S+ + ++                         F+
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNK---------------RRGFCFI 46

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
           TF   E   K + E    +V   K ++ +A
Sbjct: 47  TFKEEEPVKKIM-EKKYHNVGLSKCEIKVA 75

>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 = 42.1 bits (98), Expect = 6e-06
 Identities = 8/60 (13%), Positives = 16/60 (26%), Gaps = 7/60 (11%)

Query: 144 GGNTIFV-------QGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
           G + +              +       F  + K  +        R  + F +P S+  A 
Sbjct: 4   GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADAR 63

>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 = 41.6 bits (97), Expect = 7e-06
 Identities = 19/101 (18%), Positives = 32/101 (31%), Gaps = 26/101 (25%)

Query: 142 PKGGN--TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           P G N   I+V      I  + +   F  +G I  + +                      
Sbjct: 9   PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL--------------------KN 48

Query: 198 DDCARG--FVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
                   FV F+ P  ++ A+   +G    G +L+V   R
Sbjct: 49  RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR 89

>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 = 41.2 bits (96), Expect = 1e-05
 Identities = 14/101 (13%), Positives = 34/101 (33%), Gaps = 20/101 (19%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQH-FSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           +P   +TI++      I ++ L++   +IF +   +   +                    
Sbjct: 1   RPN--HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDIL---------------VSRSL 43

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
               + FV F    S+  A+  + G       +++  A+  
Sbjct: 44  KMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTD 84

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.5 bits (94), Expect = 1e-05
 Identities = 19/90 (21%), Positives = 33/90 (36%), Gaps = 18/90 (20%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           IFV G     + E ++ +F  FGK+    +         T                 GFV
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLM----FDKTTNRH-----------RGFGFV 46

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
           TF+S +  +K   E++   +    ++   A
Sbjct: 47  TFESEDIVEKVC-EIHFHEINNKMVECKKA 75

>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 = 40.4 bits (94), Expect = 1e-05
 Identities = 18/90 (20%), Positives = 35/90 (38%), Gaps = 18/90 (20%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           +F+ G     +++ L+ +FS FG++   ++++               D         GFV
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKL---------------DPITGRSRGFGFV 46

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
            F   ES DK + +     + G  +    A
Sbjct: 47  LFKESESVDKVM-DQKEHKLNGKVIDPKRA 75

>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 = 40.8 bits (95), Expect = 1e-05
 Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 24/97 (24%)

Query: 144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           G + +FV      ++E+ LR+ FS +G +  V                           A
Sbjct: 4   GSSGVFVGRCTGDMTEDELREFFSQYGDVMDV--------------------FIPKPFRA 43

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             FVTF   + +           ++G+ + +S A  +
Sbjct: 44  FAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPK 78

>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 = 2e-05
 Identities = 14/103 (13%), Positives = 36/103 (34%), Gaps = 23/103 (22%)

Query: 144 GGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDC 200
           G + + V       ++ + L   F ++G +  V +                    + +  
Sbjct: 1   GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKI--------------------LFNKK 40

Query: 201 ARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
               V       +  A++ +NG  + G  ++++L++ Q    P
Sbjct: 41  ENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLP 83

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 2e-05
 Identities = 12/94 (12%), Positives = 31/94 (32%), Gaps = 21/94 (22%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
           ++ + L Q FS FG +  +    +  +                       + +  P S+ 
Sbjct: 19  VTLDVLHQIFSKFGTVLKIITFTKNNQFQ-------------------ALLQYADPVSAQ 59

Query: 215 KAITEVNGTHVQ--GVKLKVSLARRQLKVAPIND 246
            A   ++G ++      L++  ++        N+
Sbjct: 60  HAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNN 93

>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 = 39.8 bits (92), Expect = 2e-05
 Identities = 8/92 (8%), Positives = 25/92 (27%), Gaps = 17/92 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           T+++       ++  +R        +                                 +
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLP---------------SLRFNTSRRFAY 47

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           +   S E +   + ++NG  ++G  L   ++ 
Sbjct: 48  IDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN 79

>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 = 38.9 bits (90), Expect = 5e-05
 Identities = 17/101 (16%), Positives = 32/101 (31%), Gaps = 17/101 (16%)

Query: 137 APNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDK 194
             +    G   I VQ     +S + +   F  +  I          +G  T         
Sbjct: 1   GASSGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPT--------- 51

Query: 195 AITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
                     V F+S + +  A+ ++N   +   K+K+ L 
Sbjct: 52  ------GEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG 86

>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 = 38.8 bits (90), Expect = 6e-05
 Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 1/52 (1%)

Query: 146 NTIFVQGAGIS-EEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
             + V G   +   ++   F+ +G I    M        + + S   + KA+
Sbjct: 5   TWVTVFGFPQASASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKAL 56

>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 = 39.3 bits (91), Expect = 6e-05
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 146 NTIFVQGAG----ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAI 196
            ++ V   G    +S   L       G + ++ M   K   F  + + E S +A 
Sbjct: 19  QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAY 73

>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 = 39.0 bits (90), Expect = 7e-05
 Identities = 14/95 (14%), Positives = 34/95 (35%), Gaps = 17/95 (17%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
             ++++     ++E  L   F+ F +     ++                         + 
Sbjct: 19  KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQF---------------RMMTGRMRGQA 63

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           F+TF + E + +A+  VNG  + G  L +   + +
Sbjct: 64  FITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNK 98

>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 = 37.8 bits (87), Expect = 9e-05
 Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 17/86 (19%)

Query: 148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFV 205
           ++++G   G +++ L +    +GKI S    ++K                       GFV
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNK---------------CKGYGFV 45

Query: 206 TFDSPESSDKAITEVNGTHVQGVKLK 231
            FDSP ++ KA+T +  + VQ    K
Sbjct: 46  DFDSPSAAQKAVTALKASGVQAQMAK 71

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (89), Expect = 9e-05
 Identities = 18/96 (18%), Positives = 36/96 (37%), Gaps = 19/96 (19%)

Query: 145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCAR 202
            + + V G     +E+ L+++FS FG++  V ++                D         
Sbjct: 8   TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKK---------------DLKTGHSKGF 52

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           GFV F   E+  K +++ +   + G      L   +
Sbjct: 53  GFVRFTEYETQVKVMSQRHM--IDGRWCDCKLPNSK 86

>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 = 37.9 bits (87), Expect = 2e-04
 Identities = 23/90 (25%), Positives = 34/90 (37%), Gaps = 11/90 (12%)

Query: 146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARG 203
           N +FV G    +++  + +    FGK   +   V          S   S  A        
Sbjct: 9   NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHK-VVINNSTSYAGSQGPSASA-------- 59

Query: 204 FVTFDSPESSDKAITEVNGTHVQGVKLKVS 233
           +VT+   E + +AI  VN   V G  LK S
Sbjct: 60  YVTYIRSEDALRAIQCVNNVVVDGRTLKAS 89

>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 = 38.7 bits (89), Expect = 2e-04
 Identities = 27/103 (26%), Positives = 41/103 (39%), Gaps = 17/103 (16%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            N +P     + V      + E  LRQ F  +G I SV +  ++                
Sbjct: 35  MNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ------------ 82

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                  GFV F S  S+ +AI  +NG ++   +LKV+LA   
Sbjct: 83  ---SRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASG 122

>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 = 37.0 bits (85), Expect = 2e-04
 Identities = 24/91 (26%), Positives = 32/91 (35%), Gaps = 18/91 (19%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
            IFV G      E  LR +F  +GKI  + +                 D+         F
Sbjct: 4   KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMT---------------DRGSGKKRGFAF 48

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
           VTFD  +S DK +       V G   +V  A
Sbjct: 49  VTFDDHDSVDKIV-IQKYHTVNGHNCEVRKA 78

>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 = 37.3 bits (86), Expect = 2e-04
 Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 23/92 (25%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
            ++V+      SEE + + F+           V+K R +                    F
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIKPGAV--ERVKKIRDY-------------------AF 48

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLAR 236
           V F + E + +A+  +NG  + G  ++V+LA+
Sbjct: 49  VHFSNREDAVEAMKALNGKVLDGSPIEVTLAK 80

>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 = 37.4 bits (86), Expect = 2e-04
 Identities = 19/108 (17%), Positives = 34/108 (31%), Gaps = 30/108 (27%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEV------EKGRGFVTFDSP 189
              + +    +F+ G     +EE LR ++  +GK+    +         +G GFVTF S 
Sbjct: 13  KKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSM 72

Query: 190 ESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARR 237
              D A+                            + G  ++   A  
Sbjct: 73  AEVDAAM----------------------AARPHSIDGRVVEPKRAVA 98

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 3e-04
 Identities = 12/36 (33%), Positives = 22/36 (61%)

Query: 203 GFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
           GFVTF++ + +  A+  +NG  V G +++V  A + 
Sbjct: 50  GFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKS 85

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 3e-04
 Identities = 12/80 (15%), Positives = 26/80 (32%), Gaps = 16/80 (20%)

Query: 155 ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSD 214
             EE   +    +G++  +++                 D          +V F   E ++
Sbjct: 39  FFEEVFTEMEEKYGEVEEMNV----------------CDNLGDHLVGNVYVKFRREEDAE 82

Query: 215 KAITEVNGTHVQGVKLKVSL 234
           KA+ ++N     G  +   L
Sbjct: 83  KAVIDLNNRWFNGQPIHAEL 102

>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 = 36.7 bits (84), Expect = 4e-04
 Identities = 20/105 (19%), Positives = 34/105 (32%), Gaps = 23/105 (21%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
                G T+F++       EE L +    FG +  V + +                    
Sbjct: 3   SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVL---------------HPDTE 47

Query: 198 DDCARGFVTFDSPESSDKAITEVN------GTHVQGVKLKVSLAR 236
                 F  F + E++ K +   +      G  + G +LKV LA 
Sbjct: 48  HSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAV 92

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 18/103 (17%)

Query: 138 PNEKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKA 195
            + + +   T+F     A I    L   FS  GK+  V +                 D+ 
Sbjct: 11  LSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIIS---------------DRN 55

Query: 196 ITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                   +V F   +S   AI  + G  + GV + V  ++ +
Sbjct: 56  SRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQAE 97

>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 = 36.2 bits (83), Expect = 5e-04
 Identities = 16/102 (15%), Positives = 35/102 (34%), Gaps = 25/102 (24%)

Query: 141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITD 198
           K      ++V G     S   L + F  FG I ++                         
Sbjct: 13  KANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDH---------------------VK 51

Query: 199 DCARGFVTFDSPESSDKAITEVNGTHVQG--VKLKVSLARRQ 238
             +  ++ ++S +++  A  ++ G  + G   +L+V  A+  
Sbjct: 52  GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG 93

>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 = 36.2 bits (83), Expect = 5e-04
 Identities = 12/101 (11%), Positives = 28/101 (27%), Gaps = 22/101 (21%)

Query: 141 KPKGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           + +    + +            L Q    FG I +  +  +    F+   + E +  A+ 
Sbjct: 4   RVETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAV- 62

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
                                      V G  ++V L+++ 
Sbjct: 63  ------------------DYYTTTPALVFGKPVRVHLSQKY 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 = 37.7 bits (86), Expect = 7e-04
 Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 8/65 (12%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSME------VEKGRGFVTFDSPES 191
           ++P+    +F+ G     ++E LR HF  +G +    +         +G GFVT+ + E 
Sbjct: 1   KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60

Query: 192 SDKAI 196
            D A+
Sbjct: 61  VDAAM 65

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 7e-04
 Identities = 13/67 (19%), Positives = 19/67 (28%)

Query: 172 SVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLK 231
            V  E  K     + + P   D      C + FV F S     KA+  + G       + 
Sbjct: 30  DVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVV 89

Query: 232 VSLARRQ 238
                  
Sbjct: 90  TKYCDPD 96

>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 = 35.9 bits (82), Expect = 8e-04
 Identities = 13/102 (12%), Positives = 25/102 (24%), Gaps = 24/102 (23%)

Query: 144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           G + I V+      + + +      +                               +  
Sbjct: 4   GSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVD----------------------RNKR 41

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLKVAP 243
             FVT  + E +  AI   +    +G  L V L      +  
Sbjct: 42  TAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDALLCS 83

>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 = 35.4 bits (81), Expect = 8e-04
 Identities = 20/104 (19%), Positives = 37/104 (35%), Gaps = 30/104 (28%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPES 191
           ++P+    +F+ G     ++E LR HF  +G +    +  +      +G GFVT+ + E 
Sbjct: 1   KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60

Query: 192 SDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA 235
            D A+                            V G  ++   A
Sbjct: 61  VDAAM----------------------NARPHKVDGRVVEPKRA 82

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (82), Expect = 0.001
 Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 17/94 (18%)

Query: 147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGF 204
           ++FV       +EE L+  FS  G + S  +  ++  G                    GF
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGK---------------PKGYGF 54

Query: 205 VTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             +   E++  A+  +NG    G  L+V  A  +
Sbjct: 55  CEYQDQETALSAMRNLNGREFSGRALRVDNAASE 88

>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 = 35.1 bits (80), Expect = 0.002
 Identities = 23/103 (22%), Positives = 38/103 (36%), Gaps = 18/103 (17%)

Query: 140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAIT 197
           +K      IFV G     ++  LR++F  FG I    +  ++                  
Sbjct: 5   QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT---------------G 49

Query: 198 DDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQLK 240
                GFVT     ++++A  + N   + G K  V+LA    K
Sbjct: 50  KSRGYGFVTMADRAAAERACKDPNPI-IDGRKANVNLAYLGAK 91

>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 = 34.4 bits (78), Expect = 0.003
 Identities = 14/99 (14%), Positives = 29/99 (29%), Gaps = 24/99 (24%)

Query: 142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDD 199
            +    + V G     S + L+ H    G +C   +                        
Sbjct: 12  RRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADV----------------------QK 49

Query: 200 CARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
              G V +   E  + A+ +++ T  +  + + S  R  
Sbjct: 50  DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVY 88

>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 = 34.0 bits (77), Expect = 0.003
 Identities = 19/97 (19%), Positives = 44/97 (45%), Gaps = 18/97 (18%)

Query: 145 GNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCA 201
           G  I ++      + E  LR+ F  FG I  +++                  K  + +  
Sbjct: 4   GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAG--------------QKEHSFNNC 49

Query: 202 RGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLARRQ 238
             F+ F++ +S+++A+ ++N + +   ++ VSLA ++
Sbjct: 50  CAFMVFENKDSAERAL-QMNRSLLGNREISVSLADKK 85

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	298
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.82
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.81
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.81
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.81
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.8
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.8
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.8
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.8
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.8
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.78
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.78
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.78
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.78
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.77
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.77
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.77
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.77
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.77
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.77
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.76
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.76
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.76
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.76
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.76
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.75
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.75
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.75
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.75
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.75
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.75
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.75
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.74
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.74
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.74
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.74
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.74
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.74
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.72
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.72
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.72
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.71
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.7
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.7
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.7
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.7
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.69
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.69
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.69
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.69
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.68
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.67
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.67
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.67
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.67
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.67
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.66
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.66
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.65
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.65
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.65
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.65
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.63
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.63
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.63
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.62
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.62
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.62
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.61
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.6
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.59
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.58
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.58
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.57
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.56
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.56
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.55
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.55
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.51
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	99.48
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.44
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.39
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.36
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.36
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.2
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.19
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.69
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.22
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	96.69
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	93.13
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	87.1
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	84.6
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	83.97
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	83.92
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	83.76
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	83.6
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	83.33
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	82.5
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	82.02
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	81.88
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	81.87
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	81.51
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	81.2
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	80.94
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	80.48
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	80.45
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	80.27

>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=99.82  E-value=3.8e-20  Score=138.26  Aligned_cols=78  Identities=28%  Similarity=0.421  Sum_probs=74.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      +++|||+|  .++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||..|||
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~---------------~~g~afV~f~~~~~A~~ai~~lng   66 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGY---------------SYGYAFVDFTSEMDSQRAIKVLNG   66 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTE---------------ECSEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCC---------------ccccceEEECCHHHHHHHHHHhCC
Confidence            47899999  9999999999999999999999999988776               899999999999999999999999


Q ss_pred             cEECCeEEEEEEccc
Q psy15187        223 THVQGVKLKVSLARR  237 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~  237 (298)
                      ..|+|+.|+|.||++
T Consensus        67 ~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1          67 ITVRNKRLKVSYARP   81 (82)
T ss_dssp             CEETTEECEEEECCC
T ss_pred             CEECCEEEEEEEcCC
Confidence            999999999999975

>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=8.2e-20  Score=141.47  Aligned_cols=84  Identities=30%  Similarity=0.368  Sum_probs=78.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~---------------~~g~afV~f~~~~~a~~A~~~l   70 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKK---------------PKGFAFVTFMFPEHAVKAYAEV   70 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCC---------------CCSEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccc---------------cCcceEEEECCHHHHHHHHHHc
Confidence            4457899999  9999999999999999999999999988886               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ||..|+|+.|+|.+|..+...
T Consensus        71 ~g~~~~gr~i~V~~a~~~~~~   91 (99)
T d1whwa_          71 DGQVFQGRMLHVLPSTIKKEA   91 (99)
T ss_dssp             TTEESSSCEEEEEECCCCSTT
T ss_pred             CCCEECCEEEEEEECCCCCcc
Confidence            999999999999999986553

>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=99.81  E-value=4.6e-20  Score=141.63  Aligned_cols=83  Identities=28%  Similarity=0.381  Sum_probs=77.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++|+++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~---------------~kg~afV~f~~~~~A~~Ai~~l   71 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQ---------------HQGYGFVEFLSEEDADYAIKIM   71 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCS---------------BCSCEEEEESSHHHHHHHHHHS
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccc---------------cccceEEEECCHHHHHHHHHHc
Confidence            3457999999  9999999999999999999999999988886               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.||.++..
T Consensus        72 ~g~~~~g~~l~V~~A~~~~~   91 (93)
T d1x5ua1          72 DMIKLYGKPIRVNKASAHNK   91 (93)
T ss_dssp             SSCBCSSCBCEEEETTTTSC
T ss_pred             CCCEECCEEEEEEEcCCCCC
Confidence            99999999999999987643

>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=99.81  E-value=8.2e-20  Score=140.20  Aligned_cols=81  Identities=22%  Similarity=0.303  Sum_probs=75.9

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+|+|||+|  +++|+++|+++|++||+|.+|.|+.++..|.               ++|||||+|.+.++|..||..||
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~kg~afV~f~~~~~A~~Ai~~l~   70 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT---------------ACGFCFVEYYSRADAENAMRYIN   70 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHHTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceecccccccccc---------------ccceEEEEECCHHHHHHHHHHhC
Confidence            458999999  8999999999999999999999999988776               89999999999999999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|++|+|+||....
T Consensus        71 g~~~~gr~i~V~~a~~~~   88 (93)
T d1h2vz_          71 GTRLDDRIIRTDWDAGFK   88 (93)
T ss_dssp             TSEETTEECEEEEESCCC
T ss_pred             CCEECCEEEEEEEcCCCC
Confidence            999999999999997643

>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=99.80  E-value=5.6e-20  Score=140.12  Aligned_cols=82  Identities=26%  Similarity=0.357  Sum_probs=76.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  .++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||..|
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~---------------~rg~afV~f~~~~~A~~Ai~~l   70 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ---------------SKGFAFISFHRREDAARAIAGV   70 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCS---------------EEEEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccc---------------cccceeEEECCHHHHHHHHHHh
Confidence            3457999999  9999999999999999999999999887775               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..|+|+.|+|.||+++.
T Consensus        71 ~g~~~~g~~i~v~~akp~~   89 (90)
T d2cq0a1          71 SGFGYDHLILNVEWAKPST   89 (90)
T ss_dssp             TTCEETTEECEEEESSCCC
T ss_pred             CCCEECCEEEEEEeeeCCC
Confidence            9999999999999998753

>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=99.80  E-value=6.8e-20  Score=139.35  Aligned_cols=81  Identities=22%  Similarity=0.408  Sum_probs=75.8

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +++++++|+++|++||+|.+|.|+.|+..|.               ++|||||+|.+.++|..||..|||
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~---------------~kg~afV~f~~~~~A~~ai~~l~~   69 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK---------------HRGFAFVEFELAEDAAAAIDNMNE   69 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCC---------------CSSEEEECCSSHHHHHHHHHHHTT
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEeccccccccccc---------------ccceeEEEECCHHHHHHHHHHcCC
Confidence            36899999  9999999999999999999999999988886               899999999999999999999999


Q ss_pred             cEECCeEEEEEEcccccc
Q psy15187        223 THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|+|+.|+|.||+++..
T Consensus        70 ~~i~g~~l~v~~a~p~~~   87 (89)
T d2cqba1          70 SELFGRTIRVNLAKPMRI   87 (89)
T ss_dssp             EEETTEEEEEEECCCCCC
T ss_pred             CEECCEEEEEEEeCCCCC
Confidence            999999999999987543

>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=99.80  E-value=1.2e-19  Score=137.87  Aligned_cols=81  Identities=19%  Similarity=0.409  Sum_probs=75.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .++++|||+|  .++++++|+++|++||.|.+|.|+.|+..|.               ++|||||+|.+.++|..|+..|
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~---------------~~g~afV~f~~~~~A~~A~~~l   69 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF---------------SKGYALVEYETHKQALAAKEAL   69 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS---------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccc---------------cccceeEEECCHHHHHHHHHHc
Confidence            4568999999  9999999999999999999999999988776               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccc
Q psy15187        221 NGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k  238 (298)
                      ||..|+|+.|+|+||.++
T Consensus        70 ng~~l~g~~l~V~~a~~k   87 (88)
T d1rk8a_          70 NGAEIMGQTIQVDWCFVK   87 (88)
T ss_dssp             TTCEETTEECEEEESEEC
T ss_pred             CCCEECCEEEEEEEecCC
Confidence            999999999999999864

>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=1.1e-19  Score=141.85  Aligned_cols=83  Identities=29%  Similarity=0.476  Sum_probs=77.5

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +++++|||+|  +++++++|+++|++||.|.+|.++.++..|.               ++|||||+|.+.++|..||..|
T Consensus        16 p~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~---------------~kG~afV~f~~~~~A~~Ai~~l   80 (102)
T d2cpza1          16 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL---------------SKCFGFVSYDNPVSAQAAIQSM   80 (102)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCS---------------EEEEEEEECSSHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCC---------------CccceEEEeCCHHHHHHHHHHh
Confidence            3467899999  9999999999999999999999999988886               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.||+++..
T Consensus        81 ng~~~~g~~i~V~~a~~k~~  100 (102)
T d2cpza1          81 NGFQIGMKRLKVQLKRSKND  100 (102)
T ss_dssp             TTCEETTEECEEECCCCSCC
T ss_pred             CCCEECCEEEEEEEeCCCCC
Confidence            99999999999999998654

>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=1.3e-19  Score=135.17  Aligned_cols=77  Identities=31%  Similarity=0.471  Sum_probs=73.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|.+|.|+.+...|-               ++|||||+|.+.++|..|+..|||.
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~---------------~~g~afv~f~~~~~a~~a~~~l~g~   67 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQ---------------SLGYGFVNYIDPKDAEKAINTLNGL   67 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCC---------------ceeeEEEEECCHHHHHHHHHHhCCC
Confidence            6899999  9999999999999999999999998877765               8899999999999999999999999


Q ss_pred             EECCeEEEEEEccc
Q psy15187        224 HVQGVKLKVSLARR  237 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~  237 (298)
                      .|+|+.|+|.||+|
T Consensus        68 ~~~g~~l~v~~AkP   81 (82)
T d1fxla1          68 RLQTKTIKVSYARP   81 (82)
T ss_dssp             EETTEECEEEECCC
T ss_pred             EECCEEEEEEEeeC
Confidence            99999999999975

>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=2.9e-19  Score=133.89  Aligned_cols=77  Identities=26%  Similarity=0.392  Sum_probs=71.5

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .|.++++|||+|  +++|+++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||.
T Consensus         5 ~p~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~---------------~~g~afV~f~~~~~A~~Ai~   69 (83)
T d2cqca1           5 NPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---------------SRGFAFVYFENVDDAKEAKE   69 (83)
T ss_dssp             SCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSS---------------EEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccc---------------cccceEEEECCHHHHHHHHH
Confidence            345568999999  9999999999999999999999999887775               88999999999999999999


Q ss_pred             HhCCcEECCeEEEE
Q psy15187        219 EVNGTHVQGVKLKV  232 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V  232 (298)
                      .|||..|+|+.|+|
T Consensus        70 ~l~g~~~~gr~i~V   83 (83)
T d2cqca1          70 RANGMELDGRRIRV   83 (83)
T ss_dssp             HHTTEEETTEEEEE
T ss_pred             HcCCCEECCEEeEC
Confidence            99999999999987

>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=99.78  E-value=7.5e-19  Score=143.74  Aligned_cols=83  Identities=30%  Similarity=0.397  Sum_probs=76.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++|+++|+++|++||.|.+|.|+.++.+|.               ++|||||+|.+.++|..||..|
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~---------------~rg~afV~f~~~~~A~~Ai~~l  104 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ---------------SRGYGFVKFQSGSSAQQAIAGL  104 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTE---------------EEEEEEEEESSHHHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhcccccccccccccccc---------------ccceeeEEECCHHHHHHHHHHh
Confidence            3446899999  9999999999999999999999999988886               8999999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||+.|+|+.|+|.||..+..
T Consensus       105 ng~~~~gr~l~V~~a~~~~~  124 (139)
T d1u6fa1         105 NGFNILNKRLKVALAASGHQ  124 (139)
T ss_dssp             TTEECSSCEEEEEESSCCCC
T ss_pred             CCCEECCEEEEEEEcCCCCC
Confidence            99999999999999986554

>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=99.78  E-value=1.8e-19  Score=134.11  Aligned_cols=77  Identities=44%  Similarity=0.743  Sum_probs=68.9

Q ss_pred             CCCCcEEEEcCCCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        142 PKGGNTIFVQGAGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       142 ~~~~~tLfVgn~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      |+.+++|||+|.++|+++|+++|++||.|.+|.+..+                     +|||||+|.+.++|..|+..||
T Consensus         2 p~~~~ti~V~~~~~te~~L~~~F~~~G~I~~v~~~~~---------------------~~~afV~f~~~~~A~~Ai~~ln   60 (79)
T d2bz2a1           2 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPP---------------------RNCAFVTYEKMESADQAVAELN   60 (79)
T ss_dssp             CCCCCEEEEECSSCCHHHHHHHHSTTCCCSCEEEETT---------------------TTEEEEECSSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHhccCccceeeeccC---------------------CCEEEEEEcccHHHHHHHHHhC
Confidence            6778999999977999999999999999999988644                     3447888888889999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|+|.||+++|
T Consensus        61 g~~~~g~~l~V~~a~~~P   78 (79)
T d2bz2a1          61 GTQVESVQLKVNIARKQP   78 (79)
T ss_dssp             TCBCSSCBCEEEECCSSC
T ss_pred             CCEECCEEEEEEEecCCC
Confidence            999999999999999875

>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=99.78  E-value=3.9e-19  Score=132.50  Aligned_cols=76  Identities=20%  Similarity=0.389  Sum_probs=72.2

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      .|||+|  +++|+++|+++|++||+|.+|.|+.|+..|-               ++|||||+|.+.++|..|+..|||..
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~---------------~~g~aFV~f~~~~~a~~ai~~l~g~~   66 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRR---------------SLGYAYVNFQQPADAERALDTMNFDV   66 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHTTSTTCE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccC---------------CCCceEEEECCHHHHHHHHHHcCCCE
Confidence            599999  9999999999999999999999999987775               88999999999999999999999999


Q ss_pred             ECCeEEEEEEccc
Q psy15187        225 VQGVKLKVSLARR  237 (298)
Q Consensus       225 i~Gr~L~V~~A~~  237 (298)
                      |+|++|+|.||+.
T Consensus        67 ~~gr~i~v~~a~~   79 (80)
T d1cvja1          67 IKGKPVRIMWSQR   79 (80)
T ss_dssp             ETTEECEEEECCC
T ss_pred             ECCEEEEEEEeCC
Confidence            9999999999963

>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=99.77  E-value=3.8e-19  Score=134.14  Aligned_cols=77  Identities=27%  Similarity=0.512  Sum_probs=71.4

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||+|  +++|+++|+++|++||+|.+|.|+.|+..|.               ++|||||+|.+.++|..|+..||
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~---------------~kg~afV~f~~~~~a~~Ai~~ln   69 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV---------------SRGVGFIRFDKRIEAEEAIKGLN   69 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccccccccc---------------CCCeeEEEEcCHHHHHHHHHHhC
Confidence            357899999  9999999999999999999999999987776               89999999999999999999999


Q ss_pred             CcEECC--eEEEEEEc
Q psy15187        222 GTHVQG--VKLKVSLA  235 (298)
Q Consensus       222 G~~i~G--r~L~V~~A  235 (298)
                      |..++|  ++|+|.||
T Consensus        70 g~~~~G~~~~i~V~~A   85 (85)
T d1fxla2          70 GQKPSGATEPITVKFA   85 (85)
T ss_dssp             TCCCTTCSSCCEEEEC
T ss_pred             CCEeCCCCEEEEEEeC
Confidence            999998  56999987

>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=99.77  E-value=4.6e-19  Score=132.05  Aligned_cols=77  Identities=10%  Similarity=0.165  Sum_probs=67.5

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      |||||+|  +++|+++|+++|++||.|..+.++.+...|-               ++|||||+|.+.++|..|+..|||.
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~---------------~~g~afV~f~~~e~A~~Ai~~l~g~   66 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNT---------------SRRFAYIDVTSKEDARYCVEKLNGL   66 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC----------------------CCEEEEECSSHHHHHHHHHHHTTC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeeccccccc---------------ccceeEEEECCHHHHHHHHHHhCCC
Confidence            7999999  9999999999999999999988887766665               8999999999999999999999999


Q ss_pred             EECCeEEEEEEccc
Q psy15187        224 HVQGVKLKVSLARR  237 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~  237 (298)
                      .|+|++|+|.+++|
T Consensus        67 ~~~g~~i~V~~a~P   80 (81)
T d2ghpa1          67 KIEGYTLVTKVSNP   80 (81)
T ss_dssp             EETTEECEEEECCC
T ss_pred             EECCEEEEEEEccC
Confidence            99999999999976

>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=99.77  E-value=1e-18  Score=133.51  Aligned_cols=81  Identities=22%  Similarity=0.343  Sum_probs=73.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++|+++|+++|++||.|.+|.|+.|+.+|.               ++|||||+|.+.++|.+||.. 
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~---------------srG~aFV~f~~~~~a~~al~~-   69 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGH---------------SKGFGFVRFTEYETQVKVMSQ-   69 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCS---------------EEEEEEEEESSHHHHHHHHHS-
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcc---------------cCCEEEEEECCHHHHHHHHhc-
Confidence            4457899999  9999999999999999999999999988887               999999999999999999984 


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                       ++.|+|+.|.|.+|.++..
T Consensus        70 -~~~l~Gr~i~v~~a~~k~~   88 (90)
T d2cqga1          70 -RHMIDGRWCDCKLPNSKQS   88 (90)
T ss_dssp             -CEEETTEEEEEECCCTTCC
T ss_pred             -CCccCCEEeEEEeCCCCCC
Confidence             5689999999999987543

>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=99.77  E-value=1.9e-18  Score=131.45  Aligned_cols=79  Identities=25%  Similarity=0.339  Sum_probs=71.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +.++|||+|  .++|+++|+++|++||+|.+|.|+.++..+                 +|||||+|.+.++|..|+..||
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~-----------------~~~afV~f~~~~~A~~A~~~l~   69 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN-----------------DPYCFVEFYEHRDAAAALAAMN   69 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSS-----------------CCEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCcc-----------------ceeeEEEECCHHHHHHHHHHcC
Confidence            346899999  999999999999999999999998875533                 5779999999999999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|+|.||.++.
T Consensus        70 ~~~~~g~~i~v~~a~~~~   87 (90)
T d2cqia1          70 GRKILGKEVKVNWATTPS   87 (90)
T ss_dssp             TEEETTEEEEEEECCCTT
T ss_pred             CCEECCEEEEEEEcCCCC
Confidence            999999999999998644

>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=99.77  E-value=7.9e-19  Score=134.87  Aligned_cols=83  Identities=25%  Similarity=0.439  Sum_probs=75.1

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...++|||+|  +++++++|+++|++||.|.+|.|+.+. ..|.               ++|||||+|.+.++|..||..
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~---------------~rg~afV~f~~~~~A~~Ai~~   70 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGA---------------HRGFGFVDFITKQDAKKAFNA   70 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCS---------------SCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCC---------------cccEEEEEECCHHHHHHHHHH
Confidence            3447899999  999999999999999999999998874 4665               899999999999999999999


Q ss_pred             h-CCcEECCeEEEEEEcccccc
Q psy15187        220 V-NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 l-nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      | ||..|+|++|+|.||..+..
T Consensus        71 l~~~~~~~Gr~l~V~~A~~~~~   92 (94)
T d2cpha1          71 LCHSTHLYGRRLVLEWADSEVT   92 (94)
T ss_dssp             HHTCCBSSSCBCEEEECCCCCC
T ss_pred             ccCCcEECCEEEEEEEcCCCCC
Confidence            8 99999999999999987643

>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=99.77  E-value=2.5e-18  Score=131.66  Aligned_cols=81  Identities=30%  Similarity=0.438  Sum_probs=73.3

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||+|.+|.|+.+++.                 ++|||||+|.+.++|..||..|
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~-----------------~kg~afV~f~~~~~a~~Ai~~l   71 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-----------------SKGFGFVTFENSADADRAREKL   71 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT-----------------TCCEEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccC-----------------CcceeEEEECCHHHHHHHHHHc
Confidence            4457899999  99999999999999999999999887532                 4788999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.||.++..
T Consensus        72 ~~~~~~g~~l~V~~A~~r~~   91 (93)
T d2cq3a1          72 HGTVVEGRKIEVNNATARVM   91 (93)
T ss_dssp             TTCEETTEECEEEECCSSCC
T ss_pred             CCCEECCEEEEEEecCcCCC
Confidence            99999999999999998654

>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=1.1e-18  Score=131.09  Aligned_cols=79  Identities=30%  Similarity=0.521  Sum_probs=70.6

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      |||+|  +++|+++|+++|++||.|.+|.|+.++..+.            .+.++|||||+|.+.++|..|+..|||..|
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~------------~~~~kG~afV~f~~~~~A~~A~~~~~~~~~   68 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAG------------VLLSMGFGFVEYKKPEQAQKALKQLQGHTV   68 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTC------------CEEEEEEEEEEESSHHHHHHHHHHSTTCEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceeccccccc------------ccccceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            79999  9999999999999999999999998854431            012789999999999999999999999999


Q ss_pred             CCeEEEEEEcccc
Q psy15187        226 QGVKLKVSLARRQ  238 (298)
Q Consensus       226 ~Gr~L~V~~A~~k  238 (298)
                      +|+.|+|.||.+.
T Consensus        69 ~g~~i~V~~a~~~   81 (85)
T d2cpfa1          69 DGHKLEVRISERA   81 (85)
T ss_dssp             TTEECEEECSSCS
T ss_pred             CCEEEEEEECCCC
Confidence            9999999999754

>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=4.3e-19  Score=133.94  Aligned_cols=78  Identities=19%  Similarity=0.373  Sum_probs=74.3

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  +++|+++|+++|++||+|.+|.|+.|+.+|.               ++|||||+|.+.++|..|+..|||..
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~---------------~rg~aFV~f~~~~~A~~a~~~l~~~~   67 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGL---------------SKGYAFCEYVDINVTDQAIAGLNGMQ   67 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSC---------------CCCEEEEEESSSHHHHHHHHTSSSCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccc---------------cceeEEEEECCHHHHHHHHHHhCCCE
Confidence            699999  9999999999999999999999999988886               89999999999999999999999999


Q ss_pred             ECCeEEEEEEccccc
Q psy15187        225 VQGVKLKVSLARRQL  239 (298)
Q Consensus       225 i~Gr~L~V~~A~~k~  239 (298)
                      |+|++|.|.||....
T Consensus        68 l~g~~l~V~~A~~~~   82 (85)
T d2u2fa_          68 LGDKKLLVQRASVGA   82 (85)
T ss_dssp             CSSSCCEEEECCCCC
T ss_pred             ECCEEEEEEECCCCC
Confidence            999999999998644

>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=99.76  E-value=7.7e-19  Score=133.35  Aligned_cols=81  Identities=28%  Similarity=0.474  Sum_probs=75.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      ..+|||+|  +++++++|+++|++||.|..|.++.+...|.               ++|||||+|.++++|..||..|||
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~---------------~~g~afV~f~~~~~a~~Ai~~l~~   69 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQR---------------SRGFGFVTFENIDDAKDAMMAMNG   69 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCS---------------CCSEEEEECSSHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeecccccccc---------------ccceEEEEECCHHHHHHHHHHcCC
Confidence            46899999  9999999999999999999999998877775               899999999999999999999999


Q ss_pred             cEECCeEEEEEEcccccc
Q psy15187        223 THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~  240 (298)
                      +.|+|+.|+|.||.++..
T Consensus        70 ~~~~g~~l~V~~a~~~~~   87 (90)
T d1x5sa1          70 KSVDGRQIRVDQAGKSSD   87 (90)
T ss_dssp             CCTTSCCCEEEEEECCCC
T ss_pred             CEECCEEEEEEEcCCCCC
Confidence            999999999999987654

>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=99.76  E-value=1.1e-18  Score=132.50  Aligned_cols=78  Identities=27%  Similarity=0.478  Sum_probs=71.7

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.+++.                 ++|||||+|.+.++|..||..|||.
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~-----------------~kg~afV~f~~~~~A~~Ai~~l~g~   71 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-----------------SKGYGFVHFETQEAAERAIEKMNGM   71 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTB-----------------CCSCEEEEESCHHHHHHHTTSSSEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCC-----------------CcceeEEEECCHHHHHHHHHHcCCC
Confidence            5799999  99999999999999999999999987542                 4788999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.+|.++..
T Consensus        72 ~~~g~~i~V~~a~~~~~   88 (89)
T d1cvja2          72 LLNDRKVFVGRFKSRKE   88 (89)
T ss_dssp             EETTEEEEEEECCCTTT
T ss_pred             EECCEEEEEEECCCCCC
Confidence            99999999999987653

>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=99.76  E-value=1.1e-18  Score=131.36  Aligned_cols=77  Identities=25%  Similarity=0.401  Sum_probs=72.1

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      .+++|||+|  +++++++|+++|++||.|..|.|+.++..|.               ++|||||+|.+.++|..||+.||
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~---------------~~g~afV~f~~~~~A~~Ai~~l~   69 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGR---------------PRGVAFVRYNKREEAQEAISALN   69 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeeccccccc---------------CceeEEEEECCHHHHHHHHHHHC
Confidence            457899999  9999999999999999999999999987775               89999999999999999999999


Q ss_pred             CcEECC--eEEEEEEc
Q psy15187        222 GTHVQG--VKLKVSLA  235 (298)
Q Consensus       222 G~~i~G--r~L~V~~A  235 (298)
                      |..+.|  ++|+|.||
T Consensus        70 g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2          70 NVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             TCCCTTCSSCCEEEEC
T ss_pred             CCEeCCCCeEEEEEEC
Confidence            999986  89999997

>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=99.75  E-value=3.6e-18  Score=133.25  Aligned_cols=78  Identities=28%  Similarity=0.396  Sum_probs=72.9

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +.+++++|+++|++||.|.+|.|+.++.+|.               ++|||||+|.+.++|..||+.+|+ 
T Consensus        11 ~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~---------------~kg~afV~f~~~~~A~~Ai~~~~~-   74 (103)
T d2cqda1          11 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGK---------------SRGYGFVTMADRAAAERACKDPNP-   74 (103)
T ss_dssp             SEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCC---------------CCSEEEEEESSHHHHHHHHTCSSC-
T ss_pred             cEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccc---------------cCCeEEEEECCHHHHHHHHHHCCC-
Confidence            6899999  9999999999999999999999999988886               999999999999999999999886 


Q ss_pred             EECCeEEEEEEccccc
Q psy15187        224 HVQGVKLKVSLARRQL  239 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~  239 (298)
                      .|+|+.|+|.||....
T Consensus        75 ~l~Gr~l~V~~a~~~~   90 (103)
T d2cqda1          75 IIDGRKANVNLAYLGA   90 (103)
T ss_dssp             EETTEECEEEESTTTC
T ss_pred             cCCCEEEEEEEcCCCC
Confidence            7999999999998643

>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=99.75  E-value=2.3e-18  Score=129.72  Aligned_cols=77  Identities=23%  Similarity=0.350  Sum_probs=71.6

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +..+|||+|  +++|+++|+++|++||.|..|.|+.|+..|.               ++|||||+|.+.++|.+||. ++
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~---------------~kG~afV~f~~~~~a~~ai~-~~   68 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR---------------SRGFGFVTYATVEEVDAAMN-AR   68 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHH-TC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCC---------------cccEEEEEEcCHHHHHHHHH-hC
Confidence            346899999  9999999999999999999999999988886               89999999999999999997 69


Q ss_pred             CcEECCeEEEEEEcc
Q psy15187        222 GTHVQGVKLKVSLAR  236 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~  236 (298)
                      |+.|+|+.|+|..|.
T Consensus        69 ~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1          69 PHKVDGRVVEPKRAV   83 (84)
T ss_dssp             SCEETTEECEEEECC
T ss_pred             CCEECCEEEEEEeee
Confidence            999999999998875

>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=99.75  E-value=3.3e-19  Score=132.40  Aligned_cols=74  Identities=22%  Similarity=0.302  Sum_probs=70.5

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      |+|||+|  +++|+++|+++|++||.|.+|.|+.|+..|.               ++|||||+|.+.++|.+||. +|++
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~---------------~kG~aFV~f~~~~~a~~al~-~~~~   64 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR---------------SRGFGFVTFMDQAGVDKVLA-QSRH   64 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSS---------------CSSEEEECCCCTTHHHHHHH-TTTC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCC---------------ccceEEEEECCHHHHHHHHH-cCCC
Confidence            6899999  9999999999999999999999999988886               99999999999999999997 7999


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .|+|+.|.|.+|
T Consensus        65 ~i~Gr~i~V~~A   76 (77)
T d1uawa_          65 ELDSKTIDPKVA   76 (77)
T ss_dssp             CCSSCCCEEEEC
T ss_pred             EECCeEEEEEEC
Confidence            999999999887

>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=99.75  E-value=2.5e-18  Score=132.84  Aligned_cols=83  Identities=28%  Similarity=0.456  Sum_probs=71.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEE--------EeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHH
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVS--------MEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPES  212 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~--------i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~  212 (298)
                      ..+++|||+|  +++|+++|+++|++||.|..+.        +..++.+|               .++|||||+|.+.++
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~---------------~~~g~afV~f~~~~~   70 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG---------------KPKGDATVSYEDPPT   70 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTC---------------SBCSEEEEEBSSHHH
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccc---------------cccceeeEEecCHHH
Confidence            4567999999  9999999999999999986543        33333334               489999999999999


Q ss_pred             HHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        213 SDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |..||..|||..|+|+.|+|.||++++.
T Consensus        71 a~~Ai~~l~g~~~~gr~i~V~~a~~~~p   98 (101)
T d2cpea1          71 AKAAVEWFDGKDFQGSKLKVSLARKKPP   98 (101)
T ss_dssp             HHHHHHHHTTCEETTEECEEECSSCCCC
T ss_pred             HHHHHHHhCCCEECCEEEEEEEcCCCCC
Confidence            9999999999999999999999998655

>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=99.75  E-value=2.6e-18  Score=127.47  Aligned_cols=74  Identities=20%  Similarity=0.412  Sum_probs=69.4

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  +++++++|+++|++||+|.+|.|+.++ .|.               ++|||||+|.+.++|..|+..|||..
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~-~g~---------------~~g~afV~f~~~~~A~~Ai~~l~g~~   65 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGR---------------SLGTADVHFERKADALKAMKQYNGVP   65 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSS-CCC---------------SCCEEEEEESCHHHHHHHHHHHTTCE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEee-ccc---------------cceeEEEEECCHHHHHHHHHHhCCCE
Confidence            599999  999999999999999999999998875 453               78999999999999999999999999


Q ss_pred             ECCeEEEEEEcc
Q psy15187        225 VQGVKLKVSLAR  236 (298)
Q Consensus       225 i~Gr~L~V~~A~  236 (298)
                      ++|++|+|++|.
T Consensus        66 l~g~~l~V~~a~   77 (78)
T d1no8a_          66 LDGRPMNIQLVT   77 (78)
T ss_dssp             ETTEECEEEEEC
T ss_pred             ECCEEEEEEEee
Confidence            999999999986

>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=99.75  E-value=5.2e-19  Score=137.92  Aligned_cols=80  Identities=25%  Similarity=0.406  Sum_probs=75.1

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      .+|||+|  +++++++|+++|++||.|.+|.|+.++..|.               ++|||||+|.+.++|..||..|||.
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~---------------~~g~afV~f~~~~~a~~ai~~l~~~   73 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGK---------------PKGYGFCEYQDQETALSAMRNLNGR   73 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTE---------------EEEEEEEECSCHHHHHHHHHHSSSB
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccccccccccccccceec---------------cCCceEEEECCHHHHHHHHHHcCCC
Confidence            5799999  9999999999999999999999999988786               8999999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.||.++..
T Consensus        74 ~~~g~~i~V~~a~~~~~   90 (104)
T d1p1ta_          74 EFSGRALRVDNAASEKN   90 (104)
T ss_dssp             SCSSSCBEEEETTCTTH
T ss_pred             EECCEEEEEEECCCCCC
Confidence            99999999999987544

>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=99.75  E-value=1.4e-18  Score=129.98  Aligned_cols=78  Identities=29%  Similarity=0.422  Sum_probs=71.4

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEE-EEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSV-SMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v-~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      |||+|  +++|+++|+++|++||.|..+ .|+.++..|-               ++|||||+|.+.++|..||..|||..
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~---------------~~g~afV~f~~~~~a~~Ai~~~~g~~   65 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGN---------------SKGYAFINFASFDASDAAIEAMNGQY   65 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCS---------------CCSEEEEEBSSHHHHHHHHHTTTTCE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccc---------------cCceEEEEECCHHHHHHHHHhCCCcE
Confidence            79999  999999999999999999775 6777777775               89999999999999999999999999


Q ss_pred             ECCeEEEEEEcccccc
Q psy15187        225 VQGVKLKVSLARRQLK  240 (298)
Q Consensus       225 i~Gr~L~V~~A~~k~~  240 (298)
                      |+|++|+|+||.++..
T Consensus        66 ~~gr~l~v~~a~~k~~   81 (83)
T d1x5ta1          66 LCNRPITVSYAFKKDS   81 (83)
T ss_dssp             ETTEECEEEESCCCCC
T ss_pred             ECCEEEEEEEecCCCc
Confidence            9999999999987643

>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=99.75  E-value=3.6e-18  Score=131.02  Aligned_cols=83  Identities=24%  Similarity=0.389  Sum_probs=75.6

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++|+++|+++|++||.|.++.++.++..+.               ++|||||+|.+.++|..||..|
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~---------------~~g~afV~F~~~~~a~~ai~~l   70 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH---------------SKGCAFAQFMTQEAAQKCLAAA   70 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCC---------------BCSEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeecccccccc---------------ccceEEEEEcCHHHHHHHHHHc
Confidence            3457899999  9999999999999999999999998887776               8999999999999999999988


Q ss_pred             C------CcEECCeEEEEEEcccccc
Q psy15187        221 N------GTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 n------G~~i~Gr~L~V~~A~~k~~  240 (298)
                      |      |..|+|+.|+|+||.++..
T Consensus        71 ~~~~~~~g~~~~gr~l~v~~a~~k~~   96 (98)
T d1x4ha1          71 SLEAEGGGLKLDGRQLKVDLAVTRDE   96 (98)
T ss_dssp             CTTTTTCCEESSSCEEEEECCCCCCC
T ss_pred             ccccccCCcEECCEEEEEEECCCCCc
Confidence            6      7889999999999987644

>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=99.74  E-value=2.6e-18  Score=134.46  Aligned_cols=79  Identities=23%  Similarity=0.331  Sum_probs=73.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|..|.|+.|+..+.               ++|||||+|.+.++|..||. ++|+
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~---------------~kg~aFV~f~~~~~a~~al~-~~~~   84 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKR---------------SRGFGFVTFSSMAEVDAAMA-ARPH   84 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSS---------------CCSEEEEECSSHHHHHHHHT-SCSE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCC---------------ccCeEEEEECCHHHHHHHHH-hCCC
Confidence            6899999  9999999999999999999999999987765               89999999999999999985 8999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|.|.+|.++..
T Consensus        85 ~l~G~~i~V~~a~~ke~  101 (103)
T d1x4ba1          85 SIDGRVVEPKRAVAREE  101 (103)
T ss_dssp             EETTEEEEEECCSSCCC
T ss_pred             eECCEEEEEEECcccCC
Confidence            99999999999997654

>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=99.74  E-value=3.3e-18  Score=132.02  Aligned_cols=77  Identities=32%  Similarity=0.569  Sum_probs=68.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  .++++++|+++|++||.|.+|.|+.++                     |||||+|.+.++|..||..|
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~k---------------------g~afV~f~~~~~A~~Ai~~l   74 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK---------------------GYSFVRFSTHESAAHAIVSV   74 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT---------------------TEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecc---------------------eEEEEEECCHHHHHHHHHHh
Confidence            3457999999  899999999999999999999998654                     44777777777999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.|+++++.
T Consensus        75 ~~~~i~g~~l~v~~ak~~p~   94 (96)
T d1x4ga1          75 NGTTIEGHVVKCYWGKESPD   94 (96)
T ss_dssp             TTCEETTEECEEECCCCCCS
T ss_pred             CCCEECCEEEEEEEcCCCCC
Confidence            99999999999999988665

>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=99.74  E-value=1.2e-18  Score=147.11  Aligned_cols=96  Identities=29%  Similarity=0.457  Sum_probs=87.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhh--------------------
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAI--------------------  196 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai--------------------  196 (298)
                      .++|||+|  +.+|+++|+++|++||.|.+|.++.+      ++++||+|.+.++|++|+                    
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~~~   85 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSR   85 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCCT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhhhc
Confidence            36899999  99999999999999999999999865      679999999999999998                    


Q ss_pred             --------------------------------------------------hcCCceEEEEeCCHHHHHHHHHHhCCcEEC
Q psy15187        197 --------------------------------------------------TDDCARGFVTFDSPESSDKAITEVNGTHVQ  226 (298)
Q Consensus       197 --------------------------------------------------~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~  226 (298)
                                                                        +.++|||||+|.+.++|.+||. ++|+.|+
T Consensus        86 ~~~~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~  164 (183)
T d1u1qa_          86 EDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN  164 (183)
T ss_dssp             TGGGSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEET
T ss_pred             ccccccccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeEC
Confidence                                                              2378999999999999999996 7999999


Q ss_pred             CeEEEEEEccccccc
Q psy15187        227 GVKLKVSLARRQLKV  241 (298)
Q Consensus       227 Gr~L~V~~A~~k~~~  241 (298)
                      |+.|+|.+|.++.++
T Consensus       165 G~~i~V~~A~~k~e~  179 (183)
T d1u1qa_         165 GHNCEVRKALSKQEM  179 (183)
T ss_dssp             TEEEEEEECCCHHHH
T ss_pred             CEEEEEEecCCcccc
Confidence            999999999876553

>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=99.74  E-value=2.5e-18  Score=129.84  Aligned_cols=80  Identities=25%  Similarity=0.510  Sum_probs=68.2

Q ss_pred             CCcEEEEcC--CCCC-HHHHHHHHhccCCeeEEEEeee-cCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGIS-EEFLRQHFSIFGKICSVSMEVE-KGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       144 ~~~tLfVgn--~~~t-e~~L~~~F~~fG~I~~v~i~~d-k~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      .+++|||+|  ++++ +++|+++|++||.|.+|.|+.+ +..|-               ++|||||+|.+.++|..||+ 
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~---------------~kg~afV~f~~~~~a~~Al~-   66 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSF---------------NNCCAFMVFENKDSAERALQ-   66 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---C---------------CCEEEEEEESSHHHHHHHGG-
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccc---------------cceeeeEEECCHHHHHHHHh-
Confidence            357999999  6765 6679999999999999998765 44554               89999999999999999995 


Q ss_pred             hCCcEECCeEEEEEEccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      |||+.|+|+.|+|+||.++|
T Consensus        67 ~n~~~~~gr~l~V~~a~~kP   86 (86)
T d2ghpa3          67 MNRSLLGNREISVSLADKKP   86 (86)
T ss_dssp             GTTEEETTEEEEEEECCCCC
T ss_pred             cCCCEECCEEEEEEEcCCCC
Confidence            99999999999999999765

>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=99.74  E-value=2.2e-18  Score=134.29  Aligned_cols=77  Identities=25%  Similarity=0.336  Sum_probs=72.6

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|+.||.|.+|.|+.++..|.               ++|||||+|.+.++|.+|+. |||.
T Consensus        19 ~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~---------------~kG~afV~F~~~e~a~~A~~-l~g~   82 (101)
T d2cq4a1          19 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR---------------SKGIAYVEFCEIQSVPLAIG-LTGQ   82 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSS---------------CCCCEEEEESCGGGHHHHHH-HTTE
T ss_pred             CEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCcc---------------ccceEEEEECCHHHHHHHHH-HCCC
Confidence            6899999  9999999999999999999999999988886               99999999999999999995 9999


Q ss_pred             EECCeEEEEEEcccc
Q psy15187        224 HVQGVKLKVSLARRQ  238 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k  238 (298)
                      .|+|+.|+|.++.++
T Consensus        83 ~~~G~~l~V~~a~~~   97 (101)
T d2cq4a1          83 RLLGVPIIVQASQAE   97 (101)
T ss_dssp             EETTEEEEEEEHHHH
T ss_pred             EECCEEEEEEECCCC
Confidence            999999999998653

>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=99.74  E-value=6.8e-18  Score=133.34  Aligned_cols=79  Identities=15%  Similarity=0.267  Sum_probs=70.6

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +..+++|||+|  +++++++|+++|++||.|.+|.|..+.                  .++|||||+|.+.++|..||..
T Consensus         4 p~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~------------------~~kG~afV~f~~~~~A~~Ai~~   65 (114)
T d2f9da1           4 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP------------------ETRGTAYVVYEDIFDAKNACDH   65 (114)
T ss_dssp             TTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST------------------TTTTEEEEEESSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccC------------------CcCCeEEEEECCHHHHHHHHHH
Confidence            34567999999  999999999999999999999887542                  2577899999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||+.|+|+.|+|.|+...
T Consensus        66 l~g~~~~gr~l~V~~a~~~   84 (114)
T d2f9da1          66 LSGFNVCNRYLVVLYYNAN   84 (114)
T ss_dssp             HTTCEETTEECEEEECCHH
T ss_pred             hCCCEECCEEEEEEEcCCC
Confidence            9999999999999998754

>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=99.72  E-value=4e-18  Score=125.60  Aligned_cols=73  Identities=25%  Similarity=0.428  Sum_probs=68.1

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||+|  +++|+++|+++|++||+|..|.|+.++.+|.               ++|||||+|.+.++|+.||. ++++.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~---------------~kg~afV~f~~~~~a~~Al~-~~~~~   64 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGR---------------SRGFGFVLFKESESVDKVMD-QKEHK   64 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTB---------------CCSEEEEEESSHHHHHHHHH-TCCCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCC---------------cCceEEEEECCHHHHHHHHh-cCCCE
Confidence            499999  9999999999999999999999999988886               89999999999999999997 79999


Q ss_pred             ECCeEEEEEEc
Q psy15187        225 VQGVKLKVSLA  235 (298)
Q Consensus       225 i~Gr~L~V~~A  235 (298)
                      |+|+.|.|..|
T Consensus        65 l~Gr~i~V~rA   75 (75)
T d1hd0a_          65 LNGKVIDPKRA   75 (75)
T ss_dssp             BTTBCCEECCC
T ss_pred             ECCCEEEeeEC
Confidence            99999998654

>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=99.72  E-value=1.2e-17  Score=123.56  Aligned_cols=74  Identities=34%  Similarity=0.505  Sum_probs=69.2

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      .+|||||  +++|+++|+++|++||.|..+.++.++..+.               ++|||||+|.+.++|.+|+. |||+
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~---------------~~g~afV~f~~~e~~~~al~-~~~~   66 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK---------------KRGFAFVTFDDHDSVDKIVI-QKYH   66 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC---------------EEEEEEEEESSHHHHHHHHH-CSCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcc---------------cccEEEEEEcCHHHHHHHHH-hCCC
Confidence            5899999  9999999999999999999999999988876               89999999999998888884 8999


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .|+|+.|+|..|
T Consensus        67 ~l~Gr~i~V~~A   78 (79)
T d1l3ka2          67 TVNGHNCEVRKA   78 (79)
T ss_dssp             EETTEECEEEEC
T ss_pred             EECCEEEEEEEC
Confidence            999999999876

>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=99.72  E-value=2.7e-17  Score=126.24  Aligned_cols=79  Identities=20%  Similarity=0.414  Sum_probs=69.7

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ...+++|||+|  +++|+++|+++|++||.|..|.+..+.                  .++|||||+|.+.++|..||..
T Consensus        11 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~------------------~~~g~afV~f~~~e~a~~Ai~~   72 (95)
T d1x4aa1          11 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR------------------GGPPFAFVEFEDPRDAEDAVYG   72 (95)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS------------------SSSCCEEEEESCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc------------------cccceEEEEECCHHHHHHHHHH
Confidence            35568999999  999999999999999999998875442                  1567799999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||+.|+|++|+|+||+..
T Consensus        73 l~g~~~~g~~l~V~~a~~~   91 (95)
T d1x4aa1          73 RDGYDYDGYRLRVEFPRSG   91 (95)
T ss_dssp             HTTCEETTEECEEECCCCC
T ss_pred             hCCCEECCEEEEEEeccCC
Confidence            9999999999999999853

>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=99.71  E-value=2.6e-18  Score=133.07  Aligned_cols=83  Identities=18%  Similarity=0.288  Sum_probs=75.7

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .++++|||+|  .++++++|+++|++||.|..+.++.+...|-               ++|||||+|.+.++|..||..|
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~---------------~~g~~fV~f~~~~~A~~Ai~~l   80 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGR---------------MRGQAFITFPNKEIAWQALHLV   80 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSS---------------SCSEEEEECSSHHHHHHHHHHS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeeccccccc---------------ccccceEEeccHHHHHHHHHHh
Confidence            3468999999  9999999999999999999998888766664               8899999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|+||+++..
T Consensus        81 ~g~~~~g~~l~V~~ak~k~~  100 (102)
T d2cpxa1          81 NGYKLYGKILVIEFGKNKKQ  100 (102)
T ss_dssp             TTCBCSSCBCEEEECCCCSC
T ss_pred             CCCEECCEEEEEEeCCCccc
Confidence            99999999999999997654

>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=99.70  E-value=2.9e-17  Score=128.38  Aligned_cols=74  Identities=18%  Similarity=0.417  Sum_probs=66.7

Q ss_pred             CcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        145 GNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       145 ~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +++|||+|  + .+|+++|+++|+.||.|..|.|+.++                    +|||||+|.+.++|.+||..||
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~--------------------kg~afV~f~~~~~A~~ai~~ln   61 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK--------------------KENALVQMADGNQAQLAMSHLN   61 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT--------------------SCCEEEEESCHHHHHHHHHHHT
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc--------------------cceEEEEECCHHHHHHHHHHhC
Confidence            47999999  4 59999999999999999999998763                    4558999999999999999999


Q ss_pred             CcEECCeEEEEEEcccc
Q psy15187        222 GTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k  238 (298)
                      |..|+|+.|+|.|++..
T Consensus        62 g~~l~g~~l~v~~s~~~   78 (109)
T d2adca1          62 GHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             TCBCSSSBCEEECCSCC
T ss_pred             CCEECCEEEEEEECCCC
Confidence            99999999999998754

>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=99.70  E-value=5.2e-18  Score=125.32  Aligned_cols=73  Identities=26%  Similarity=0.375  Sum_probs=68.3

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||||  +++|+++|+++|++||.|.+|.|+.++.+|.               ++|||||+|.+.++|.+||+ ++++.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~---------------~rG~~FV~f~~~~~a~~al~-~~~~~   64 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNK---------------RRGFCFITFKEEEPVKKIME-KKYHN   64 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCC---------------TTCCEEEEESSSHHHHHHTT-CSSCC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccc---------------cccEEEEEECCHHHHHHHHh-hCCCE
Confidence            599999  9999999999999999999999999988886               99999999999999999996 58889


Q ss_pred             ECCeEEEEEEc
Q psy15187        225 VQGVKLKVSLA  235 (298)
Q Consensus       225 i~Gr~L~V~~A  235 (298)
                      |+|+.|.|.+|
T Consensus        65 i~g~~i~vk~A   75 (75)
T d1x0fa1          65 VGLSKCEIKVA   75 (75)
T ss_dssp             BTTBCCEEECC
T ss_pred             ECCEEeEEEEC
Confidence            99999999875

>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=99.70  E-value=2.6e-17  Score=127.38  Aligned_cols=73  Identities=21%  Similarity=0.355  Sum_probs=64.5

Q ss_pred             CCCcEEEEcC---CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG---AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn---~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..+++|||+|   ..+++++|+++|++||.|.+|.|.                       +|||||+|.+.++|.+||..
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~-----------------------rg~aFV~f~~~~~A~~Ai~~   69 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH-----------------------KGFAFVQYVNERNARAAVAG   69 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE-----------------------TEEEEEEESSHHHHHHHHHT
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe-----------------------CCeEEEEECCHHHHHHHHHH
Confidence            3446899999   367889999999999999999872                       45699999999999999999


Q ss_pred             hCCcEECCeEEEEEEcccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k  238 (298)
                      |||+.|+|+.|+|.|+..+
T Consensus        70 lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          70 EDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             TTTCEETTEECEEEETTSC
T ss_pred             cCCCEECCEEEEEEECCCC
Confidence            9999999999999999764

>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=99.70  E-value=7.2e-18  Score=123.30  Aligned_cols=73  Identities=25%  Similarity=0.371  Sum_probs=68.5

Q ss_pred             EEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcE
Q psy15187        147 TIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTH  224 (298)
Q Consensus       147 tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~  224 (298)
                      +|||||  +++|+++|+++|++||.|..|.++.++..+.               ++|||||+|.+.++|..|+. |||+.
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~---------------~~~~afV~F~~~~~a~~al~-~~~~~   64 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR---------------HRGFGFVTFESEDIVEKVCE-IHFHE   64 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTT---------------SCCEEEEECSCHHHHHHHHH-CSSCC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccc---------------cCceeEEEECCHHHHHHHHh-cCCCE
Confidence            499999  9999999999999999999999988877775               89999999999999999996 99999


Q ss_pred             ECCeEEEEEEc
Q psy15187        225 VQGVKLKVSLA  235 (298)
Q Consensus       225 i~Gr~L~V~~A  235 (298)
                      |+|+.|+|.+|
T Consensus        65 l~gr~i~V~~A   75 (75)
T d2msta_          65 INNKMVECKKA   75 (75)
T ss_dssp             BTTBCCEEEEC
T ss_pred             ECCeEEEEEEC
Confidence            99999999886

>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=99.69  E-value=6.5e-18  Score=129.07  Aligned_cols=81  Identities=20%  Similarity=0.262  Sum_probs=71.3

Q ss_pred             CCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       141 ~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      .+....+|||+|  +++++++|+++|++||.|..|.|+.+ ..|-               ++|||||+|.+.++|..||+
T Consensus         9 ~~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~-~~g~---------------~kg~afv~F~~~e~a~~Al~   72 (91)
T d1fjeb1           9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDV-RTGT---------------NRKFGYVDFESAEDLEKALE   72 (91)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEE-EEET---------------TTTEEEEEESSHHHHHHHHH
T ss_pred             CCCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeec-CCCC---------------ccEEeEEeeCCHHHHHHHHh
Confidence            344557999999  99999999999999999999887643 4554               88999999999999999995


Q ss_pred             HhCCcEECCeEEEEEEcccc
Q psy15187        219 EVNGTHVQGVKLKVSLARRQ  238 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~~A~~k  238 (298)
                       |||..|+|+.|+|.+|+.+
T Consensus        73 -~~g~~~~g~~i~V~~ak~k   91 (91)
T d1fjeb1          73 -LTGLKVFGNEIKLEKPKGR   91 (91)
T ss_dssp             -GGGEEETTEEEEEECCCCS
T ss_pred             -cCCcEECCEEEEEEecCCC
Confidence             9999999999999999864

>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=99.69  E-value=2.5e-17  Score=126.54  Aligned_cols=82  Identities=15%  Similarity=0.210  Sum_probs=71.4

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCC-eeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGK-ICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~-I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +|+|||+|  .++++++|+++|++||+ |..|.|+.+. +.|.               ++|||||+|.++++|..|+..|
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~---------------~rg~aFV~F~~~~~A~~Ai~~l   65 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMK---------------NRGFAFVEYESHRAAAMARRKL   65 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTT---------------TCCEEEEEESSHHHHHHHHTTT
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeecccccc---------------CCCeEEEEEcCHHHHHHHHHHH
Confidence            48999999  99999999999999996 8999988774 4454               8999999999999999999999


Q ss_pred             CC--cEECCeEEEEEEccccccc
Q psy15187        221 NG--THVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       221 nG--~~i~Gr~L~V~~A~~k~~~  241 (298)
                      ++  ..++|+.|+|.||.++...
T Consensus        66 ~~~~~~~~g~~i~V~~A~p~~~~   88 (96)
T d2disa1          66 MPGRIQLWGHQIAVDWAEPEIDV   88 (96)
T ss_dssp             TTCCSCBTTBCCEEEESCSSCST
T ss_pred             cCCCeEECCEEEEEEEcCCCCCC
Confidence            64  4567999999999876553

>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=99.69  E-value=5e-17  Score=121.68  Aligned_cols=74  Identities=19%  Similarity=0.302  Sum_probs=66.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +++++|||+|  .++++++|+++|++||.|..|.++.+                    .+|||||+|.+.++|..|+..|
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~--------------------~~g~afV~f~~~~~A~~A~~~l   65 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN--------------------RHDIAFVEFTTELQSNAAKEAL   65 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT--------------------TCSCEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc--------------------cceeEEEecCCHHHHHHHHHHh
Confidence            3468999999  99999999999999999999988754                    2456999999999999999999


Q ss_pred             CCcEEC-CeEEEEEEcc
Q psy15187        221 NGTHVQ-GVKLKVSLAR  236 (298)
Q Consensus       221 nG~~i~-Gr~L~V~~A~  236 (298)
                      ||..|. |+.|+|+||+
T Consensus        66 ~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1          66 QGFKITPTHAMKITFAK   82 (83)
T ss_dssp             TTCBSSTTCBCEEEECC
T ss_pred             CCcEeCCCcEEEEEEec
Confidence            999985 7999999997

>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=99.69  E-value=3.4e-17  Score=123.65  Aligned_cols=75  Identities=25%  Similarity=0.442  Sum_probs=66.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +.++|||+|  .++++++|+++|++||.|.+|.|..++                     |||||+|.+.++|..|+..||
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k---------------------~~afV~f~~~~~A~~A~~~l~   65 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK---------------------GFGFIRLETRTLAEIAKVELD   65 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT---------------------TEEEEECSSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeeccc---------------------ceEEEEECCHHHHHHHHHHhC
Confidence            347899999  999999999999999999999987654                     447777777779999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..|+|+.|+|+||....
T Consensus        66 g~~i~g~~l~V~~A~~~~   83 (86)
T d2cpja1          66 NMPLRGKQLRVRFACHSA   83 (86)
T ss_dssp             TCCBTTBCCEEEESSCCS
T ss_pred             CCEECCEEEEEEECCCcC
Confidence            999999999999998753

>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=99.68  E-value=3.9e-17  Score=124.10  Aligned_cols=78  Identities=29%  Similarity=0.375  Sum_probs=67.5

Q ss_pred             CCcEEEEcC--CCCCHHHH---HHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEFL---RQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAIT  218 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L---~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~  218 (298)
                      +.++|||+|  +++++++|   +++|++||+|..|.|+.++.++-            -+.++|||||+|.+.++|..||.
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~------------~~~~~g~aFV~f~~~~~A~~Ai~   74 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAG------------SQGPSASAYVTYIRSEDALRAIQ   74 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCS------------SSCCCEEEEEEESSHHHHHHHHH
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCC------------CCCcceEEEEecccchhHHHHHH
Confidence            346899999  99999999   77899999999999998854432            01246899999999999999999


Q ss_pred             HhCCcEECCeEEEEE
Q psy15187        219 EVNGTHVQGVKLKVS  233 (298)
Q Consensus       219 ~lnG~~i~Gr~L~V~  233 (298)
                      .|||..|+|+.|+|+
T Consensus        75 ~lng~~~~gr~lkvS   89 (89)
T d2cpia1          75 CVNNVVVDGRTLKAS   89 (89)
T ss_dssp             HHTTEEETTEEEEEE
T ss_pred             HhCCCEECCEEEEEC
Confidence            999999999999985

>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=99.67  E-value=2.4e-17  Score=127.99  Aligned_cols=79  Identities=16%  Similarity=0.310  Sum_probs=70.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++++++|+++|++||.|..+.+..+. .+-               ++|||||+|.+.++|.+||..|
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~-~~~---------------~~g~afV~f~~~~~A~~Ai~~l   79 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGT---------------SRGVGFARMESTEKCEAVIGHF   79 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSC---------------EEEEEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeeccc-ccc---------------cccceeEEeCCHHHHHHHHHHh
Confidence            3457999999  999999999999999999999888774 333               6788999999999999999999


Q ss_pred             CCcEECCeEEEEEEccc
Q psy15187        221 NGTHVQGVKLKVSLARR  237 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~  237 (298)
                      ||..|.|+++.|.++.|
T Consensus        80 ng~~i~gr~~~v~~~~P   96 (101)
T d1x5oa1          80 NGKFIKTPPGVSAPTEP   96 (101)
T ss_dssp             BTCCCCCCTTSCCCSSC
T ss_pred             CCCEECCcCCccCCCCC
Confidence            99999999999977764

>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=99.67  E-value=1.5e-16  Score=123.52  Aligned_cols=80  Identities=19%  Similarity=0.276  Sum_probs=69.1

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeec-CceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEK-GRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk-~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +.++|||+|  +++|+++|+++|++|| |+.+.++.+. ..|.               ++|||||+|.+.++|++|+ .|
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~---------------~~g~afV~f~~~e~a~~~~-~~   76 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPER---------------LKGFGYAEFEDLDSLLSAL-SL   76 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTS---------------BCSCEEEEESSHHHHHHHH-GG
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCC---------------cceeeeEEECCHHHHHHHH-Hc
Confidence            448999999  9999999999999999 7788777664 3454               7899999999999998666 69


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||+.|+|+.|+|.||.++..
T Consensus        77 ~~~~~~gr~l~V~~a~~~~~   96 (104)
T d1wi8a_          77 NEESLGNKRIRVDVADQAQD   96 (104)
T ss_dssp             GTCEETTEECEEEECCCCCC
T ss_pred             CCCEECCEEEEEEECCCCCC
Confidence            99999999999999987544

>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=99.67  E-value=5.4e-17  Score=122.85  Aligned_cols=76  Identities=24%  Similarity=0.388  Sum_probs=65.9

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ...++|||+|  +++|+++|+++|++||.|.+|.++.+                    ++|||||+|.+.++|+.||.  
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~--------------------~~gfafV~f~~~~~a~~a~~--   60 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--------------------FRAFAFVTFADDQIAQSLCG--   60 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS--------------------CCSCCEEECSCHHHHHHTTT--
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec--------------------cCceEEEEECCHHHHHHHHh--
Confidence            3457999999  99999999999999999999876532                    46679999999999999985  


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      +++.|+|++|.|.+|.++..
T Consensus        61 ~~~~i~g~~l~v~~a~~k~~   80 (88)
T d1wf0a_          61 EDLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             CEEEETTEEEEEECCCCCCC
T ss_pred             CCCEECCEEeEEEeCCCCCC
Confidence            89999999999999987544

>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=99.67  E-value=5.2e-17  Score=120.94  Aligned_cols=74  Identities=16%  Similarity=0.264  Sum_probs=64.2

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++|+++|+++|++||.|.++.++..                     +|||||+|.+.++|..|+..|||.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~---------------------rg~aFV~f~~~~~A~~Ai~~lng~   60 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK---------------------SGYAFVDYPDQNWAIRAIETLSGK   60 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEE---------------------TTEEEECCSCHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecc---------------------cceEEEEECCHHHHHHHHHHhCCC
Confidence            4799999  99999999999999999987666543                     455778888888999999999996


Q ss_pred             -EECCeEEEEEEcccccc
Q psy15187        224 -HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 -~i~Gr~L~V~~A~~k~~  240 (298)
                       .|+|+.|+|.||.++..
T Consensus        61 ~~~~G~~i~V~~a~~k~~   78 (80)
T d2cqha1          61 VELHGKIMEVDYSVSKKL   78 (80)
T ss_dssp             CEETTEECEEEECCCCCC
T ss_pred             eEECCEEEEEEEcCCcCc
Confidence             69999999999998654

>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=99.67  E-value=5.2e-17  Score=127.16  Aligned_cols=76  Identities=21%  Similarity=0.284  Sum_probs=67.2

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +.+++|||+|  +++++++|+++|++||+|..|.|..                     ++|||||+|.+.++|.+||..|
T Consensus         8 r~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~---------------------~kg~afV~f~~~~~A~~A~~~l   66 (111)
T d1whxa_           8 RSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE---------------------GGITAIVEFLEPLEARKAFRHL   66 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS---------------------SSSCEEEEESCHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec---------------------cCceEEEEEcCHHHHHHHHHHH
Confidence            3457999999  8999999999999999999998743                     3556888888888999999999


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..|.|+.|+|.||....
T Consensus        67 ng~~~~gr~l~v~~a~~~~   85 (111)
T d1whxa_          67 AYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             TTCBSSSSBCEEEEEETTT
T ss_pred             cCCccCCCeEEEEECCCCc
Confidence            9999999999999997644

>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=99.66  E-value=1.1e-16  Score=120.76  Aligned_cols=77  Identities=19%  Similarity=0.271  Sum_probs=67.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +++++|||+|  +++++++|+++|++||.|..+.+..+++                   +|||||+|.+.++|..|+..|
T Consensus         8 pPs~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~-------------------~~~afV~f~~~~~A~~A~~~l   68 (88)
T d2adca2           8 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD-------------------RKMALIQMGSVEEAVQALIDL   68 (88)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS-------------------TTCEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecc-------------------cceeEEEECCHHHHHHHHHhc
Confidence            3467999999  9999999999999999999887665544                   445999999999999999999


Q ss_pred             CCcEE-CCeEEEEEEcccc
Q psy15187        221 NGTHV-QGVKLKVSLARRQ  238 (298)
Q Consensus       221 nG~~i-~Gr~L~V~~A~~k  238 (298)
                      ||..| +|+.|+|+|++++
T Consensus        69 ~~~~i~~g~~l~v~~sk~~   87 (88)
T d2adca2          69 HNHDLGENHHLRVSFSKST   87 (88)
T ss_dssp             TTCBSSSSCBCEEEECSSC
T ss_pred             cCCEecCCCEEEEEeCCCC
Confidence            99998 4999999999863

>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=99.66  E-value=9.9e-17  Score=123.20  Aligned_cols=81  Identities=20%  Similarity=0.320  Sum_probs=69.4

Q ss_pred             CCCCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        140 EKPKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       140 ~~~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....++++|||+|  +++|+++|+++|++||.|..+..     .+               .++|||||+|.+.++|..|+
T Consensus        11 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~-----~~---------------~~~~~afV~f~~~~~A~~A~   70 (96)
T d1fjca_          11 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DG---------------KSKGIAYIEFKSEADAEKNL   70 (96)
T ss_dssp             STTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE-----TT---------------EEEEEEEEEESSHHHHHHHH
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee-----cC---------------ccccEEEEEeCCHHHHHHHH
Confidence            3445568999999  99999999999999999876532     22               25778999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.|+.++..
T Consensus        71 ~~l~~~~~~gr~i~V~~a~~k~~   93 (96)
T d1fjca_          71 EEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             HHTTEEEETTEEEEEEECSSSCC
T ss_pred             HHcCCCEECCEEEEEEEeCCCCC
Confidence            99999999999999999997644

>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=99.65  E-value=3.8e-16  Score=117.30  Aligned_cols=75  Identities=23%  Similarity=0.333  Sum_probs=66.3

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .++|||+|  +++++++|+++|++||.|..+.+..                     ++|||||+|.+.++|..|+..|||
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~---------------------~rg~afV~f~~~~~A~~Ai~~l~~   66 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK---------------------IRDYAFVHFSNREDAVEAMKALNG   66 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE---------------------CSSEEEEEESSHHHHHHHHHHHSS
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc---------------------ccEEEEEEeCCHHHHHHHHHHcCC
Confidence            36899999  9999999999999999998776532                     566789999999999999999999


Q ss_pred             cEECCeEEEEEEcccccc
Q psy15187        223 THVQGVKLKVSLARRQLK  240 (298)
Q Consensus       223 ~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|+|+.|+|.||+|+..
T Consensus        67 ~~i~g~~i~V~~akP~~~   84 (86)
T d2cpda1          67 KVLDGSPIEVTLAKPVDK   84 (86)
T ss_dssp             EEETTEEEEEECCCCCCC
T ss_pred             CEECCEEEEEEeccCCCC
Confidence            999999999999987543

>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=99.65  E-value=2.6e-16  Score=118.41  Aligned_cols=74  Identities=18%  Similarity=0.286  Sum_probs=67.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++|+++|+++|+.||+|..|.|..+. .|.               ++|||||+|.+.++|..||+ ++|.
T Consensus         7 rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~-~~~---------------~kG~afV~f~~~e~a~~al~-~~~~   69 (85)
T d1zh5a2           7 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL-HKA---------------FKGSIFVVFDSIESAKKFVE-TPGQ   69 (85)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECT-TCC---------------EEEEEEEEESCHHHHHHHHT-CCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhcccccceeeeec-cCC---------------cceEEEEEEcCHHHHHHHHH-HCCC
Confidence            6899999  999999999999999999999988765 343               68899999999999999995 7999


Q ss_pred             EECCeEEEEEEcc
Q psy15187        224 HVQGVKLKVSLAR  236 (298)
Q Consensus       224 ~i~Gr~L~V~~A~  236 (298)
                      .++|+.|.|.|..
T Consensus        70 ~~~g~~l~v~~~~   82 (85)
T d1zh5a2          70 KYKETDLLILFKD   82 (85)
T ss_dssp             EETTEECEEEEGG
T ss_pred             EECCEEEEEEEcC
Confidence            9999999999864

>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=99.65  E-value=1.3e-16  Score=119.83  Aligned_cols=78  Identities=21%  Similarity=0.268  Sum_probs=67.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      +..++|||+|  +++++++|+++|+.||.|..+.++.+...|-               ++|||||+|.+.++|.+||..|
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~---------------~~G~afV~f~~~e~a~~Ai~~l   71 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM---------------PTGEAMVAFESRDEATAAVIDL   71 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSC---------------EEEEEEEEESCHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCC---------------cceEEEEEEcCcHHHHHHHHHc
Confidence            3446899999  9999999999999999997754444444453               7888999999999999999999


Q ss_pred             CCcEECCeEEEEEEc
Q psy15187        221 NGTHVQGVKLKVSLA  235 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A  235 (298)
                      ||..|+|++|+|.+|
T Consensus        72 ~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1          72 NDRPIGSRKVKLVLG   86 (86)
T ss_dssp             TTCEETTEECEEEES
T ss_pred             CCCEECCEEEEEEEC
Confidence            999999999999986

>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=99.65  E-value=3.5e-16  Score=115.13  Aligned_cols=72  Identities=17%  Similarity=0.150  Sum_probs=65.1

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|+.||.|..|.|..+++.+                 +|||||+|.+.++|.+|+ .|||+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~-----------------~~~afV~F~~~~~a~~Al-~~~~~   62 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKN-----------------FRFARIEFARYDGALAAI-TKTHK   62 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSS-----------------SEEEEEEESSHHHHHHHH-TTTTC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeecccc-----------------ceEEEEEEcchHHhHHHH-HhcCc
Confidence            5899999  999999999999999999999998876543                 467999999999999998 59999


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .|+|+.|.|..+
T Consensus        63 ~i~g~~i~V~~~   74 (75)
T d2ghpa2          63 VVGQNEIIVSHL   74 (75)
T ss_dssp             EETTEECEEEEC
T ss_pred             EECCEEEEEEEC
Confidence            999999999764

>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=99.63  E-value=3.9e-16  Score=118.69  Aligned_cols=79  Identities=20%  Similarity=0.356  Sum_probs=68.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHH----HHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        144 GGNTIFVQG--AGISEEFLRQ----HFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~----~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ++++|||+|  +++++++|++    +|++||+|.+|.+...   +               .++|||||+|.+.++|..|+
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~---~---------------~~~g~afV~F~~~~~A~~A~   63 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS---L---------------KMRGQAFVIFKEVSSATNAL   63 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH---H---------------HHTTCEEEEESSHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee---c---------------cCCCceEEEECCHHHHHHHH
Confidence            458999999  9999999864    6899999999887532   2               25778999999999999999


Q ss_pred             HHhCCcEECCeEEEEEEcccccc
Q psy15187        218 TEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       218 ~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ..|||..|+|+.|+|.||+++..
T Consensus        64 ~~~~~~~~~g~~l~v~~ak~~~~   86 (91)
T d1nu4a_          64 RSMQGFPFYDKPMRIQYAKTDSD   86 (91)
T ss_dssp             HHHTTCEETTEECEEEECSSCCT
T ss_pred             HHhCCCEECCEEEEEEEeCCCch
Confidence            99999999999999999987644

>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=99.63  E-value=3.7e-16  Score=120.80  Aligned_cols=76  Identities=18%  Similarity=0.283  Sum_probs=68.0

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ....+|||+|  +++++++|+++|++||.|..|.|.                      ++|||||+|.+.++|..||..|
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~----------------------~~g~afV~f~~~~~a~~Ai~~l   70 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQ----------------------KDGMGMVEYLRKEDMEYALRKL   70 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEE----------------------TTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhccccccccc----------------------ccceEEEEECCHHHHHHHHHHh
Confidence            3456899999  999999999999999999999874                      2456999999999999999999


Q ss_pred             CCcEECCeEEEEEEcccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~~  240 (298)
                      ||..|+|+.|+|.+++.++.
T Consensus        71 ng~~~~g~~i~v~~~~~~~~   90 (98)
T d1wg4a_          71 DDTKFRSHEGETSYIRVYPE   90 (98)
T ss_dssp             SSEEEECTTSCEEEEEEECC
T ss_pred             CCCEeCCeEEEEEEEecCCC
Confidence            99999999999999987654

>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=99.63  E-value=5.6e-17  Score=117.89  Aligned_cols=69  Identities=30%  Similarity=0.489  Sum_probs=65.0

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      |||+|  +++|+++|+++|++||.|..+.+..++..+.               ++|||||+|.+.++|..|+..|||..|
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~---------------~~g~afV~f~~~~~A~~Ai~~lng~~~   65 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNK---------------CKGYGFVDFDSPSAAQKAVTALKASGV   65 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCS---------------CCSEEEEEESCHHHHHHHHHHHHHHTC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccccccccccccc---------------ccceeEEEECCHHHHHHHHHHhCCCEE
Confidence            79999  9999999999999999999999998887775               899999999999999999999999999


Q ss_pred             CCeEEE
Q psy15187        226 QGVKLK  231 (298)
Q Consensus       226 ~Gr~L~  231 (298)
                      +|+.|+
T Consensus        66 ~Gr~~k   71 (72)
T d1x4ea1          66 QAQMAK   71 (72)
T ss_dssp             CEESCC
T ss_pred             CCEECc
Confidence            998764

>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=99.62  E-value=3.7e-16  Score=122.43  Aligned_cols=78  Identities=17%  Similarity=0.275  Sum_probs=69.5

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      +..+|||+|  +.+|+++|+++|++||.|..|.|+.++..||                   |||+|.+.++|..||..||
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~-------------------aFV~f~~~e~A~~Ai~~ln   66 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQ-------------------ALLQYADPVSAQHAKLSLD   66 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEE-------------------EEEEESCHHHHHHHHHHHH
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCe-------------------EEEEECCHHHHHHHHHHHC
Confidence            346899999  9999999999999999999999988766555                   9999999999999999999


Q ss_pred             CcEEC--CeEEEEEEcccccc
Q psy15187        222 GTHVQ--GVKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~--Gr~L~V~~A~~k~~  240 (298)
                      |..|.  |+.|+|.|++++..
T Consensus        67 ~~~l~~~~~~l~v~~s~~~~~   87 (108)
T d2adba1          67 GQNIYNACCTLRIDFSKLTSL   87 (108)
T ss_dssp             SCCSSTTCCCCEEEECSSCSC
T ss_pred             CCEeccCCcEEEEEecCCccc
Confidence            99984  88999999886543

>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=99.62  E-value=9.2e-16  Score=116.12  Aligned_cols=74  Identities=18%  Similarity=0.229  Sum_probs=62.3

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ..++|||+|  +++++++|+++|++|| +..+.+.                     .++|||||+|.+.++|..||..||
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~---------------------~~kg~afV~f~~~~~A~~Ai~~ln   61 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVD---------------------RNKRTAFVTLLNGEQAQNAIQMFH   61 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEE---------------------GGGTEEEECCSCHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeee---------------------ccCCceEEEECCHHHHHHHHHHhC
Confidence            346899999  9999999999999999 3333332                     245668999999999999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |+.|+|++|+|+|++.+.
T Consensus        62 ~~~~~G~~l~V~~a~~~~   79 (88)
T d1wg1a_          62 QYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             TEEETTEEEEEEECCCCC
T ss_pred             CCEECCEEEEEEEcCCCC
Confidence            999999999999997643

>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=99.62  E-value=7e-16  Score=118.66  Aligned_cols=76  Identities=20%  Similarity=0.383  Sum_probs=65.6

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      .+.++|||+|  +++++++|+++|++||.|..|.+.+++                     |||||+|.+.++|..|+..|
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~---------------------~~afV~f~~~~~A~~A~~~l   73 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD---------------------SFAYIQYESLDAAQAACAKM   73 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSS---------------------CCEEEEESSHHHHHHHHHHH
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccc---------------------cEEEeccCCHHHHHHHHHHh
Confidence            3457899999  999999999999999999999887543                     34777777777999999999


Q ss_pred             CCcEECC--eEEEEEEccccc
Q psy15187        221 NGTHVQG--VKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~G--r~L~V~~A~~k~  239 (298)
                      ||..|+|  ++|+|+||++.+
T Consensus        74 ~~~~i~g~~~~l~v~~ak~~~   94 (97)
T d1whya_          74 RGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             TTCBCSSSSCBCEEEECCCCC
T ss_pred             CCCEeCCCceEEEEEeCCCCC
Confidence            9999986  589999998754

>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=99.61  E-value=1.3e-16  Score=120.45  Aligned_cols=73  Identities=21%  Similarity=0.327  Sum_probs=65.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++++++|+++|++||.|.+|.|+.+                      |||||+|.+.++|..||..|||.
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~----------------------g~afV~f~~~~~a~~Ai~~l~g~   58 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD----------------------GTGVVEFVRKEDMTYAVRKLDNT   58 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT----------------------SEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhccccccccccc----------------------ceeeEEeCCHHHHHHHHHHhCCC
Confidence            4699999  99999999999999999999987643                      45999999999999999999999


Q ss_pred             EECCeEEEEEEcccccc
Q psy15187        224 HVQGVKLKVSLARRQLK  240 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k~~  240 (298)
                      .|+|+.|+|.+++.+..
T Consensus        59 ~~~g~~i~v~~~~~~~~   75 (87)
T d3begb1          59 KFRSHEGETAYIRVKVD   75 (87)
T ss_dssp             BCCCTTSCCCBCEEEEC
T ss_pred             EECCcEeEEeEEecCcC
Confidence            99999999999876544

>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=99.60  E-value=2.9e-15  Score=112.94  Aligned_cols=77  Identities=12%  Similarity=0.182  Sum_probs=65.9

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++++|||+|  +++++++|+++|++||.|.+|.+..++                     |||||+|.+.++|..|+..
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~---------------------~~afV~f~~~e~A~~a~~~   63 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK---------------------NQAFLELATEEAAITMVNY   63 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT---------------------TEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccc---------------------eEEEEEeCCHHHHHHHHHH
Confidence            45668999999  999999999999999999999887543                     4477888888899999987


Q ss_pred             h--CCcEECCeEEEEEEccccc
Q psy15187        220 V--NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 l--nG~~i~Gr~L~V~~A~~k~  239 (298)
                      |  ++..++|++|+|.|+..+.
T Consensus        64 ~~~~~~~~~g~~l~v~~sk~~~   85 (88)
T d2cq1a1          64 YSAVTPHLRNQPIYIQYSNHKE   85 (88)
T ss_dssp             HHHSCCEETTEECEEEECSCSS
T ss_pred             HccCCCccCCCEEEEEECCCCC
Confidence            6  6789999999999998654

>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=99.59  E-value=1.8e-15  Score=118.20  Aligned_cols=77  Identities=16%  Similarity=0.174  Sum_probs=63.8

Q ss_pred             CCCcEEEEcC--CC-----CCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHH
Q psy15187        143 KGGNTIFVQG--AG-----ISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDK  215 (298)
Q Consensus       143 ~~~~tLfVgn--~~-----~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~  215 (298)
                      ..+++|||+|  .+     +++++|+++|++||.|++|.+++.                     +|||||+|.+.++|.+
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~---------------------~~~afV~f~~~~~A~~   61 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS---------------------FKRVRINFSNPLSAAD   61 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT---------------------TTEEEEECSSTTHHHH
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecC---------------------CCEEEEEECCHHHHHH
Confidence            4568999999  33     344679999999999999988753                     3447777777779999


Q ss_pred             HHHHhCCcEECCeEEEEEEcccccc
Q psy15187        216 AITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       216 Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |+..|||..|+|+.|+|.||+++..
T Consensus        62 Ai~~lng~~~~g~~l~v~~a~~~~~   86 (104)
T d1weya_          62 ARLRLHKTEFLGKEMKLYFAQTLHI   86 (104)
T ss_dssp             HHHTSTTSEETTEECEEECCCCSSC
T ss_pred             HHHHhcccccCCCEeEEeecccCCC
Confidence            9999999999999999999987655

>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=99.58  E-value=1.2e-15  Score=118.24  Aligned_cols=77  Identities=10%  Similarity=0.096  Sum_probs=68.0

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|||+|  +++|+++|+++|..||.|..+.++.....|.               ++|||||+|.+.++|..||. |||.
T Consensus         9 ~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~---------------~~G~afV~F~s~~~a~~Al~-~n~~   72 (103)
T d2cpya1           9 VCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQ---------------GLGQALVQFKNEDDARKSER-LHRK   72 (103)
T ss_dssp             CEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSS---------------CSSCEEEECSSHHHHHHHGG-GCSE
T ss_pred             eEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCC---------------cCccEEEEECCHHHHHHHHh-cCCC
Confidence            5799999  9999999999999999998765555555665               89999999999999999995 9999


Q ss_pred             EECCeEEEEEEcccc
Q psy15187        224 HVQGVKLKVSLARRQ  238 (298)
Q Consensus       224 ~i~Gr~L~V~~A~~k  238 (298)
                      .|+|+.|.|.++..+
T Consensus        73 ~i~gr~i~V~~~~~~   87 (103)
T d2cpya1          73 KLNGREAFVHVVTLE   87 (103)
T ss_dssp             EETTEEEEEEEECHH
T ss_pred             eECCcEEEEEECCHH
Confidence            999999999998653

>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=99.58  E-value=3.3e-15  Score=116.13  Aligned_cols=81  Identities=20%  Similarity=0.185  Sum_probs=71.2

Q ss_pred             CCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhC
Q psy15187        144 GGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVN  221 (298)
Q Consensus       144 ~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~ln  221 (298)
                      ....|||+|  +++|+++|+++|..||.|..+.++.+...+.               ++|||||+|.+.++|.+|+. +|
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~---------------~kG~afV~F~~~e~a~~a~~-~~   77 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGR---------------STGEAFVQFASQEIAEKALK-KH   77 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSC---------------BCSEEEEEESSHHHHHHHHT-TT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCC---------------cceEEEEEeCCHHHHHHHHh-hC
Confidence            445799999  9999999999999999999876766665564               88999999999999998885 99


Q ss_pred             CcEECCeEEEEEEcccccc
Q psy15187        222 GTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~~  240 (298)
                      ++.|+||.|.|.++.+...
T Consensus        78 ~~~i~gR~i~V~~~~~~~~   96 (104)
T d1wg5a_          78 KERIGHRYIEIFKSSRAEV   96 (104)
T ss_dssp             TCCSSSSCCEEEEECTTTS
T ss_pred             CCEEcceEEEEEECCHHHh
Confidence            9999999999999987644

>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=99.57  E-value=8.3e-15  Score=113.91  Aligned_cols=79  Identities=19%  Similarity=0.252  Sum_probs=66.8

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..++.+|||+|  .++++++|.++|++||.|..|.|.++                     +|||||+|.+.++|..||..
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~---------------------k~~AfV~f~~~e~A~~ai~~   70 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF---------------------KRQALVEFENIDSAKECVTF   70 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT---------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec---------------------ceeEEEEeCCHHHHHHHHHH
Confidence            34568999999  99999999999999999999988643                     44577888888899999998


Q ss_pred             h--CCcEECCeEEEEEEccccccc
Q psy15187        220 V--NGTHVQGVKLKVSLARRQLKV  241 (298)
Q Consensus       220 l--nG~~i~Gr~L~V~~A~~k~~~  241 (298)
                      |  ++..++|++|+|.|++.+...
T Consensus        71 ~~~~~~~~~g~~l~v~~s~~~~~~   94 (104)
T d1wexa_          71 AADVPVYIAGQQAFFNYSTSKRIT   94 (104)
T ss_dssp             HHHSCCBSSSSBCEEEECSSSSCC
T ss_pred             HcCCCcEEeeEEEEEEEcCCCccC
Confidence            8  566788999999999876543

>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=99.56  E-value=6.1e-15  Score=108.31  Aligned_cols=69  Identities=17%  Similarity=0.302  Sum_probs=60.4

Q ss_pred             EEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEE
Q psy15187        148 IFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHV  225 (298)
Q Consensus       148 LfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i  225 (298)
                      |||+|  +++++++|+++|++|| +..+.+.                     .++|||||+|.+.++|.+|+..|||..+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~---------------------~~~g~afv~f~~~~~A~~Ai~~ln~~~~   58 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD---------------------KYKGTAFVTLLNGEQAEAAINTFHQSRL   58 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEE---------------------TTTTEEEEEESSHHHHHHHHHHHTTEES
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeec---------------------ccceeEEEEECCHHHHHHHHHHhCCccC
Confidence            79999  9999999999999999 4444432                     2566799999999999999999999999


Q ss_pred             CCeEEEEEEcccc
Q psy15187        226 QGVKLKVSLARRQ  238 (298)
Q Consensus       226 ~Gr~L~V~~A~~k  238 (298)
                      +|++|+|+|+...
T Consensus        59 ~g~~l~V~~a~~d   71 (75)
T d1wi6a1          59 RERELSVQLQPTD   71 (75)
T ss_dssp             SSCEEEEEECCST
T ss_pred             CCCEEEEEEeCCC
Confidence            9999999999764

>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=99.56  E-value=3.6e-15  Score=115.65  Aligned_cols=81  Identities=17%  Similarity=0.217  Sum_probs=68.8

Q ss_pred             CCCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        142 PKGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       142 ~~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      +..+.+|||+|  +++|+++|+++|..||. +.|.++.+.. |.               ++|||||+|.+.++|..|+. 
T Consensus        12 ~~~~~~v~v~nLp~~~te~dl~~~F~~~~~-~~v~~~~~~~-g~---------------~~G~afVeF~~~~~a~~Al~-   73 (102)
T d1weza_          12 STTGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGPD-GR---------------VTGEADVEFATHEDAVAAMA-   73 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESSS-SC---------------EEEEEEEECSSSHHHHHHHT-
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHhccCc-ceeeeEEecC-Cc---------------ceEEEEEEECCHHHHHHHHH-
Confidence            34556899999  99999999999999985 5777776643 33               57889999999999999985 


Q ss_pred             hCCcEECCeEEEEEEcccccc
Q psy15187        220 VNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       220 lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      |||+.|+||.|+|.|+.+.+.
T Consensus        74 ~~~~~i~gR~I~V~~s~~~~~   94 (102)
T d1weza_          74 KDKANMQHRYVELFLNSTAGT   94 (102)
T ss_dssp             TSSCCSSSSCCEEEEECCCCC
T ss_pred             cCCCEECCEEEEEEEcCCCCC
Confidence            899999999999999887543

>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=99.55  E-value=8.4e-15  Score=111.07  Aligned_cols=76  Identities=16%  Similarity=0.179  Sum_probs=62.9

Q ss_pred             CCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHH
Q psy15187        143 KGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITE  219 (298)
Q Consensus       143 ~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~  219 (298)
                      ..+.+|||+|  . .+|+++|.++|++||.|.+|.|+.++++                     |||+|.+.++|..|+..
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k~~---------------------afV~f~~~~~A~~A~~~   64 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINE---------------------AFIEMATTEDAQAAVDY   64 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSC---------------------EEEEESSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccceE---------------------EEEEEcchhhHHHHHHH
Confidence            3446899999  4 4789999999999999999999876554                     56666666699999996


Q ss_pred             h--CCcEECCeEEEEEEccccc
Q psy15187        220 V--NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       220 l--nG~~i~Gr~L~V~~A~~k~  239 (298)
                      |  ++..++|++|+|+||....
T Consensus        65 l~~~~~~~~gr~l~V~~s~~~~   86 (89)
T d1x4da1          65 YTTTPALVFGKPVRVHLSQKYK   86 (89)
T ss_dssp             HHHSCCEETTEECEEEEECCCT
T ss_pred             HhhCCCccCCceEEEEECCCcc
Confidence            6  7889999999999998643

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.55  E-value=3.7e-15  Score=115.19  Aligned_cols=78  Identities=21%  Similarity=0.276  Sum_probs=65.6

Q ss_pred             CCCCCcEEEEcC--C-CCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        141 KPKGGNTIFVQG--A-GISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       141 ~~~~~~tLfVgn--~-~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ....+++|||+|  . .+|+++|.++|++||.|.+|.|+.++                     |||||+|.+.++|..||
T Consensus        14 ~~~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k---------------------~~afV~f~~~~~A~~Ai   72 (99)
T d1x4fa1          14 KQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK---------------------SQAFIEMETREDAMAMV   72 (99)
T ss_dssp             SSCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT---------------------TEEEEECSSHHHHHHHH
T ss_pred             CCCCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecC---------------------CcEEEEecchHHHHHHH
Confidence            345668999999  4 48999999999999999999887543                     44777788888999999


Q ss_pred             H--HhCCcEECCeEEEEEEccccc
Q psy15187        218 T--EVNGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       218 ~--~lnG~~i~Gr~L~V~~A~~k~  239 (298)
                      .  .+++..|+|+.|+|+|+..+.
T Consensus        73 ~~~~~~~~~~~gr~l~V~~s~~~~   96 (99)
T d1x4fa1          73 DHCLKKALWFQGRCVKVDLSEKYK   96 (99)
T ss_dssp             HHHHHSCCCSSSSCCEEEEECSCS
T ss_pred             HHHhcCCceECCEEEEEEEcCCcc
Confidence            7  578989999999999997654

>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=99.51  E-value=2.9e-15  Score=118.15  Aligned_cols=81  Identities=12%  Similarity=0.177  Sum_probs=69.8

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHh
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEV  220 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~l  220 (298)
                      ..+++|||+|  +++|+++|+++|+.||.|..+.++.+...|.               ++|||||+|.+.++|.+|+. |
T Consensus        16 ~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~---------------~~G~afVeF~~~e~a~~al~-~   79 (112)
T d1wela1          16 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGK---------------ATGEGFVEFRNEADYKAALC-R   79 (112)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSS---------------EEEEEEEEBSSSHHHHHHHT-S
T ss_pred             CCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccc---------------eeeEEEEEECCHHHHHHHHH-c
Confidence            3456899999  9999999999999999998765665555554               68999999999999998885 9


Q ss_pred             CCcEECCeEEEEEEccccc
Q psy15187        221 NGTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       221 nG~~i~Gr~L~V~~A~~k~  239 (298)
                      ||..|+|+.|.|..+..+.
T Consensus        80 ~~~~i~gR~i~V~~~~~~~   98 (112)
T d1wela1          80 HKQYMGNRFIQVHPITKKG   98 (112)
T ss_dssp             CSBCSTTSCBEEEEECHHH
T ss_pred             CCCcCCCEEEEEEEcChHH
Confidence            9999999999999887643

>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=99.48  E-value=3.2e-15  Score=116.77  Aligned_cols=74  Identities=16%  Similarity=0.270  Sum_probs=66.4

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      +.++|.+  .+++|++|+++|++||+|.+|.|+.+. .|.               ++|||||+|.+.++|.+|+..|||.
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~-~~~---------------~~G~~fV~f~~~~~A~~Ai~~lng~   91 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNL-GDH---------------LVGNVYVKFRREEDAEKAVIDLNNR   91 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSS-SSS---------------SEEEEEEEESCHHHHHHHHHHHTTC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCC-CCC---------------EeeEEEEEEechhHHHHHHHHHCCC
Confidence            3578887  789999999999999999999998663 454               7899999999999999999999999


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .|+|++|+|.|.
T Consensus        92 ~~~gr~i~v~~s  103 (104)
T d1jmta_          92 WFNGQPIHAELS  103 (104)
T ss_dssp             EETTEECCEEEC
T ss_pred             EECCEEEEEEEC
Confidence            999999999885

>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=99.44  E-value=1.1e-15  Score=115.74  Aligned_cols=79  Identities=22%  Similarity=0.326  Sum_probs=64.3

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      .+|||||  +++|+++|+++|++||.|..+.++.....   .+       .-.+.++|||||+|.+.++|..|+ .|||.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~---~~-------~~~~~~kg~afV~f~~~e~a~~a~-~l~g~   70 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPV---LA-------VQINQDKNFAFLEFRSVDETTQAM-AFDGI   70 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSE---EE-------CCEETTTTEEEEEESSCTTTTTGG-GGSSC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEecccee---ee-------cccCCCceEEEEEeCCHHHHHHHH-hhCCc
Confidence            4799999  99999999999999999988766533211   11       112358999999999999999998 59999


Q ss_pred             EECCeEEEEEEc
Q psy15187        224 HVQGVKLKVSLA  235 (298)
Q Consensus       224 ~i~Gr~L~V~~A  235 (298)
                      .|+|+.|+|..+
T Consensus        71 ~~~Gr~l~V~r~   82 (90)
T d1u2fa_          71 IFQGQSLKIRRP   82 (90)
T ss_dssp             CSSSSCCCCBCT
T ss_pred             EECCEEEEECCC
Confidence            999999999643

>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=99.39  E-value=1.1e-12  Score=101.10  Aligned_cols=80  Identities=20%  Similarity=0.274  Sum_probs=67.5

Q ss_pred             CCCCcEEEEcC-CCCCH------------HHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeC
Q psy15187        142 PKGGNTIFVQG-AGISE------------EFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFD  208 (298)
Q Consensus       142 ~~~~~tLfVgn-~~~te------------~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~  208 (298)
                      ...+.+|+|.| ++..+            ++|++.|++||.|..|.+..+...|                   ||||+|.
T Consensus         5 ~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G-------------------~~fV~f~   65 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDG-------------------VASVSFR   65 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTC-------------------EEEEECS
T ss_pred             CCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCcc-------------------EEEEEEC
Confidence            34557899999 54332            5799999999999999887665444                   4999999


Q ss_pred             CHHHHHHHHHHhCCcEECCeEEEEEEcccccc
Q psy15187        209 SPESSDKAITEVNGTHVQGVKLKVSLARRQLK  240 (298)
Q Consensus       209 ~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~~k~~  240 (298)
                      +.++|.+|+..|||..|+|++|+|.++.++..
T Consensus        66 ~~e~A~~A~~~lng~~~~gr~i~v~~~~g~~~   97 (99)
T d2dita1          66 DPEEADYCIQTLDGRWFGGRQITAQAWDGTTD   97 (99)
T ss_dssp             CHHHHHHHHHHSTTCEETTEECEEEECCSCCC
T ss_pred             CHHHHHHHHHHhCCcEECCEEEEEEEeCCcCC
Confidence            99999999999999999999999999987654

>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=99.36  E-value=8.1e-13  Score=102.29  Aligned_cols=64  Identities=23%  Similarity=0.355  Sum_probs=53.7

Q ss_pred             CCCCcEEEE--cC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHH
Q psy15187        142 PKGGNTIFV--QG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAI  217 (298)
Q Consensus       142 ~~~~~tLfV--gn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai  217 (298)
                      ..+.++|||  ||  .++|+++|+++|++||.|..|.++.+++                     ||||+|.+.++|..|+
T Consensus        15 ~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k~---------------------~aFV~f~~~e~A~~A~   73 (101)
T d2cq2a1          15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKP---------------------YSFARYRTTEESKRAY   73 (101)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCS---------------------CEEEEESSHHHHHHHH
T ss_pred             CCCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCcc---------------------EEEEEECCHHHHHHHH
Confidence            345578888  45  9999999999999999999998876543                     4777778888999999


Q ss_pred             HHhCCcEEC
Q psy15187        218 TEVNGTHVQ  226 (298)
Q Consensus       218 ~~lnG~~i~  226 (298)
                      ..|||+.|.
T Consensus        74 ~~lng~~i~   82 (101)
T d2cq2a1          74 VTLNGKEVV   82 (101)
T ss_dssp             HHTTTCEEE
T ss_pred             HHhCCCCCC
Confidence            999999874

>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=99.36  E-value=3.3e-13  Score=106.40  Aligned_cols=74  Identities=16%  Similarity=0.100  Sum_probs=61.0

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCH-HHHHHHHHHhC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSP-ESSDKAITEVN  221 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~-e~A~~Ai~~ln  221 (298)
                      ...+||||  ..+|+++|+++|++||+|.+|.|+.+++                     ||||.|.+. ++|..|+..||
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~kg---------------------~gfV~F~~~~~~A~~a~~~~~   69 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK---------------------EGIILFKEKAKEALGKAKDAN   69 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS---------------------EEEEEESSCHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCCc---------------------eEEEEecCcHHHHHHHHHHhc
Confidence            34669999  8899999999999999999999986544                     366666664 58999999999


Q ss_pred             CcEECCeEEEEEEccccc
Q psy15187        222 GTHVQGVKLKVSLARRQL  239 (298)
Q Consensus       222 G~~i~Gr~L~V~~A~~k~  239 (298)
                      |..+.++.+.|.|+....
T Consensus        70 ~~~l~~~~~~v~~~~~~~   87 (113)
T d1owxa_          70 NGNLQLRNKEVTWEVLEG   87 (113)
T ss_dssp             TSCBCTTSSSEEEEECCH
T ss_pred             CCceecCceEEEEeeccc
Confidence            999998888888876543

>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=99.20  E-value=1e-11  Score=92.45  Aligned_cols=71  Identities=15%  Similarity=0.173  Sum_probs=56.1

Q ss_pred             CcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCC
Q psy15187        145 GNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNG  222 (298)
Q Consensus       145 ~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG  222 (298)
                      .+.|||+|  ++++++ +.++|++||+|.++.+..                     ++|||||+|.+.++|.+||+ +||
T Consensus         4 ~~wV~V~G~p~~~~~~-il~~F~~~G~I~~~~~~~---------------------~~~~~fV~f~~~~~A~~Al~-~nG   60 (81)
T d1wwha1           4 DTWVTVFGFPQASASY-ILLQFAQYGNILKHVMSN---------------------TGNWMHIRYQSKLQARKALS-KDG   60 (81)
T ss_dssp             GGEEEEECCCGGGHHH-HHHHHHTTSCEEEEEECS---------------------SSSEEEEEESSHHHHHHHHT-TTT
T ss_pred             ccEEEEECCChHHHHH-HHHHHHhhhhhheEEecC---------------------CCCEEEEEEcccHHHHHHHh-cCC
Confidence            36899999  666655 446899999999987643                     34558888888889999995 999


Q ss_pred             cEECCeE-EEEEEcccc
Q psy15187        223 THVQGVK-LKVSLARRQ  238 (298)
Q Consensus       223 ~~i~Gr~-L~V~~A~~k  238 (298)
                      ..|+|+. |.|..+..+
T Consensus        61 ~~~~g~~~vgV~~~~~k   77 (81)
T d1wwha1          61 RIFGESIMIGVKPCIDK   77 (81)
T ss_dssp             CEETTTEECEEEECCCH
T ss_pred             CeECCcEEEEEEeCCCh
Confidence            9999974 568777654

>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=99.19  E-value=2.6e-11  Score=93.90  Aligned_cols=80  Identities=16%  Similarity=0.211  Sum_probs=64.8

Q ss_pred             CcEEEEcC-C---CC--------CHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHH
Q psy15187        145 GNTIFVQG-A---GI--------SEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPES  212 (298)
Q Consensus       145 ~~tLfVgn-~---~~--------te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~  212 (298)
                      +..|.+.| .   .+        ..+||++.|++||.|.+|.|+++....-             ....|++||+|.+.++
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~-------------~~~~g~vfV~f~~~e~   70 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE-------------VPGCGKIFVEFTSVFD   70 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSS-------------CTTCCEEEEEESCHHH
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCc-------------cCCceEEEEEECCHHH
Confidence            46788999 2   22        2356899999999999999987643221             1246789999999999


Q ss_pred             HHHHHHHhCCcEECCeEEEEEEccc
Q psy15187        213 SDKAITEVNGTHVQGVKLKVSLARR  237 (298)
Q Consensus       213 A~~Ai~~lnG~~i~Gr~L~V~~A~~  237 (298)
                      |.+|+..|||..++||.|.|.+...
T Consensus        71 A~~A~~~l~Gr~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          71 CQKAMQGLTGRKFANRVVVTKYCDP   95 (104)
T ss_dssp             HHHHHHHHSSCCSSSSCCEEEEECH
T ss_pred             HHHHHHHHCCCEECCeEEEEEEcCH
Confidence            9999999999999999999999864

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.69  E-value=1.5e-08  Score=83.89  Aligned_cols=56  Identities=36%  Similarity=0.579  Sum_probs=50.4

Q ss_pred             CCCcEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeee------cCceeEEecChhhhhhhhhc
Q psy15187        143 KGGNTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVE------KGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       143 ~~~~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~d------k~~gfV~f~~~~~adkai~~  198 (298)
                      ...++|||+|  +.+|+++|+++|+.||.|..|.|+.+      +++|||+|.+.++|++||..
T Consensus        95 ~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~  158 (183)
T d1u1qa_          95 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ  158 (183)
T ss_dssp             CCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTS
T ss_pred             cccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHHh
Confidence            3447899999  89999999999999999999999876      46899999999999999953

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.00091  Score=47.19  Aligned_cols=60  Identities=22%  Similarity=0.347  Sum_probs=50.2

Q ss_pred             HHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEcc
Q psy15187        159 FLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLAR  236 (298)
Q Consensus       159 ~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A~  236 (298)
                      .|.+.|.++|.|.++.|.....+-+                  .|-|...+..+|.-|+..|+-..|++.+|.|+++.
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 LLQEAFARHGKVKSVELSPHTDYQL------------------KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHSCEEEEEECSCCSTTC------------------CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHhheeEEEEEEEeccCCcE------------------EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            3567799999999998865533222                  28889999999999999999999999999999975

>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=96.69  E-value=0.002  Score=47.64  Aligned_cols=53  Identities=30%  Similarity=0.444  Sum_probs=41.1

Q ss_pred             HHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCcEECCeEEEEEEc
Q psy15187        159 FLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGTHVQGVKLKVSLA  235 (298)
Q Consensus       159 ~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~~i~Gr~L~V~~A  235 (298)
                      +|-+.|..||+|+-|+++.  ..-+|||                     .+-..|-.|+. ++|..+.|+.|+|..-
T Consensus        40 ~Llq~l~~~GeViLvRFv~--d~mwVTF---------------------~dG~SAL~al~-l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          40 ELMQTLGSYGTIVLVRINQ--GQMLVTF---------------------ADSHSALSVLD-VDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHSCCSEEEEET--TEEEEEC---------------------SCSHHHHHHHH-GGGSEETTEEEEEECC
T ss_pred             HHHHHHhhCCeEEEEEEeC--CeEEEEE---------------------CCcHHHHHHhc-cCCeEEcceEEEEecC
Confidence            4778899999999988764  3445555                     44458888776 8999999999999753

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.13  E-value=0.26  Score=35.72  Aligned_cols=79  Identities=13%  Similarity=0.116  Sum_probs=56.2

Q ss_pred             cEEEEcC--CCCCHHHHHHHHhccCCeeEEEEeeecCceeEEecChhhhhhhhhcCCceEEEEeCCHHHHHHHHHHhCCc
Q psy15187        146 NTIFVQG--AGISEEFLRQHFSIFGKICSVSMEVEKGRGFVTFDSPESSDKAITDDCARGFVTFDSPESSDKAITEVNGT  223 (298)
Q Consensus       146 ~tLfVgn--~~~te~~L~~~F~~fG~I~~v~i~~dk~~gfV~f~~~~~adkai~~skGfaFV~F~~~e~A~~Ai~~lnG~  223 (298)
                      ++|-|..  +.+||+++.+.++..|.+........+...           +  ...-.-|+|.|.+.++...-...++|+
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~-----------~--~~~~SRAYi~F~~~~~v~~F~~~f~g~   68 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL-----------Y--PHMYARAYINFKNQEDIILFRDRFDGY   68 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS-----------T--TCCCEEEEEEESSSHHHHHHHHHHTTC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCC-----------C--CCcceEEEEEeCCHHHHHHHHHHcCCc
Confidence            6899999  999999999999999888765544331100           0  011234899999999999999999999


Q ss_pred             EECC-----eEEEEEEccc
Q psy15187        224 HVQG-----VKLKVSLARR  237 (298)
Q Consensus       224 ~i~G-----r~L~V~~A~~  237 (298)
                      .+.+     .+-.|++|.-
T Consensus        69 ~F~D~~g~~~~a~VE~AP~   87 (91)
T d1uw4a_          69 VFLDNKGQEYPAIVEFAPF   87 (91)
T ss_dssp             EEECTTCCEEECEEEECSS
T ss_pred             EEEcCCCCEeeeEEEEcCc
Confidence            8862     2335555543

>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=87.10  E-value=0.21  Score=35.19  Aligned_cols=24  Identities=38%  Similarity=0.689  Sum_probs=20.5

Q ss_pred             ecCceeEEecChhhhhhhhhcCCc
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDCA  201 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~skG  201 (298)
                      .+++|||+|.+.++|++||..--|
T Consensus        47 ~kg~afV~f~~~~~A~~Ai~~l~g   70 (89)
T d1cvja2          47 SKGYGFVHFETQEAAERAIEKMNG   70 (89)
T ss_dssp             CCSCEEEEESCHHHHHHHTTSSSE
T ss_pred             CcceeEEEECCHHHHHHHHHHcCC
Confidence            479999999999999999965443

>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=84.60  E-value=0.2  Score=34.51  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=19.0

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        40 ~rG~~FV~f~~~~~a~~al~~   60 (75)
T d1x0fa1          40 RRGFCFITFKEEEPVKKIMEK   60 (75)
T ss_dssp             TTCCEEEEESSSHHHHHHTTC
T ss_pred             cccEEEEEECCHHHHHHHHhh
Confidence            479999999999999999954

>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=83.97  E-value=0.23  Score=33.86  Aligned_cols=21  Identities=43%  Similarity=0.735  Sum_probs=18.9

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+++|||+|.+.++|++||..
T Consensus        40 ~kg~afV~f~~~~~a~~Al~~   60 (75)
T d1hd0a_          40 SRGFGFVLFKESESVDKVMDQ   60 (75)
T ss_dssp             CCSEEEEEESSHHHHHHHHHT
T ss_pred             cCceEEEEECCHHHHHHHHhc
Confidence            479999999999999999954

>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=83.92  E-value=0.23  Score=35.48  Aligned_cols=21  Identities=33%  Similarity=0.607  Sum_probs=18.9

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        50 ~rg~afV~f~~~~~A~~Ai~~   70 (94)
T d2cpha1          50 HRGFGFVDFITKQDAKKAFNA   70 (94)
T ss_dssp             SCSEEEEEESSHHHHHHHHHH
T ss_pred             cccEEEEEECCHHHHHHHHHH
Confidence            489999999999999999953

>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=83.76  E-value=0.23  Score=34.51  Aligned_cols=21  Identities=38%  Similarity=0.756  Sum_probs=18.7

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        42 ~kG~afV~f~~~~~A~~A~~~   62 (85)
T d2cpfa1          42 SMGFGFVEYKKPEQAQKALKQ   62 (85)
T ss_dssp             EEEEEEEEESSHHHHHHHHHH
T ss_pred             cceEEEEEECCHHHHHHHHHH
Confidence            378999999999999999954

>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=83.60  E-value=0.25  Score=33.10  Aligned_cols=20  Identities=60%  Similarity=0.966  Sum_probs=18.1

Q ss_pred             ecCceeEEecChhhhhhhhh
Q psy15187        178 EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~  197 (298)
                      .+++|||+|.+.++|++||.
T Consensus        39 ~~g~afV~f~~~~~A~~Ai~   58 (72)
T d1x4ea1          39 CKGYGFVDFDSPSAAQKAVT   58 (72)
T ss_dssp             CCSEEEEEESCHHHHHHHHH
T ss_pred             ccceeEEEECCHHHHHHHHH
Confidence            47899999999999999994

>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=83.33  E-value=0.35  Score=33.35  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=19.8

Q ss_pred             ecCceeEEecChhhhhhhhhcCC
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDC  200 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~sk  200 (298)
                      .+++|||+|.+.++|++||..-.
T Consensus        40 ~~g~afV~f~~~~~a~~Ai~~~~   62 (83)
T d1x5ta1          40 SKGYAFINFASFDASDAAIEAMN   62 (83)
T ss_dssp             CCSEEEEEBSSHHHHHHHHHTTT
T ss_pred             cCceEEEEECCHHHHHHHHHhCC
Confidence            47999999999999999995433

>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=82.50  E-value=0.22  Score=34.31  Aligned_cols=21  Identities=38%  Similarity=0.664  Sum_probs=19.0

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        41 ~kG~aFV~f~~~~~a~~al~~   61 (77)
T d1uawa_          41 SRGFGFVTFMDQAGVDKVLAQ   61 (77)
T ss_dssp             CSSEEEECCCCTTHHHHHHHT
T ss_pred             ccceEEEEECCHHHHHHHHHc
Confidence            479999999999999999954

>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=82.02  E-value=0.25  Score=35.21  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=19.0

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.++++|..||..
T Consensus        44 ~rg~aFV~F~~~~~A~~Ai~~   64 (96)
T d2disa1          44 NRGFAFVEYESHRAAAMARRK   64 (96)
T ss_dssp             TCCEEEEEESSHHHHHHHHTT
T ss_pred             CCCeEEEEEcCHHHHHHHHHH
Confidence            589999999999999999954

>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=81.88  E-value=0.3  Score=34.54  Aligned_cols=20  Identities=30%  Similarity=0.576  Sum_probs=18.5

Q ss_pred             ecCceeEEecChhhhhhhhh
Q psy15187        178 EKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~  197 (298)
                      .+|+|||+|.+.++|++||.
T Consensus        49 ~~g~afV~F~~~~~a~~ai~   68 (98)
T d1x4ha1          49 SKGCAFAQFMTQEAAQKCLA   68 (98)
T ss_dssp             BCSEEEEEESSHHHHHHHHH
T ss_pred             ccceEEEEEcCHHHHHHHHH
Confidence            47999999999999999994

>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=81.87  E-value=0.23  Score=36.49  Aligned_cols=35  Identities=11%  Similarity=0.174  Sum_probs=25.3

Q ss_pred             eeecCceeEEecChhhhhhhhhcCCc------eEEEEeCCH
Q psy15187        176 EVEKGRGFVTFDSPESSDKAITDDCA------RGFVTFDSP  210 (298)
Q Consensus       176 ~~dk~~gfV~f~~~~~adkai~~skG------faFV~F~~~  210 (298)
                      ...+|+|||+|.+.++|+.||..-.|      .--|.|...
T Consensus        43 ~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1          43 PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            34579999999999999999953222      225666654

>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=81.51  E-value=0.25  Score=35.14  Aligned_cols=21  Identities=38%  Similarity=0.608  Sum_probs=19.0

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+|+|||+|.+.++|++||..
T Consensus        49 srG~aFV~f~~~~~a~~al~~   69 (90)
T d2cqga1          49 SKGFGFVRFTEYETQVKVMSQ   69 (90)
T ss_dssp             EEEEEEEEESSHHHHHHHHHS
T ss_pred             cCCEEEEEECCHHHHHHHHhc
Confidence            479999999999999999963

>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=81.20  E-value=0.31  Score=34.21  Aligned_cols=26  Identities=23%  Similarity=0.480  Sum_probs=20.9

Q ss_pred             EEEEeeecCceeEEecChhhhhhhhh
Q psy15187        172 SVSMEVEKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       172 ~v~i~~dk~~gfV~f~~~~~adkai~  197 (298)
                      .......+++|||+|.+.++|+.|+.
T Consensus        41 ~~~~~~~kg~afV~f~~~e~a~~a~~   66 (90)
T d1u2fa_          41 AVQINQDKNFAFLEFRSVDETTQAMA   66 (90)
T ss_dssp             ECCEETTTTEEEEEESSCTTTTTGGG
T ss_pred             ecccCCCceEEEEEeCCHHHHHHHHh
Confidence            33344558999999999999999984

>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=80.94  E-value=0.35  Score=33.16  Aligned_cols=21  Identities=38%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+++|||+|.+.++|++||..
T Consensus        43 ~~g~afV~f~~~~~A~~ai~~   63 (82)
T d1b7fa1          43 SYGYAFVDFTSEMDSQRAIKV   63 (82)
T ss_dssp             ECSEEEEEESSHHHHHHHHHH
T ss_pred             ccccceEEECCHHHHHHHHHH
Confidence            489999999999999999954

>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=80.48  E-value=0.37  Score=32.99  Aligned_cols=21  Identities=24%  Similarity=0.306  Sum_probs=18.9

Q ss_pred             ecCceeEEecChhhhhhhhhc
Q psy15187        178 EKGRGFVTFDSPESSDKAITD  198 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~  198 (298)
                      .+++|||+|.+.++|++||..
T Consensus        40 ~~g~afV~f~~~~~A~~Ai~~   60 (78)
T d1no8a_          40 SLGTADVHFERKADALKAMKQ   60 (78)
T ss_dssp             SCCEEEEEESCHHHHHHHHHH
T ss_pred             cceeEEEEECCHHHHHHHHHH
Confidence            479999999999999999954

>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=80.45  E-value=0.52  Score=33.29  Aligned_cols=29  Identities=28%  Similarity=0.513  Sum_probs=23.0

Q ss_pred             CeeEEEEeeecCceeEEecChhhhhhhhh
Q psy15187        169 KICSVSMEVEKGRGFVTFDSPESSDKAIT  197 (298)
Q Consensus       169 ~I~~v~i~~dk~~gfV~f~~~~~adkai~  197 (298)
                      .|..-.--..+++|||+|.+.++|++||.
T Consensus        44 ~v~~~~~g~~kg~afv~F~~~e~a~~Al~   72 (91)
T d1fjeb1          44 AVVDVRTGTNRKFGYVDFESAEDLEKALE   72 (91)
T ss_dssp             CCCEEEEETTTTEEEEEESSHHHHHHHHH
T ss_pred             eeeecCCCCccEEeEEeeCCHHHHHHHHh
Confidence            34444445568999999999999999994

>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=80.27  E-value=0.36  Score=33.95  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=20.0

Q ss_pred             ecCceeEEecChhhhhhhhhcCCc
Q psy15187        178 EKGRGFVTFDSPESSDKAITDDCA  201 (298)
Q Consensus       178 dk~~gfV~f~~~~~adkai~~skG  201 (298)
                      .+|+|||+|.+.++|++||..-.|
T Consensus        49 ~rg~afV~f~~~~~A~~Ai~~l~g   72 (90)
T d2cq0a1          49 SKGFAFISFHRREDAARAIAGVSG   72 (90)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTT
T ss_pred             cccceeEEECCHHHHHHHHHHhCC
Confidence            378999999999999999965333