Citrus Sinensis ID: 029263

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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------
Protein Sequence
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR
Secondary Structure (PSIPRED)
ccccccHHHHHHHccccccEEEEEEccccccEEEEEEEEccHHHHHHHHHHccccccccEEcccccHHHHHHHHHHccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHccccccccEEEEEcccccccEEEEEEEccHHHHHHHHHHcccccccEEEEEEEccHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccEEEcccccccccEEEEEEEcccccccccEEEEEccHHHHHHHHHHHHHHHcccEEEEEcccHHHHHHHHcccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHcccccccccEEEEEcccccccccEEEEEccHHHHHHHHHHHHHHccccEEEEEcccHHHHHHHHHccc
Coil and Loop (DISEMBL)
MELPQVQVLCTIHHQLMDIVDVLFVhknnkftgeafcvlgyplqVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEvsdvrggsphrsiprakshdegkdsavhTGILrlrglpfsagkddIMDFFKDfvlsedsihitmnsdgrptgEAFVEFANAEDSKAAMAKDRMTLGSRyielfpsshEEMDEALSRGR
Flexible Loop (DISEMBL)
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIanevsdvrggsphrsiprakshdegkdsavHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIelfpssheemdealsrgr
Low Complexity Region (SEG)
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR
Disordered region (IsUnstruct)
*****VQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIAN***************************VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM******************************************************
Disordered Region (DISOPRED)
*ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA********************************ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALS***
Disordered Region (DISEMBL)
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS***********************AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH***********
Disordered Region (DISPRO)
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANE***************************HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR
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	196	2.2.26 [Sep-21-2011]
Q60HC3	415	Heterogeneous nuclear rib	N/A	no	0.801	0.378	0.361	2e-22
P52597	415	Heterogeneous nuclear rib	yes	no	0.801	0.378	0.361	2e-22
Q794E4	415	Heterogeneous nuclear rib	yes	no	0.801	0.378	0.355	5e-22
Q9Z2X1	415	Heterogeneous nuclear rib	yes	no	0.801	0.378	0.355	5e-22
Q5E9J1	414	Heterogeneous nuclear rib	yes	no	0.801	0.379	0.361	6e-22
B2RYJ8	716	Epithelial splicing regul	no	no	0.795	0.217	0.36	8e-21
Q8K0G8	717	Epithelial splicing regul	no	no	0.795	0.217	0.354	4e-20
Q9H6T0	727	Epithelial splicing regul	no	no	0.795	0.214	0.348	1e-19
O35737	449	Heterogeneous nuclear rib	no	no	0.801	0.349	0.338	5e-19
P31943	449	Heterogeneous nuclear rib	no	no	0.801	0.349	0.338	5e-19

>sp|Q60HC3|HNRPF_MACFA Heterogeneous nuclear ribonucleoprotein F OS=Macaca fascicularis GN=HNRNPF PE=2 SV=3

 Score =  105 bits (263), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 65/180 (36%), Positives = 100/180 (55%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           CTIH        V F++ +  + +GEAF  LG    V  AL+++R++MG RY+EVF+S R
Sbjct: 34  CTIHD---GAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHR 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +                  S     DSA + G +RLRGLPF   K++I+ FF
Sbjct: 91  TEMDWVLKH------------------SGPNSADSA-NDGFVRLRGLPFGCTKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 132 SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.
Macaca fascicularis (taxid: 9541)

>sp|P52597|HNRPF_HUMAN Heterogeneous nuclear ribonucleoprotein F OS=Homo sapiens GN=HNRNPF PE=1 SV=3

 Score =  105 bits (263), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 65/180 (36%), Positives = 100/180 (55%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           CTIH        V F++ +  + +GEAF  LG    V  AL+++R++MG RY+EVF+S R
Sbjct: 34  CTIHD---GAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHR 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +                  S     DSA + G +RLRGLPF   K++I+ FF
Sbjct: 91  TEMDWVLKH------------------SGPNSADSA-NDGFVRLRGLPFGCTKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 132 SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Homo sapiens (taxid: 9606)

>sp|Q794E4|HNRPF_RAT Heterogeneous nuclear ribonucleoprotein F OS=Rattus norvegicus GN=Hnrnpf PE=1 SV=3

 Score =  103 bits (258), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 64/180 (35%), Positives = 100/180 (55%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           CTIH     +  V F++ +  + +GEAF  L     V  AL+++R++MG RY+EVF+S R
Sbjct: 34  CTIHD---GVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHR 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +                  S     DSA + G +RLRGLPF   K++I+ FF
Sbjct: 91  TEMDWVLKH------------------SGPNSADSA-NDGFVRLRGLPFGCTKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 132 SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Rattus norvegicus (taxid: 10116)

>sp|Q9Z2X1|HNRPF_MOUSE Heterogeneous nuclear ribonucleoprotein F OS=Mus musculus GN=Hnrnpf PE=1 SV=3

 Score =  103 bits (258), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 64/180 (35%), Positives = 100/180 (55%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           CTIH     +  V F++ +  + +GEAF  L     V  AL+++R++MG RY+EVF+S R
Sbjct: 34  CTIHD---GVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHR 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +                  S     DSA + G +RLRGLPF   K++I+ FF
Sbjct: 91  TEMDWVLKH------------------SGPNSADSA-NDGFVRLRGLPFGCTKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 132 SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Mus musculus (taxid: 10090)

>sp|Q5E9J1|HNRPF_BOVIN Heterogeneous nuclear ribonucleoprotein F OS=Bos taurus GN=HNRNPF PE=2 SV=3

 Score =  103 bits (258), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 65/180 (36%), Positives = 100/180 (55%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           CTIH     +  V F++ +  + +GEAF  L     V  AL+++R++MG RY+EVF+S R
Sbjct: 34  CTIHD---GVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHR 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +            S P   S D   D     G +RLRGLPF   K++I+ FF
Sbjct: 91  TEMDWVLKH------------SGP--NSADTAND-----GFVRLRGLPFGCTKEEIIQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 132 SGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Bos taurus (taxid: 9913)

>sp|B2RYJ8|ESRP2_RAT Epithelial splicing regulatory protein 2 OS=Rattus norvegicus GN=Esrp2 PE=2 SV=1

 Score =  100 bits (248), Expect = 8e-21,   Method: Composition-based stats.
 Identities = 63/175 (36%), Positives = 94/175 (53%), Gaps = 19/175 (10%)

Query: 23  LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDV 82
           L ++   +  GEA        Q D ALQR++ +MG RY+EV+++  +E+ K        +
Sbjct: 278 LCLNAQGRRNGEALIRFEDSEQRDLALQRHKHHMGVRYIEVYKATGEEFVK--------I 329

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIH 139
            GG+    + R  S ++         ILRLRGLPFSAG  D++DF           D + 
Sbjct: 330 AGGTS-LEVARFLSRED-------QVILRLRGLPFSAGPADVLDFLGPECPVTGGVDGLL 381

Query: 140 ITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR 194
              + DGRPTG+AF  FA  E ++AA+ + +  LG RYIELF S+  E+ + L+R
Sbjct: 382 FVRHPDGRPTGDAFALFACEELAQAALRRHKGMLGKRYIELFRSTAAEVQQVLNR 436

mRNA splicing factor that regulates the formation of epithelial cell-specific isoforms. Specifically regulates the expression of FGFR2-IIIb, an epithelial cell-specific isoform of FGFR2. Also regulates the splicing of CD44, CTNND1, ENAH, 3 transcripts that undergo changes in splicing during the epithelial-to-mesenchymal transition (EMT). Acts by directly binding specific sequences in mRNAs. Binds the GU-rich sequence motifs in the ISE/ISS-3, a cis-element regulatory region present in the mRNA of FGFR2.

Rattus norvegicus (taxid: 10116)

>sp|Q8K0G8|ESRP2_MOUSE Epithelial splicing regulatory protein 2 OS=Mus musculus GN=Esrp2 PE=2 SV=1

 Score = 97.8 bits (242), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 62/175 (35%), Positives = 93/175 (53%), Gaps = 19/175 (10%)

Query: 23  LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDV 82
           L ++   +  GEA        Q D ALQR++ +MG RY+EV+++  +E+ K        +
Sbjct: 279 LCLNAQGRRNGEALIRFVDSEQRDLALQRHKHHMGVRYIEVYKATGEEFVK--------I 330

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIH 139
            GG+    + R  S ++         ILRLRGLPFSAG  D++ F           D + 
Sbjct: 331 AGGTS-LEVARFLSRED-------QVILRLRGLPFSAGPTDVLGFLGPECPVTGGADGLL 382

Query: 140 ITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR 194
              + DGRPTG+AF  FA  E ++AA+ + +  LG RYIELF S+  E+ + L+R
Sbjct: 383 FVRHPDGRPTGDAFALFACEELAQAALRRHKGMLGKRYIELFRSTAAEVQQVLNR 437

mRNA splicing factor that regulates the formation of epithelial cell-specific isoforms. Specifically regulates the expression of FGFR2-IIIb, an epithelial cell-specific isoform of FGFR2. Also regulates the splicing of CD44, CTNND1, ENAH, 3 transcripts that undergo changes in splicing during the epithelial-to-mesenchymal transition (EMT). Acts by directly binding specific sequences in mRNAs. Binds the GU-rich sequence motifs in the ISE/ISS-3, a cis-element regulatory region present in the mRNA of FGFR2.

Mus musculus (taxid: 10090)

>sp|Q9H6T0|ESRP2_HUMAN Epithelial splicing regulatory protein 2 OS=Homo sapiens GN=ESRP2 PE=1 SV=1

 Score = 96.3 bits (238), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 61/175 (34%), Positives = 93/175 (53%), Gaps = 19/175 (10%)

Query: 23  LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDV 82
           L ++   +  GEA        Q D ALQR++ +MG RY+EV+++  +E+ K        +
Sbjct: 289 LCLNAQGRRNGEALIRFVDSEQRDLALQRHKHHMGVRYIEVYKATGEEFVK--------I 340

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIH 139
            GG+    + R  S ++         ILRLRGLPFSAG  D++ F           + + 
Sbjct: 341 AGGTS-LEVARFLSRED-------QVILRLRGLPFSAGPTDVLGFLGPECPVTGGTEGLL 392

Query: 140 ITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR 194
              + DGRPTG+AF  FA  E ++AA+ + +  LG RYIELF S+  E+ + L+R
Sbjct: 393 FVRHPDGRPTGDAFALFACEELAQAALRRHKGMLGKRYIELFRSTAAEVQQVLNR 447

mRNA splicing factor that regulates the formation of epithelial cell-specific isoforms. Specifically regulates the expression of FGFR2-IIIb, an epithelial cell-specific isoform of FGFR2. Also regulates the splicing of CD44, CTNND1, ENAH, 3 transcripts that undergo changes in splicing during the epithelial-to-mesenchymal transition (EMT). Acts by directly binding specific sequences in mRNAs. Binds the GU-rich sequence motifs in the ISE/ISS-3, a cis-element regulatory region present in the mRNA of FGFR2.

Homo sapiens (taxid: 9606)

>sp|O35737|HNRH1_MOUSE Heterogeneous nuclear ribonucleoprotein H OS=Mus musculus GN=Hnrnph1 PE=1 SV=3

 Score = 94.4 bits (233), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 61/180 (33%), Positives = 94/180 (52%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           C I +    I    F++ +  + +GEAF  L    +V  AL+++R+ MG RYVEVF+S  
Sbjct: 34  CKIQNGAQGI---RFIYTREGRPSGEAFVELESEDEVKLALKKDRETMGHRYVEVFKSNN 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +   +              S D   D     G +RLRGLPF   K++I+ FF
Sbjct: 91  VEMDWVLKHTGPN--------------SPDTAND-----GFVRLRGLPFGCSKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++  GR TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS  E+
Sbjct: 132 SGLEIVPNGITLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAEV 191

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Mediates pre-mRNA alternative splicing regulation. Inhibits, together with CUGBP1, insulin receptor (IR) pre-mRNA exon 11 inclusion in myoblast. Binds to the IR RNA. Binds poly(RG).

Mus musculus (taxid: 10090)

>sp|P31943|HNRH1_HUMAN Heterogeneous nuclear ribonucleoprotein H OS=Homo sapiens GN=HNRNPH1 PE=1 SV=4

 Score = 94.4 bits (233), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 61/180 (33%), Positives = 94/180 (52%), Gaps = 23/180 (12%)

Query: 10  CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR 68
           C I +    I    F++ +  + +GEAF  L    +V  AL+++R+ MG RYVEVF+S  
Sbjct: 34  CKIQNGAQGI---RFIYTREGRPSGEAFVELESEDEVKLALKKDRETMGHRYVEVFKSNN 90

Query: 69  QEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF 128
            E    + +   +              S D   D     G +RLRGLPF   K++I+ FF
Sbjct: 91  VEMDWVLKHTGPN--------------SPDTAND-----GFVRLRGLPFGCSKEEIVQFF 131

Query: 129 KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
               +  + I + ++  GR TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS  E+
Sbjct: 132 SGLEIVPNGITLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAEV 191

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Mediates pre-mRNA alternative splicing regulation. Inhibits, together with CUGBP1, insulin receptor (IR) pre-mRNA exon 11 inclusion in myoblast. Binds to the IR RNA. Binds poly(RG).

Homo sapiens (taxid: 9606)

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	196
225435437	258	PREDICTED: heterogeneous nuclear ribonuc	0.892	0.678	0.872	8e-89
357460387	259	Heterogeneous nuclear ribonucleoprotein	0.903	0.683	0.855	1e-87
255544880	260	heterogeneous nuclear ribonucleoprotein,	0.913	0.688	0.877	4e-87
224104153	253	predicted protein [Populus trichocarpa]	0.913	0.707	0.883	4e-87
224059562	253	predicted protein [Populus trichocarpa]	0.913	0.707	0.883	1e-86
388504640	259	unknown [Medicago truncatula]	0.903	0.683	0.844	1e-85
356527218	260	PREDICTED: heterogeneous nuclear ribonuc	0.903	0.680	0.855	2e-85
358248784	261	uncharacterized protein LOC100805177 [Gl	0.903	0.678	0.85	2e-85
449448717	260	PREDICTED: heterogeneous nuclear ribonuc	0.892	0.673	0.827	3e-85
255645750	260	unknown [Glycine max]	0.903	0.680	0.844	3e-83

>gi|225435437|ref|XP_002285426.1| PREDICTED: heterogeneous nuclear ribonucleoprotein F-like [Vitis vinifera]

 Score =  331 bits (849), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 157/180 (87%), Positives = 172/180 (95%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHKN +FTGEAFCVLGYPLQV+FALQRNRQNMGRRYVEVFRSKRQEYYKAIA
Sbjct: 79  LDIVDVLFVHKNGRFTGEAFCVLGYPLQVEFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 138

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP R+ P+AKS+DEGK+SA HTG+LRLRGLPFSA K+DIMDFFKDFVLSED
Sbjct: 139 NEVSDTRGGSPRRTAPKAKSNDEGKESAEHTGVLRLRGLPFSASKEDIMDFFKDFVLSED 198

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIH+T+NS+GRPTGEAFVEF NAEDSKAAMAKDRMTLGSRYIELFPSS EE+DEA++RGR
Sbjct: 199 SIHMTVNSEGRPTGEAFVEFTNAEDSKAAMAKDRMTLGSRYIELFPSSLEELDEAVARGR 258

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357460387|ref|XP_003600475.1| Heterogeneous nuclear ribonucleoprotein F [Medicago truncatula] gi|355489523|gb|AES70726.1| Heterogeneous nuclear ribonucleoprotein F [Medicago truncatula]

 Score =  327 bits (839), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 154/180 (85%), Positives = 169/180 (93%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KF+GE FCVLGYPLQVDFALQRNRQN+GRRYVEVFRSKRQEYYKAIA
Sbjct: 80  LDIVDVLFVHKGGKFSGEGFCVLGYPLQVDFALQRNRQNIGRRYVEVFRSKRQEYYKAIA 139

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP RS PRAKS+DEGKDSA HTG+LRLRGLPFSA KDDIMDFFK++VLSED
Sbjct: 140 NEVSDARGGSPRRSAPRAKSYDEGKDSAEHTGVLRLRGLPFSANKDDIMDFFKEYVLSED 199

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHI MNS+GRP+GEA+VEF NA+DSKAAMAKDRMTLGSRYIELFPS+H EM++A+SRGR
Sbjct: 200 SIHIVMNSEGRPSGEAYVEFENADDSKAAMAKDRMTLGSRYIELFPSTHGEMEDAISRGR 259

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255544880|ref|XP_002513501.1| heterogeneous nuclear ribonucleoprotein, putative [Ricinus communis] gi|223547409|gb|EEF48904.1| heterogeneous nuclear ribonucleoprotein, putative [Ricinus communis]

 Score =  326 bits (835), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 158/180 (87%), Positives = 172/180 (95%), Gaps = 1/180 (0%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KFTGEAFCVLG PLQVDFALQ+NRQNMGRRYVEVFRSKRQ+YYKAIA
Sbjct: 82  LDIVDVLFVHKGGKFTGEAFCVLGCPLQVDFALQKNRQNMGRRYVEVFRSKRQDYYKAIA 141

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP R+ PRAKS+DEGKDSA HTG+LRLRGLPFSAGKDDIM+FFKDFVLSED
Sbjct: 142 NEVSDARGGSPRRA-PRAKSYDEGKDSAEHTGVLRLRGLPFSAGKDDIMEFFKDFVLSED 200

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           S+HITMNS+GRPTGEAFVEFA+AEDSKAAMAKDRMTLGSRYIELFPSS EE++EA++RGR
Sbjct: 201 SVHITMNSEGRPTGEAFVEFASAEDSKAAMAKDRMTLGSRYIELFPSSIEELEEAVTRGR 260

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104153|ref|XP_002313339.1| predicted protein [Populus trichocarpa] gi|222849747|gb|EEE87294.1| predicted protein [Populus trichocarpa]

 Score =  325 bits (834), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 159/180 (88%), Positives = 170/180 (94%), Gaps = 1/180 (0%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KF+GEAFCVLGYPLQVDFALQ+NRQNMGRRYVEVFRSKRQ+YYK IA
Sbjct: 75  LDIVDVLFVHKGGKFSGEAFCVLGYPLQVDFALQKNRQNMGRRYVEVFRSKRQDYYKTIA 134

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVS+ RG SP R+IPRAKS+DEGKDSA HTG+LRLRGLPFSA KDDIM+FFKDFVLSED
Sbjct: 135 NEVSESRG-SPRRNIPRAKSYDEGKDSAEHTGVLRLRGLPFSASKDDIMEFFKDFVLSED 193

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHITMNS+GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS EE DEA+SRGR
Sbjct: 194 SIHITMNSEGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSVEESDEAVSRGR 253

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059562|ref|XP_002299908.1| predicted protein [Populus trichocarpa] gi|222847166|gb|EEE84713.1| predicted protein [Populus trichocarpa]

 Score =  324 bits (830), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 159/180 (88%), Positives = 170/180 (94%), Gaps = 1/180 (0%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KFTGEAFCVLGYPLQVDFALQ+NRQNMGRRYVEVFRSKRQ+YYKAIA
Sbjct: 75  LDIVDVLFVHKGGKFTGEAFCVLGYPLQVDFALQKNRQNMGRRYVEVFRSKRQDYYKAIA 134

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVS+ RG SP R+I RAKS+DEGKD A HTG+LRLRGLPFSAGKDDIM+FFKDFVLSED
Sbjct: 135 NEVSESRG-SPRRNISRAKSYDEGKDLAEHTGVLRLRGLPFSAGKDDIMEFFKDFVLSED 193

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
            IHITMNS+GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS EE+DEA+SRGR
Sbjct: 194 LIHITMNSEGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSIEELDEAVSRGR 253

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504640|gb|AFK40386.1| unknown [Medicago truncatula]

 Score =  320 bits (821), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 152/180 (84%), Positives = 166/180 (92%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KF+GE FCVLGYPLQVDFALQRNRQN+GRRYVEVFRSKRQEYYKAIA
Sbjct: 80  LDIVDVLFVHKGGKFSGEGFCVLGYPLQVDFALQRNRQNIGRRYVEVFRSKRQEYYKAIA 139

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP RS PRAK +DEGKDSA HTG+LRLRGLPF A KDDIMDFFK++VLSED
Sbjct: 140 NEVSDARGGSPRRSAPRAKPYDEGKDSAEHTGVLRLRGLPFFANKDDIMDFFKEYVLSED 199

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHI MNS+GRP GEA+VEF NA+DSKAAMAKDRMTLGSRYIELFPS+H EM++A+SRGR
Sbjct: 200 SIHIVMNSEGRPFGEAYVEFENADDSKAAMAKDRMTLGSRYIELFPSTHGEMEDAISRGR 259

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527218|ref|XP_003532209.1| PREDICTED: heterogeneous nuclear ribonucleoprotein F-like [Glycine max]

 Score =  320 bits (820), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 154/180 (85%), Positives = 164/180 (91%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KFTGE FCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA
Sbjct: 81  LDIVDVLFVHKGGKFTGEGFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 140

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP RS  RAKS+DEGKDSA HTG+LRLRGLPFSA KDDIM+FFKDF L ED
Sbjct: 141 NEVSDARGGSPRRSASRAKSYDEGKDSAEHTGVLRLRGLPFSASKDDIMEFFKDFGLPED 200

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHI MNS+GRP+GEA+ EFA+AEDSKAAM KDRMTLGSRYIELFPSS  EM+EA+SRGR
Sbjct: 201 SIHIIMNSEGRPSGEAYAEFASAEDSKAAMVKDRMTLGSRYIELFPSSPGEMEEAISRGR 260

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248784|ref|NP_001239939.1| uncharacterized protein LOC100805177 [Glycine max] gi|255644706|gb|ACU22855.1| unknown [Glycine max]

 Score =  320 bits (819), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 153/180 (85%), Positives = 164/180 (91%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KFTGE FCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA
Sbjct: 82  LDIVDVLFVHKGGKFTGEGFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 141

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP RS  RAKS+DEGK+SA HTG+LRLRGLPFSA KDDIM+FFKDF L ED
Sbjct: 142 NEVSDARGGSPRRSASRAKSYDEGKESAEHTGVLRLRGLPFSASKDDIMEFFKDFGLPED 201

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHI MNS+GRP+GEA+ EF +AEDSKAAM KDRMTLGSRYIELFPSSH EM+EA+SRGR
Sbjct: 202 SIHIIMNSEGRPSGEAYAEFESAEDSKAAMIKDRMTLGSRYIELFPSSHGEMEEAISRGR 261

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449448717|ref|XP_004142112.1| PREDICTED: heterogeneous nuclear ribonucleoprotein F-like [Cucumis sativus] gi|449502606|ref|XP_004161690.1| PREDICTED: LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein F-like [Cucumis sativus]

 Score =  319 bits (818), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 149/180 (82%), Positives = 167/180 (92%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVD+LFVHKN KFTGE FCVLGYPLQVDFALQRNRQNMGRRYVE+FRS RQEYYKA+A
Sbjct: 81  LDIVDILFVHKNGKFTGEGFCVLGYPLQVDFALQRNRQNMGRRYVEIFRSNRQEYYKAVA 140

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEV D RGGSP RS PR+K +DE KDSA HTG+LRLRGLP+SAGKDDI+DFFK F LSED
Sbjct: 141 NEVFDARGGSPRRSAPRSKLNDEVKDSAEHTGVLRLRGLPYSAGKDDILDFFKGFNLSED 200

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIH+T+NS+GRP+GEAFVEF+N +DSKAAM+KDRMTLGSRYIELFPSSHEE+DEA+SRGR
Sbjct: 201 SIHLTLNSEGRPSGEAFVEFSNEQDSKAAMSKDRMTLGSRYIELFPSSHEELDEAISRGR 260

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255645750|gb|ACU23368.1| unknown [Glycine max]

 Score =  313 bits (801), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 152/180 (84%), Positives = 161/180 (89%)

Query: 17  MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
           +DIVDVLFVHK  KFTGE FCVLGYPLQVDFALQ NRQNMGRRYVEVFRSKRQEYYKAIA
Sbjct: 81  LDIVDVLFVHKGGKFTGEGFCVLGYPLQVDFALQGNRQNMGRRYVEVFRSKRQEYYKAIA 140

Query: 77  NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED 136
           NEVSD RGGSP RS  RAKS+DEGKDSA HTG+LRLRGLPF A KDDIM+FFKDF L ED
Sbjct: 141 NEVSDARGGSPRRSASRAKSYDEGKDSAEHTGVLRLRGLPFFASKDDIMEFFKDFGLPED 200

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           SIHI MNS+GRP GEA+ EFA+AEDSKAAM KDRMTLGSRYIELFPSS  EM+EA+SRGR
Sbjct: 201 SIHIIMNSEGRPFGEAYAEFASAEDSKAAMVKDRMTLGSRYIELFPSSPGEMEEAISRGR 260

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	196
TAIR|locus:2156897	255	AT5G66010 [Arabidopsis thalian	0.913	0.701	0.483	1.5e-42
UNIPROTKB|D6RBM0	212	HNRNPH1 "Heterogeneous nuclear	0.438	0.405	0.425	1.8e-22
UNIPROTKB|P52597	415	HNRNPF "Heterogeneous nuclear	0.704	0.332	0.341	2e-14
UNIPROTKB|Q60HC3	415	HNRNPF "Heterogeneous nuclear	0.704	0.332	0.341	2e-14
UNIPROTKB|Q5E9J1	414	HNRNPF "Heterogeneous nuclear	0.704	0.333	0.341	2.5e-14
MGI|MGI:2138741	415	Hnrnpf "heterogeneous nuclear	0.704	0.332	0.341	2.6e-14
RGD|620366	415	Hnrnpf "heterogeneous nuclear	0.704	0.332	0.341	2.6e-14
UNIPROTKB|E2RB90	414	HNRNPF "Uncharacterized protei	0.704	0.333	0.341	2e-14
UNIPROTKB|I3L816	423	HNRNPH1 "Uncharacterized prote	0.438	0.203	0.425	4.7e-21
UNIPROTKB|E9PCY7	429	HNRNPH1 "Heterogeneous nuclear	0.438	0.200	0.425	5e-21

TAIR|locus:2156897 AT5G66010 [Arabidopsis thaliana (taxid:3702)]

 Score = 450 (163.5 bits), Expect = 1.5e-42, P = 1.5e-42
 Identities = 89/184 (48%), Positives = 123/184 (66%)

Query:    17 MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
             ++IVDVL V KN KF+GEAF V   P+QV+ ALQR+R NMGRRYVEVFR  +Q+YY A+A
Sbjct:    72 LNIVDVLLVSKNGKFSGEAFVVFAGPMQVEIALQRDRHNMGRRYVEVFRCSKQDYYNAVA 131

Query:    77 NEVS----DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFV 132
              E      +VR   P     RAK   E K+   +T +L++RGLP+S  K  I++FF  + 
Sbjct:   132 AEEGAYEYEVRASPPPTGPSRAKRFSE-KEKLEYTEVLKMRGLPYSVNKPQIIEFFSGYK 190

Query:   133 LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEAL 192
             + +  + +    DG+ TGEAFVEF   E+++ AMAKD+M++GSRY+ELFP++ EE   A 
Sbjct:   191 VIQGRVQVVCRPDGKATGEAFVEFETGEEARRAMAKDKMSIGSRYVELFPTTREEARRAE 250

Query:   193 SRGR 196
             +R R
Sbjct:   251 ARSR 254

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|D6RBM0 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H" [Homo sapiens (taxid:9606)]

 Score = 183 (69.5 bits), Expect = 1.8e-22, Sum P(2) = 1.8e-22
 Identities = 37/87 (42%), Positives = 57/87 (65%)

Query:   102 DSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED 161
             D+A + G +RLRGLPF   K++I+ FF    +  + I + ++  GR TGEAFV+FA+ E 
Sbjct:   106 DTA-NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLPVDFQGRSTGEAFVQFASQEI 164

Query:   162 SKAAMAKDRMTLGSRYIELFPSSHEEM 188
             ++ A+ K +  +G RYIE+F SS  E+
Sbjct:   165 AEKALKKHKERIGHRYIEIFKSSRAEV 191

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|P52597 HNRNPF "Heterogeneous nuclear ribonucleoprotein F" [Homo sapiens (taxid:9606)]

 Score = 191 (72.3 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 53/155 (34%), Positives = 81/155 (52%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+      +   A+  +    R    HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL--GSEDDVKMALKKD----RESMGHRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0043484 "regulation of RNA splicing" evidence=IDA;IMP

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

GO:0003727 "single-stranded RNA binding" evidence=IDA

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

GO:0003723 "RNA binding" evidence=TAS

GO:0006396 "RNA processing" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|Q60HC3 HNRNPF "Heterogeneous nuclear ribonucleoprotein F" [Macaca fascicularis (taxid:9541)]

 Score = 191 (72.3 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 53/155 (34%), Positives = 81/155 (52%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+      +   A+  +    R    HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL--GSEDDVKMALKKD----RESMGHRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

GO:0003727 "single-stranded RNA binding" evidence=ISS

GO:0043484 "regulation of RNA splicing" evidence=ISS

UNIPROTKB|Q5E9J1 HNRNPF "Heterogeneous nuclear ribonucleoprotein F" [Bos taurus (taxid:9913)]

 Score = 190 (71.9 bits), Expect = 2.5e-14, P = 2.5e-14
 Identities = 53/155 (34%), Positives = 83/155 (53%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+   + ++  K    +  +  G   HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL---ESEDDVKLALKKDRESMG---HRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADTANDGFVRLRGLPFGCTKEEIIQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

GO:0043484 "regulation of RNA splicing" evidence=ISS

GO:0003727 "single-stranded RNA binding" evidence=ISS

GO:0005654 "nucleoplasm" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

MGI|MGI:2138741 Hnrnpf "heterogeneous nuclear ribonucleoprotein F" [Mus musculus (taxid:10090)]

 Score = 190 (71.9 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 53/155 (34%), Positives = 83/155 (53%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+   + ++  K    +  +  G   HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL---ESEDDVKLALKKDRESMG---HRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003727 "single-stranded RNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0043484 "regulation of RNA splicing" evidence=ISO

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

RGD|620366 Hnrnpf "heterogeneous nuclear ribonucleoprotein F" [Rattus norvegicus (taxid:10116)]

 Score = 190 (71.9 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 53/155 (34%), Positives = 83/155 (53%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+   + ++  K    +  +  G   HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL---ESEDDVKLALKKDRESMG---HRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003727 "single-stranded RNA binding" evidence=ISO;ISS

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005654 "nucleoplasm" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=IPI

GO:0043484 "regulation of RNA splicing" evidence=ISO;ISS

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

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|E2RB90 HNRNPF "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 191 (72.3 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 53/155 (34%), Positives = 81/155 (52%)

Query:    45 VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSH----D-- 98
             V F   R  +  G  +VE+      +   A+  +    R    HR I   KSH    D  
Sbjct:    43 VHFIYTREGRQSGEAFVEL--ESEDDVKMALKKD----RESMGHRYIEVFKSHRTEMDWV 96

Query:    99 ---EGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAF 153
                 G +SA   + G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAF
Sbjct:    97 LKHSGPNSADTANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAF 156

Query:   154 VEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
             V+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct:   157 VQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 191

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

GO:0043484 "regulation of RNA splicing" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003727 "single-stranded RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|I3L816 HNRNPH1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 183 (69.5 bits), Expect = 4.7e-21, Sum P(2) = 4.7e-21
 Identities = 37/87 (42%), Positives = 57/87 (65%)

Query:   102 DSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED 161
             D+A + G +RLRGLPF   K++I+ FF    +  + I + ++  GR TGEAFV+FA+ E 
Sbjct:   105 DTA-NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLPVDFQGRSTGEAFVQFASQEI 163

Query:   162 SKAAMAKDRMTLGSRYIELFPSSHEEM 188
             ++ A+ K +  +G RYIE+F SS  E+
Sbjct:   164 AEKALKKHKERIGHRYIEIFKSSRAEV 190

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E9PCY7 HNRNPH1 "Heterogeneous nuclear ribonucleoprotein H" [Homo sapiens (taxid:9606)]

 Score = 183 (69.5 bits), Expect = 5.0e-21, Sum P(2) = 5.0e-21
 Identities = 37/87 (42%), Positives = 57/87 (65%)

Query:   102 DSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED 161
             D+A + G +RLRGLPF   K++I+ FF    +  + I + ++  GR TGEAFV+FA+ E 
Sbjct:   106 DTA-NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLPVDFQGRSTGEAFVQFASQEI 164

Query:   162 SKAAMAKDRMTLGSRYIELFPSSHEEM 188
             ++ A+ K +  +G RYIE+F SS  E+
Sbjct:   165 AEKALKKHKERIGHRYIEIFKSSRAEV 191

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0015629 "actin cytoskeleton" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00024603001 SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (243 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	196
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	5e-31
cd12508	80	cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif	2e-29
cd12504	77	cd12504, RRM2_hnRNPH_like, RNA recognition motif 2	5e-24
cd12503	77	cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition m	6e-24
cd12506	75	cd12506, RRM3_hnRNPH_CRSF1_like, RNA recognition m	3e-23
cd12505	75	cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-	9e-22
cd12732	96	cd12732, RRM2_hnRNPH3, RNA recognition motif 2 in	1e-19
cd12729	79	cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	2e-19
cd12512	101	cd12512, RRM3_RBM12, RNA recognition motif 3 in RN	1e-18
cd12509	81	cd12509, RRM3_ESRPs_Fusilli, RNA recognition motif	2e-18
cd12731	83	cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	5e-18
cd12730	79	cd12730, RRM1_GRSF1, RNA recognition motif 1 in G-	7e-18
cd12740	107	cd12740, RRM2_ESRP2, RNA recognition motif 2 in ep	2e-17
cd12733	75	cd12733, RRM3_GRSF1, RNA recognition motif 3 in G-	2e-17
cd12735	75	cd12735, RRM3_hnRNPH3, RNA recognition motif 3 in	2e-16
cd12734	76	cd12734, RRM3_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	2e-16
cd12746	78	cd12746, RRM2_RBM12B, RNA recognition motif 2 in R	6e-16
cd12739	109	cd12739, RRM2_ESRP1, RNA recognition motif 2 in ep	1e-15
cd12502	72	cd12502, RRM2_RMB19, RNA recognition motif 2 in RN	1e-15
cd12510	74	cd12510, RRM1_RBM12_like, RNA recognition motif 1	1e-15
cd12742	81	cd12742, RRM3_ESRP1_ESRP2, RNA recognition motif i	2e-15
cd12514	73	cd12514, RRM4_RBM12_like, RNA recognition motif 4	5e-15
cd12741	100	cd12741, RRM2_Fusilli, RNA recognition motif 2 in	5e-15
cd12511	73	cd12511, RRM2_RBM12_like, RNA recognition motif 2	5e-14
cd12737	80	cd12737, RRM1_ESRP2, RNA recognition motif 1 in ep	7e-14
cd12507	75	cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif	7e-13
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	1e-12
cd12744	79	cd12744, RRM1_RBM12B, RNA recognition motif 1 in R	2e-12
cd12736	85	cd12736, RRM1_ESRP1, RNA recognition motif 1 in ep	2e-12
cd12738	80	cd12738, RRM1_Fusilli, RNA recognition motif 1 in	3e-12
cd12747	75	cd12747, RRM2_RBM12, RNA recognition motif 2 in RN	1e-11
cd12513	81	cd12513, RRM3_RBM12B, RNA recognition motif 3 in R	2e-10
cd12745	92	cd12745, RRM1_RBM12, RNA recognition motif 1 in RN	6e-10
cd12743	85	cd12743, RRM3_Fusilli, RNA recognition motif 3 in	1e-09
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-09
cd12750	77	cd12750, RRM5_RBM12B, RNA recognition motif 5 in R	3e-09
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	4e-09
smart00360	73	smart00360, RRM, RNA recognition motif	5e-09
cd12515	75	cd12515, RRM5_RBM12_like, RNA recognition motif 5	9e-09
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	3e-08
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	5e-08
cd12751	76	cd12751, RRM5_RBM12, RNA recognition motif 5 in RN	8e-08
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	1e-07
cd12503	77	cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition m	2e-07
cd12749	88	cd12749, RRM4_RBM12, RNA recognition motif 4 in RN	5e-07
cd12405	72	cd12405, RRM3_NCL, RNA recognition motif 3 in vert	6e-07
cd12508	80	cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif	9e-07
cd12748	76	cd12748, RRM4_RBM12B, RNA recognition motif 4 in R	2e-06
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	5e-06
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	9e-06
cd12729	79	cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	1e-05
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	1e-05
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	1e-05
cd12505	75	cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-	2e-05
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	2e-05
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	2e-05
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	2e-05
cd12741	100	cd12741, RRM2_Fusilli, RNA recognition motif 2 in	3e-05
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	3e-05
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	3e-05
cd12504	77	cd12504, RRM2_hnRNPH_like, RNA recognition motif 2	2e-04
cd12400	74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	2e-04
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	2e-04
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	2e-04
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	3e-04
cd12740	107	cd12740, RRM2_ESRP2, RNA recognition motif 2 in ep	5e-04
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	7e-04
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	7e-04
cd12507	75	cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif	8e-04
cd12731	83	cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	0.001
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	0.001
cd12278	84	cd12278, RRM_eIF3B, RNA recognition motif in eukar	0.001
cd12739	109	cd12739, RRM2_ESRP1, RNA recognition motif 2 in ep	0.002
cd12737	80	cd12737, RRM1_ESRP2, RNA recognition motif 1 in ep	0.002
cd12409	84	cd12409, RRM1_RRT5, RNA recognition motif 1 in yea	0.002
cd12567	79	cd12567, RRM3_RBM19, RNA recognition motif 3 in RN	0.002
cd12321	77	cd12321, RRM1_TDP43, RNA recognition motif 1 in TA	0.003
cd12404	77	cd12404, RRM2_NCL, RNA recognition motif 2 in vert	0.004
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	0.004

>gnl|CDD|240700 cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognition motif found in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, epithelial splicing regulatory proteins (ESRPs), Drosophila RNA-binding protein Fusilli, RNA-binding protein 12 (RBM12) and similar proteins

 Score =  107 bits (270), Expect = 5e-31
 Identities = 40/73 (54%), Positives = 53/73 (72%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++RLRGLPFSA ++DI DFF    +  D IHI  + DGRPTGEA+VEFA+ ED++ A+ K
Sbjct: 1   VVRLRGLPFSATEEDIRDFFSGLDIPPDGIHIVYDDDGRPTGEAYVEFASPEDARRALRK 60

Query: 169 DRMTLGSRYIELF 181
               +G RYIE+F
Sbjct: 61  HNNKMGGRYIEVF 73

The family includes RRM domains in the hnRNP H protein family, G-rich sequence factor 1 (GRSF-1), ESRPs (also termed RBM35), Drosophila Fusilli, RBM12 (also termed SWAN), RBM12B, RBM19 (also termed RBD-1) and similar proteins. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. GRSF-1 is a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. Fusilli shows high sequence homology to ESRPs. It can regulate endogenous FGFR2 splicing and functions as a splicing factor. The biological roles of both, RBM12 and RBM12B, remain unclear. RBM19 is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. Members in this family contain 2~6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240952 cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif 2 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score =  103 bits (260), Expect = 2e-29
 Identities = 38/80 (47%), Positives = 47/80 (58%), Gaps = 3/80 (3%)

Query: 107 TGILRLRGLPFSAGKDDIMDFFKDFVLS---EDSIHITMNSDGRPTGEAFVEFANAEDSK 163
             I+R+RGLP+SA   DI+ FF          D I      DGRPTG+AFV F   ED++
Sbjct: 1   QVIIRMRGLPYSATAADILAFFGGLCPVVGGPDGILFVTGPDGRPTGDAFVLFETEEDAQ 60

Query: 164 AAMAKDRMTLGSRYIELFPS 183
            A+ K +  LGSRYIELF S
Sbjct: 61  RALGKHKENLGSRYIELFRS 80

This subfamily corresponds to the RRM2 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli.Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous FGFR2 splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 80

>gnl|CDD|240948 cd12504, RRM2_hnRNPH_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family

 Score = 89.7 bits (223), Expect = 5e-24
 Identities = 34/77 (44%), Positives = 51/77 (66%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G++RLRGLPF   K++I  FF    +  + I + M+  GR TGEA+V+FA+ E ++ A+ 
Sbjct: 1   GVVRLRGLPFGCSKEEIAQFFSGLEIVPNGITLPMDYRGRSTGEAYVQFASQESAERALG 60

Query: 168 KDRMTLGSRYIELFPSS 184
           K +  +G RYIE+F SS
Sbjct: 61  KHKEKIGHRYIEIFRSS 77

This subfamily corresponds to the RRM2 of hnRNP H protein family which includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9). They represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing, having similar RNA binding affinities and specifically recognizing the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in the splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 77

>gnl|CDD|240947 cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 89.7 bits (223), Expect = 6e-24
 Identities = 34/77 (44%), Positives = 52/77 (67%), Gaps = 2/77 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKD--FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           ++R+RGLP+SA  +D+++FF D      E+ IH T + +GRP+GEAF+E  + ED + A+
Sbjct: 1   VVRIRGLPWSATAEDVLNFFSDCRIKGGENGIHFTYSREGRPSGEAFIELESEEDVEKAL 60

Query: 167 AKDRMTLGSRYIELFPS 183
            K    +G RYIE+F S
Sbjct: 61  EKHNEHMGHRYIEVFRS 77

This subfamily corresponds to the RRM1 of hnRNP H proteins and GRSF-1. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. These proteins have similar RNA binding affinities and specifically recognize the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. Members in this family have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. They also include a cytoplasmic poly(A)+ mRNA binding protein, GRSF-1, which interacts with RNA in a G-rich element-dependent manner. They may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RRMs responsible for the RNA binding, and two auxiliary domains (an acidic alpha-helical domain and an N-terminal alanine-rich region) that may play a role in protein-protein interactions and provide binding specificity. . Length = 77

>gnl|CDD|240950 cd12506, RRM3_hnRNPH_CRSF1_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 87.8 bits (218), Expect = 3e-23
 Identities = 39/76 (51%), Positives = 53/76 (69%), Gaps = 2/76 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            + +RGLP+ A ++DI +FF    L+  ++ I  N+DGR TGEA VEFA  ED+ AAM+K
Sbjct: 2   TVHMRGLPYRATENDIFEFFSP--LNPVNVRIEYNADGRATGEADVEFATHEDAVAAMSK 59

Query: 169 DRMTLGSRYIELFPSS 184
           DR  +G RYIELF +S
Sbjct: 60  DREHMGHRYIELFLNS 75

This subfamily corresponds to the RRM3 of hnRNP H proteins and GRSF-1. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. These proteins have similar RNA binding affinities and specifically recognize the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in the splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. For instance, members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. The family also includes a cytoplasmic poly(A)+ mRNA binding protein, GRSF-1, which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 also contains three potential RRMs responsible for the RNA binding, and two auxiliary domains (an acidic alpha-helical domain and an N-terminal alanine-rich region) that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|240949 cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 84.0 bits (208), Expect = 9e-22
 Identities = 35/74 (47%), Positives = 52/74 (70%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
            ++RLRGLP+S  +DDI+DFF+   + +D + I +N  GR TGEA+V+FA  E +  A+ 
Sbjct: 2   NVVRLRGLPYSCTEDDIIDFFRGLDIVDDGVVIVLNRRGRKTGEAYVQFATPEMANKALL 61

Query: 168 KDRMTLGSRYIELF 181
           K R  +G+RYIE+F
Sbjct: 62  KHREEIGNRYIEVF 75

This subfamily corresponds to the RRM2 of GRSF-1, a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|241176 cd12732, RRM2_hnRNPH3, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein H3 (hnRNP H3) and similar proteins

 Score = 78.9 bits (194), Expect = 1e-19
 Identities = 36/77 (46%), Positives = 52/77 (67%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G +RLRGLPF   K++I+ FF    +  + I +TM+  GR TGEAFV+FA+ E ++ A+ 
Sbjct: 19  GTVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLTMDYQGRSTGEAFVQFASKEIAENALG 78

Query: 168 KDRMTLGSRYIELFPSS 184
           K +  +G RYIE+F SS
Sbjct: 79  KHKERIGHRYIEIFKSS 95

This subgroup corresponds to the RRM2 of hnRNP H3 (also termed hnRNP 2H9), a nuclear RNA binding protein that belongs to the hnRNP H protein family that also includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. This family is involved in mRNA processing and exhibit extensive sequence homology. Currently, little is known about the functions of hnRNP H3 except for its role in the splicing arrest induced by heat shock. In addition, the typical hnRNP H proteins contain contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, like other hnRNP H protein family members, hnRNP H3 has an extensive glycine-rich region near the C-terminus, which may allow it to homo- or heterodimerize. . Length = 96

>gnl|CDD|241173 cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins

 Score = 78.0 bits (192), Expect = 2e-19
 Identities = 34/77 (44%), Positives = 50/77 (64%), Gaps = 2/77 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSED--SIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           ++++RGLP+S   D++  FF D  ++     IH     +GRP+GEAFVE  + ED K A+
Sbjct: 3   VVKVRGLPWSCSVDEVQRFFSDCKIANGASGIHFIYTREGRPSGEAFVELESEEDVKLAL 62

Query: 167 AKDRMTLGSRYIELFPS 183
            KDR T+G RY+E+F S
Sbjct: 63  KKDRETMGHRYVEVFKS 79

This subgroup corresponds to the RRM1 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical. Both of them have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 79

>gnl|CDD|240956 cd12512, RRM3_RBM12, RNA recognition motif 3 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 76.5 bits (188), Expect = 1e-18
 Identities = 33/81 (40%), Positives = 52/81 (64%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           L+GLP+ A    ++DFFK   + EDSI+I    +G+ TGE FVEF N  D KAA+ + + 
Sbjct: 14  LKGLPYEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQ 73

Query: 172 TLGSRYIELFPSSHEEMDEAL 192
            +G+R+I++ P + + M E +
Sbjct: 74  YMGNRFIQVHPITKKAMLEKI 94

This subfamily corresponds to the RRM3 of RBM12. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 101

>gnl|CDD|240953 cd12509, RRM3_ESRPs_Fusilli, RNA recognition motif 3 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 75.9 bits (187), Expect = 2e-18
 Identities = 29/78 (37%), Positives = 51/78 (65%), Gaps = 3/78 (3%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNSDGRPTGEAFVEFANAED-SKAAM 166
           +RLRGLP+ A  +DI++F  +    ++   +H+ +N+ GRP+G+AF++  +AE  ++AA 
Sbjct: 4   IRLRGLPYEATVEDILNFLGELARSIAPQGVHMVLNAQGRPSGDAFIQMLSAEFATRAAN 63

Query: 167 AKDRMTLGSRYIELFPSS 184
              +  +G RYIE+F  S
Sbjct: 64  ELHKHHMGERYIEVFQCS 81

This subfamily corresponds to the RRM3 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli. Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous FGFR2 splicing and functions as a splicing factor. Fusilli shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 81

>gnl|CDD|241175 cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP H, hnRNP H2, hnRNP F and similar proteins

 Score = 74.7 bits (183), Expect = 5e-18
 Identities = 35/81 (43%), Positives = 53/81 (65%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G +RLRGLPF   K++I+ FF    +  + I + ++  GR TGEAFV+FA+ E ++ A+ 
Sbjct: 2   GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLPVDFQGRSTGEAFVQFASQEIAEKALK 61

Query: 168 KDRMTLGSRYIELFPSSHEEM 188
           K +  +G RYIE+F SS  E+
Sbjct: 62  KHKERIGHRYIEIFKSSRAEV 82

This subgroup corresponds to the RRM2 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 83

>gnl|CDD|241174 cd12730, RRM1_GRSF1, RNA recognition motif 1 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 74.1 bits (182), Expect = 7e-18
 Identities = 28/75 (37%), Positives = 48/75 (64%), Gaps = 2/75 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVL--SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           I+R +GLP+S   +D+M+FF D  +   E+ +H  +N DG+P G+A +E  + ED + A+
Sbjct: 3   IVRAKGLPWSCTAEDVMNFFDDCRIRNGENGVHFLLNRDGKPRGDALIELESEEDVQKAL 62

Query: 167 AKDRMTLGSRYIELF 181
            + R  +G RY+E+ 
Sbjct: 63  EQHRHYMGQRYVEVR 77

This subgroup corresponds to the RRM1 of GRSF-1, a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 79

>gnl|CDD|241184 cd12740, RRM2_ESRP2, RNA recognition motif 2 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 73.9 bits (181), Expect = 2e-17
 Identities = 36/89 (40%), Positives = 52/89 (58%), Gaps = 3/89 (3%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
           I+R+RGLPF+A   D++ F           + +      DGRPTG+AFV FA  E ++ A
Sbjct: 18  IIRMRGLPFTATPTDVLGFLGPECPVTGGTEGLLFVKYPDGRPTGDAFVLFACEEYAQNA 77

Query: 166 MAKDRMTLGSRYIELFPSSHEEMDEALSR 194
           + K +  LG RYIELF S+  E+ + L+R
Sbjct: 78  LKKHKGILGKRYIELFRSTAAEVQQVLNR 106

This subgroup corresponds to the RRM2 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 107

>gnl|CDD|241177 cd12733, RRM3_GRSF1, RNA recognition motif 3 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 72.6 bits (178), Expect = 2e-17
 Identities = 36/73 (49%), Positives = 46/73 (63%), Gaps = 2/73 (2%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           +RGLPF A   DI++FF     +   I    +SDGR TGEA V F + +D+ AAMAKDR 
Sbjct: 5   MRGLPFQASGQDIVNFFAPLKPTRILIE--YSSDGRATGEADVHFESHDDAVAAMAKDRA 62

Query: 172 TLGSRYIELFPSS 184
            +  RYIELF +S
Sbjct: 63  HMQHRYIELFLNS 75

This subgroup corresponds to the RRM3 of G-rich sequence factor 1 (GRSF-1), a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|241179 cd12735, RRM3_hnRNPH3, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein H3 (hnRNP H3) and similar proteins

 Score = 70.4 bits (172), Expect = 2e-16
 Identities = 37/75 (49%), Positives = 50/75 (66%), Gaps = 2/75 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + +RGLPF A + DI +FF    L+   +HI + +DGR TGEA VEF   ED+ AAM+KD
Sbjct: 3   VHMRGLPFRATESDIANFFSP--LTPIRVHIDIGADGRATGEADVEFVTHEDAVAAMSKD 60

Query: 170 RMTLGSRYIELFPSS 184
           +  +  RYIELF +S
Sbjct: 61  KNHMQHRYIELFLNS 75

This subgroup corresponds to the RRM3 of hnRNP H3 (also termed hnRNP 2H9), a nuclear RNA binding protein that belongs to the hnRNP H protein family that also includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), and hnRNP F. This family is involved in mRNA processing and exhibit extensive sequence homology. Currently, little is known about the functions of hnRNP H3 except for its role in the splicing arrest induced by heat shock. In addition, the typical hnRNP H proteins contain contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, like other hnRNP H protein family members, hnRNP H3 has an extensive glycine-rich region near the C-terminus, which may allow it to homo- or heterodimerize. . Length = 75

>gnl|CDD|241178 cd12734, RRM3_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins

 Score = 70.1 bits (171), Expect = 2e-16
 Identities = 36/75 (48%), Positives = 51/75 (68%), Gaps = 2/75 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + +RGLP+ A ++DI +FF    L+   +HI +  DGR TGEA VEFA  ED+ AAM+KD
Sbjct: 3   VHMRGLPYRATENDIYNFFSP--LNPVRVHIEIGPDGRVTGEADVEFATHEDAVAAMSKD 60

Query: 170 RMTLGSRYIELFPSS 184
           +  +  RY+ELF +S
Sbjct: 61  KANMQHRYVELFLNS 75

This subgroup corresponds to the RRM3 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F, which represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical; bothe have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 76

>gnl|CDD|241190 cd12746, RRM2_RBM12B, RNA recognition motif 2 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 69.0 bits (169), Expect = 6e-16
 Identities = 31/78 (39%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           L LRGLPFS  +D++ DFF    +  D +    N  G   G + V+FA  ED+   + +D
Sbjct: 2   LFLRGLPFSVTEDNVRDFFSGLKV--DGVIFLKNRRGLNNGNSMVKFATKEDAIEGLKRD 59

Query: 170 RMTLGSRYIELFPSSHEE 187
           R  +GSRYIE+  ++ EE
Sbjct: 60  RQYMGSRYIEISRTTEEE 77

This subgroup corresponds to the RRM2 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 78

>gnl|CDD|241183 cd12739, RRM2_ESRP1, RNA recognition motif 2 in epithelial splicing regulatory protein 1 (ESRP1) and similar proteins

 Score = 69.3 bits (169), Expect = 1e-15
 Identities = 36/89 (40%), Positives = 54/89 (60%), Gaps = 3/89 (3%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
           I+R+RGLPF+A  ++++ FF         ++ I      D RPTG+AFV FA  E ++ A
Sbjct: 18  IVRMRGLPFTATAEEVLAFFGQHCPVTGGKEGILFVTYPDSRPTGDAFVLFACEEYAQNA 77

Query: 166 MAKDRMTLGSRYIELFPSSHEEMDEALSR 194
           + K +  LG RYIELF S+  E+ + L+R
Sbjct: 78  LKKHKDLLGKRYIELFRSTAAEVQQVLNR 106

This subgroup corresponds to the RRM2 of ESRP1, also termed RNA-binding motif protein 35A (RBM35A), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. Additional research indicated that ESRP1 functions as a tumor suppressor in colon cancer cells. It may be involved in posttranscriptional regulation of various genes by exerting a differential effect on protein translation via 5' untranslated regions (UTRs) of mRNAs. ESRP1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 109

>gnl|CDD|240946 cd12502, RRM2_RMB19, RNA recognition motif 2 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 68.2 bits (167), Expect = 1e-15
 Identities = 29/71 (40%), Positives = 42/71 (59%), Gaps = 2/71 (2%)

Query: 111 RLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDR 170
           ++RG PF+  +  I +FF    L   +I I  N  GR TG AFV+  + ED K A+ +++
Sbjct: 4   KMRGAPFNVKEKHIREFF--SPLKPVAIRIVKNDHGRKTGFAFVDLKSEEDLKKALKRNK 61

Query: 171 MTLGSRYIELF 181
             +G RYIELF
Sbjct: 62  DYMGGRYIELF 72

This subfamily corresponds to the RRM2 of RBM19, also termed RNA-binding domain-1 (RBD-1), a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA and is also essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 72

>gnl|CDD|240954 cd12510, RRM1_RBM12_like, RNA recognition motif 1 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 68.1 bits (167), Expect = 1e-15
 Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 4/76 (5%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++RL+ LP+ AG  DI  FF    + +  +HI     G   GEAF+ FA  ED++ AM++
Sbjct: 3   VIRLQNLPWEAGSLDIRRFFSGLTIPDGGVHII----GGEMGEAFIAFATDEDARLAMSR 58

Query: 169 DRMTLGSRYIELFPSS 184
           D  T+    ++LF SS
Sbjct: 59  DGQTIKGSKVKLFLSS 74

This subfamily corresponds to the RRM1 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 74

>gnl|CDD|241186 cd12742, RRM3_ESRP1_ESRP2, RNA recognition motif in epithelial splicing regulatory protein ESRP1, ESRP2 and similar proteins

 Score = 67.9 bits (166), Expect = 2e-15
 Identities = 28/78 (35%), Positives = 49/78 (62%), Gaps = 3/78 (3%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           +RLRGLP++A  +DI++F  +F   +    +H+ +N  GRP+G+AF++  +AE +  A  
Sbjct: 4   IRLRGLPYTATIEDILEFLGEFAADIRPHGVHMVLNQQGRPSGDAFIQMKSAERAFLAAQ 63

Query: 168 K-DRMTLGSRYIELFPSS 184
           K  +  +  RY+E+F  S
Sbjct: 64  KCHKKMMKDRYVEVFQCS 81

This subgroup corresponds to the RRM3 of ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B). These are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|240958 cd12514, RRM4_RBM12_like, RNA recognition motif 4 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 66.6 bits (163), Expect = 5e-15
 Identities = 24/72 (33%), Positives = 39/72 (54%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            ++++ +PF   K +++ FF    ++E  IHI  +  G+  GEA+VEF + ED+  A   
Sbjct: 1   CIKIKNIPFDVTKGEVLAFFAGIAIAEQGIHILYDKTGKTLGEAYVEFVSEEDAMRAERL 60

Query: 169 DRMTLGSRYIEL 180
            R  L  R I L
Sbjct: 61  HRKKLKGREILL 72

This subfamily corresponds to the RRM4 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 73

>gnl|CDD|241185 cd12741, RRM2_Fusilli, RNA recognition motif 2 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 67.2 bits (164), Expect = 5e-15
 Identities = 32/82 (39%), Positives = 46/82 (56%), Gaps = 7/82 (8%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKD-------FVLSEDSIHITMNSDGRPTGEAFVEFANAED 161
           I+R+RGLP+      +++FF          +   + +      DGR TG+AFV FA  ED
Sbjct: 19  IVRMRGLPYDCTAKQVLEFFTTGDTPPCHVLDGNEGVLFVKKPDGRATGDAFVLFATEED 78

Query: 162 SKAAMAKDRMTLGSRYIELFPS 183
           +  A+ K R ++GSRYIELF S
Sbjct: 79  APKALGKHRESIGSRYIELFRS 100

This subgroup corresponds to the RRM2 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 100

>gnl|CDD|240955 cd12511, RRM2_RBM12_like, RNA recognition motif 2 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 64.0 bits (156), Expect = 5e-14
 Identities = 28/72 (38%), Positives = 42/72 (58%), Gaps = 2/72 (2%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           L GLP++A + D+ +FF    L  + +      +GR  G A V+FA  +D+K A+ + R 
Sbjct: 4   LHGLPYTADEHDVKEFFHG--LDVEDVIFLKRHNGRNNGNAIVKFATFQDAKEALKRHRE 61

Query: 172 TLGSRYIELFPS 183
            +GSRYIEL  S
Sbjct: 62  LMGSRYIELMLS 73

This subfamily corresponds to the RRM2 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B shows high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 73

>gnl|CDD|241181 cd12737, RRM1_ESRP2, RNA recognition motif 1 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 63.5 bits (154), Expect = 7e-14
 Identities = 29/79 (36%), Positives = 49/79 (62%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++R RGLP+ +   DI  FFK   +++  + + +N+ GR  GEA V F N+E    A+ +
Sbjct: 1   VIRARGLPWQSSDQDIARFFKGLNIAKGGVALCLNAQGRRNGEALVRFVNSEQRDLALQR 60

Query: 169 DRMTLGSRYIELFPSSHEE 187
            +  +GSRYIE++ ++ EE
Sbjct: 61  HKHHMGSRYIEVYKATGEE 79

This subgroup corresponds to the RRM1 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 80

>gnl|CDD|240951 cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif 1 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 61.0 bits (148), Expect = 7e-13
 Identities = 22/73 (30%), Positives = 44/73 (60%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++R RGLP+ +   DI  FF+   +++  + + +++ GR  GEA + F + E    A+ +
Sbjct: 1   VVRARGLPWQSSDQDIAQFFRGLNIAKGGVALCLSAQGRRNGEALIRFVDQEHRDLALQR 60

Query: 169 DRMTLGSRYIELF 181
            +  +G+RYIE++
Sbjct: 61  HKHHMGTRYIEVY 73

This subfamily corresponds to the RRM1 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B). These are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli. Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 75

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

 Score = 60.3 bits (147), Expect = 1e-12
 Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 3/71 (4%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +R LP S  ++D+ +FF  +    + + + + +  RP G AFVEFA+ ED++AA+ K 
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYG-KVEGVRL-VRNKDRPRGFAFVEFASPEDAEAALKKL 58

Query: 169 DRMTLGSRYIE 179
           + + L  R + 
Sbjct: 59  NGLVLDGRTLR 69

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

>gnl|CDD|241188 cd12744, RRM1_RBM12B, RNA recognition motif 1 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 59.9 bits (145), Expect = 2e-12
 Identities = 31/80 (38%), Positives = 45/80 (56%), Gaps = 4/80 (5%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++RL+GLP  AG +DI  FF    + +  +HI     G   GEAF+ FA  ED++ AM++
Sbjct: 3   VIRLQGLPVVAGSEDIRHFFTGLRIPDGGVHII----GGELGEAFIIFATDEDARRAMSR 58

Query: 169 DRMTLGSRYIELFPSSHEEM 188
               +    +ELF SS  EM
Sbjct: 59  SGGFIKDSTVELFLSSKAEM 78

This subgroup corresponds to the RRM1 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 79

>gnl|CDD|241180 cd12736, RRM1_ESRP1, RNA recognition motif 1 in epithelial splicing regulatory protein 1 (ESRP1) and similar proteins

 Score = 60.0 bits (145), Expect = 2e-12
 Identities = 26/79 (32%), Positives = 47/79 (59%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++R RGLP+ +   DI  FFK   +++    + +N+ GR  GEA V F + E    A+ +
Sbjct: 6   VIRARGLPWQSSDQDIARFFKGLNIAKGGAALCLNAQGRRNGEALVRFVSEEHRDLALQR 65

Query: 169 DRMTLGSRYIELFPSSHEE 187
            +  +G+RYIE++ ++ E+
Sbjct: 66  HKHHMGNRYIEVYKATGED 84

This subgroup corresponds to the RRM1 of ESRP1, also termed RNA-binding motif protein 35A (RBM35A), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (p120-Catenin) and ENAH (hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. Additional research indicated that ESRP1 functions as a tumor suppressor in colon cancer cells. It may be involved in posttranscriptional regulation of various genes by exerting a differential effect on protein translation via 5' untranslated regions (UTRs) of mRNAs. ESRP1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 85

>gnl|CDD|241182 cd12738, RRM1_Fusilli, RNA recognition motif 1 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 59.5 bits (144), Expect = 3e-12
 Identities = 25/79 (31%), Positives = 45/79 (56%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++R RGLP+ +   DI  FF+   +++  + + +N  GR  GEA V F   E    A+ +
Sbjct: 1   VVRARGLPWQSSDQDIAKFFRGLNIAKGGVALCLNPQGRRNGEALVRFTCTEHRDLALKR 60

Query: 169 DRMTLGSRYIELFPSSHEE 187
            +  +G RYIE++ ++ E+
Sbjct: 61  HKHHIGQRYIEVYKATGED 79

This subgroup corresponds to the RRM1 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 80

>gnl|CDD|241191 cd12747, RRM2_RBM12, RNA recognition motif 2 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 57.5 bits (139), Expect = 1e-11
 Identities = 31/72 (43%), Positives = 44/72 (61%), Gaps = 2/72 (2%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           L GLPFS  + DI DFF    L  D+IH+  +  GR  G A V+F +  D+  A+ ++RM
Sbjct: 6   LHGLPFSVLEHDIRDFFHG--LRIDAIHLLKDHVGRNNGNALVKFYSPHDTFEALKRNRM 63

Query: 172 TLGSRYIELFPS 183
            +G RYIE+ P+
Sbjct: 64  LMGQRYIEVSPA 75

This subgroup corresponds to the RRM2 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), which is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 75

>gnl|CDD|240957 cd12513, RRM3_RBM12B, RNA recognition motif 3 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 54.7 bits (132), Expect = 2e-10
 Identities = 30/79 (37%), Positives = 41/79 (51%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + L  LPFS  K DI  FF D  L +  I    +  G+ T  AFV F +  D  AA+A  
Sbjct: 3   IHLENLPFSVEKRDIRAFFGDLDLPDSQITFLSDKKGKRTRSAFVMFKSLRDYCAALAHH 62

Query: 170 RMTLGSRYIELFPSSHEEM 188
           +  L +R + +FP S E+M
Sbjct: 63  KRVLYNREVYVFPISREDM 81

This subgroup corresponds to the RRM3 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 81

>gnl|CDD|241189 cd12745, RRM1_RBM12, RNA recognition motif 1 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 53.5 bits (128), Expect = 6e-10
 Identities = 30/88 (34%), Positives = 43/88 (48%), Gaps = 4/88 (4%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           ++RL+GLP  AG  DI  FF    + +  +HI     G   GEAF+ FA  ED++  M +
Sbjct: 4   VIRLQGLPIVAGTMDIRHFFSGLTIPDGGVHIV----GGELGEAFIVFATDEDARLGMMR 59

Query: 169 DRMTLGSRYIELFPSSHEEMDEALSRGR 196
              T+    + L  SS  EM   +   R
Sbjct: 60  TGGTIKGSKVSLLLSSKTEMQNMIELSR 87

This subgrup corresponds to the RRM1 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 92

>gnl|CDD|241187 cd12743, RRM3_Fusilli, RNA recognition motif 3 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 53.0 bits (127), Expect = 1e-09
 Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 7/82 (8%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           +RLRGLP+ A  + I++F  DF   +    +H+  N+ G+P+GEAF++  + + + A   
Sbjct: 4   IRLRGLPYEAQVEHILEFLGDFAKMIVFQGVHMVYNAQGQPSGEAFIQMDSEQSASACAQ 63

Query: 168 KDR---MTLGS--RYIELFPSS 184
           +     M  G   RYIE+F  S
Sbjct: 64  QRHNRYMVFGKKQRYIEVFQCS 85

This subgroup corresponds to the RRM3 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 85

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

 Score = 52.3 bits (126), Expect = 1e-09
 Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  LP    ++D+ + F  F    +S+ I  + DG+  G AFVEF + ED++ A+   
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFG-EIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEAL 59

Query: 169 DRMTLGSRYIEL 180
           +   L  R +++
Sbjct: 60  NGKELDGRKLKV 71

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

>gnl|CDD|241194 cd12750, RRM5_RBM12B, RNA recognition motif 5 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 51.1 bits (122), Expect = 3e-09
 Identities = 27/73 (36%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           +RL  LPF A  ++I+DFF  + +  DS+ +  N  G PTG A V   N  ++ AA+ + 
Sbjct: 3   IRLENLPFKATINEILDFFHGYRVIPDSVSMQYNEQGLPTGTAIVAMENYYEAMAAINEL 62

Query: 169 -DRMTLGSRYIEL 180
            DR  +G R ++L
Sbjct: 63  NDR-PIGPRKVKL 74

This subgroup corresponds to the RRM5 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 77

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

 Score = 50.7 bits (122), Expect = 4e-09
 Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 6/73 (8%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM- 166
           L +  LP    ++D+ D F  F  + S   I I  +  GR  G AFVEF + ED++ A+ 
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIES---IRIVRDETGRSKGFAFVEFEDEEDAEKALE 57

Query: 167 AKDRMTLGSRYIE 179
           A +   LG R + 
Sbjct: 58  ALNGKELGGRELR 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|214636 smart00360, RRM, RNA recognition motif

 Score = 50.7 bits (122), Expect = 5e-09
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  LP    ++++ + F  F   E    +     G+  G AFVEF + ED++ A+   
Sbjct: 2   LFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEAL 61

Query: 169 DRMTLGSRYIEL 180
           +   L  R +++
Sbjct: 62  NGKELDGRPLKV 73

Length = 73

>gnl|CDD|240959 cd12515, RRM5_RBM12_like, RNA recognition motif 5 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 50.1 bits (120), Expect = 9e-09
 Identities = 24/76 (31%), Positives = 45/76 (59%), Gaps = 3/76 (3%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
             ++++ LPF+A  ++I+DFF  + +   S+ +  N +G PTGEA V F    ++ AA+ 
Sbjct: 1   TCVKVQNLPFTATIEEILDFFYGYRVIPGSVSLLYNDNGAPTGEATVAFDTHREAMAAVR 60

Query: 168 K--DRMTLGSRYIELF 181
           +   R  +G+R ++L 
Sbjct: 61  ELNGR-PIGTRKVKLT 75

This subfamily corresponds to the RRM5 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 75

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

 Score = 48.9 bits (117), Expect = 3e-08
 Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 2/70 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED-SKAAMAK 168
           L + GLPFS  K+++   FK   + +  + +  N  G+P G A+VE+ N    S+A +  
Sbjct: 5   LFVSGLPFSVTKEELEKLFKKHGVVKS-VRLVTNRSGKPKGLAYVEYENESSASQAVLKM 63

Query: 169 DRMTLGSRYI 178
           D   +  + I
Sbjct: 64  DGTEIKEKTI 73

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

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

 Score = 48.1 bits (115), Expect = 5e-08
 Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
             L +SA +DD+ +FFK+     D + I  + DGR  G   VEFA  E ++ A+ K    
Sbjct: 5   GNLSWSAEQDDLEEFFKECGEVVD-VRIAQDDDGRSKGFGHVEFATEEGAQKALEKSGEE 63

Query: 173 LGSRYI 178
           L  R I
Sbjct: 64  LLGREI 69

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

>gnl|CDD|241195 cd12751, RRM5_RBM12, RNA recognition motif 5 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 47.6 bits (113), Expect = 8e-08
 Identities = 24/74 (32%), Positives = 46/74 (62%), Gaps = 3/74 (4%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA- 167
           +++++ +PF+   D+I+DFF  + +   S+ +  +  G PTGEA V F + +++ AA+  
Sbjct: 3   VIKVQNMPFTVTVDEILDFFYGYQVIPGSVCLKFSDKGMPTGEAMVAFESRDEAMAAVVD 62

Query: 168 -KDRMTLGSRYIEL 180
             DR  +GSR ++L
Sbjct: 63  LNDR-PIGSRKVKL 75

This subgroup corresponds to the RRM5 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), which is ubiquitously expressed. It contains five distinct RNA binding motifs (RBMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 76

>gnl|CDD|240700 cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognition motif found in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, epithelial splicing regulatory proteins (ESRPs), Drosophila RNA-binding protein Fusilli, RNA-binding protein 12 (RBM12) and similar proteins

 Score = 46.8 bits (112), Expect = 1e-07
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 18 DIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVF 64
              +  V   + + TGEA+     P     AL+++   MG RY+EVF
Sbjct: 26 PPDGIHIVYDDDGRPTGEAYVEFASPEDARRALRKHNNKMGGRYIEVF 73

The family includes RRM domains in the hnRNP H protein family, G-rich sequence factor 1 (GRSF-1), ESRPs (also termed RBM35), Drosophila Fusilli, RBM12 (also termed SWAN), RBM12B, RBM19 (also termed RBD-1) and similar proteins. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. GRSF-1 is a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. Fusilli shows high sequence homology to ESRPs. It can regulate endogenous FGFR2 splicing and functions as a splicing factor. The biological roles of both, RBM12 and RBM12B, remain unclear. RBM19 is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. Members in this family contain 2~6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240947 cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 46.2 bits (110), Expect = 2e-07
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 27 KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS 66
          +  + +GEAF  L     V+ AL+++ ++MG RY+EVFRS
Sbjct: 38 REGRPSGEAFIELESEEDVEKALEKHNEHMGHRYIEVFRS 77

This subfamily corresponds to the RRM1 of hnRNP H proteins and GRSF-1. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. These proteins have similar RNA binding affinities and specifically recognize the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. Members in this family have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. They also include a cytoplasmic poly(A)+ mRNA binding protein, GRSF-1, which interacts with RNA in a G-rich element-dependent manner. They may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RRMs responsible for the RNA binding, and two auxiliary domains (an acidic alpha-helical domain and an N-terminal alanine-rich region) that may play a role in protein-protein interactions and provide binding specificity. . Length = 77

>gnl|CDD|241193 cd12749, RRM4_RBM12, RNA recognition motif 4 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 45.6 bits (108), Expect = 5e-07
 Identities = 21/79 (26%), Positives = 45/79 (56%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           +  +P+S  K DI+ F +   + E+S+ + ++++G+  G+A V+F + +D++ +    R 
Sbjct: 4   ISNIPYSITKKDILQFLEGIGVDENSVQVLVDNNGQGLGQALVQFKSEDDARKSERLHRK 63

Query: 172 TLGSRYIELFPSSHEEMDE 190
            L  R + L   + EEM +
Sbjct: 64  KLNGRDVFLHLVTAEEMRD 82

This subgroup corresponds to the RRM4 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), which is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 88

>gnl|CDD|240851 cd12405, RRM3_NCL, RNA recognition motif 3 in vertebrate nucleolin

 Score = 44.9 bits (106), Expect = 6e-07
 Identities = 24/58 (41%), Positives = 35/58 (60%), Gaps = 5/58 (8%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           +L +  L +SA +D + + F+       SI I  N +GRP G AFVEF +AED+K A+
Sbjct: 3   VLVVNNLSYSASEDSLQEVFEKAT----SIRIPQN-NGRPKGYAFVEFESAEDAKEAL 55

This subfamily corresponds to the RRM3 of ubiquitously expressed protein nucleolin, also termed protein C23, is a multifunctional major nucleolar phosphoprotein that has been implicated in various metabolic processes, such as ribosome biogenesis, cytokinesis, nucleogenesis, cell proliferation and growth, cytoplasmic-nucleolar transport of ribosomal components, transcriptional repression, replication, signal transduction, inducing chromatin decondensation, etc. Nucleolin exhibits intrinsic self-cleaving, DNA helicase, RNA helicase and DNA-dependent ATPase activities. It can be phosphorylated by many protein kinases, such as the major mitotic kinase Cdc2, casein kinase 2 (CK2), and protein kinase C-zeta. Nucleolin shares similar domain architecture with gar2 from Schizosaccharomyces pombe and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of nucleolin is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of nucleolin contains four closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which suggests that nucleolin is potentially able to interact with multiple RNA targets. The C-terminal RGG (or GAR) domain of nucleolin is rich in glycine, arginine and phenylalanine residues, and contains high levels of NG,NG-dimethylarginines. . Length = 72

>gnl|CDD|240952 cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif 2 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 44.6 bits (106), Expect = 9e-07
 Identities = 17/46 (36%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 22 VLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS 66
          +LFV   + + TG+AF +         AL ++++N+G RY+E+FRS
Sbjct: 35 ILFVTGPDGRPTGDAFVLFETEEDAQRALGKHKENLGSRYIELFRS 80

This subfamily corresponds to the RRM2 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli.Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous FGFR2 splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 80

>gnl|CDD|241192 cd12748, RRM4_RBM12B, RNA recognition motif 4 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 18/54 (33%), Positives = 27/54 (50%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
            R  PF   K ++  FF  F + ED I++  +  G   GEA V+F + E +  A
Sbjct: 5   ARNFPFDVTKVEVQKFFAPFNIDEDDIYLLYDDKGVGLGEALVKFKSEEQAMKA 58

This subgroup corresponds to the RRM4 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 76

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

 Score = 42.7 bits (101), Expect = 5e-06
 Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAKDRMT 172
           G+P+ + +D+I  +F      E  + +    D GR  G AF+ F   E +K A+A D   
Sbjct: 5   GIPYYSTEDEIRSYFSYCGEIE-ELDLMTFPDTGRFRGIAFITFKTEEAAKRALALDGED 63

Query: 173 LGSRYI 178
           +G R++
Sbjct: 64  MGGRFL 69

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

>gnl|CDD|241118 cd12674, RRM1_Nop4p, RNA recognition motif 1 in yeast nucleolar protein 4 (Nop4p) and similar proteins

 Score = 41.7 bits (98), Expect = 9e-06
 Identities = 22/64 (34%), Positives = 34/64 (53%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           L +R L FS  ++D+ DFF D    + ++ +T    G   G  FV FA  ED++ A+AK 
Sbjct: 2   LFVRNLAFSVTQEDLTDFFSDVAPIKHAVVVTDPETGESRGYGFVTFAMLEDAQEALAKL 61

Query: 170 RMTL 173
           +   
Sbjct: 62  KNKK 65

This subgroup corresponds to the RRM1 of Nop4p (also known as 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 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|241173 cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins

 Score = 41.4 bits (97), Expect = 1e-05
 Identities = 22/58 (37%), Positives = 33/58 (56%), Gaps = 4/58 (6%)

Query: 10 CTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS 66
          C I +    I    F++ +  + +GEAF  L     V  AL+++R+ MG RYVEVF+S
Sbjct: 25 CKIANGASGI---HFIYTREGRPSGEAFVELESEEDVKLALKKDRETMGHRYVEVFKS 79

This subgroup corresponds to the RRM1 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical. Both of them have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 79

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

 Score = 41.5 bits (98), Expect = 1e-05
 Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 115 LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLG 174
           L +S  +D++   F         + +  N  G+  G A+VEF N E  + A+  DR  + 
Sbjct: 7   LDYSVPEDELRKLFSK-CGEITDVRLVKNYKGKSKGYAYVEFENEESVQEALKLDRELIK 65

Query: 175 SR 176
            R
Sbjct: 66  GR 67

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

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

 Score = 41.4 bits (98), Expect = 1e-05
 Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 11/68 (16%)

Query: 114 GLPFSAGKDDIMDFFKDFVLS-------EDS-IHITMNSDGRPTGEAFVEFANAEDSKAA 165
            LP    +++++DFF   +L+        +  + + +N +      AFVEF   E++ AA
Sbjct: 8   NLPPGITEEELVDFFNQAMLAAGLNQAPGNPVLSVQINPEKN---FAFVEFRTVEEATAA 64

Query: 166 MAKDRMTL 173
           +A D +  
Sbjct: 65  LALDGIIF 72

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

>gnl|CDD|240949 cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 3/51 (5%)

Query: 17 MDIVDVLFVHKNN---KFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVF 64
          +DIVD   V   N   + TGEA+     P   + AL ++R+ +G RY+EVF
Sbjct: 25 LDIVDDGVVIVLNRRGRKTGEAYVQFATPEMANKALLKHREEIGNRYIEVF 75

This subfamily corresponds to the RRM2 of GRSF-1, a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

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

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 5/74 (6%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRP----TGEAFVEFANAEDSKAA 165
           + +R L F   +DD+   F  F    +SI I    D +      G AFV F +A  ++ A
Sbjct: 3   IYVRNLDFKLDEDDLRGIFSKFG-EVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAENA 61

Query: 166 MAKDRMTLGSRYIE 179
           +  +   LG R I 
Sbjct: 62  LQLNGTELGGRKIS 75

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

>gnl|CDD|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 = 40.7 bits (96), Expect = 2e-05
 Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 4/59 (6%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITM-NSDGRPTGEAFVEFANAEDSKAAM 166
           L +R LPF+  ++++ + F+ F  +SE  +H+ +     R  G AFV F   E +  A 
Sbjct: 2   LFVRNLPFTTTEEELRELFEAFGEISE--VHLPLDKETKRSKGFAFVSFMFPEHAVKAY 58

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

 Score = 40.7 bits (96), Expect = 2e-05
 Identities = 19/54 (35%), Positives = 28/54 (51%)

Query: 115 LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           LP++  ++D+ D F  F     +  IT    GR  G  FVE   AE++ AA+ K
Sbjct: 7   LPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

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|241185 cd12741, RRM2_Fusilli, RNA recognition motif 2 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 41.0 bits (96), Expect = 3e-05
 Identities = 19/46 (41%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 22  VLFVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS 66
           VLFV K + + TG+AF +         AL ++R+++G RY+E+FRS
Sbjct: 55  VLFVKKPDGRATGDAFVLFATEEDAPKALGKHRESIGSRYIELFRS 100

This subgroup corresponds to the RRM2 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 100

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

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 3/60 (5%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSED-SIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           L +R +PF A K ++ + F  F   +  S+ +    DG   G AFVEF   ++++ AM  
Sbjct: 3   LIVRNVPFEATKKELRELFSPF--GQVKSVRLPKKFDGSHRGFAFVEFVTKQEAQNAMEA 60

This subfamily corresponds to the RRM6 of RBM19 and RRM5 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 76

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

 Score = 40.8 bits (96), Expect = 3e-05
 Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 14/76 (18%)

Query: 114 GLPFSAGKDDIMDFFK------DFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G+  S  +DD+ +FF          L  D  H            AFVEFA+AE + +A+ 
Sbjct: 7   GIDGSLSEDDLKEFFSNCGEVTRVRLCGDRQHSARF--------AFVEFADAESALSALN 58

Query: 168 KDRMTLGSRYIELFPS 183
                LG   + + PS
Sbjct: 59  LSGTLLGGHPLRVSPS 74

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

>gnl|CDD|240948 cd12504, RRM2_hnRNPH_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 13/36 (36%), Positives = 22/36 (61%)

Query: 32 TGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK 67
          TGEA+         + AL ++++ +G RY+E+FRS 
Sbjct: 42 TGEAYVQFASQESAERALGKHKEKIGHRYIEIFRSS 77

This subfamily corresponds to the RRM2 of hnRNP H protein family which includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9). They represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing, having similar RNA binding affinities and specifically recognizing the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in the splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 77

>gnl|CDD|240846 cd12400, RRM_Nop6, RNA recognition motif in Saccharomyces cerevisiae nucleolar protein 6 (Nop6) and similar proteins

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHI-TMNSDGRPTGEAFVEFANAEDSKAAMA 167
           IL +  LP+    +D++  FK+   +  S+ + T    G+  G AFVEF  AE    A+ 
Sbjct: 2   ILFVGNLPYDTTAEDLLAHFKN-AGAPPSVRLLTDKKTGKSKGCAFVEFDTAEAMTKALK 60

Query: 168 KDRMTLGSRYI 178
                L  R I
Sbjct: 61  LHHTLLKGRKI 71

This subfamily corresponds to the RRM of Nop6, also known as Ydl213c, a component of 90S pre-ribosomal particles in yeast S. cerevisiae. It is enriched in the nucleolus and is required for 40S ribosomal subunit biogenesis. Nop6 is a non-essential putative RNA-binding protein with two N-terminal putative nuclear localisation sequences (NLS-1 and NLS-2) and an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It binds to the pre-rRNA early during transcription and plays an essential role in pre-rRNA processing. . Length = 74

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

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
           +R LPF A ++++ + F  F   +    I  +   G   G AFV+F   E ++  + 
Sbjct: 5   IRNLPFDATEEELKELFSQFGEVK-YARIVKDKLTGHSKGTAFVKFKTKESAQKCLE 60

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

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 16/53 (30%), Positives = 26/53 (49%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
            GLP+    D +  +F  F   E+++ IT    G+  G  FV F + E ++ A
Sbjct: 6   GGLPYHTTDDSLRKYFSQFGEIEEAVVITDRQTGKSRGYGFVTFKDKESAERA 58

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

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

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 16/64 (25%), Positives = 31/64 (48%)

Query: 115 LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLG 174
           LP+   ++DI +FF+   +S   +       GR  G  + EF + +    A++ +  +L 
Sbjct: 9   LPYDVTEEDIKEFFRGLNVSSVRLPREPGDPGRLRGFGYAEFEDRDSLLQALSLNDESLK 68

Query: 175 SRYI 178
           +R I
Sbjct: 69  NRRI 72

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

>gnl|CDD|241184 cd12740, RRM2_ESRP2, RNA recognition motif 2 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 37.7 bits (87), Expect = 5e-04
 Identities = 17/50 (34%), Positives = 31/50 (62%), Gaps = 1/50 (2%)

Query: 22 VLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE 70
          +LFV + + + TG+AF +         AL++++  +G+RY+E+FRS   E
Sbjct: 50 LLFVKYPDGRPTGDAFVLFACEEYAQNALKKHKGILGKRYIELFRSTAAE 99

This subgroup corresponds to the RRM2 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 107

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

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 5/79 (6%)

Query: 107 TGILRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITMNSD-GRPTGEAFVEFANAEDS-K 163
           TG L +R LP+S  +DD+   F  F  LSE  +H+ ++   G+  G A+V F + ED+ K
Sbjct: 2   TGRLFVRNLPYSCKEDDLEKLFSKFGELSE--VHVAIDKKSGKSKGFAYVLFLDPEDAVK 59

Query: 164 AAMAKDRMTLGSRYIELFP 182
           A    D      R I + P
Sbjct: 60  AYKELDGKVFQGRLIHILP 78

This subgroup corresponds to the RRM2 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 79

>gnl|CDD|240894 cd12448, RRM2_gar2, RNA recognition motif 2 in yeast protein gar2 and similar proteins

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 2/53 (3%)

Query: 115 LPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           L F A +D I + F ++     S+ +  + D GRP G  +VEF++ E ++AA+
Sbjct: 6   LSFDADEDSIYEAFGEY-GEISSVRLPTDPDSGRPKGFGYVEFSSQEAAQAAL 57

This subfamily corresponds to the RRM2 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 = 73

>gnl|CDD|240951 cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif 1 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 15/44 (34%), Positives = 24/44 (54%)

Query: 23 LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS 66
          L +    +  GEA          D ALQR++ +MG RY+EV+++
Sbjct: 32 LCLSAQGRRNGEALIRFVDQEHRDLALQRHKHHMGTRYIEVYKA 75

This subfamily corresponds to the RRM1 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B). These are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli. Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 75

>gnl|CDD|241175 cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP H, hnRNP H2, hnRNP F and similar proteins

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 23 LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE 70
          L V    + TGEAF         + AL+++++ +G RY+E+F+S R E
Sbjct: 34 LPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAE 81

This subgroup corresponds to the RRM2 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 83

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

 Score = 38.4 bits (88), Expect = 0.001
 Identities = 18/83 (21%), Positives = 34/83 (40%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN 143
                     ++S    + S      L +  LP+   ++D+ + FK F   +    +   
Sbjct: 92  KEFEEELFRSSESPKSRQKSKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDR 151

Query: 144 SDGRPTGEAFVEFANAEDSKAAM 166
             G+  G AFVEF + E ++ A+
Sbjct: 152 ETGKSRGFAFVEFESEESAEKAI 174

Length = 306

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

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 15/40 (37%), Positives = 23/40 (57%)

Query: 127 FFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           F K  V     I++ ++  G+  G AFVEFA  E++K A+
Sbjct: 28  FSKFGVGKIVGIYMPVDETGKTKGYAFVEFATPEEAKEAV 67

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

>gnl|CDD|241183 cd12739, RRM2_ESRP1, RNA recognition motif 2 in epithelial splicing regulatory protein 1 (ESRP1) and similar proteins

 Score = 36.6 bits (84), Expect = 0.002
 Identities = 17/50 (34%), Positives = 32/50 (64%), Gaps = 1/50 (2%)

Query: 22 VLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE 70
          +LFV + +++ TG+AF +         AL++++  +G+RY+E+FRS   E
Sbjct: 50 ILFVTYPDSRPTGDAFVLFACEEYAQNALKKHKDLLGKRYIELFRSTAAE 99

This subgroup corresponds to the RRM2 of ESRP1, also termed RNA-binding motif protein 35A (RBM35A), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. Additional research indicated that ESRP1 functions as a tumor suppressor in colon cancer cells. It may be involved in posttranscriptional regulation of various genes by exerting a differential effect on protein translation via 5' untranslated regions (UTRs) of mRNAs. ESRP1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 109

>gnl|CDD|241181 cd12737, RRM1_ESRP2, RNA recognition motif 1 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 35.7 bits (82), Expect = 0.002
 Identities = 17/49 (34%), Positives = 29/49 (59%)

Query: 23 LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEY 71
          L ++   +  GEA        Q D ALQR++ +MG RY+EV+++  +E+
Sbjct: 32 LCLNAQGRRNGEALVRFVNSEQRDLALQRHKHHMGSRYIEVYKATGEEF 80

This subgroup corresponds to the RRM1 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 80

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

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 14/59 (23%), Positives = 29/59 (49%), Gaps = 5/59 (8%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSE-----DSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
           +  L +S+ ++D+ +F KDF          ++    +   RP G A+ EF++ E ++  
Sbjct: 4   ISNLSYSSSEEDLEEFLKDFEPVSVLIPSQTVRGFRSRRVRPLGIAYAEFSSPEQAEKV 62

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

>gnl|CDD|241011 cd12567, RRM3_RBM19, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 5/80 (6%)

Query: 107 TGILRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKA 164
           +G L +R L ++  ++D+   F  +  LSE  +H+ ++    +P G AFV +   E +  
Sbjct: 2   SGRLFIRNLAYTCTEEDLEKLFSKYGPLSE--VHLPIDKLTKKPKGFAFVTYMIPEHAVK 59

Query: 165 AMAK-DRMTLGSRYIELFPS 183
           A A+ D      R + L PS
Sbjct: 60  AFAELDGTVFQGRLLHLLPS 79

This subgroup corresponds to the RRM3 of RBM19, also termed RNA-binding domain-1 (RBD-1), which is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|240767 cd12321, RRM1_TDP43, RNA recognition motif 1 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL 173
           GLP+   + D+ D+F  F              G+  G  FV FA+ ED    +   R  +
Sbjct: 6   GLPWKTTEQDLKDYFSTFGELLMVQVKKDPKTGQSKGFGFVRFADYEDQVKVL-SQRHMI 64

Query: 174 GSRYIEL 180
             R+ ++
Sbjct: 65  DGRWCDV 71

This subfamily corresponds to the RRM1 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 = 77

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

 Score = 34.8 bits (80), Expect = 0.004
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 4/57 (7%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           L ++ LP++   D++ + F+D V     I +    DG   G A++EF    +++ A+
Sbjct: 6   LFVKNLPYNITVDELKEVFEDAV----DIRLPSGKDGSSKGIAYIEFKTEAEAEKAL 58

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

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

 Score = 34.5 bits (80), Expect = 0.004
 Identities = 13/56 (23%), Positives = 25/56 (44%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           R LP+    + + +FF +    +    +      +  G  +V FA  ED+K A+ +
Sbjct: 5   RNLPYDTTDEQLEEFFSEVGPIKRCFVVKDKGSKKCRGFGYVTFALEEDAKRALEE 60

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	196
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.97
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.97
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.96
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.96
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.96
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.95
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.95
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.94
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.93
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.93
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	99.93
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.93
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.92
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.92
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.92
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.91
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.91
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.9
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.9
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.9
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.89
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.89
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.87
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.87
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.87
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.85
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.85
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.83
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.81
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.8
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	99.79
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.77
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.71
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.7
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.69
PLN03120	260	nucleic acid binding protein; Provisional	99.67
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.66
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.64
PLN03121	243	nucleic acid binding protein; Provisional	99.63
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.63
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.62
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	99.62
KOG0122	270	consensus Translation initiation factor 3, subunit	99.62
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.59
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.59
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.58
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.58
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.56
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.56
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.55
smart00362	72	RRM_2 RNA recognition motif.	99.55
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.54
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.53
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.52
PLN03213	759	repressor of silencing 3; Provisional	99.52
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.49
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.48
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.47
smart00360	71	RRM RNA recognition motif.	99.47
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.46
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.46
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.45
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.43
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.43
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.42
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.41
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.4
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.36
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.36
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.36
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.35
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.35
smart00361	70	RRM_1 RNA recognition motif.	99.31
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.27
smart00361	70	RRM_1 RNA recognition motif.	99.27
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.27
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.25
PLN03120	260	nucleic acid binding protein; Provisional	99.25
KOG0122	270	consensus Translation initiation factor 3, subunit	99.23
PLN03121	243	nucleic acid binding protein; Provisional	99.23
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.22
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.21
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.2
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.19
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.16
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.16
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	99.14
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.14
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.09
KOG0226	290	consensus RNA-binding proteins [General function p	99.09
smart00360	71	RRM RNA recognition motif.	99.09
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.09
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.04
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.04
KOG0533	243	consensus RRM motif-containing protein [RNA proces	99.04
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.01
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.01
smart00362	72	RRM_2 RNA recognition motif.	99.0
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.97
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.96
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	98.95
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.94
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.94
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.93
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.92
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.92
PLN03213	759	repressor of silencing 3; Provisional	98.92
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.88
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.87
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.87
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.86
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.86
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.83
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.82
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.82
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.81
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.8
KOG4210	285	consensus Nuclear localization sequence binding pr	98.79
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.74
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	98.71
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.7
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.67
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.66
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.62
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	98.62
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.6
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.55
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.46
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.42
KOG1995	351	consensus Conserved Zn-finger protein [General fun	98.37
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	98.36
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.27
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.25
KOG0226	290	consensus RNA-binding proteins [General function p	98.22
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.19
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	98.18
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.17
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.16
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.15
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.14
KOG0151	877	consensus Predicted splicing regulator, contains R	98.11
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.1
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.99
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.92
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.79
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.78
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.53
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	97.51
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.49
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	97.48
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	97.46
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.29
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	97.24
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.21
KOG2314	698	consensus Translation initiation factor 3, subunit	97.13
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	97.06
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	97.06
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	97.02
KOG2314	698	consensus Translation initiation factor 3, subunit	96.99
KOG1855	484	consensus Predicted RNA-binding protein [General f	96.98
KOG1996	378	consensus mRNA splicing factor [RNA processing and	96.97
KOG3152	278	consensus TBP-binding protein, activator of basal	96.86
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	96.84
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.76
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.67
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.63
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.59
KOG4660	549	consensus Protein Mei2, essential for commitment t	96.27
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.26
KOG4210	285	consensus Nuclear localization sequence binding pr	96.18
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	95.87
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	95.84
KOG1996	378	consensus mRNA splicing factor [RNA processing and	95.65
KOG1995	351	consensus Conserved Zn-finger protein [General fun	95.61
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	95.55
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.45
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	95.38
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	95.2
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	95.2
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.16
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	95.15
KOG2135	526	consensus Proteins containing the RNA recognition	95.14
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	94.63
KOG2135	526	consensus Proteins containing the RNA recognition	94.22
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	94.2
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	93.04
KOG0151	877	consensus Predicted splicing regulator, contains R	92.54
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	92.46
KOG2591	684	consensus c-Mpl binding protein, contains La domai	92.33
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	92.1
KOG1855	484	consensus Predicted RNA-binding protein [General f	91.8
KOG2068	327	consensus MOT2 transcription factor [Transcription	91.78
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	90.81
PF03468	116	XS: XS domain; InterPro: IPR005380 The XS (rice ge	90.71
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	89.91
KOG4410	396	consensus 5-formyltetrahydrofolate cyclo-ligase [C	89.54
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	89.35
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	89.03
KOG2891	445	consensus Surface glycoprotein [General function p	87.34
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	85.98
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	85.91
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	83.6

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.97  E-value=8.4e-30  Score=207.41  Aligned_cols=151  Identities=17%  Similarity=0.210  Sum_probs=129.6

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||++|+++|+.||.|++|.+ .| .+|+++|||||+|.++++|++|| ++++..+.++.|.|..+.+..         
T Consensus       118 ~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~---------  188 (346)
T TIGR01659       118 DMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGG---------  188 (346)
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccc---------
Confidence            4799999999999999999854 45 48999999999999999999999 589999999999996544210         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                                             ......+|||.|||+.+|+++|+++|++||.+. .+.++.+. +|+++|+|||+|.+
T Consensus       189 -----------------------~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~-~v~i~~d~~tg~~kG~aFV~F~~  244 (346)
T TIGR01659       189 -----------------------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIV-QKNILRDKLTGTPRGVAFVRFNK  244 (346)
T ss_pred             -----------------------cccccceeEEeCCCCcccHHHHHHHHHhcCCEE-EEEEeecCCCCccceEEEEEECC
Confidence                                   011235799999999999999999999999776 78888876 89999999999999


Q ss_pred             HHHHHHHHHh-CCCccCC--eEEEEEECChH
Q 029263          159 AEDSKAAMAK-DRMTLGS--RYIELFPSSHE  186 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~g--r~i~V~~~~~~  186 (196)
                      .++|++|+.. |+..+.+  ++|+|.++...
T Consensus       245 ~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       245 REEAQEAISALNNVIPEGGSQPLTVRLAEEH  275 (346)
T ss_pred             HHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence            9999999975 9998865  79999998754

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).

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=99.97  E-value=6e-30  Score=208.15  Aligned_cols=167  Identities=34%  Similarity=0.609  Sum_probs=147.9

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccccCC
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVR   83 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~   83 (196)
                      +|++||.+||+. +.|.++++...+|+..|.|||+|.+++|+++||+++...|+.|+|+|+.+...++.+.+....    
T Consensus        22 at~~ei~~Ff~~-~~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d~~~~~~g----   96 (510)
T KOG4211|consen   22 ATEKEILDFFSN-CGIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEADWVMRPGG----   96 (510)
T ss_pred             ccHHHHHHHHhc-CceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCccccccccCCC----
Confidence            699999999999 889998777788999999999999999999999999999999999999998776544332210    


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHH
Q 029263           84 GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSK  163 (196)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~  163 (196)
                                       ........+|.|++||+.||++||.+||+...++.+.|.++.+..|++.|.|||.|++++.|+
T Consensus        97 -----------------~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae  159 (510)
T KOG4211|consen   97 -----------------PNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAE  159 (510)
T ss_pred             -----------------CCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHH
Confidence                             001124568999999999999999999999999887788899999999999999999999999


Q ss_pred             HHHHhCCCccCCeEEEEEECChHHHHHHH
Q 029263          164 AAMAKDRMTLGSRYIELFPSSHEEMDEAL  192 (196)
Q Consensus       164 ~Al~~~g~~l~gr~i~V~~~~~~~~~~~~  192 (196)
                      .||..|...|+.|.|.|..++..|+..+.
T Consensus       160 ~Al~rhre~iGhRYIEvF~Ss~~e~~~~~  188 (510)
T KOG4211|consen  160 IALGRHRENIGHRYIEVFRSSRAEVKRAA  188 (510)
T ss_pred             HHHHHHHHhhccceEEeehhHHHHHHhhc
Confidence            99999999999999999999999998874

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

Probab=99.96  E-value=6.3e-29  Score=212.62  Aligned_cols=161  Identities=19%  Similarity=0.222  Sum_probs=131.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|.+|. +.| .+|+++|||||+|.+.++|++|| ++|+..++|+.|.|.......         
T Consensus       118 ~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p---------  188 (612)
T TIGR01645       118 ELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMP---------  188 (612)
T ss_pred             CCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccccc---------
Confidence            468999999999999999985 455 48999999999999999999999 589999999999995322100         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                          ...+..+        ..........+|||+|||+++++++|+++|+.||.+. ++++..+. +|.++|||||+|.+
T Consensus       189 ----~a~~~~~--------~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~-svrl~~D~~tgksKGfGFVeFe~  255 (612)
T TIGR01645       189 ----QAQPIID--------MVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIV-KCQLARAPTGRGHKGYGFIEYNN  255 (612)
T ss_pred             ----ccccccc--------cccccccccceEEeecCCCCCCHHHHHHHHhhcCCee-EEEEEecCCCCCcCCeEEEEECC
Confidence                0000000        0001112346899999999999999999999999876 89998886 78899999999999


Q ss_pred             HHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          159 AEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .++|.+|+.. |+..|+|+.|+|..+..
T Consensus       256 ~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       256 LQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             HHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            9999999975 99999999999998763

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=99.96  E-value=1.4e-28  Score=201.95  Aligned_cols=184  Identities=15%  Similarity=0.148  Sum_probs=131.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCC--eeEEEEEcChHH------H
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFRSKRQE------Y   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~~~~~~------~   71 (196)
                      ..|+++|+++|+.||.|..+.+ .+ .+|.++|||||+|.+.++|+.|| .+|+..+.+  +.|.|..+....      +
T Consensus       100 ~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~~~~~~  179 (352)
T TIGR01661       100 TMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGL  179 (352)
T ss_pred             cCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcCCchhc
Confidence            4589999999999999998743 44 47899999999999999999999 689988876  566775543221      1


Q ss_pred             HHHHhhccc--cCCCC-C--------------------C-----------------------CCCCCCCCC--------C
Q 029263           72 YKAIANEVS--DVRGG-S--------------------P-----------------------HRSIPRAKS--------H   97 (196)
Q Consensus        72 ~~~~~~~~~--~~~~~-~--------------------~-----------------------~~~~~~~~~--------~   97 (196)
                      .........  ..+.. +                    .                       ....+....        .
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (352)
T TIGR01661       180 LSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATDGQTAGLAAG  259 (352)
T ss_pred             CchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCccccccccccccC
Confidence            000000000  00000 0                    0                       000000000        0


Q ss_pred             CCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCC
Q 029263           98 DEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus        98 ~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      .........+.+|||+|||+++++++|+++|++||.+. +++++.+. +|.++|||||+|.+.++|.+|+.. ||..|+|
T Consensus       260 ~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~-~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~g  338 (352)
T TIGR01661       260 AQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQ-NVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGN  338 (352)
T ss_pred             CCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeE-EEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            00001122345799999999999999999999999877 79999888 999999999999999999999975 9999999


Q ss_pred             eEEEEEECChHH
Q 029263          176 RYIELFPSSHEE  187 (196)
Q Consensus       176 r~i~V~~~~~~~  187 (196)
                      |.|+|.+++.++
T Consensus       339 r~i~V~~~~~~~  350 (352)
T TIGR01661       339 RVLQVSFKTNKA  350 (352)
T ss_pred             eEEEEEEccCCC
Confidence            999999997654

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

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

Probab=99.96  E-value=4.4e-28  Score=205.54  Aligned_cols=161  Identities=20%  Similarity=0.236  Sum_probs=131.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..|+++|+++|+.||.|.+|. +.| .+|+++|||||+|.+.++|.+||.+++..+.|++|.|..............   
T Consensus       100 ~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~~~~~~~~~~---  176 (457)
T TIGR01622       100 KARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQAEKNRAAKAA---  176 (457)
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecchhhhhhhhcc---
Confidence            468999999999999999985 455 489999999999999999999999999999999999865442211000000   


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~  159 (196)
                                     ...  ........+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.
T Consensus       177 ---------------~~~--~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~-~v~~~~d~~~g~~~g~afV~f~~~  238 (457)
T TIGR01622       177 ---------------THQ--PGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIE-DVQLHRDPETGRSKGFGFIQFHDA  238 (457)
T ss_pred             ---------------ccc--CCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeE-EEEEEEcCCCCccceEEEEEECCH
Confidence                           000  00011257899999999999999999999999776 78888877 679999999999999


Q ss_pred             HHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          160 EDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       160 ~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      ++|.+|+. +||..|+|+.|.|.++.
T Consensus       239 e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       239 EEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             HHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            99999997 49999999999999975

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

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

Probab=99.96  E-value=9.3e-28  Score=193.26  Aligned_cols=180  Identities=17%  Similarity=0.218  Sum_probs=136.0

Q ss_pred             chHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-Hhccccc-CCeeEEEEEcC------------
Q 029263            4 PQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM-GRRYVEVFRSK------------   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l-~~~~i~v~~~~------------   67 (196)
                      ..|+||..+|++.|+|.++. ++| .+|.++|||||.|.++++|+.|| ++|+..+ .|+.|.|+.+.            
T Consensus        95 ~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK  174 (506)
T KOG0117|consen   95 VFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPK  174 (506)
T ss_pred             ccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCc
Confidence            47899999999999999995 567 49999999999999999999999 5788876 46777775542            


Q ss_pred             ---hHHHHHHHhhccc-----------cCCCC--------------------------------CCCCCCCCCCCCCCCC
Q 029263           68 ---RQEYYKAIANEVS-----------DVRGG--------------------------------SPHRSIPRAKSHDEGK  101 (196)
Q Consensus        68 ---~~~~~~~~~~~~~-----------~~~~~--------------------------------~~~~~~~~~~~~~~~~  101 (196)
                         +.+....+.....           +....                                .+-.+|..+..... .
T Consensus       175 ~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~d-e  253 (506)
T KOG0117|consen  175 TKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPD-E  253 (506)
T ss_pred             cccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCC-h
Confidence               3334443333211           00000                                11113332222211 2


Q ss_pred             CCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          102 DSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       102 ~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      +.+...+.|||+||+.++|++.|+++|+.||.++ .|+.++|       ||||+|.++++|.+||.. ||+.|.|..|.|
T Consensus       254 d~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~ve-RVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEv  325 (506)
T KOG0117|consen  254 DTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVE-RVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEV  325 (506)
T ss_pred             hhhhheeeeeeeccchhhhHHHHHHHHHhccceE-Eeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEE
Confidence            3566678999999999999999999999999877 7776655       999999999999999976 999999999999


Q ss_pred             EECChHHHHHHH
Q 029263          181 FPSSHEEMDEAL  192 (196)
Q Consensus       181 ~~~~~~~~~~~~  192 (196)
                      +||++.+-++.-
T Consensus       326 tLAKP~~k~k~~  337 (506)
T KOG0117|consen  326 TLAKPVDKKKKE  337 (506)
T ss_pred             EecCChhhhccc
Confidence            999998766553

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

Probab=99.95  E-value=4e-27  Score=204.27  Aligned_cols=173  Identities=16%  Similarity=0.233  Sum_probs=139.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccC----CeeEEEEEcChHHHHHH-H
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMG----RRYVEVFRSKRQEYYKA-I   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~----~~~i~v~~~~~~~~~~~-~   75 (196)
                      .+|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+|+ .+++..+.    ++.+.|........... .
T Consensus       189 ~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~  268 (562)
T TIGR01628       189 SVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAEL  268 (562)
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHH
Confidence            479999999999999999985 45779999999999999999999999 58999998    88888866543322111 1


Q ss_pred             hhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEE
Q 029263           76 ANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVE  155 (196)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~  155 (196)
                      ........               ........+..|||+|||+++|+++|+++|+.||.+. +++++.+.+|.++|+|||+
T Consensus       269 ~~~~~~~~---------------~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~-~~~i~~d~~g~~~g~gfV~  332 (562)
T TIGR01628       269 RRKFEELQ---------------QERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEIT-SAKVMLDEKGVSRGFGFVC  332 (562)
T ss_pred             HhhHHhhh---------------hhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeE-EEEEEECCCCCcCCeEEEE
Confidence            11000000               0001122456799999999999999999999999876 8999999999999999999


Q ss_pred             eCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHHHH
Q 029263          156 FANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEA  191 (196)
Q Consensus       156 F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~  191 (196)
                      |.+.++|.+|+.. ||..++|++|.|.++.+++...+
T Consensus       333 f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~~~~~  369 (562)
T TIGR01628       333 FSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQRRA  369 (562)
T ss_pred             eCCHHHHHHHHHHhcCCeeCCceeEEEeccCcHHHHH
Confidence            9999999999975 99999999999999998765543

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.95  E-value=6.4e-27  Score=192.19  Aligned_cols=150  Identities=14%  Similarity=0.216  Sum_probs=127.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||+||+++|+.||.|.+|.+ .+ .+|+++|||||+|.+.++|.+|| .+++..++|+.|.|..+.+..         
T Consensus        14 ~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~---------   84 (352)
T TIGR01661        14 TMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSS---------   84 (352)
T ss_pred             CCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccc---------
Confidence            4699999999999999999854 45 48999999999999999999999 589999999999996543110         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                                             ......+|||+|||..+++++|+++|++||.+. .+.++.+. +|.++|+|||+|.+
T Consensus        85 -----------------------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~-~~~~~~~~~~~~~~g~~fv~f~~  140 (352)
T TIGR01661        85 -----------------------DSIKGANLYVSGLPKTMTQHELESIFSPFGQII-TSRILSDNVTGLSKGVGFIRFDK  140 (352)
T ss_pred             -----------------------cccccceEEECCccccCCHHHHHHHHhccCCEE-EEEEEecCCCCCcCcEEEEEECC
Confidence                                   011245799999999999999999999999766 67777665 78999999999999


Q ss_pred             HHHHHHHHHh-CCCccCC--eEEEEEECCh
Q 029263          159 AEDSKAAMAK-DRMTLGS--RYIELFPSSH  185 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~g--r~i~V~~~~~  185 (196)
                      .++|+.|+.. ||..+.|  ++|.|.++..
T Consensus       141 ~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~  170 (352)
T TIGR01661       141 RDEADRAIKTLNGTTPSGCTEPITVKFANN  170 (352)
T ss_pred             HHHHHHHHHHhCCCccCCCceeEEEEECCC
Confidence            9999999975 9999877  6789988753

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

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

Probab=99.94  E-value=2.6e-26  Score=199.18  Aligned_cols=151  Identities=19%  Similarity=0.262  Sum_probs=129.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||++|+++|++||.|.+|.+ .|. +++++|||||+|.+.++|++|| .+++..+.|+.|.|..+.+...        
T Consensus        11 ~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~--------   82 (562)
T TIGR01628        11 DVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPS--------   82 (562)
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccccc--------
Confidence            5799999999999999999854 454 7999999999999999999999 5788889999999966542110        


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA  159 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~  159 (196)
                                            ........|||+|||.++|+++|+++|+.||.+. +|++..+.+|+++|||||+|.+.
T Consensus        83 ----------------------~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~-~~~i~~~~~g~skg~afV~F~~~  139 (562)
T TIGR01628        83 ----------------------LRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNIL-SCKVATDENGKSRGYGFVHFEKE  139 (562)
T ss_pred             ----------------------ccccCCCceEEcCCCccCCHHHHHHHHHhcCCcc-eeEeeecCCCCcccEEEEEECCH
Confidence                                  0001234799999999999999999999999776 79999999999999999999999


Q ss_pred             HHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          160 EDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       160 ~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ++|.+|+.. ||..+.|+.|.|....
T Consensus       140 e~A~~Ai~~lng~~~~~~~i~v~~~~  165 (562)
T TIGR01628       140 ESAKAAIQKVNGMLLNDKEVYVGRFI  165 (562)
T ss_pred             HHHHHHHHHhcccEecCceEEEeccc
Confidence            999999975 9999999999986543

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

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

Probab=99.93  E-value=1.8e-25  Score=170.12  Aligned_cols=159  Identities=18%  Similarity=0.234  Sum_probs=127.3

Q ss_pred             hHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            5 QVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      +-++|++.|.+||+|.++ ++.|. +++++||+||-|.++++|+.|| +|||+-||+|.|+-..+++...     .    
T Consensus        75 ~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~-----e----  145 (321)
T KOG0148|consen   75 DNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPS-----E----  145 (321)
T ss_pred             chHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCcc-----c----
Confidence            457999999999999997 45664 9999999999999999999999 7999999999998866654430     0    


Q ss_pred             CCCCCCCCCCCCCCCCCCC-CCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEG-KDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                       .+..       +...+.- ......+.+|||+|++.-.|+++|++.|++||.+. .|++.++     +|||||.|.+.|
T Consensus       146 -~n~~-------~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~-EVRvFk~-----qGYaFVrF~tkE  211 (321)
T KOG0148|consen  146 -MNGK-------PLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQ-EVRVFKD-----QGYAFVRFETKE  211 (321)
T ss_pred             -cCCC-------CccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcce-EEEEecc-----cceEEEEecchh
Confidence             0000       1111110 11234567899999999999999999999999665 6888754     689999999999


Q ss_pred             HHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          161 DSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       161 ~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      .|..|+.. |+..++|..++.++.+..
T Consensus       212 aAahAIv~mNntei~G~~VkCsWGKe~  238 (321)
T KOG0148|consen  212 AAAHAIVQMNNTEIGGQLVRCSWGKEG  238 (321)
T ss_pred             hHHHHHHHhcCceeCceEEEEeccccC
Confidence            99999965 999999999999998653

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

Probab=99.93  E-value=6.4e-25  Score=166.47  Aligned_cols=182  Identities=15%  Similarity=0.162  Sum_probs=136.7

Q ss_pred             CchHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH--------
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY--------   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~--------   71 (196)
                      +-|+|+|+.+|++.|+|+++ ++.|+ +|.+-||+||-|-+++||++|+ .+||..|..+.|+|..+.+...        
T Consensus        52 ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~Ik~aNLY  131 (360)
T KOG0145|consen   52 NMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDSIKDANLY  131 (360)
T ss_pred             ccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhhhcccceE
Confidence            56899999999999999998 46676 9999999999999999999999 6899999999999976542210        


Q ss_pred             ------------HHHH----hhc-----------------------------------cccCCC----------------
Q 029263           72 ------------YKAI----ANE-----------------------------------VSDVRG----------------   84 (196)
Q Consensus        72 ------------~~~~----~~~-----------------------------------~~~~~~----------------   84 (196)
                                  .+.+    ...                                   .+....                
T Consensus       132 vSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq  211 (360)
T KOG0145|consen  132 VSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQ  211 (360)
T ss_pred             EecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCccc
Confidence                        0000    000                                   000000                


Q ss_pred             -----------CCCCCCCCCC-----C---------------CCC-------------CCCCCCCcccEEEEcCCCCCCC
Q 029263           85 -----------GSPHRSIPRA-----K---------------SHD-------------EGKDSAVHTGILRLRGLPFSAG  120 (196)
Q Consensus        85 -----------~~~~~~~~~~-----~---------------~~~-------------~~~~~~~~~~~l~v~nLp~~~t  120 (196)
                                 .+|.+...++     .               ...             .-+.....++||||.||.++++
T Consensus       212 ~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~d  291 (360)
T KOG0145|consen  212 KTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDAD  291 (360)
T ss_pred             ccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCCch
Confidence                       0000000000     0               000             0022334579999999999999


Q ss_pred             HHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          121 KDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       121 ~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      |.-|+++|++||.+. +|++++|. +.+++|||||.+.+.++|-.|+. +||+.|++|.|+|+..+.
T Consensus       292 e~~LWQlFgpFGAv~-nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn  357 (360)
T KOG0145|consen  292 ESILWQLFGPFGAVT-NVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN  357 (360)
T ss_pred             HhHHHHHhCccccee-eEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence            999999999999876 89999998 59999999999999999999995 599999999999998754

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=99.93  E-value=1e-25  Score=178.60  Aligned_cols=190  Identities=35%  Similarity=0.567  Sum_probs=152.4

Q ss_pred             chHHHHHHHhccc----CcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhc
Q 029263            4 PQVQVLCTIHHQL----MDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANE   78 (196)
Q Consensus         4 ~te~dl~~~F~~~----g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~   78 (196)
                      .|+.|+.+||..-    +..+.|+++ .++|+..|-|||.|..+++|+.||.+|++.||.|+|++|+++..++...+...
T Consensus       173 at~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRSTaaEvqqvlnr~  252 (508)
T KOG1365|consen  173 ATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRSTAAEVQQVLNRE  252 (508)
T ss_pred             cchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHHHHhh
Confidence            5889999999742    344567755 46999999999999999999999999999999999999999999998888776


Q ss_pred             cccCCCCCCCC--CCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCcc--ceEEEEeCCCCCCceEEEE
Q 029263           79 VSDVRGGSPHR--SIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSE--DSIHITMNSDGRPTGEAFV  154 (196)
Q Consensus        79 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~--~~v~l~~~~~g~~~G~afV  154 (196)
                      ...........  -...+....   .......||.+++|||++|.++|..||..|....  ..|+++.+..|++.|.|||
T Consensus       253 ~s~pLi~~~~sp~~p~~p~~~~---p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFI  329 (508)
T KOG1365|consen  253 VSEPLIPGLTSPLLPGGPARLV---PPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFI  329 (508)
T ss_pred             ccccccCCCCCCCCCCCccccC---CCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhh
Confidence            53221111100  000011111   1122367999999999999999999999998433  3589999999999999999


Q ss_pred             EeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHHHHHHcCC
Q 029263          155 EFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEALSRGR  196 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~~~~~~  196 (196)
                      +|.+.++|.+|... +++...+|+|+|..++.+|+++++++++
T Consensus       330 qm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~eeln~vL~~g~  372 (508)
T KOG1365|consen  330 QMRNAERARAAAQKCHKKLMKSRYIEVFPCSVEELNEVLSGGL  372 (508)
T ss_pred             hhhhhHHHHHHHHHHHHhhcccceEEEeeccHHHHHHHHhcCc
Confidence            99999999999976 8777789999999999999999998874

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

Probab=99.93  E-value=2.3e-24  Score=185.02  Aligned_cols=178  Identities=14%  Similarity=0.170  Sum_probs=123.4

Q ss_pred             CchHHHHHHHhcccCcce--------eEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIV--------DVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKA   74 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~--------~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~   74 (196)
                      ..|+++|++||+.|+...        .++.....++.+|||||+|.+.++|..||.+++..+.|+.|.|.....  +...
T Consensus       186 ~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~~l~v~r~~~--~~~~  263 (509)
T TIGR01642       186 EFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHD--YIPV  263 (509)
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhcCCCeEeeCceeEecCccc--cCCc
Confidence            469999999999752211        011111234568999999999999999999999999999998854321  1000


Q ss_pred             HhhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEE
Q 029263           75 IANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAF  153 (196)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~af  153 (196)
                      ....... ....+.....................+|||+|||+.+|+++|+++|+.||.+. .+.++.+. +|.++||||
T Consensus       264 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~-~~~~~~~~~~g~~~g~af  341 (509)
T TIGR01642       264 PQITPEV-SQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLK-AFNLIKDIATGLSKGYAF  341 (509)
T ss_pred             cccCCCC-CCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEecCCCCCcCeEEE
Confidence            0000000 00000000000000001111223457899999999999999999999999776 78888775 899999999


Q ss_pred             EEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          154 VEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       154 V~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      |+|.+.++|..|+.. ||..|+|+.|.|.++.
T Consensus       342 v~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~  373 (509)
T TIGR01642       342 CEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC  373 (509)
T ss_pred             EEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence            999999999999964 9999999999999974

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

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

Probab=99.92  E-value=3.9e-25  Score=177.53  Aligned_cols=152  Identities=18%  Similarity=0.207  Sum_probs=127.0

Q ss_pred             CchHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHH-Hhccc-ccC--CeeEEEEEcChHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQ-NMG--RRYVEVFRSKRQEYYKAIA   76 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~-~l~--~~~i~v~~~~~~~~~~~~~   76 (196)
                      .|||.||+++|++||.|.+| +++|+ +|.++||+||.|.+.++|.+|+ .+++. .|-  ..+|.|.++..+..     
T Consensus        45 t~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~e-----  119 (510)
T KOG0144|consen   45 TASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERE-----  119 (510)
T ss_pred             cccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhh-----
Confidence            69999999999999999998 56776 9999999999999999999999 45443 443  35677766653321     


Q ss_pred             hccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEe
Q 029263           77 NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEF  156 (196)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F  156 (196)
                                                -..+...|||+-|+..+||.+++++|+.||.++ .++|++|+.|.++|+|||+|
T Consensus       120 --------------------------r~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ie-d~~ilrd~~~~sRGcaFV~f  172 (510)
T KOG0144|consen  120 --------------------------RIVEERKLFVGMLSKQCTENEVREIFSRFGHIE-DCYILRDPDGLSRGCAFVKF  172 (510)
T ss_pred             --------------------------ccccchhhhhhhccccccHHHHHHHHHhhCccc-hhhheecccccccceeEEEE
Confidence                                      012356899999999999999999999999887 89999999999999999999


Q ss_pred             CCHHHHHHHHHh-CCC-ccCC--eEEEEEECChH
Q 029263          157 ANAEDSKAAMAK-DRM-TLGS--RYIELFPSSHE  186 (196)
Q Consensus       157 ~~~~~A~~Al~~-~g~-~l~g--r~i~V~~~~~~  186 (196)
                      .+.+-|..|+.. ||. .+.|  .+|.|.++.++
T Consensus       173 stke~A~~Aika~ng~~tmeGcs~PLVVkFADtq  206 (510)
T KOG0144|consen  173 STKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQ  206 (510)
T ss_pred             ehHHHHHHHHHhhccceeeccCCCceEEEecccC
Confidence            999999999975 764 5554  78999999754

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

Probab=99.92  E-value=3.8e-24  Score=176.21  Aligned_cols=180  Identities=19%  Similarity=0.306  Sum_probs=129.6

Q ss_pred             HHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEc-ChHHHHHHH-------
Q 029263            6 VQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRS-KRQEYYKAI-------   75 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~-~~~~~~~~~-------   75 (196)
                      ++||+.+|+.||.|++|.|. ...|+-.|||||.|....+|..||+ .|+..++||+|.|-.+ ....|....       
T Consensus       131 ~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~  210 (678)
T KOG0127|consen  131 KPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSL  210 (678)
T ss_pred             cHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhh
Confidence            46999999999999999766 4577777999999999999999995 7999999999998443 322221100       


Q ss_pred             hhcc----------ccCC--------CCCC--C-CCC-----------------------CCCCCCC----C--CCCCCC
Q 029263           76 ANEV----------SDVR--------GGSP--H-RSI-----------------------PRAKSHD----E--GKDSAV  105 (196)
Q Consensus        76 ~~~~----------~~~~--------~~~~--~-~~~-----------------------~~~~~~~----~--~~~~~~  105 (196)
                      ....          .+..        ..+.  . .+.                       +....+.    .  -.+...
T Consensus       211 Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~  290 (678)
T KOG0127|consen  211 KKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENIT  290 (678)
T ss_pred             hhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCcccchhcccccccccc
Confidence            0000          0000        0000  0 000                       0000000    0  012223


Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh------CC-CccCCeE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK------DR-MTLGSRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~------~g-~~l~gr~  177 (196)
                      .+.+|||+||||++|+++|.++|+.||.+. ++.|+.++ ||.++|.|||.|.++.+|..||..      .| ..|.||.
T Consensus       291 ~~~tVFvRNL~fD~tEEel~~~fskFG~v~-ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~  369 (678)
T KOG0127|consen  291 EGKTVFVRNLPFDTTEEELKEHFSKFGEVK-YAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRL  369 (678)
T ss_pred             ccceEEEecCCccccHHHHHHHHHhhccce-eEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccE
Confidence            458999999999999999999999999876 77887777 999999999999999999999953      24 7889999


Q ss_pred             EEEEECChH
Q 029263          178 IELFPSSHE  186 (196)
Q Consensus       178 i~V~~~~~~  186 (196)
                      |.|+++-..
T Consensus       370 Lkv~~Av~R  378 (678)
T KOG0127|consen  370 LKVTLAVTR  378 (678)
T ss_pred             Eeeeeccch
Confidence            999999654

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

Probab=99.92  E-value=1.1e-23  Score=179.57  Aligned_cols=179  Identities=16%  Similarity=0.196  Sum_probs=124.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||+|.+|.++..   .+|+|||+|.+.++|..|| .+|+..+.|+.|.|..+..............+
T Consensus       287 ~vt~~~L~~lF~~yG~V~~vki~~~---~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~  363 (481)
T TIGR01649       287 KVNCDRLFNLFCVYGNVERVKFMKN---KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDD  363 (481)
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEeC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcC
Confidence            4689999999999999999865421   3589999999999999999 58999999999999776533211000000000


Q ss_pred             CCC--C-CCCCCCCCCCCCC--CCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCC-ccceEEEEeCCCCCCceEEEEE
Q 029263           82 VRG--G-SPHRSIPRAKSHD--EGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVL-SEDSIHITMNSDGRPTGEAFVE  155 (196)
Q Consensus        82 ~~~--~-~~~~~~~~~~~~~--~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~-~~~~v~l~~~~~g~~~G~afV~  155 (196)
                      ...  . -......+.....  ........+.+|||+|||+++|+++|+++|+.||. ....|++....++ .+|+|||+
T Consensus       364 ~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~~-~~~~gfVe  442 (481)
T TIGR01649       364 GLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDNE-RSKMGLLE  442 (481)
T ss_pred             CCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCCC-cceeEEEE
Confidence            000  0 0000000000000  00011234578999999999999999999999996 2336666544444 68999999


Q ss_pred             eCCHHHHHHHHHh-CCCccCCeE------EEEEECCh
Q 029263          156 FANAEDSKAAMAK-DRMTLGSRY------IELFPSSH  185 (196)
Q Consensus       156 F~~~~~A~~Al~~-~g~~l~gr~------i~V~~~~~  185 (196)
                      |.+.++|..||.. |++.|.|+.      |+|+.+++
T Consensus       443 F~~~e~A~~Al~~ln~~~l~~~~~~~~~~lkv~fs~~  479 (481)
T TIGR01649       443 WESVEDAVEALIALNHHQLNEPNGSAPYHLKVSFSTS  479 (481)
T ss_pred             cCCHHHHHHHHHHhcCCccCCCCCCccceEEEEeccC
Confidence            9999999999975 999999985      99998864

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

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

Probab=99.91  E-value=3.6e-24  Score=176.32  Aligned_cols=179  Identities=18%  Similarity=0.250  Sum_probs=134.9

Q ss_pred             chHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      .|.++|.++||.+|.|-.+.++ + ..+.++||+||.|+..+|+++|| +..+..++|+.|.|.++.+............
T Consensus        17 ~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~   96 (678)
T KOG0127|consen   17 STGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGEN   96 (678)
T ss_pred             cchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccc
Confidence            4788999999998888886544 3 36789999999999999999999 5788899999999977664432221111100


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                        ..    ..-+..++...........++|.|+|||+.|.+.+|+.+|+.||.+. .|.|++...|...|||||.|....
T Consensus        97 --~~----veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~-Ei~IP~k~dgklcGFaFV~fk~~~  169 (678)
T KOG0127|consen   97 --KA----VEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVV-EIVIPRKKDGKLCGFAFVQFKEKK  169 (678)
T ss_pred             --hh----hhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEE-EEEcccCCCCCccceEEEEEeeHH
Confidence              00    00000000000001112357999999999999999999999999665 599998888888899999999999


Q ss_pred             HHHHHHHh-CCCccCCeEEEEEECChHHHH
Q 029263          161 DSKAAMAK-DRMTLGSRYIELFPSSHEEMD  189 (196)
Q Consensus       161 ~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~  189 (196)
                      +|..||.. |+..|+||+|-|.||-..+..
T Consensus       170 dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~y  199 (678)
T KOG0127|consen  170 DAEKALEFFNGNKIDGRPVAVDWAVDKDTY  199 (678)
T ss_pred             HHHHHHHhccCceecCceeEEeeecccccc
Confidence            99999976 999999999999999766543

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

Probab=99.91  E-value=9.2e-24  Score=180.63  Aligned_cols=146  Identities=18%  Similarity=0.179  Sum_probs=117.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccC-CeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMG-RRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~-~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||++|+++|+.||.|.++. ++|.+|+++|||||+|.+.++|++||+ +|+..+. ++.+.|..+.            
T Consensus        69 ~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~------------  136 (578)
T TIGR01648        69 DLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV------------  136 (578)
T ss_pred             CCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc------------
Confidence            579999999999999999984 568899999999999999999999995 6777664 5655552221            


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEe--CCCCCCceEEEEEeC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM--NSDGRPTGEAFVEFA  157 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~--~~~g~~~G~afV~F~  157 (196)
                                                ...+|||+|||.++|+++|.++|+.++.....+.+..  ...++++|||||+|.
T Consensus       137 --------------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~  190 (578)
T TIGR01648       137 --------------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYE  190 (578)
T ss_pred             --------------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcC
Confidence                                      2468999999999999999999999863221333322  236788999999999


Q ss_pred             CHHHHHHHHHh--C-CCccCCeEEEEEECChH
Q 029263          158 NAEDSKAAMAK--D-RMTLGSRYIELFPSSHE  186 (196)
Q Consensus       158 ~~~~A~~Al~~--~-g~~l~gr~i~V~~~~~~  186 (196)
                      +.++|..|+..  + ...+.|+.|.|.++.++
T Consensus       191 s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~  222 (578)
T TIGR01648       191 SHRAAAMARRKLMPGRIQLWGHVIAVDWAEPE  222 (578)
T ss_pred             CHHHHHHHHHHhhccceEecCceEEEEeeccc
Confidence            99999999964  3 34688999999998764

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.

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

Probab=99.90  E-value=8.5e-23  Score=174.73  Aligned_cols=151  Identities=21%  Similarity=0.201  Sum_probs=117.6

Q ss_pred             CchHHHHHHHhcccCc-ceeEEEe---cCCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMD-IVDVLFV---HKNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~-i~~v~~~---~~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|+++|.+.|+.+++ ++++++.   +..++++|||||+|.+.++|.+|++ ++  ...+.++.|.|....+...    
T Consensus       149 ~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~----  224 (578)
T TIGR01648       149 NKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEE----  224 (578)
T ss_pred             chhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeeccccc----
Confidence            4689999999999764 5565543   2357899999999999999999994 43  2357788888865442210    


Q ss_pred             hhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcC--CCccceEEEEeCCCCCCceEEE
Q 029263           76 ANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAF  153 (196)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~--g~~~~~v~l~~~~~g~~~G~af  153 (196)
                                             ..........+|||+|||+++|+++|+++|+.|  |.+. .|.++       +||||
T Consensus       225 -----------------------~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~-rV~~~-------rgfAF  273 (578)
T TIGR01648       225 -----------------------VDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVE-RVKKI-------RDYAF  273 (578)
T ss_pred             -----------------------ccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceE-EEEee-------cCeEE
Confidence                                   001112345789999999999999999999999  8665 56554       45999


Q ss_pred             EEeCCHHHHHHHHH-hCCCccCCeEEEEEECChHHH
Q 029263          154 VEFANAEDSKAAMA-KDRMTLGSRYIELFPSSHEEM  188 (196)
Q Consensus       154 V~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~~~~  188 (196)
                      |+|.+.++|++|+. +|+..|+|+.|+|.++.+.+-
T Consensus       274 VeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~  309 (578)
T TIGR01648       274 VHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDK  309 (578)
T ss_pred             EEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence            99999999999997 499999999999999987543

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

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

Probab=99.90  E-value=1.5e-22  Score=173.74  Aligned_cols=183  Identities=16%  Similarity=0.174  Sum_probs=130.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|..+. +.+ .+|.++|||||+|.+.++|..|| .+++..++++.|.|..+.......    ..
T Consensus       306 ~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~----~~  381 (509)
T TIGR01642       306 YLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQA----TI  381 (509)
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCC----Cc
Confidence            468999999999999999874 455 48999999999999999999999 589999999999997654211000    00


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCC----------CCHHHHHHHhhcCCCccceEEEEeCC----C
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFS----------AGKDDIMDFFKDFVLSEDSIHITMNS----D  145 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~----------~t~~~l~~~F~~~g~~~~~v~l~~~~----~  145 (196)
                      .......+...................+.+|+|.||+..          ...++|+++|+.||.+. .|.|++..    +
T Consensus       382 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~-~v~i~~~~~~~~~  460 (509)
T TIGR01642       382 DTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLI-NIVIPRPNGDRNS  460 (509)
T ss_pred             cccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCee-EEEeeccCcCCCc
Confidence            000000000000000000000011224678999999642          12368999999999876 78887652    4


Q ss_pred             CCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHHH
Q 029263          146 GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDE  190 (196)
Q Consensus       146 g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~  190 (196)
                      +...|+|||+|.+.++|++|+.. ||..|+||.|.|.+.....+..
T Consensus       461 ~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~~~~~~  506 (509)
T TIGR01642       461 TPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGEDCYKA  506 (509)
T ss_pred             CCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCHHHhhc
Confidence            56689999999999999999975 9999999999999998887653

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

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

Probab=99.90  E-value=2.4e-23  Score=150.16  Aligned_cols=152  Identities=19%  Similarity=0.231  Sum_probs=127.8

Q ss_pred             chHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      .|++-|.++|-.+|.|+++.+. |. +..++||||++|.+++||+.|++ +|...|.|++|.|..++..+.         
T Consensus        21 vs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~---------   91 (203)
T KOG0131|consen   21 VSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQK---------   91 (203)
T ss_pred             HHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecccccc---------
Confidence            5789999999999999998654 44 88899999999999999999997 688899999999977661110         


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~  159 (196)
                                            ....+..+||+||.+.+++..|.+.|+.||.+...=.+.+++ +|.++|+|||-|.+.
T Consensus        92 ----------------------nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sf  149 (203)
T KOG0131|consen   92 ----------------------NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASF  149 (203)
T ss_pred             ----------------------cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhH
Confidence                                  011235799999999999999999999999654233566665 799999999999999


Q ss_pred             HHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          160 EDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       160 ~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      +.+.+|+.. ||+.+++|+|+|+++.++
T Consensus       150 easd~ai~s~ngq~l~nr~itv~ya~k~  177 (203)
T KOG0131|consen  150 EASDAAIGSMNGQYLCNRPITVSYAFKK  177 (203)
T ss_pred             HHHHHHHHHhccchhcCCceEEEEEEec
Confidence            999999975 999999999999998654

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

Probab=99.89  E-value=5e-22  Score=169.36  Aligned_cols=155  Identities=12%  Similarity=0.013  Sum_probs=119.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH---hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ---RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~---~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||++|+++|+.||.|.++.+..    ++|+|||+|.+.++|++||+   .++..++|++|.|..+...+..       
T Consensus        13 ~~te~~L~~~f~~fG~V~~v~i~~----~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~-------   81 (481)
T TIGR01649        13 DVVEADLVEALIPFGPVSYVMMLP----GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIK-------   81 (481)
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEC----CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccc-------
Confidence            468999999999999999986653    45899999999999999996   3678899999999776532210       


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA  159 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~  159 (196)
                         +...          ............+|+|.||++.+|+++|+++|+.||.+. .|.+..+.   .+|+|||+|.+.
T Consensus        82 ---~~~~----------~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~-~v~i~~~~---~~~~afVef~~~  144 (481)
T TIGR01649        82 ---RDGN----------SDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVL-RIVTFTKN---NVFQALVEFESV  144 (481)
T ss_pred             ---cCCC----------CcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEE-EEEEEecC---CceEEEEEECCH
Confidence               0000          000000111235799999999999999999999999876 77776543   247999999999


Q ss_pred             HHHHHHHH-hCCCccCC--eEEEEEECCh
Q 029263          160 EDSKAAMA-KDRMTLGS--RYIELFPSSH  185 (196)
Q Consensus       160 ~~A~~Al~-~~g~~l~g--r~i~V~~~~~  185 (196)
                      ++|.+|+. +||..|.|  +.|+|.+++.
T Consensus       145 ~~A~~A~~~Lng~~i~~~~~~l~v~~sk~  173 (481)
T TIGR01649       145 NSAQHAKAALNGADIYNGCCTLKIEYAKP  173 (481)
T ss_pred             HHHHHHHHHhcCCcccCCceEEEEEEecC
Confidence            99999996 59999954  6899988865

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).

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

Probab=99.89  E-value=3.1e-22  Score=164.05  Aligned_cols=147  Identities=20%  Similarity=0.261  Sum_probs=131.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..||..|.++|+++|.++++.+ .|. + +-|||||.|.++.||++|| ++|...+.|++|.+.++.+..          
T Consensus         9 ~v~e~~l~~~f~~~~~v~s~rvc~d~-t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~----------   76 (369)
T KOG0123|consen    9 DVTEAMLFDKFSPAGPVLSIRVCRDA-T-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP----------   76 (369)
T ss_pred             cCChHHHHHHhcccCCceeEEEeecC-C-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC----------
Confidence            4689999999999999999864 466 5 9999999999999999999 689999999999996665221          


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                                                 ..|||.||++++|..+|.++|+.||.+. +|++..+..| ++|| ||+|.+++
T Consensus        77 ---------------------------~~~~i~nl~~~~~~~~~~d~f~~~g~il-S~kv~~~~~g-~kg~-FV~f~~e~  126 (369)
T KOG0123|consen   77 ---------------------------SLVFIKNLDESIDNKSLYDTFSEFGNIL-SCKVATDENG-SKGY-FVQFESEE  126 (369)
T ss_pred             ---------------------------ceeeecCCCcccCcHHHHHHHHhhcCee-EEEEEEcCCC-ceee-EEEeCCHH
Confidence                                       1299999999999999999999999777 8999999999 9999 99999999


Q ss_pred             HHHHHHHh-CCCccCCeEEEEEECChHHHHHH
Q 029263          161 DSKAAMAK-DRMTLGSRYIELFPSSHEEMDEA  191 (196)
Q Consensus       161 ~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~  191 (196)
                      +|.+|+.+ ||..+.|+.|.|.+..+++++..
T Consensus       127 ~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~  158 (369)
T KOG0123|consen  127 SAKKAIEKLNGMLLNGKKIYVGLFERKEEREA  158 (369)
T ss_pred             HHHHHHHHhcCcccCCCeeEEeeccchhhhcc
Confidence            99999987 99999999999999988877654

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

Probab=99.87  E-value=2.4e-20  Score=158.28  Aligned_cols=185  Identities=17%  Similarity=0.137  Sum_probs=129.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHH----HHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYY----KAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~----~~~   75 (196)
                      ..|+++|+++|+.||.|..|. +.+. +|.++|||||+|.+.++|.+|| .+++..+.|+.|.|..+......    ...
T Consensus       197 ~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~  276 (457)
T TIGR01622       197 NITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTF  276 (457)
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhhh
Confidence            578999999999999999985 4454 6799999999999999999999 58999999999999764321100    000


Q ss_pred             hhccc----------------------cC---CCCCCCCCC--------------C--CC-------------CCCCCCC
Q 029263           76 ANEVS----------------------DV---RGGSPHRSI--------------P--RA-------------KSHDEGK  101 (196)
Q Consensus        76 ~~~~~----------------------~~---~~~~~~~~~--------------~--~~-------------~~~~~~~  101 (196)
                      .....                      ..   ...-++...              .  .+             .......
T Consensus       277 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  356 (457)
T TIGR01622       277 EDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPST  356 (457)
T ss_pred             ccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcc
Confidence            00000                      00   000000000              0  00             0000000


Q ss_pred             CCCCcccEEEEcCCCCCCC----------HHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CC
Q 029263          102 DSAVHTGILRLRGLPFSAG----------KDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DR  170 (196)
Q Consensus       102 ~~~~~~~~l~v~nLp~~~t----------~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g  170 (196)
                      .....+.+|+|.||....+          .+||++.|++||.+. .|.+..   ..+.|++||+|.+.++|.+|+.. ||
T Consensus       357 ~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~-~v~v~~---~~~~G~~fV~F~~~e~A~~A~~~lnG  432 (457)
T TIGR01622       357 NNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVV-HIYVDT---KNSAGKIYLKFSSVDAALAAFQALNG  432 (457)
T ss_pred             cCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCee-EEEEeC---CCCceeEEEEECCHHHHHHHHHHhcC
Confidence            0123568999999965544          368999999999775 566652   35679999999999999999975 99


Q ss_pred             CccCCeEEEEEECChHHHHHH
Q 029263          171 MTLGSRYIELFPSSHEEMDEA  191 (196)
Q Consensus       171 ~~l~gr~i~V~~~~~~~~~~~  191 (196)
                      ..++||.|.|.+...+.|..+
T Consensus       433 r~f~gr~i~~~~~~~~~~~~~  453 (457)
T TIGR01622       433 RYFGGKMITAAFVVNDVYDMS  453 (457)
T ss_pred             cccCCeEEEEEEEcHHHHHhh
Confidence            999999999999999888654

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.

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

Probab=99.87  E-value=3.5e-22  Score=157.99  Aligned_cols=158  Identities=20%  Similarity=0.249  Sum_probs=126.5

Q ss_pred             hHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            5 QVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      -||-|+..|.+||.|.+|. .-|+ +|+++|||||+|+-+|.|..|+ ++|+.+||||.|+|.....-.....+-...  
T Consensus       126 ~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID~v--  203 (544)
T KOG0124|consen  126 REDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMV--  203 (544)
T ss_pred             chHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccchHHHHH--
Confidence            4789999999999999984 3465 9999999999999999999999 689999999999995433111000000000  


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~  160 (196)
                                         .+....-.+|||..+.++.+++||+..|+.||.+. .+.|-+++ .+.++||+|++|.+..
T Consensus       204 -------------------qeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~-~C~LAr~pt~~~HkGyGfiEy~n~q  263 (544)
T KOG0124|consen  204 -------------------QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIV-KCQLARAPTGRGHKGYGFIEYNNLQ  263 (544)
T ss_pred             -------------------HHHHHhhheEEeeecCCCccHHHHHHHHHhhccee-eEEeeccCCCCCccceeeEEecccc
Confidence                               00111236899999999999999999999999766 79999988 4569999999999999


Q ss_pred             HHHHHHH-hCCCccCCeEEEEEECC
Q 029263          161 DSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       161 ~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      +-..|+. +|-..|||.+|+|..+.
T Consensus       264 s~~eAiasMNlFDLGGQyLRVGk~v  288 (544)
T KOG0124|consen  264 SQSEAIASMNLFDLGGQYLRVGKCV  288 (544)
T ss_pred             chHHHhhhcchhhcccceEeccccc
Confidence            8888886 49999999999997663

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

Probab=99.87  E-value=9e-22  Score=162.48  Aligned_cols=163  Identities=22%  Similarity=0.250  Sum_probs=130.8

Q ss_pred             chHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      .++-||.+||+.+|.|.+|+ |.|. +++++|.|||+|.+.+....||.+.|+.+.|-+|.|.+...+.-.  .+...  
T Consensus       191 ~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr--~a~~s--  266 (549)
T KOG0147|consen  191 NPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNR--AANAS--  266 (549)
T ss_pred             CCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHH--HHhcc--
Confidence            35679999999999999995 5564 899999999999999999999999999999999988665433211  11000  


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~  160 (196)
                              .+      ...+....+-..|||+||.++.|+++|+.+|++||-++ .|.+.+|. +|.++|||||+|.+.+
T Consensus       267 --------~a------~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie-~v~l~~d~~tG~skgfGfi~f~~~~  331 (549)
T KOG0147|consen  267 --------PA------LQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIE-NVQLTKDSETGRSKGFGFITFVNKE  331 (549)
T ss_pred             --------cc------ccccccccchhhhhhcccccCchHHHHhhhccCcccce-eeeeccccccccccCcceEEEecHH
Confidence                    00      00000111112399999999999999999999999887 89999887 9999999999999999


Q ss_pred             HHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          161 DSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       161 ~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      +|..|+. +||..|.||.|.|...+.
T Consensus       332 ~ar~a~e~lngfelAGr~ikV~~v~~  357 (549)
T KOG0147|consen  332 DARKALEQLNGFELAGRLIKVSVVTE  357 (549)
T ss_pred             HHHHHHHHhccceecCceEEEEEeee
Confidence            9999985 599999999999988753

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=99.85  E-value=1.7e-20  Score=153.25  Aligned_cols=179  Identities=36%  Similarity=0.559  Sum_probs=138.4

Q ss_pred             chHHHHHHHhcccCcceeE---EEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            4 PQVQVLCTIHHQLMDIVDV---LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v---~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      -|++||.+||++ .+|+..   ++++..|++.|.|||+|++.+.|+.||.+|...++.|.|+|++++..++.....+...
T Consensus       115 cte~dI~~FFaG-L~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss~~e~~~~~~~~~~  193 (510)
T KOG4211|consen  115 CTEEDIVEFFAG-LEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSSRAEVKRAAGPGDG  193 (510)
T ss_pred             CcHHHHHHHhcC-CcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhHHHHHHhhcccccc
Confidence            489999999999 999874   4678899999999999999999999999999999999999999999888665422110


Q ss_pred             --------c----CCC-------CCC-----C-----------------------------CCCCCCCC--CCC-----C
Q 029263           81 --------D----VRG-------GSP-----H-----------------------------RSIPRAKS--HDE-----G  100 (196)
Q Consensus        81 --------~----~~~-------~~~-----~-----------------------------~~~~~~~~--~~~-----~  100 (196)
                              .    .+.       ..+     .                             +....+..  ...     .
T Consensus       194 ~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~~~~~g~~~~g~~g~  273 (510)
T KOG4211|consen  194 RVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNYPVSSGPHRQGGAGD  273 (510)
T ss_pred             ccCCCCccccccCCccccccccccCCCccccccccccCCccccccCccccccccccccccccccccCCCCCcccCCCccc
Confidence                    0    000       000     0                             00000000  000     0


Q ss_pred             -CCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEE
Q 029263          101 -KDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIE  179 (196)
Q Consensus       101 -~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~  179 (196)
                       ......+.++++++||+.+++.+|..+|++....  .|.+-..++|+.+|.|+|+|.|.++|..||.+++..++.|.|.
T Consensus       274 ~~~~~~~g~fv~MRGlpy~a~~~di~nfFspl~p~--~v~i~ig~dGr~TGEAdveF~t~edav~Amskd~anm~hrYVE  351 (510)
T KOG4211|consen  274 YGNGGPGGHFVHMRGLPYDATENDIANFFSPLNPY--RVHIEIGPDGRATGEADVEFATGEDAVGAMGKDGANMGHRYVE  351 (510)
T ss_pred             ccCCCCCCceeeecCCCccCCCcchhhhcCCCCce--eEEEEeCCCCccCCcceeecccchhhHhhhccCCcccCcceee
Confidence             0112223689999999999999999999997654  5888888999999999999999999999999999999999999


Q ss_pred             EEECCh
Q 029263          180 LFPSSH  185 (196)
Q Consensus       180 V~~~~~  185 (196)
                      ..+...
T Consensus       352 lFln~~  357 (510)
T KOG4211|consen  352 LFLNGA  357 (510)
T ss_pred             ecccCC
Confidence            988754

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

Probab=99.85  E-value=5e-21  Score=162.03  Aligned_cols=166  Identities=20%  Similarity=0.264  Sum_probs=130.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCc----ccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNK----FTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIA   76 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~----~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~   76 (196)
                      ..|.++|..+|+..|.|.++.| ..+++.    +.|||||+|.++++|+.|++ ++|+.|+|..|.|..+...+     .
T Consensus       526 ~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~-----~  600 (725)
T KOG0110|consen  526 DTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKP-----A  600 (725)
T ss_pred             ccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCcc-----c
Confidence            3578999999999999999843 444443    55999999999999999995 68899999999987666111     0


Q ss_pred             hccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-CCCCCceEEEEE
Q 029263           77 NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-SDGRPTGEAFVE  155 (196)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-~~g~~~G~afV~  155 (196)
                      ...+                  ...........|.|+||||.++..+|+++|+.||-+. +|+|+.. ..+.++|||||+
T Consensus       601 ~~~g------------------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlk-svRlPKK~~k~a~rGF~Fv~  661 (725)
T KOG0110|consen  601 STVG------------------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLK-SVRLPKKIGKGAHRGFGFVD  661 (725)
T ss_pred             cccc------------------cccccccccceeeeeccchHHHHHHHHHHHhccccee-eeccchhhcchhhccceeee
Confidence            0000                  0000111245799999999999999999999999665 7999876 467789999999


Q ss_pred             eCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHHHHH
Q 029263          156 FANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEAL  192 (196)
Q Consensus       156 F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~~  192 (196)
                      |-++.+|.+|+.. ..++|.||.|.+.|++....-+++
T Consensus       662 f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~~~e~~  699 (725)
T KOG0110|consen  662 FLTPREAKNAFDALGSTHLYGRRLVLEWAKSDNTMEAL  699 (725)
T ss_pred             ccCcHHHHHHHHhhcccceechhhheehhccchHHHHH
Confidence            9999999999964 899999999999999877665554

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

Probab=99.83  E-value=2e-20  Score=148.92  Aligned_cols=160  Identities=19%  Similarity=0.294  Sum_probs=134.8

Q ss_pred             chHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      .|++.|+++|+.||+|.++.+ .|+ +|+++||+||+|++.+...++|......++++.|++.++.+.+....       
T Consensus        18 ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~-------   90 (311)
T KOG4205|consen   18 TTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTK-------   90 (311)
T ss_pred             ccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCcccccc-------
Confidence            588999999999999999754 454 89999999999999999999998888889999999987764431000       


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~  160 (196)
                                         ......+..|||++||+.+++++++++|++||.+. .+.++.|. +.+++||+||.|.+.+
T Consensus        91 -------------------~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~-~~~~~~d~~~~~~rgFgfv~~~~e~  150 (311)
T KOG4205|consen   91 -------------------VGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVA-DVVIMYDKTTSRPRGFGFVTFDSED  150 (311)
T ss_pred             -------------------cccccceeEEEecCcCCCCchHHHhhhhhccceeE-eeEEeecccccccccceeeEecccc
Confidence                               00011467899999999999999999999999665 45555555 8999999999999999


Q ss_pred             HHHHHHHhCCCccCCeEEEEEECChHHHHH
Q 029263          161 DSKAAMAKDRMTLGSRYIELFPSSHEEMDE  190 (196)
Q Consensus       161 ~A~~Al~~~g~~l~gr~i~V~~~~~~~~~~  190 (196)
                      .+.+++.+....|.|+.+.|..|.+.++..
T Consensus       151 sVdkv~~~~f~~~~gk~vevkrA~pk~~~~  180 (311)
T KOG4205|consen  151 SVDKVTLQKFHDFNGKKVEVKRAIPKEVMQ  180 (311)
T ss_pred             ccceecccceeeecCceeeEeeccchhhcc
Confidence            999999999999999999999999988765

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

Probab=99.81  E-value=4.7e-19  Score=145.36  Aligned_cols=160  Identities=18%  Similarity=0.203  Sum_probs=133.9

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..+..+|.++|+.||+|+++.+ .+.+| ++|| ||+|+++++|++|| ++||..+.++.|-|....+.++.......  
T Consensus        87 ~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~--  162 (369)
T KOG0123|consen   87 SIDNKSLYDTFSEFGNILSCKVATDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE--  162 (369)
T ss_pred             ccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc--
Confidence            3567899999999999999964 56787 9999 99999999999999 57999999999999777765542211100  


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                                            ....-..+++.|++.+.+++.|..+|..+|.+. ++.++.+..|.++||+||.|.+++
T Consensus       163 ----------------------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~-s~~v~~~~~g~~~~~gfv~f~~~e  219 (369)
T KOG0123|consen  163 ----------------------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSIT-SVAVMRDSIGKSKGFGFVNFENPE  219 (369)
T ss_pred             ----------------------hhhhhhhhheeccccccchHHHHHhhcccCcce-EEEEeecCCCCCCCccceeecChh
Confidence                                  111223589999999999999999999999876 889999999999999999999999


Q ss_pred             HHHHHHHh-CCCccCCeEEEEEECChHHHH
Q 029263          161 DSKAAMAK-DRMTLGSRYIELFPSSHEEMD  189 (196)
Q Consensus       161 ~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~  189 (196)
                      +|..|+.. |+..+++..+.|..+...-.+
T Consensus       220 ~a~~av~~l~~~~~~~~~~~V~~aqkk~e~  249 (369)
T KOG0123|consen  220 DAKKAVETLNGKIFGDKELYVGRAQKKSER  249 (369)
T ss_pred             HHHHHHHhccCCcCCccceeecccccchhh
Confidence            99999976 999999999999999774333

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

Probab=99.80  E-value=2.9e-19  Score=137.64  Aligned_cols=136  Identities=16%  Similarity=0.185  Sum_probs=117.9

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      +..++++|+.+|.+||+|+++.|+.      -||||..+++..|+.||. +++..|.|..|.|..+...           
T Consensus        12 ~~~~~~elr~lFe~ygkVlECDIvK------NYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK-----------   74 (346)
T KOG0109|consen   12 REATEQELRSLFEQYGKVLECDIVK------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK-----------   74 (346)
T ss_pred             cccchHHHHHHHHhhCceEeeeeec------ccceEEeecccccHHHHhhcccceecceEEEEEecccc-----------
Confidence            4578999999999999999985542      299999999999999996 8999999999999776622           


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                                             .....+|+|+||.+.||.+++++.|+++|.+. .+.|+++       |+||+|...+
T Consensus        75 -----------------------sk~stkl~vgNis~tctn~ElRa~fe~ygpvi-ecdivkd-------y~fvh~d~~e  123 (346)
T KOG0109|consen   75 -----------------------SKASTKLHVGNISPTCTNQELRAKFEKYGPVI-ECDIVKD-------YAFVHFDRAE  123 (346)
T ss_pred             -----------------------CCCccccccCCCCccccCHHHhhhhcccCCce-eeeeecc-------eeEEEEeecc
Confidence                                   11345799999999999999999999999665 5788854       9999999999


Q ss_pred             HHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          161 DSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       161 ~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      +|..|+.. |++.+.|++++|.+++.
T Consensus       124 da~~air~l~~~~~~gk~m~vq~sts  149 (346)
T KOG0109|consen  124 DAVEAIRGLDNTEFQGKRMHVQLSTS  149 (346)
T ss_pred             chHHHHhcccccccccceeeeeeecc
Confidence            99999964 99999999999999864

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=99.79  E-value=1.3e-19  Score=144.12  Aligned_cols=175  Identities=33%  Similarity=0.563  Sum_probs=138.9

Q ss_pred             CchHHHHHHHhcccCcceeE--EE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDV--LF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v--~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      -+++++|..||.. ..|..-  .+ .+..|+..|+|.|.|.+.|.-+.|+++++..+++++|+|+.++.++.........
T Consensus        71 q~Sd~~ia~ff~g-l~ia~gg~aKOG~~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ge~f~~iagg~s  149 (508)
T KOG1365|consen   71 QSSDQDIARFFKG-LNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKATGEEFLKIAGGTS  149 (508)
T ss_pred             CcccCCHHHHHhh-hhccccceeeeehhhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccCchhheEecCCcc
Confidence            4678999999988 777762  23 3568899999999999999999999999999999999999988665422111000


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhc---CCCccceEEEEeCCCCCCceEEEEEe
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIHITMNSDGRPTGEAFVEF  156 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~---~g~~~~~v~l~~~~~g~~~G~afV~F  156 (196)
                                 . .+....    ....--+|.+++|||+||+.|+.+||.+   .+...+.|-++...+|+.+|.|||.|
T Consensus       150 -----------~-e~~~fl----sk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlf  213 (508)
T KOG1365|consen  150 -----------N-EAAPFL----SKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLF  213 (508)
T ss_pred             -----------c-cCCCCC----CcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEe
Confidence                       0 000000    1112357889999999999999999963   23222368888889999999999999


Q ss_pred             CCHHHHHHHHHhCCCccCCeEEEEEECChHHHHHHHHc
Q 029263          157 ANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR  194 (196)
Q Consensus       157 ~~~~~A~~Al~~~g~~l~gr~i~V~~~~~~~~~~~~~~  194 (196)
                      ..+++|..||.+|...||-|+|++.-++..|++++++|
T Consensus       214 a~ee~aq~aL~khrq~iGqRYIElFRSTaaEvqqvlnr  251 (508)
T KOG1365|consen  214 ACEEDAQFALRKHRQNIGQRYIELFRSTAAEVQQVLNR  251 (508)
T ss_pred             cCHHHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHHHHh
Confidence            99999999999999999999999999999999999876

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

Probab=99.77  E-value=4.3e-18  Score=122.76  Aligned_cols=80  Identities=24%  Similarity=0.407  Sum_probs=73.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+|||+++|+++|+++|++||.+. .+.++.+. +|+++|||||+|.+.++|++|+.. |+..|+|+.|+|.++
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~-~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVV-DAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeE-EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            456899999999999999999999999776 78888776 899999999999999999999974 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus       112 ~~~  114 (144)
T PLN03134        112 NDR  114 (144)
T ss_pred             CcC
Confidence            754

>PF00076 RRM_1: RNA recognition motif

Probab=99.71  E-value=4.6e-17  Score=102.85  Aligned_cols=69  Identities=35%  Similarity=0.568  Sum_probs=64.8

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEE
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIE  179 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~  179 (196)
                      |||+|||.++|+++|+++|++||.+. .+.+..+.++.++|+|||+|.+.++|++|+. +||..++|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~-~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIE-SIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEE-EEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcc-cccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            79999999999999999999999875 7888887899999999999999999999998 599999999986

(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 ....

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

Probab=99.70  E-value=3.3e-16  Score=119.74  Aligned_cols=82  Identities=17%  Similarity=0.285  Sum_probs=72.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      .++.-|||..||.+.++.+|.+.|-+||.+. +.++..|. |+.++.|+||.|+++.+|+.|+.. ||..||=++|+|.+
T Consensus       283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhiv-SaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL  361 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIV-SAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL  361 (371)
T ss_pred             CCcceEEEEeCchhhccHHHHHHhcccccee-eeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence            4567899999999999999999999999666 56666565 999999999999999999999976 99999999999988


Q ss_pred             CChHH
Q 029263          183 SSHEE  187 (196)
Q Consensus       183 ~~~~~  187 (196)
                      ..+++
T Consensus       362 KRPkd  366 (371)
T KOG0146|consen  362 KRPKD  366 (371)
T ss_pred             cCccc
Confidence            77665

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.69  E-value=1.5e-16  Score=100.86  Aligned_cols=69  Identities=32%  Similarity=0.560  Sum_probs=62.5

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      |||+|||+++++++|+++|+.+|.+. .+.+..++.|.++|+|||+|.++++|.+|+.. ++..++|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~-~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVE-KVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEE-EEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcc-eEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            79999999999999999999999765 89999888899999999999999999999987 88999999985

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 ....

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.67  E-value=5e-16  Score=120.03  Aligned_cols=75  Identities=16%  Similarity=0.298  Sum_probs=69.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      .++|||+|||+.+|+++|+++|+.||.+. .|.|+.+..  ++|||||+|.++++|+.||.+||..|+||.|.|.++.
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~-~V~I~~d~~--~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~   78 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIE-YVEMQSENE--RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAE   78 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeecCC--CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEecc
Confidence            46899999999999999999999999876 899987753  5799999999999999999889999999999999985

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

Probab=99.66  E-value=6.2e-16  Score=121.09  Aligned_cols=84  Identities=24%  Similarity=0.340  Sum_probs=76.2

Q ss_pred             CCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          103 SAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       103 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....++|+|.|+||..-+.||+..|++||.+. +|.|+.++.| ++|||||+|++.+||++|-.+ ||..+.||+|+|.
T Consensus        92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~Vl-dVEIIfNERG-SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn  169 (376)
T KOG0125|consen   92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVL-DVEIIFNERG-SKGFGFVTMENPADADRARAELHGTVVEGRKIEVN  169 (376)
T ss_pred             CCCCCceeEeecCCccccCccHHHHHHhhCcee-eEEEEeccCC-CCccceEEecChhhHHHHHHHhhcceeeceEEEEe
Confidence            344568999999999999999999999999776 7999999887 899999999999999999976 9999999999999


Q ss_pred             ECChHHH
Q 029263          182 PSSHEEM  188 (196)
Q Consensus       182 ~~~~~~~  188 (196)
                      .++..-+
T Consensus       170 ~ATarV~  176 (376)
T KOG0125|consen  170 NATARVH  176 (376)
T ss_pred             ccchhhc
Confidence            9987643

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.64  E-value=1.2e-15  Score=124.57  Aligned_cols=79  Identities=19%  Similarity=0.280  Sum_probs=72.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|+|+.|. +|+++|||||+|.++++|++|+. +|+..|.+++|+|.++
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~-~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a  184 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPIN-TCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA  184 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence            457899999999999999999999999776 78998885 89999999999999999999996 4999999999999987


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus       185 ~p  186 (346)
T TIGR01659       185 RP  186 (346)
T ss_pred             cc
Confidence            65

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).

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.63  E-value=2.2e-15  Score=114.83  Aligned_cols=76  Identities=20%  Similarity=0.207  Sum_probs=70.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      .+++|||+||++.+|+++|++||+.||.+. +|.|+++  +...|+|||+|.++++|+.|+.+||..|.+++|.|....
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~-~V~I~~D--~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIE-HVEIIRS--GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG   79 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeE-EEEEecC--CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence            468999999999999999999999999887 8999887  566789999999999999999999999999999999854

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

Probab=99.63  E-value=1.9e-14  Score=107.80  Aligned_cols=174  Identities=17%  Similarity=0.186  Sum_probs=118.7

Q ss_pred             hHHHHHH----HhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC-hHHHHHHHhhc
Q 029263            5 QVQVLCT----IHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK-RQEYYKAIANE   78 (196)
Q Consensus         5 te~dl~~----~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~-~~~~~~~~~~~   78 (196)
                      ..++|+.    +|+.||+|++|... ++.+.+|.|||.|.+.+.|..|+ .++|..+.|++|.+..+. +.+........
T Consensus        22 ~~~elkrsL~~LFsqfG~ildI~a~-kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~  100 (221)
T KOG4206|consen   22 KKDELKRSLYLLFSQFGKILDISAF-KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGT  100 (221)
T ss_pred             cHHHHHHHHHHHHHhhCCeEEEEec-CCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCce
Confidence            3456666    99999999998743 57788999999999999999999 689999999999995543 33332221111


Q ss_pred             cccC--C------C-CCCCCCCCCC-------CCCCC-CCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEE
Q 029263           79 VSDV--R------G-GSPHRSIPRA-------KSHDE-GKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT  141 (196)
Q Consensus        79 ~~~~--~------~-~~~~~~~~~~-------~~~~~-~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~  141 (196)
                      ....  +      . .+...+.++.       .-... .......+.++|+.|||..++.+.+..+|++|.--. .|+++
T Consensus       101 ~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~k-eir~i  179 (221)
T KOG4206|consen  101 FVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFK-EIRLI  179 (221)
T ss_pred             eccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccc-eeEec
Confidence            1000  0      0 0000000000       00000 122355678999999999999999999999996333 48887


Q ss_pred             eCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccC-CeEEEEEECC
Q 029263          142 MNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLG-SRYIELFPSS  184 (196)
Q Consensus       142 ~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~-gr~i~V~~~~  184 (196)
                      ...    .|.|||+|.+...|..|.+. .+..+- .-.+.|..++
T Consensus       180 ~~~----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~  220 (221)
T KOG4206|consen  180 PPR----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK  220 (221)
T ss_pred             cCC----CceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence            543    45899999999999999864 766665 6777777654

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

Probab=99.62  E-value=7.6e-15  Score=118.72  Aligned_cols=78  Identities=19%  Similarity=0.303  Sum_probs=69.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      .++.-+|+.+||.+.-+.+|-+.|.+||.+. +..+..|+ ||.++-|+||.|++..+|..||.. ||..+++++++|-+
T Consensus       422 peGanlfiyhlPqefgdq~l~~~f~pfG~Vl-sakvfidk~tnlskcfgfvSyen~~sa~~aI~amngfQig~KrlkVQl  500 (510)
T KOG0144|consen  422 PEGANLFIYHLPQEFGDQDLIATFQPFGGVL-SAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMNGFQIGSKRLKVQL  500 (510)
T ss_pred             CCccceeeeeCchhhhhHHHHHHhcccccee-EEEEEEecccCHhhhcCcccccchhhhHHHHHHhcchhhccccceEEe
Confidence            4556799999999999999999999999776 55555554 999999999999999999999976 99999999999987


Q ss_pred             C
Q 029263          183 S  183 (196)
Q Consensus       183 ~  183 (196)
                      .
T Consensus       501 k  501 (510)
T KOG0144|consen  501 K  501 (510)
T ss_pred             e
Confidence            5

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

Probab=99.62  E-value=1.1e-15  Score=129.71  Aligned_cols=184  Identities=16%  Similarity=0.031  Sum_probs=140.3

Q ss_pred             chHHHHHHHhcccCcceeE-E-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            4 PQVQVLCTIHHQLMDIVDV-L-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v-~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..+.|+++||-+ ..|..+ + +....+...|-++|.|....++++|+++|...+-.|++.+.+....+|..+.......
T Consensus       323 ~~~nd~rkfF~g-~~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g~~~~~~a~~~~~~~  401 (944)
T KOG4307|consen  323 NDFNDGRKFFPG-RNAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPGNLGRNGAPPFQAGV  401 (944)
T ss_pred             cccchhhhhcCc-ccccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCCccccccCccccccC
Confidence            456799999988 667665 2 2333555588999999999999999999999999999999998877775433222111


Q ss_pred             C---CCC--CCCCCCCCCCCCCCC--CCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEE
Q 029263           82 V---RGG--SPHRSIPRAKSHDEG--KDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFV  154 (196)
Q Consensus        82 ~---~~~--~~~~~~~~~~~~~~~--~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV  154 (196)
                      .   .+.  .++...+++.....+  ......+.+|||..||+.+++.++.++|...-.+++.|.|.+-++++.++.|||
T Consensus       402 ~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv  481 (944)
T KOG4307|consen  402 PPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFV  481 (944)
T ss_pred             CCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhh
Confidence            0   011  111111111111111  122345789999999999999999999999888888899999999999999999


Q ss_pred             EeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHH
Q 029263          155 EFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEM  188 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~  188 (196)
                      .|..++++..|+.+ +...++.|.|+|..++.++|
T Consensus       482 ~F~~~~a~~~a~~~~~k~y~G~r~irv~si~~~~m  516 (944)
T KOG4307|consen  482 AFIHPTAPLTASSVKTKFYPGHRIIRVDSIADYAM  516 (944)
T ss_pred             eeccccccchhhhcccccccCceEEEeechhhHHH
Confidence            99999999888887 99999999999999999988

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

Probab=99.62  E-value=5.9e-15  Score=111.46  Aligned_cols=80  Identities=20%  Similarity=0.317  Sum_probs=74.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|.|.|||.++++++|+++|.+||.+. .|.|.+|+ ||.++|||||.|.++++|.+|+.. ||+-+++=.|+|.++
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~-rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPIT-RVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccc-eeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            456899999999999999999999999776 89999888 999999999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      +|.
T Consensus       267 kP~  269 (270)
T KOG0122|consen  267 KPS  269 (270)
T ss_pred             CCC
Confidence            874

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

Probab=99.59  E-value=2.4e-15  Score=113.07  Aligned_cols=77  Identities=23%  Similarity=0.353  Sum_probs=69.2

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      .+|||+|||+.++.++|+++|++||.+.+.|.|....+|+++|||||+|++.+.|.+|+.-..-.|+||+-.+.|+.
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~   89 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS   89 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence            47999999999999999999999997775666666669999999999999999999999877789999999988875

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

Probab=99.59  E-value=1.7e-14  Score=122.80  Aligned_cols=177  Identities=20%  Similarity=0.200  Sum_probs=115.5

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHH-----Hh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKA-----IA   76 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~-----~~   76 (196)
                      +.+.++|...|..||.|..|++. +.|.   .|+|+|.++.+|+.|. .+....+..-++-+......-....     ..
T Consensus       396 ~t~~~elt~~F~~fG~i~rvllp-~~G~---~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dvf~~~pka~~~~  471 (725)
T KOG0110|consen  396 GTLSEELTEAFLRFGEIGRVLLP-PGGT---GAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDVFTEDPKADDLS  471 (725)
T ss_pred             ccccHHHHHHhhcccccceeecC-cccc---eeeeeecCccchHHHHHHhchhhhccCccccccChhhhccCCccccccc
Confidence            35678999999999999999644 6554   4999999999999999 4666666555543333221111100     00


Q ss_pred             hcc-ccCCCCCCCC----CCCCC--CC-----CCCCCCCCCcccE-EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC
Q 029263           77 NEV-SDVRGGSPHR----SIPRA--KS-----HDEGKDSAVHTGI-LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN  143 (196)
Q Consensus        77 ~~~-~~~~~~~~~~----~~~~~--~~-----~~~~~~~~~~~~~-l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~  143 (196)
                      ... ......+..+    ..+-.  ..     +...........+ |||+||++++|.+++..+|...|.+. ++.|...
T Consensus       472 ~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~Vl-S~~I~kk  550 (725)
T KOG0110|consen  472 AESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVL-SIEISKK  550 (725)
T ss_pred             cccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEE-EEEEecc
Confidence            000 0000000000    00000  00     0000001111223 99999999999999999999999776 7777655


Q ss_pred             CCCC----CceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          144 SDGR----PTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       144 ~~g~----~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +++.    +.|||||+|.++++|++|+.. +|+.|.|..|.|.++-
T Consensus       551 kd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  551 KDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             ccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            5443    569999999999999999976 9999999999999985

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

Probab=99.58  E-value=6.6e-14  Score=101.85  Aligned_cols=155  Identities=19%  Similarity=0.157  Sum_probs=107.9

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccccCC
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVR   83 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~   83 (196)
                      -|.||.++|.+||.|.+|-++++.| ..+||||+|++.-||+.|| -+++..+++-.+.|.....-.       .....+
T Consensus        19 RekeieDlFyKyg~i~~ieLK~r~g-~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr-------~s~~~~   90 (241)
T KOG0105|consen   19 REKEIEDLFYKYGRIREIELKNRPG-PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR-------SSSDRR   90 (241)
T ss_pred             hhccHHHHHhhhcceEEEEeccCCC-CCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC-------cccccc
Confidence            3679999999999999998777665 4579999999999999999 589999999998985544110       000111


Q ss_pred             CC-CCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHH
Q 029263           84 GG-SPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDS  162 (196)
Q Consensus        84 ~~-~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A  162 (196)
                      +. +.......+....-..+.-....+|.|++||++.+++||+++....|.+. ...+.+|      |++.|+|...++-
T Consensus        91 G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvC-fadv~rD------g~GvV~~~r~eDM  163 (241)
T KOG0105|consen   91 GSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVC-FADVQRD------GVGVVEYLRKEDM  163 (241)
T ss_pred             cccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCee-eeeeecc------cceeeeeeehhhH
Confidence            10 00000000000111122334567899999999999999999999988665 3344443      4899999999999


Q ss_pred             HHHHHh-CCCccC
Q 029263          163 KAAMAK-DRMTLG  174 (196)
Q Consensus       163 ~~Al~~-~g~~l~  174 (196)
                      +.|+.. +.+.+.
T Consensus       164 kYAvr~ld~~~~~  176 (241)
T KOG0105|consen  164 KYAVRKLDDQKFR  176 (241)
T ss_pred             HHHHHhhcccccc
Confidence            999965 555443

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

Probab=99.58  E-value=1.4e-13  Score=111.69  Aligned_cols=178  Identities=17%  Similarity=0.182  Sum_probs=129.8

Q ss_pred             hHHHHHHHhcc-cCcceeE-EEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHh---hc
Q 029263            5 QVQVLCTIHHQ-LMDIVDV-LFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIA---NE   78 (196)
Q Consensus         5 te~dl~~~F~~-~g~i~~v-~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~---~~   78 (196)
                      -++||+++|.. .|+|.-| ++.|.+|+++|||.|+|+++|.+++|++ +|+..+.+|++.|......+......   ..
T Consensus        57 rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g  136 (608)
T KOG4212|consen   57 RWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDG  136 (608)
T ss_pred             hhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeecc
Confidence            46899999965 4677777 5789999999999999999999999995 78999999999997766443221111   10


Q ss_pred             cc---------cCC--------------CCCCCCCCCCCC------CC--------------------CCCCC-CCCccc
Q 029263           79 VS---------DVR--------------GGSPHRSIPRAK------SH--------------------DEGKD-SAVHTG  108 (196)
Q Consensus        79 ~~---------~~~--------------~~~~~~~~~~~~------~~--------------------~~~~~-~~~~~~  108 (196)
                      ..         ..+              ...+.++.-+..      ..                    .+... .++.-.
T Consensus       137 ~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~  216 (608)
T KOG4212|consen  137 GGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHN  216 (608)
T ss_pred             CcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccc
Confidence            00         000              000000000000      00                    00011 223345


Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+||.||.+.+....|++.|.-.|.++ +|.+-.|+.|.++|+|.++|.++-+|..|+.+ ++.-+..++..+.+.
T Consensus       217 k~fvanl~~~vg~~kL~qvfgmAGkv~-~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl~  291 (608)
T KOG4212|consen  217 KVFVANLDYKVGNKKLKQVFGMAGKVQ-SVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRLD  291 (608)
T ss_pred             eeeeeccccccchHHHHHHhccceeee-eeceeeccccccCCeeEEEecchHHHHHHHHhhccCCCccccceeecc
Confidence            799999999999999999999888765 89999999999999999999999999999987 888888888888773

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

Probab=99.56  E-value=9.7e-15  Score=100.09  Aligned_cols=77  Identities=19%  Similarity=0.307  Sum_probs=69.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+||++.+||++|.++|+.+|.+. .|.+-.|. +..+=||+||+|-++++|+.||.. ||+.|..|+|+|.+.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~ir-riiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D  113 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIR-RIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD  113 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchh-eeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence            457999999999999999999999999876 67776666 667889999999999999999986 999999999999886

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

Probab=99.56  E-value=6.7e-14  Score=92.56  Aligned_cols=85  Identities=24%  Similarity=0.391  Sum_probs=73.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..+..|||+|||+++|.++..++|+.||.+. .|++-.  +..-+|.|||.|++-.+|++|+.. +|..+.+++|.|-+-
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg~Ir-QIRiG~--~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy   92 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIR-QIRIGN--TKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY   92 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhcccceE-EEEecC--ccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence            4568999999999999999999999999765 566543  345679999999999999999975 999999999999999


Q ss_pred             ChHHHHHHH
Q 029263          184 SHEEMDEAL  192 (196)
Q Consensus       184 ~~~~~~~~~  192 (196)
                      .+.+..+.+
T Consensus        93 q~~~~~~~~  101 (124)
T KOG0114|consen   93 QPEDAFKLM  101 (124)
T ss_pred             CHHHHHHHH
Confidence            988766554

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

Probab=99.55  E-value=1.9e-14  Score=108.59  Aligned_cols=160  Identities=20%  Similarity=0.195  Sum_probs=115.2

Q ss_pred             CCCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            1 MELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         1 ~~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ++.+.+.||..||.+||.+.++.++.      ||+||+|.+.-+|..|+ .+++..|++-.+.|........        
T Consensus        10 ~~~~~~~d~E~~f~~yg~~~d~~mk~------gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~--------   75 (216)
T KOG0106|consen   10 PYRARERDVERFFKGYGKIPDADMKN------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR--------   75 (216)
T ss_pred             CCccchhHHHHHHhhccccccceeec------ccceeccCchhhhhcccchhcCceecceeeeeeccccccc--------
Confidence            35678999999999999999987553      68999999999999999 6899988876655543331110        


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA  159 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~  159 (196)
                        .++.+++.+- .+ ..............+.|.|++-.+.+++|.+.|+++|.+. ...+       ..++|||+|.+.
T Consensus        76 --~~g~~~~g~r-~~-~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~-~~~~-------~~~~~~v~Fs~~  143 (216)
T KOG0106|consen   76 --GRGRPRGGDR-RS-DSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVT-YVDA-------RRNFAFVEFSEQ  143 (216)
T ss_pred             --ccCCCCCCCc-cc-hhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCc-hhhh-------hccccceeehhh
Confidence              0011111000 00 0000111233457899999999999999999999999665 2222       456999999999


Q ss_pred             HHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          160 EDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       160 ~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      ++|..|+.+ ++..+.|+.|++......
T Consensus       144 ~da~ra~~~l~~~~~~~~~l~~~~~~~d  171 (216)
T KOG0106|consen  144 EDAKRALEKLDGKKLNGRRISVEKNSRD  171 (216)
T ss_pred             hhhhhcchhccchhhcCceeeecccCcc
Confidence            999999986 999999999999655443

>smart00362 RRM_2 RNA recognition motif

Probab=99.55  E-value=4.7e-14  Score=88.56  Aligned_cols=71  Identities=31%  Similarity=0.528  Sum_probs=64.1

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      +|+|+|||..+++++|+++|++||.+. .+.+..+. +.++|+|||+|.+.++|.+|+.. ++..+.|+.|+|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~-~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIE-SVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEE-EEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            489999999999999999999999765 67777766 78899999999999999999976 9999999999873

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

Probab=99.54  E-value=2e-14  Score=123.87  Aligned_cols=77  Identities=25%  Similarity=0.372  Sum_probs=70.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++++++|+++|+.||.+. +|+++.|. +|+++|||||+|.+.++|.+|+.. ||..|+||.|+|...
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~-sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp  184 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIK-SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  184 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEE-EEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence            346899999999999999999999999776 79998886 899999999999999999999975 999999999999754

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.

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

Probab=99.53  E-value=3.4e-14  Score=98.32  Aligned_cols=78  Identities=24%  Similarity=0.353  Sum_probs=73.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      -++++|||.|+...+|+++|.+.|..||.+. +|.|-+|. +|..+|||+|+|.+.++|++|+.. ||..|.|.+|.|.+
T Consensus        70 VEGwIi~VtgvHeEatEedi~d~F~dyGeiK-NihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw  148 (170)
T KOG0130|consen   70 VEGWIIFVTGVHEEATEEDIHDKFADYGEIK-NIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDW  148 (170)
T ss_pred             eeeEEEEEeccCcchhHHHHHHHHhhccccc-ceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEE
Confidence            4679999999999999999999999999776 89997776 999999999999999999999975 99999999999998


Q ss_pred             C
Q 029263          183 S  183 (196)
Q Consensus       183 ~  183 (196)
                      +
T Consensus       149 ~  149 (170)
T KOG0130|consen  149 C  149 (170)
T ss_pred             E
Confidence            7

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

Probab=99.52  E-value=3.3e-13  Score=112.21  Aligned_cols=182  Identities=16%  Similarity=0.138  Sum_probs=119.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChH-HHHHH----
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQ-EYYKA----   74 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~-~~~~~----   74 (196)
                      +.||++|+.+|++||.|..|. .+|. +|.++||+||+|.+.++|++|+ ++|+..|-|+.|+|...+.. +...+    
T Consensus       289 Nite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~  368 (549)
T KOG0147|consen  289 NITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQ  368 (549)
T ss_pred             CchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecccccccccc
Confidence            579999999999999999985 4565 9999999999999999999998 68999999999998654311 11000    


Q ss_pred             Hhhc----cc----------------cCCCCCCCCCCCC---------------C-CC--CCCC----CCCCCcccEEEE
Q 029263           75 IANE----VS----------------DVRGGSPHRSIPR---------------A-KS--HDEG----KDSAVHTGILRL  112 (196)
Q Consensus        75 ~~~~----~~----------------~~~~~~~~~~~~~---------------~-~~--~~~~----~~~~~~~~~l~v  112 (196)
                      ....    .+                +..+..-.+.|..               . ..  ...+    +.....+.|+.+
T Consensus       369 ~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL  448 (549)
T KOG0147|consen  369 FDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLL  448 (549)
T ss_pred             cccchhhccccccccccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHHH
Confidence            0000    00                0000000000000               0 00  0000    011145678889


Q ss_pred             cCC--CCCCCH--------HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          113 RGL--PFSAGK--------DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       113 ~nL--p~~~t~--------~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      +||  |.+.|+        +|+.+-.+++|-+.   +|..|++  +.|+-||.|.+.+.|..|+.. ||.-+.||.|+.+
T Consensus       449 ~nMFdpstete~n~d~eI~edV~Eec~k~g~v~---hi~vd~n--s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~  523 (549)
T KOG0147|consen  449 SNMFDPSTETEPNWDQEIREDVIEECGKHGKVC---HIFVDKN--SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAK  523 (549)
T ss_pred             hhcCCcccccCcchhhHHHHHHHHHHHhcCCee---EEEEccC--CCceEEEecCcHHHHHHHHHHHhhhhhccceeEEE
Confidence            998  222221        46667778888653   4444432  338999999999999999976 9999999999998


Q ss_pred             ECChHHHH
Q 029263          182 PSSHEEMD  189 (196)
Q Consensus       182 ~~~~~~~~  189 (196)
                      +-..+.+.
T Consensus       524 ~~~~~~Y~  531 (549)
T KOG0147|consen  524 YLPLERYH  531 (549)
T ss_pred             Eeehhhhh
Confidence            87655544

>PLN03213 repressor of silencing 3; Provisional

Probab=99.52  E-value=8.6e-14  Score=114.57  Aligned_cols=78  Identities=15%  Similarity=0.284  Sum_probs=69.9

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH--HHHHHHHHh-CCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA--EDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~--~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      ..+.+|||+||++.+|++||+..|..||.+. .|.|+ ..+|  +|||||+|.+.  .++.+|+.. ||..+.||.|+|.
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVk-dVEIp-RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN   83 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVD-AVEFV-RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE   83 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEe-cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence            3457899999999999999999999999887 88888 4577  99999999987  688999975 9999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      .|.+.
T Consensus        84 KAKP~   88 (759)
T PLN03213         84 KAKEH   88 (759)
T ss_pred             eccHH
Confidence            99765

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

Probab=99.49  E-value=1.4e-13  Score=105.52  Aligned_cols=79  Identities=20%  Similarity=0.282  Sum_probs=73.4

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .-|||..|...++-++|++.|.+||.+. ..++++|. |++++|||||-|-+.++|+.|+.. ||.-|++|.|+..++++
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS-~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR  141 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVS-DAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR  141 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhccccccc-cceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence            4699999999999999999999999776 67888887 999999999999999999999975 99999999999999988


Q ss_pred             HH
Q 029263          186 EE  187 (196)
Q Consensus       186 ~~  187 (196)
                      +-
T Consensus       142 Kp  143 (321)
T KOG0148|consen  142 KP  143 (321)
T ss_pred             Cc
Confidence            64

>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=99.48  E-value=4.6e-13  Score=84.41  Aligned_cols=73  Identities=30%  Similarity=0.481  Sum_probs=66.1

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      +|+|+|||..+++++|+++|+.+|.+. .+.+..++.+.+.|+|||+|.+.++|..|+.. ++..+.|+.|.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~-~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVE-SVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEE-EEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            489999999999999999999999765 78888887778899999999999999999976 99999999999863

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).

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

Probab=99.47  E-value=6.4e-15  Score=106.75  Aligned_cols=77  Identities=18%  Similarity=0.351  Sum_probs=70.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHH-HhCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAM-AKDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al-~~~g~~l~gr~i~V~~~  183 (196)
                      .+..|||+|||+..||.||...|++||.+. .|.|++|+ ||+++||||+.|++.-+-.-|+ ++||..|.||.|+|.=.
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~v-dinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIV-DINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceE-EEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            456899999999999999999999999766 79999998 9999999999999999999999 46999999999999744

>smart00360 RRM RNA recognition motif

Probab=99.47  E-value=3.3e-13  Score=84.31  Aligned_cols=69  Identities=26%  Similarity=0.490  Sum_probs=61.8

Q ss_pred             EcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       112 v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      |+|||..+++++|+++|++||.+. .+.+..++ ++.++|+|||+|.+.++|..|+.. ++..++|+.|+|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~-~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIE-SVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEe-EEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            579999999999999999999665 67777766 689999999999999999999976 9999999999873

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

Probab=99.46  E-value=1.1e-13  Score=100.45  Aligned_cols=78  Identities=21%  Similarity=0.274  Sum_probs=72.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+||+..++++-|+++|-+.|.+. ++++++|. +..++|||||+|.++++|+.|++. |...|.||+|+|..+
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv-~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka   86 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVV-NLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA   86 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCcee-eeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence            456899999999999999999999999776 79999988 778999999999999999999987 999999999999999


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      +
T Consensus        87 s   87 (203)
T KOG0131|consen   87 S   87 (203)
T ss_pred             c
Confidence            7

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

Probab=99.46  E-value=5e-13  Score=103.74  Aligned_cols=76  Identities=21%  Similarity=0.347  Sum_probs=71.7

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      =.||||.-|++.++|..|+..|+.||.+. .|+|+.+. +|+++|||||+|.+.-+-.+|... +|.+|+|+.|-|.+-
T Consensus       101 y~TLFv~RLnydT~EskLrreF~~YG~Ik-rirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE  178 (335)
T KOG0113|consen  101 YKTLFVARLNYDTSESKLRREFEKYGPIK-RIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE  178 (335)
T ss_pred             cceeeeeeccccccHHHHHHHHHhcCcce-eEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence            46899999999999999999999999887 89999996 999999999999999999999976 999999999999875

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

Probab=99.45  E-value=1.8e-13  Score=101.14  Aligned_cols=77  Identities=21%  Similarity=0.364  Sum_probs=71.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      -..|.|-||.+-+|.++|..+|++||.+- .|.|+.|. |+.++|||||.|....+|+.||.. +|.+|+|+.|+|.+|.
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vg-DVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVG-DVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCccc-ceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            45799999999999999999999999664 69999998 999999999999999999999975 9999999999998774

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

Probab=99.43  E-value=7.4e-13  Score=103.84  Aligned_cols=77  Identities=23%  Similarity=0.470  Sum_probs=72.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ..+|||+|||+.+|+++|.++|..||.+. .|.+..+. +|.++|+|||+|.+.++|..|+.. ++..|.|++|.|.++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~-~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVK-RVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCcee-EEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            58999999999999999999999999875 78998885 999999999999999999999987 9999999999999964

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

Probab=99.43  E-value=5.4e-13  Score=96.21  Aligned_cols=65  Identities=15%  Similarity=0.171  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||++|+++|++||.|.++. +.|. +|+++|||||+|.+.++|+.|| ++|+..++++.|.|..+.
T Consensus        45 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         45 GTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             CCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            468999999999999999984 4454 8999999999999999999999 589999999999997765

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

Probab=99.42  E-value=7.2e-13  Score=95.63  Aligned_cols=74  Identities=23%  Similarity=0.288  Sum_probs=64.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      ...|||+||+..+++.||...|..||.+- +|-+-.    .+.|||||+|+++-||+.|+. +||..|.|..|+|.+++-
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lr-svWvAr----nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G   84 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLR-SVWVAR----NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG   84 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcce-eEEEee----cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence            56899999999999999999999999765 454444    466799999999999999996 599999999999999864

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

Probab=99.41  E-value=2.1e-13  Score=101.76  Aligned_cols=82  Identities=26%  Similarity=0.312  Sum_probs=74.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ..++|||++|...+|+.-|.+.|-+||.+. .|.++.|. +++++|||||+|.-.+||.+|+. +|+..|-||.|+|.++
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~-dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A   87 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIK-DIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA   87 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchh-hcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence            457999999999999999999999999765 79998886 89999999999999999999995 5999999999999999


Q ss_pred             ChHHH
Q 029263          184 SHEEM  188 (196)
Q Consensus       184 ~~~~~  188 (196)
                      .|...
T Consensus        88 kP~ki   92 (298)
T KOG0111|consen   88 KPEKI   92 (298)
T ss_pred             CCccc
Confidence            87643

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

Probab=99.40  E-value=9.1e-13  Score=109.63  Aligned_cols=78  Identities=17%  Similarity=0.402  Sum_probs=72.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      ..|||+|+||++++++|..+|+..|.+. +++++.|. +|+++||||++|.+.++|..|+.. ||..++||+|+|.++..
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~-s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVL-SFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccc-eeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            7899999999999999999999999776 79999887 999999999999999999999976 99999999999999864


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        98 ~   98 (435)
T KOG0108|consen   98 R   98 (435)
T ss_pred             c
Confidence            4

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

Probab=99.36  E-value=1.1e-11  Score=101.02  Aligned_cols=77  Identities=17%  Similarity=0.334  Sum_probs=69.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCcc-CCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTL-GSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l-~gr~i~V~~  182 (196)
                      .+.-|||+.||.++.|++|.-+|+..|.+- .++|++|+ +|.++|||||+|.+.++|+.|+.. |++.| .|+.|.|.+
T Consensus        82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~-elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~  160 (506)
T KOG0117|consen   82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIY-ELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCV  160 (506)
T ss_pred             CCceEEecCCCccccchhhHHHHHhcccee-eEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEE
Confidence            456799999999999999999999999666 69999995 999999999999999999999975 88877 588888877


Q ss_pred             C
Q 029263          183 S  183 (196)
Q Consensus       183 ~  183 (196)
                      +
T Consensus       161 S  161 (506)
T KOG0117|consen  161 S  161 (506)
T ss_pred             e
Confidence            6

>PF00076 RRM_1: RNA recognition motif

Probab=99.36  E-value=4.2e-12  Score=79.83  Aligned_cols=61  Identities=18%  Similarity=0.171  Sum_probs=54.5

Q ss_pred             CCchHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEE
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVE   62 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~   62 (196)
                      ...|+++|+++|+.||.|..+.+. +.+++++|+|||+|.+.++|.+|++ +++..++++.|+
T Consensus         8 ~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    8 PDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             TTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            457999999999999999888544 4799999999999999999999995 899999999874

(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 ....

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

Probab=99.36  E-value=3.4e-12  Score=97.59  Aligned_cols=78  Identities=19%  Similarity=0.324  Sum_probs=73.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .-|.|.=||...|.++++.+|+..|.++ +++|++|+ +|.+.||+||-|.+++||++|++- ||..|..+.|.|+++.+
T Consensus        42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiE-ScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARP  120 (360)
T KOG0145|consen   42 TNLIVNYLPQNMTQDELRSLFGSIGEIE-SCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARP  120 (360)
T ss_pred             ceeeeeecccccCHHHHHHHhhccccee-eeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccC
Confidence            4588999999999999999999999988 99999999 999999999999999999999975 99999999999999865


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus       121 S  121 (360)
T KOG0145|consen  121 S  121 (360)
T ss_pred             C
Confidence            3

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

Probab=99.35  E-value=1.9e-11  Score=98.69  Aligned_cols=171  Identities=16%  Similarity=0.178  Sum_probs=119.4

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      |.-|.|-|-.+|+-||.|..|.|....+   --|.|++.+...|+-|+ .++|.++.|+.|+|..+.........+.  +
T Consensus       308 ~~VT~d~LftlFgvYGdVqRVkil~nkk---d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~eg--q  382 (492)
T KOG1190|consen  308 EAVTPDVLFTLFGVYGDVQRVKILYNKK---DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPREG--Q  382 (492)
T ss_pred             hccchhHHHHHHhhhcceEEEEeeecCC---cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCCCC--C
Confidence            3468899999999999999996654333   35999999999999999 6899999999999988765443211111  1


Q ss_pred             cCCCCCCC---C-----CCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEE
Q 029263           81 DVRGGSPH---R-----SIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEA  152 (196)
Q Consensus        81 ~~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~a  152 (196)
                      +.++-...   .     ..++.+....   .-+.+.++++.|+|.+++|++++.+|..-|.........    ++.+-+|
T Consensus       383 ~d~glT~dy~~spLhrfkkpgsKN~~n---i~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kma  455 (492)
T KOG1190|consen  383 EDQGLTKDYGNSPLHRFKKPGSKNYQN---IFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMA  455 (492)
T ss_pred             ccccccccCCCCchhhccCcccccccc---cCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCccee
Confidence            11110000   0     0011111111   123457899999999999999999999887543122221    2344589


Q ss_pred             EEEeCCHHHHHHHHHh-CCCccCCe-EEEEEECC
Q 029263          153 FVEFANAEDSKAAMAK-DRMTLGSR-YIELFPSS  184 (196)
Q Consensus       153 fV~F~~~~~A~~Al~~-~g~~l~gr-~i~V~~~~  184 (196)
                      ++.+.+.++|..|+-. |...+++. -|+|+.++
T Consensus       456 l~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk  489 (492)
T KOG1190|consen  456 LPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK  489 (492)
T ss_pred             ecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence            9999999999999965 88999876 89998875

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

Probab=99.35  E-value=6.5e-12  Score=102.19  Aligned_cols=85  Identities=19%  Similarity=0.372  Sum_probs=74.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhc-CCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKD-FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~-~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..+.+|+.|+||++.+++|+++|.. .|.++ .|.|+.|..|+++|+|.|+|++++.+++|+.. |.+.+.||+|.|+-.
T Consensus        43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~-yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd  121 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVE-YVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED  121 (608)
T ss_pred             ccceEEEecCcchhhhHhHHHHHHHhcCceE-eeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence            3456999999999999999999964 56776 89999999999999999999999999999976 999999999999877


Q ss_pred             ChHHHHHH
Q 029263          184 SHEEMDEA  191 (196)
Q Consensus       184 ~~~~~~~~  191 (196)
                      -.++..++
T Consensus       122 ~d~q~~~~  129 (608)
T KOG4212|consen  122 HDEQRDQY  129 (608)
T ss_pred             Cchhhhhh
Confidence            55555444

>smart00361 RRM_1 RNA recognition motif

Probab=99.31  E-value=7.1e-12  Score=79.37  Aligned_cols=58  Identities=10%  Similarity=0.122  Sum_probs=50.8

Q ss_pred             HHHHHHHhc----ccCcceeEE--Eec-CC--CcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEE
Q 029263            6 VQVLCTIHH----QLMDIVDVL--FVH-KN--NKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEV   63 (196)
Q Consensus         6 e~dl~~~F~----~~g~i~~v~--~~~-~~--g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v   63 (196)
                      ++||+++|+    .||.|.++.  +.+ .+  |+++|+|||.|.+.++|.+|+ .+|+..++|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            689999999    999999873  444 35  899999999999999999999 58999999998865

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

Probab=99.27  E-value=1.2e-11  Score=90.13  Aligned_cols=75  Identities=20%  Similarity=0.281  Sum_probs=64.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||.++-+.+|+++|-+||.+. .|.|....  .+.+||||+|+++-+|+.|+.- +|+.++|..|+|.++
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~-~ieLK~r~--g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp   80 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIR-EIELKNRP--GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP   80 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceE-EEEeccCC--CCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence            457899999999999999999999999654 45554332  3457999999999999999976 999999999999987

>smart00361 RRM_1 RNA recognition motif

Probab=99.27  E-value=2.4e-11  Score=76.92  Aligned_cols=59  Identities=19%  Similarity=0.360  Sum_probs=50.5

Q ss_pred             HHHHHHHhh----cCCCccceEE-EEeCC-C--CCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          121 KDDIMDFFK----DFVLSEDSIH-ITMNS-D--GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       121 ~~~l~~~F~----~~g~~~~~v~-l~~~~-~--g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      +++|+++|+    .||.+. +|. ++.++ +  |.++|+|||+|.+.++|.+|+.. ||..+.||.|++
T Consensus         2 ~~~l~~~~~~~~~~fG~v~-~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVG-KINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCee-EEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            578999999    999776 564 55444 4  89999999999999999999975 999999999986

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.27  E-value=2.9e-11  Score=76.35  Aligned_cols=60  Identities=15%  Similarity=0.120  Sum_probs=50.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhc-ccccCCeeEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRN-RQNMGRRYVE   62 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~-~~~l~~~~i~   62 (196)
                      ..|++||+++|+.||.|.++. +.+++|.++|+|||+|.+.++|.+|++.+ +..++|+.|.
T Consensus         9 ~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    9 STTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             T--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            468999999999999988884 45667999999999999999999999764 5889998764

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>PF13893 RRM_5: RNA recognition motif

Probab=99.25  E-value=3.2e-11  Score=72.90  Aligned_cols=55  Identities=27%  Similarity=0.431  Sum_probs=46.7

Q ss_pred             HHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          124 IMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       124 l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      |.++|++||.+. .|.+....    +|+|||+|.+.++|..|+.. ||..++|++|+|.+|
T Consensus         1 L~~~f~~fG~V~-~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVK-KIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EE-EEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEE-EEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            678999999776 67666443    58999999999999999975 999999999999875

(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 ....

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.25  E-value=2.4e-11  Score=94.23  Aligned_cols=63  Identities=13%  Similarity=0.040  Sum_probs=56.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||++||+.||+|.+|.+. +.  .++|||||+|.++++|+.||.+++..|+++.|.|.++.
T Consensus        15 ~tTE~dLrefFS~~G~I~~V~I~~d~--~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~   78 (260)
T PLN03120         15 KATERDIKEFFSFSGDIEYVEMQSEN--ERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAE   78 (260)
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeecC--CCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEecc
Confidence            47999999999999999999654 43  35799999999999999999999999999999998765

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

Probab=99.23  E-value=2.5e-11  Score=91.97  Aligned_cols=66  Identities=18%  Similarity=0.049  Sum_probs=57.8

Q ss_pred             CCchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      |..+|+||+++|.+||.|..|. ..| .+|.++|||||.|.++++|.+|| .+||.-+++-.+.|..+.
T Consensus       199 ed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk  267 (270)
T KOG0122|consen  199 EDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK  267 (270)
T ss_pred             cccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence            5678999999999999999984 345 49999999999999999999999 589998888888886655

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.23  E-value=3.3e-11  Score=92.11  Aligned_cols=64  Identities=9%  Similarity=0.079  Sum_probs=57.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||++||+.||+|.+|.+... +...|+|||+|.++++|+.||.++|..|.+++|.|.+..
T Consensus        16 ~tTE~dLrefFS~~G~I~~V~I~~D-~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~   79 (243)
T PLN03121         16 KATEKDVYDFFSHCGAIEHVEIIRS-GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG   79 (243)
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEecC-CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence            4799999999999999999965432 456789999999999999999999999999999998866

>PF13893 RRM_5: RNA recognition motif

Probab=99.22  E-value=8.4e-11  Score=71.01  Aligned_cols=54  Identities=19%  Similarity=0.231  Sum_probs=46.6

Q ss_pred             HHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEE
Q 029263            9 LCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFR   65 (196)
Q Consensus         9 l~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~   65 (196)
                      |.++|++||+|.++.+....   +|+|||+|.+.++|..|+ .+|+..++|++|.|..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            68999999999999766443   589999999999999999 5899999999999864

(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 ....

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

Probab=99.21  E-value=1.1e-11  Score=98.83  Aligned_cols=76  Identities=26%  Similarity=0.399  Sum_probs=70.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      .+|||+.+.|...|+.|+..|.+||.+. +|.+.-|+ ||+++|||||+|+-++.|.-|+.. ||..||||.|.|...+
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIK-SInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs  191 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIK-SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  191 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcc-eeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence            4799999999999999999999999776 88888777 999999999999999999999965 9999999999998654

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

Probab=99.20  E-value=1.9e-09  Score=85.64  Aligned_cols=174  Identities=17%  Similarity=0.239  Sum_probs=117.2

Q ss_pred             chHHHHHHHhcccCccee--------EEEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChH---H
Q 029263            4 PQVQVLCTIHHQLMDIVD--------VLFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQ---E   70 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~--------v~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~---~   70 (196)
                      .|-+++.++|++||-|..        |.++ +..|+.+|=|.+.|-..++++.|++ +++..+.|..|.|..+.=+   +
T Consensus       146 iT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge  225 (382)
T KOG1548|consen  146 ITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGE  225 (382)
T ss_pred             ccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccC
Confidence            478899999999887753        4444 6789999999999999999999996 6999999999999765411   0


Q ss_pred             HHHHHhhc--cccCC----CCCCCCCCCCCCCCCCCCCCCCcccEEEEcCC----CCCCC-------HHHHHHHhhcCCC
Q 029263           71 YYKAIANE--VSDVR----GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGL----PFSAG-------KDDIMDFFKDFVL  133 (196)
Q Consensus        71 ~~~~~~~~--~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL----p~~~t-------~~~l~~~F~~~g~  133 (196)
                      +.......  ..+.+    .....-+|....   ....-.....+|.++||    .+..+       +++|++--+.||.
T Consensus       226 ~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~---~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~  302 (382)
T KOG1548|consen  226 YDASKKEKGKCKDKKKLKKQQQKLLDWRPDR---DDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQ  302 (382)
T ss_pred             cCcccccccccccHHHHHHHHHhhcccCCCc---cccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCC
Confidence            00000000  00000    000000111000   11122345678999998    23444       3566666789998


Q ss_pred             ccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          134 SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       134 ~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +. +|.+..   ..+.|.+-|.|.+.++|..|++. +|+.++||.|+-++..
T Consensus       303 v~-~vvv~d---~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~D  350 (382)
T KOG1548|consen  303 VR-KVVVYD---RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWD  350 (382)
T ss_pred             cc-eEEEec---cCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeC
Confidence            76 555542   35778999999999999999986 9999999999987763

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

Probab=99.19  E-value=2.9e-11  Score=95.19  Aligned_cols=63  Identities=17%  Similarity=0.217  Sum_probs=56.2

Q ss_pred             HHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChH
Q 029263            6 VQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~   69 (196)
                      |.||+..|.+||.|+||- |.+.+| +|||+||.|++.+||++|- ++|+..+.||.|+|..++.+
T Consensus       110 dpDL~aMF~kfG~VldVEIIfNERG-SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar  174 (376)
T KOG0125|consen  110 DPDLRAMFEKFGKVLDVEIIFNERG-SKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR  174 (376)
T ss_pred             CccHHHHHHhhCceeeEEEEeccCC-CCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence            679999999999999994 455554 9999999999999999999 78999999999999887744

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

Probab=99.16  E-value=6.5e-10  Score=87.05  Aligned_cols=153  Identities=16%  Similarity=0.158  Sum_probs=98.5

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcCh--HHHHHHHhh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKR--QEYYKAIAN   77 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~--~~~~~~~~~   77 (196)
                      ..|+++|.++|..||.|..+. ..+ .+|.++|+|||+|.+.++|..|++ +++..+.++.|.|.....  ......   
T Consensus       126 ~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~---  202 (306)
T COG0724         126 DVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSEL---  202 (306)
T ss_pred             CCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccccccccccc---
Confidence            358999999999999998875 446 489999999999999999999995 677999999999977542  000000   


Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCC-CCceEEEEEe
Q 029263           78 EVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDG-RPTGEAFVEF  156 (196)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g-~~~G~afV~F  156 (196)
                           ... ..... .................+++.+++...+..++..+|..+|.+. .+.+.....+ ......++.+
T Consensus       203 -----~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  274 (306)
T COG0724         203 -----SNN-LDASF-AKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIV-RASLPPSKDGKIPKSRSFVGN  274 (306)
T ss_pred             -----ccc-cchhh-hccccccccccccccceeeccccccccchhHHHHhccccccce-eeeccCCCCCcccccccccch
Confidence                 000 00000 0000111112234457899999999999999999999999653 3444433322 2333444444


Q ss_pred             CCHHHHHHHH
Q 029263          157 ANAEDSKAAM  166 (196)
Q Consensus       157 ~~~~~A~~Al  166 (196)
                      .....+..++
T Consensus       275 ~~~~~~~~~~  284 (306)
T COG0724         275 EASKDALESN  284 (306)
T ss_pred             hHHHhhhhhh
Confidence            4334444433

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

Probab=99.16  E-value=4.3e-11  Score=90.31  Aligned_cols=62  Identities=15%  Similarity=0.142  Sum_probs=54.4

Q ss_pred             chHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      .+.++|+++|+.||+|+++ +|.|+ +|+++||+||.|.+.+.|.+|++.....++||.-.+..
T Consensus        24 T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnl   87 (247)
T KOG0149|consen   24 THKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNL   87 (247)
T ss_pred             cchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccch
Confidence            3578999999999999996 56675 99999999999999999999999988999998765543

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

Probab=99.14  E-value=2.8e-10  Score=84.37  Aligned_cols=86  Identities=23%  Similarity=0.411  Sum_probs=72.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+++..+|.-..+.+|..+|.+|| .+. .+++.++. ||.++|||||+|++++.|+-|-. +|++.|+|+.|.+..
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~-r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v  126 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVT-RFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV  126 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeE-EEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence            346799999999999999999999995 443 56665665 99999999999999999988875 599999999999999


Q ss_pred             CChH-HHHHHH
Q 029263          183 SSHE-EMDEAL  192 (196)
Q Consensus       183 ~~~~-~~~~~~  192 (196)
                      .-++ ..+..+
T Consensus       127 mppe~~v~~~~  137 (214)
T KOG4208|consen  127 MPPEQKVEKNL  137 (214)
T ss_pred             eCchhhhhhhh
Confidence            9888 444443

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

Probab=99.14  E-value=5.2e-11  Score=88.28  Aligned_cols=63  Identities=16%  Similarity=0.122  Sum_probs=56.8

Q ss_pred             chHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      .|.++|+.+|++||.|.||.|. |. ++.++|||||.|....||+.|+ .++|.+|+|+.+.|.-+
T Consensus        25 Tspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a   90 (256)
T KOG4207|consen   25 TSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA   90 (256)
T ss_pred             CCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence            5789999999999999999765 54 9999999999999999999999 58999999999988544

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

Probab=99.09  E-value=3.2e-09  Score=79.79  Aligned_cols=63  Identities=21%  Similarity=0.267  Sum_probs=49.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCcc
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTL  173 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l  173 (196)
                      ..+|||-||.++|||++|+.+|+.|.--.  +--++.+.|.+  .|||+|..-+.|..||. +.|..|
T Consensus       210 cstlfianl~~~~~ed~l~~~~~~~~gf~--~l~~~~~~g~~--vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  210 CSTLFIANLGPNCTEDELKQLLSRYPGFH--ILKIRARGGMP--VAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             hhhHhhhccCCCCCHHHHHHHHHhCCCce--EEEEecCCCcc--eEeecHHHHHHHHHHHHHhhccee
Confidence            35899999999999999999999985322  33345555655  89999999999999995 466554

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

Probab=99.09  E-value=2.6e-10  Score=86.99  Aligned_cols=136  Identities=20%  Similarity=0.203  Sum_probs=102.5

Q ss_pred             ecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCCCCCCCCCCCCC
Q 029263           25 VHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDS  103 (196)
Q Consensus        25 ~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (196)
                      .+.-+.-.++||+.|...+.-.++- +.++++++.+.|+....+                      .|..+  +.  .+-
T Consensus       133 ~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gt----------------------swedP--sl--~ew  186 (290)
T KOG0226|consen  133 RDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGT----------------------SWEDP--SL--AEW  186 (290)
T ss_pred             hcCCCccCcccccCcchhhhhhhhccccccccccCcceeecccc----------------------ccCCc--cc--ccC
Confidence            4556677889999998888777776 457777777765543222                      11100  00  111


Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....+||++.|.-+++.+-|-..|..|-... ..++++++ +|+++||+||-|.++.++.+||.. ||..+|+|+|.+.
T Consensus       187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~-~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR  265 (290)
T KOG0226|consen  187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQ-KAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR  265 (290)
T ss_pred             ccccceeecccccccccHHHHHHHHHhccchh-hccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence            23457899999999999999999999987554 46677776 999999999999999999999976 9999999999987


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      .+.-++
T Consensus       266 kS~wke  271 (290)
T KOG0226|consen  266 KSEWKE  271 (290)
T ss_pred             hhhHHh
Confidence            775554

>smart00360 RRM RNA recognition motif

Probab=99.09  E-value=5.1e-10  Score=69.57  Aligned_cols=61  Identities=23%  Similarity=0.213  Sum_probs=52.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEV   63 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v   63 (196)
                      ..|+++|+++|+.||.|..+.+. +. ++.++|+|||+|.+.++|..|++ +++..++++.+.|
T Consensus         7 ~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        7 DVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             ccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            46899999999999999888543 43 68999999999999999999994 6778888888766

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

Probab=99.09  E-value=1.1e-09  Score=92.24  Aligned_cols=178  Identities=19%  Similarity=0.214  Sum_probs=117.9

Q ss_pred             CchHHHHHHHhcccCcceeE-EEec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..++++++++...||.+..- ++.| .+|.++||||-+|.+.--...|+ .+||..++++.+.|..+...........  
T Consensus       300 ~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~--  377 (500)
T KOG0120|consen  300 YLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNF--  377 (500)
T ss_pred             ccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccC--
Confidence            46889999999997777664 3444 47999999999999999999999 6899999999888854432211100000  


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCC--CCC-CCH-------HHHHHHhhcCCCccceEEEEeC-C---C
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGL--PFS-AGK-------DDIMDFFKDFVLSEDSIHITMN-S---D  145 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL--p~~-~t~-------~~l~~~F~~~g~~~~~v~l~~~-~---~  145 (196)
                          . ......+.-..... ......+.+|.+.|+  |.+ ..+       ++++.-+++||.+. +|.+++. .   .
T Consensus       378 ----~-~~~~~~~~i~~~~~-q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~-~v~ipr~~~~~~~  450 (500)
T KOG0120|consen  378 ----N-ISQSQVPGIPLLMT-QMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVR-SVEIPRPYPDENP  450 (500)
T ss_pred             ----C-ccccccccchhhhc-ccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCcee-EEecCCCCCCCCc
Confidence                0 00000000000000 011224456666665  111 111       34555667888776 7888766 2   4


Q ss_pred             CCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHH
Q 029263          146 GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMD  189 (196)
Q Consensus       146 g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~  189 (196)
                      ....|--||+|.+.+++++|+.. +|.++.||.|-.++..+..+.
T Consensus       451 ~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDkY~  495 (500)
T KOG0120|consen  451 VPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDKYH  495 (500)
T ss_pred             CCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHHhh
Confidence            45678999999999999999975 999999999999999877654

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

Probab=99.04  E-value=5.2e-09  Score=84.82  Aligned_cols=177  Identities=18%  Similarity=0.209  Sum_probs=111.2

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEE--EEEcChHHHHHHHhh----
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVE--VFRSKRQEYYKAIAN----   77 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~--v~~~~~~~~~~~~~~----   77 (196)
                      |-|-|..+|+.||.|..|+...++...  .|.|+|.+...|..|- .++|+.+......  +--+.-...+.....    
T Consensus       163 slDVLHqvFS~fG~VlKIiTF~Knn~F--QALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkSR  240 (492)
T KOG1190|consen  163 SLDVLHQVFSKFGFVLKIITFTKNNGF--QALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKSR  240 (492)
T ss_pred             EHHHHHHHHhhcceeEEEEEEecccch--hhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccccccc
Confidence            557899999999999998744443222  5999999999999997 5777776543322  211110000000000    


Q ss_pred             -ccccCC-CC----------------CCCCCC-CCC-----C--CCCCCCCCCC-cccEEEEcCCC-CCCCHHHHHHHhh
Q 029263           78 -EVSDVR-GG----------------SPHRSI-PRA-----K--SHDEGKDSAV-HTGILRLRGLP-FSAGKDDIMDFFK  129 (196)
Q Consensus        78 -~~~~~~-~~----------------~~~~~~-~~~-----~--~~~~~~~~~~-~~~~l~v~nLp-~~~t~~~l~~~F~  129 (196)
                       ...... .+                .+.... +.+     .  ....++.... .+..|.|.||- +.+|.+-|.-+|+
T Consensus       241 DyTnp~LP~gd~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~~~~~~~~~n~vllvsnln~~~VT~d~LftlFg  320 (492)
T KOG1190|consen  241 DYTNPDLPVGDGQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAADGKIESPSANVVLLVSNLNEEAVTPDVLFTLFG  320 (492)
T ss_pred             cccCCCCCCCccccccchhhhccccccccccCCcccCCccchhhcccccccccCCCceEEEEecCchhccchhHHHHHHh
Confidence             000000 00                000000 000     0  0000111111 24678888875 6799999999999


Q ss_pred             cCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHH
Q 029263          130 DFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEM  188 (196)
Q Consensus       130 ~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~  188 (196)
                      -||.+. .|+|+..+.    --|+|.+.+...|+-|+.. +|..|.|++|+|++++...+
T Consensus       321 vYGdVq-RVkil~nkk----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~v  375 (492)
T KOG1190|consen  321 VYGDVQ-RVKILYNKK----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNV  375 (492)
T ss_pred             hhcceE-EEEeeecCC----cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccc
Confidence            999886 888887642    3599999999999999975 99999999999999976543

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

Probab=99.04  E-value=1.1e-09  Score=84.40  Aligned_cols=87  Identities=23%  Similarity=0.305  Sum_probs=73.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCC-ccC--CeEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRM-TLG--SRYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~-~l~--gr~i~V~  181 (196)
                      ..+.|||+=|...-.|+|++.+|.+||.++ .+.+++..+|.++|+|||+|.+..+|..|+.. ||. .+-  ...|.|+
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~-e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK   96 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIE-ECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK   96 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcc-eeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence            457899999999999999999999999876 78999999999999999999999999999975 764 443  4789999


Q ss_pred             ECChHHHHHHHHc
Q 029263          182 PSSHEEMDEALSR  194 (196)
Q Consensus       182 ~~~~~~~~~~~~~  194 (196)
                      +++.+.- +.+||
T Consensus        97 ~ADTdkE-R~lRR  108 (371)
T KOG0146|consen   97 FADTDKE-RTLRR  108 (371)
T ss_pred             eccchHH-HHHHH
Confidence            9966543 33443

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

Probab=99.04  E-value=9e-10  Score=85.09  Aligned_cols=78  Identities=22%  Similarity=0.387  Sum_probs=70.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      ..|+|.|||+.++.+||+++|..||... .+.+-+++.|.+.|.|-|.|...+||.+|+.. |+..|+|+++.+.++...
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~-r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~  162 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELFAEFGELK-RVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP  162 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHHHHhccce-EEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence            5799999999999999999999998443 67778889999999999999999999999976 999999999999887654

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

Probab=99.01  E-value=6.2e-10  Score=76.63  Aligned_cols=61  Identities=11%  Similarity=0.103  Sum_probs=54.2

Q ss_pred             chHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVF   64 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~   64 (196)
                      .||++|-++|+.||.|..|++ .| .+..+.||+||+|.+.++|+.||+ .+++.|+.++|.+-
T Consensus        48 ttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D  111 (153)
T KOG0121|consen   48 TTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID  111 (153)
T ss_pred             ecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence            589999999999999999753 34 477899999999999999999996 69999999999883

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

Probab=99.01  E-value=6.1e-10  Score=93.66  Aligned_cols=148  Identities=17%  Similarity=0.183  Sum_probs=107.6

Q ss_pred             cccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCCCCCCCCCCCCCCCcccE
Q 029263           30 KFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGI  109 (196)
Q Consensus        30 ~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (196)
                      ..+.|||++|.+.++|..|+..++..+.|++..+...+.......+-.....  ...-...+.       ..........
T Consensus       221 ~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~--~~~~~~~~~-------~t~~~~~~~k  291 (500)
T KOG0120|consen  221 LEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQ--LGKVGLLPA-------STDVPDSPNK  291 (500)
T ss_pred             ccccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhcc--ccccCCccc-------ccCcccccch
Confidence            3456999999999999999999999999998888655422211111111000  000000000       0112234567


Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChHH
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~  187 (196)
                      +||.|||...++++++++.+.||... ...++.+. +|.++||||.+|.++.....|+.- ||..++++.|.|..+-...
T Consensus       292 i~v~~lp~~l~~~q~~Ell~~fg~lk-~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~  370 (500)
T KOG0120|consen  292 IFVGGLPLYLTEDQVKELLDSFGPLK-AFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGA  370 (500)
T ss_pred             hhhccCcCccCHHHHHHHHHhcccch-hheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccc
Confidence            99999999999999999999999654 67777776 799999999999999999999964 9999999999998875443

>smart00362 RRM_2 RNA recognition motif

Probab=99.00  E-value=2.5e-09  Score=66.67  Aligned_cols=61  Identities=20%  Similarity=0.166  Sum_probs=51.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEV   63 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v   63 (196)
                      ..++++|+++|+.||.+..+.+....+.++|+|||+|.+.++|..|++ +++..+.++.|.|
T Consensus        10 ~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362       10 DVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            468899999999999999885543237889999999999999999995 6778888888776

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

Probab=98.97  E-value=7.8e-10  Score=85.97  Aligned_cols=71  Identities=20%  Similarity=0.235  Sum_probs=63.4

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECChH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~~  186 (196)
                      ..|||+|||..+++++|+.+|++||.+. .+.|+++       ||||+.++...|+.|+. +|++.|+|..|.|..++.+
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVl-ECDIvKN-------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK   74 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVL-ECDIVKN-------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK   74 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceE-eeeeecc-------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence            3689999999999999999999999665 5888855       99999999999999997 6999999999999988644

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.96  E-value=1.2e-10  Score=101.56  Aligned_cols=131  Identities=18%  Similarity=0.215  Sum_probs=108.1

Q ss_pred             hHHHHHHHhcccCcceeEEE--ecCCCcccceEEEEeCCHHHHHHHHHhc-ccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            5 QVQVLCTIHHQLMDIVDVLF--VHKNNKFTGEAFCVLGYPLQVDFALQRN-RQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~--~~~~g~~~G~afV~F~~~~~a~~Al~~~-~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      .+.||...|+.++.+..+.+  ...+++.+|.||++|..++++.+|+..+ +..++                        
T Consensus       680 ~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g------------------------  735 (881)
T KOG0128|consen  680 SEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG------------------------  735 (881)
T ss_pred             cCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh------------------------
Confidence            56789999988776665532  3347889999999999999999999654 43333                        


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED  161 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~  161 (196)
                                               ...|+|+|.|+.+|.++++.+++.+|.+. +.+++....|+++|.|+|.|.++.+
T Consensus       736 -------------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~-~~~~vt~r~gkpkg~a~v~y~~ea~  789 (881)
T KOG0128|consen  736 -------------------------KISVAISGPPFQGTKEELKSLASKTGNVT-SLRLVTVRAGKPKGKARVDYNTEAD  789 (881)
T ss_pred             -------------------------hhhhheeCCCCCCchHHHHhhccccCCcc-ccchhhhhccccccceeccCCCcch
Confidence                                     11489999999999999999999999876 6778888899999999999999999


Q ss_pred             HHHHHHh-CCCccCCeEEEEEECCh
Q 029263          162 SKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       162 A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      |.+++.. +...+..+.+.|.++.+
T Consensus       790 ~s~~~~s~d~~~~rE~~~~v~vsnp  814 (881)
T KOG0128|consen  790 ASRKVASVDVAGKRENNGEVQVSNP  814 (881)
T ss_pred             hhhhcccchhhhhhhcCccccccCC
Confidence            9999976 88888888888777655

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

Probab=98.95  E-value=8.1e-08  Score=77.27  Aligned_cols=174  Identities=16%  Similarity=0.198  Sum_probs=116.8

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCee--EE----------EEEcChHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRY--VE----------VFRSKRQEY   71 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~--i~----------v~~~~~~~~   71 (196)
                      |-|-|..+...+|.|..|.|..++|-   .|.|+|++.+.|++|- .+||..+....  ++          |.+..+..|
T Consensus       135 tvDVly~Icnp~GkVlRIvIfkkngV---QAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV~knd~Dtw  211 (494)
T KOG1456|consen  135 TVDVLYTICNPQGKVLRIVIFKKNGV---QAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNVQKNDKDTW  211 (494)
T ss_pred             chhhhhhhcCCCCceEEEEEEeccce---eeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeeeeecCCccc
Confidence            66788999999999999988877875   7999999999999999 57888775332  22          333333333


Q ss_pred             HHHHhhcc---ccCCC-----CCC--C----CCCCC-----------------CCCC-----C----CCCCCCCcccEEE
Q 029263           72 YKAIANEV---SDVRG-----GSP--H----RSIPR-----------------AKSH-----D----EGKDSAVHTGILR  111 (196)
Q Consensus        72 ~~~~~~~~---~~~~~-----~~~--~----~~~~~-----------------~~~~-----~----~~~~~~~~~~~l~  111 (196)
                      .-.+....   ++.+.     +.+  .    ..+.+                 +...     .    .+......+..+.
T Consensus       212 DyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~g~VmM  291 (494)
T KOG1456|consen  212 DYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRDGRGYASPGGGAPGCVMM  291 (494)
T ss_pred             cccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCccccccCCCCCCCCCCCCCcEEE
Confidence            21111110   00000     000  0    00000                 0000     0    0012233456789


Q ss_pred             EcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          112 LRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       112 v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      |.+|... .+-+.|-.+|..||.++ .|++++.+.    |.|.|++.+....++|+.. |+..+-|..|.|..++..
T Consensus       292 VyGLdh~k~N~drlFNl~ClYGNV~-rvkFmkTk~----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~  363 (494)
T KOG1456|consen  292 VYGLDHGKMNCDRLFNLFCLYGNVE-RVKFMKTKP----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN  363 (494)
T ss_pred             EEeccccccchhhhhhhhhhcCcee-eEEEeeccc----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence            9999864 67799999999999887 888887654    5999999999999999975 888889999999888643

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

Probab=98.94  E-value=2.1e-09  Score=83.79  Aligned_cols=61  Identities=15%  Similarity=0.037  Sum_probs=54.9

Q ss_pred             chHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVF   64 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~   64 (196)
                      .+|.+|+..|+.||.|..|. +.| .+|+++|||||+|+.+-+...|- +.++..|+++.|.|-
T Consensus       113 T~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VD  176 (335)
T KOG0113|consen  113 TSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVD  176 (335)
T ss_pred             ccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEE
Confidence            58999999999999999985 556 49999999999999999999999 579999999988773

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

Probab=98.94  E-value=3.6e-09  Score=79.62  Aligned_cols=77  Identities=21%  Similarity=0.332  Sum_probs=67.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHH----HhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          107 TGILRLRGLPFSAGKDDIMD----FFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~----~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      +.+|||.||...+..++|+.    +|++||.+   +.|+.-++.+.+|-|||.|.+.+.|-.|+.. +|..+-|++++|-
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~i---ldI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq   85 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKI---LDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ   85 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCe---EEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence            34999999999999999998    99999965   3455556788999999999999999999965 9999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      +|...
T Consensus        86 yA~s~   90 (221)
T KOG4206|consen   86 YAKSD   90 (221)
T ss_pred             cccCc
Confidence            98543

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

Probab=98.93  E-value=1.9e-09  Score=78.15  Aligned_cols=62  Identities=15%  Similarity=0.077  Sum_probs=55.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|+.||...|+.||.+.+|++..   ++.|||||+|+++-||+.|+ .+++..++|..|.|..++
T Consensus        21 ~a~k~eLE~~F~~yG~lrsvWvAr---nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~   83 (195)
T KOG0107|consen   21 RATKRELERAFSKYGPLRSVWVAR---NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST   83 (195)
T ss_pred             CcchHHHHHHHHhcCcceeEEEee---cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence            578999999999999999997653   46789999999999999999 589999999988987765

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

Probab=98.92  E-value=1.5e-09  Score=75.48  Aligned_cols=66  Identities=12%  Similarity=0.027  Sum_probs=58.0

Q ss_pred             CCchHHHHHHHhcccCcceeEE--EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVL--FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~--~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      |-+||+||.+.|..||+|..+.  +...+|..+|||.|+|++.++|++|+ .+|+..|-+..|.|-.|.
T Consensus        82 eEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F  150 (170)
T KOG0130|consen   82 EEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF  150 (170)
T ss_pred             cchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence            5689999999999999999974  33469999999999999999999999 689999999988885554

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

Probab=98.92  E-value=4.2e-09  Score=83.67  Aligned_cols=74  Identities=24%  Similarity=0.289  Sum_probs=65.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh--CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK--DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~--~g~~l~gr~i~V~~~  183 (196)
                      .-.+|||+||-..+++.+|+++|-+||.+. +|.+..     .+|+|||+|.+.+.|+.|...  |...+.|++|.|.|+
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeir-si~~~~-----~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg  300 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIR-SIRILP-----RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWG  300 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCee-eEEeec-----ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeC
Confidence            347899999999999999999999999887 777764     345999999999999999864  888999999999999


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus       301 ~~  302 (377)
T KOG0153|consen  301 RP  302 (377)
T ss_pred             CC
Confidence            77

>PLN03213 repressor of silencing 3; Provisional

Probab=98.92  E-value=3.1e-09  Score=88.12  Aligned_cols=64  Identities=13%  Similarity=0.020  Sum_probs=57.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCH--HHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYP--LQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~--~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|++||+.+|+.||.|.+|.|...+|  +|||||+|.+.  .++.+|| .+|+....|+.|+|..+.+
T Consensus        21 dVTEDDLravFSeFGsVkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         21 SVGRDDLLKIFSPMGTVDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            468999999999999999997666677  89999999987  6899999 6899999999999988764

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

Probab=98.88  E-value=5.2e-09  Score=83.49  Aligned_cols=83  Identities=23%  Similarity=0.237  Sum_probs=74.2

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .++.+.|||=-|-+-+|.+||.-+|+.||.+. ++.+++|. +|.+..||||+|.+.++.++|.-+ ++..|..|.|+|.
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~-sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD  314 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIV-SCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD  314 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccce-eeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence            45568999999999999999999999999776 78888876 999999999999999999999954 9999999999999


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      .+..-.
T Consensus       315 FSQSVs  320 (479)
T KOG0415|consen  315 FSQSVS  320 (479)
T ss_pred             hhhhhh
Confidence            885443

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

Probab=98.87  E-value=6.5e-09  Score=90.09  Aligned_cols=76  Identities=22%  Similarity=0.432  Sum_probs=68.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      -.++||+|++||-++++.||..+|+.||.+. +|.+.     .++|+|||++.++.+|.+||.+ +...+.++.|+|.|+
T Consensus       419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiq-Si~li-----~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa  492 (894)
T KOG0132|consen  419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQ-SIILI-----PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA  492 (894)
T ss_pred             EeeeeeeeccccchhhHHHHHHHHHhcccce-eEeec-----cCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence            4568999999999999999999999999887 78776     4788999999999999999976 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .-.
T Consensus       493 ~g~  495 (894)
T KOG0132|consen  493 VGK  495 (894)
T ss_pred             ccC
Confidence            543

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

Probab=98.87  E-value=2.2e-09  Score=86.01  Aligned_cols=83  Identities=23%  Similarity=0.386  Sum_probs=72.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      +...||+++|++.+|++.|+++|++||.+. .+.+++|+ +++++||+||+|.+++...++|...-..|.||.|.+..+.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~-d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av   83 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVT-DCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAV   83 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCcee-eEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceecc
Confidence            456899999999999999999999999776 45566665 8999999999999999999999887789999999999987


Q ss_pred             hHHHH
Q 029263          185 HEEMD  189 (196)
Q Consensus       185 ~~~~~  189 (196)
                      +.+..
T Consensus        84 ~r~~~   88 (311)
T KOG4205|consen   84 SREDQ   88 (311)
T ss_pred             Ccccc
Confidence            76543

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

Probab=98.86  E-value=1.1e-08  Score=87.74  Aligned_cols=75  Identities=33%  Similarity=0.586  Sum_probs=70.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      +.|.|.|+|++++-+||.+||..|....++|.+.+.+.|.++|.|.|.|+++++|.+|.. ++++.|.+|.|.|.+
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            479999999999999999999999988889999999999999999999999999999995 599999999999876

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=98.86  E-value=1.7e-08  Score=63.13  Aligned_cols=62  Identities=21%  Similarity=0.174  Sum_probs=52.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVF   64 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~   64 (196)
                      ..++++|+++|+.||.|..+. ..++.+.++|+|||+|.+.++|..|++ .++..+.++.+.|.
T Consensus        10 ~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590          10 DVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             ccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            357899999999999998875 445566789999999999999999994 67777888888774

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).

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

Probab=98.83  E-value=1.5e-08  Score=80.65  Aligned_cols=79  Identities=14%  Similarity=0.273  Sum_probs=70.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccce-------EEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDS-------IHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~-------v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~  177 (196)
                      .+..|||.|||.++|-+++.++|+.||++...       |+|.++..|..+|-|++.|--.+++.-|+.. ++..|+|+.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~  212 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK  212 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence            34569999999999999999999999955422       7888899999999999999999999999987 999999999


Q ss_pred             EEEEECC
Q 029263          178 IELFPSS  184 (196)
Q Consensus       178 i~V~~~~  184 (196)
                      |+|..|.
T Consensus       213 ~rVerAk  219 (382)
T KOG1548|consen  213 LRVERAK  219 (382)
T ss_pred             EEEehhh
Confidence            9998773

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

Probab=98.82  E-value=3.6e-09  Score=79.37  Aligned_cols=66  Identities=20%  Similarity=0.182  Sum_probs=58.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      --||.-|...|-+||.|.+|.+ .| .+++++|||||+|...|||..|| .+|...|.||.|.|..+.+
T Consensus        21 eVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP   89 (298)
T KOG0111|consen   21 EVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP   89 (298)
T ss_pred             HHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence            3578889999999999999954 45 59999999999999999999999 6899999999999976653

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

Probab=98.82  E-value=1.4e-08  Score=84.46  Aligned_cols=76  Identities=22%  Similarity=0.312  Sum_probs=62.6

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEE-eCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT-MNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~-~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..|||+|||++++.++|+++|..||.+. ...|. +...+....||||+|.+.++++.|+..+-..++++.|.|..-.
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik-~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~  365 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQFGPIK-EGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKR  365 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhccccc-ccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecc
Confidence            4599999999999999999999999555 33332 2233444499999999999999999999999999999997653

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

Probab=98.81  E-value=3.4e-10  Score=82.40  Aligned_cols=60  Identities=23%  Similarity=0.195  Sum_probs=54.6

Q ss_pred             chHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEV   63 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v   63 (196)
                      -||.||.-+||.||+|++| ++.|. ||+++||||+-|++.-+.-.|+ .+||..+.||.|.|
T Consensus        47 LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirV  109 (219)
T KOG0126|consen   47 LTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRV  109 (219)
T ss_pred             ccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEe
Confidence            4788999999999999999 46664 9999999999999999888899 68999999999998

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

Probab=98.80  E-value=1.2e-08  Score=78.84  Aligned_cols=77  Identities=19%  Similarity=0.219  Sum_probs=70.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....++++|+.+.+|.++++..|+.||.+. .|.++.+. .|.++|||||+|.+.+.++.|+.+|+..|.|+.|.|++.
T Consensus       100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~-~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~  177 (231)
T KOG4209|consen  100 DAPSVWVGNVDFLVTLTKIELHFESCGGIN-RVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLK  177 (231)
T ss_pred             CCceEEEeccccccccchhhheeeccCCcc-ceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeee
Confidence            456899999999999999999999999765 67888777 667999999999999999999999999999999999875

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.79  E-value=7e-09  Score=82.68  Aligned_cols=156  Identities=18%  Similarity=0.158  Sum_probs=109.5

Q ss_pred             HHHHHhcccCcceeEE-Ee-cCCCcccceEEEEeCCHHHHHHHHHhcccc-cCCeeEEEEEcChHHHHHHHhhccccCCC
Q 029263            8 VLCTIHHQLMDIVDVL-FV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQN-MGRRYVEVFRSKRQEYYKAIANEVSDVRG   84 (196)
Q Consensus         8 dl~~~F~~~g~i~~v~-~~-~~~g~~~G~afV~F~~~~~a~~Al~~~~~~-l~~~~i~v~~~~~~~~~~~~~~~~~~~~~   84 (196)
                      ++..++...|..++.. +. .....++|++.+.|...+.+..||++.+.. +.++.+..-......    .       + 
T Consensus       104 ~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~----~-------~-  171 (285)
T KOG4210|consen  104 EDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRG----L-------R-  171 (285)
T ss_pred             cccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccccc----c-------c-
Confidence            4667777777777753 33 457789999999999999999999888763 333332221111000    0       0 


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCcccEEE-EcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHH
Q 029263           85 GSPHRSIPRAKSHDEGKDSAVHTGILR-LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDS  162 (196)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~l~-v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A  162 (196)
                               ........ ......++| |.||++.+++++|+.+|..+|.+. .++++.++ +|.+.|+|+|.|.....+
T Consensus       172 ---------~~n~~~~~-~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~-~~r~~~~~~s~~~kg~a~~~~~~~~~~  240 (285)
T KOG4210|consen  172 ---------PKNKLSRL-SSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEIT-SVRLPTDEESGDSKGFAYVDFSAGNSK  240 (285)
T ss_pred             ---------ccchhccc-ccCccccceeecccccccchHHHhhhccCcCcce-eeccCCCCCccchhhhhhhhhhhchhH
Confidence                     00000000 111233455 999999999999999999999776 67776655 899999999999999999


Q ss_pred             HHHHHhCCCccCCeEEEEEECChH
Q 029263          163 KAAMAKDRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       163 ~~Al~~~g~~l~gr~i~V~~~~~~  186 (196)
                      ..|+..+...++++++.+....+.
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  241 KLALNDQTRSIGGRPLRLEEDEPR  264 (285)
T ss_pred             HHHhhcccCcccCcccccccCCCC
Confidence            888866778899999998776543

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

Probab=98.74  E-value=2.9e-08  Score=73.83  Aligned_cols=67  Identities=12%  Similarity=0.006  Sum_probs=54.9

Q ss_pred             CchHHHHHHHhcccCccee-EEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVD-VLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~   69 (196)
                      |-.+..+..+|.+|++.+. +.+ .+ .||+++|||||+|++++.|..|- .||+..|.++.+.+.-..+.
T Consensus        60 g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen   60 GFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE  130 (214)
T ss_pred             chhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence            3457889999999866655 444 33 59999999999999999999999 58999999998888766655

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=2.8e-07  Score=76.94  Aligned_cols=169  Identities=14%  Similarity=0.082  Sum_probs=104.4

Q ss_pred             chHHHHHHHhcccCcceeEEE--e--cCCCcccc---eEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHh
Q 029263            4 PQVQVLCTIHHQLMDIVDVLF--V--HKNNKFTG---EAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA   76 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~--~--~~~g~~~G---~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~   76 (196)
                      -||+.|...|..||.+.--.-  .  ...-.++|   |+|+.|+++..+..-|..=-...++.++.|...+-.....   
T Consensus       271 ise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~vss~~~k~k~V---  347 (520)
T KOG0129|consen  271 ITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYYFKVSSPTIKDKEV---  347 (520)
T ss_pred             ccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceEEEEecCcccccce---
Confidence            589999999999887643111  1  11122455   9999999999888865331112223333332222111000   


Q ss_pred             hccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhh-cCCCccceEEEEeC-CCCCCceEEEE
Q 029263           77 NEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFK-DFVLSEDSIHITMN-SDGRPTGEAFV  154 (196)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~-~~g~~~~~v~l~~~-~~g~~~G~afV  154 (196)
                       ...++.-...       .-...........+||||++||.-.+.++|-.+|+ -||.|. .+-|-.| +-+-++|-|-|
T Consensus       348 -QIrPW~laDs-------~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~-yaGIDtD~k~KYPkGaGRV  418 (520)
T KOG0129|consen  348 -QIRPWVLADS-------DFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVL-YVGIDTDPKLKYPKGAGRV  418 (520)
T ss_pred             -eEEeeEeccc-------hhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceE-EEEeccCcccCCCCCccee
Confidence             0000000000       00000111233468999999999999999999998 688776 6888777 57889999999


Q ss_pred             EeCCHHHHHHHHHhCCCccC----CeEEEEEECC
Q 029263          155 EFANAEDSKAAMAKDRMTLG----SRYIELFPSS  184 (196)
Q Consensus       155 ~F~~~~~A~~Al~~~g~~l~----gr~i~V~~~~  184 (196)
                      +|.+.....+|+..--..|.    .++|+|++.-
T Consensus       419 tFsnqqsYi~AIsarFvql~h~d~~KRVEIkPYv  452 (520)
T KOG0129|consen  419 TFSNQQAYIKAISARFVQLDHTDIDKRVEIKPYV  452 (520)
T ss_pred             eecccHHHHHHHhhheEEEeccccceeeeeccee
Confidence            99999999999976433333    3577777664

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

Probab=98.70  E-value=1.1e-07  Score=71.74  Aligned_cols=79  Identities=20%  Similarity=0.250  Sum_probs=63.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHHh-CCCccC---CeEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG---SRYIE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~---gr~i~  179 (196)
                      .-++|||.+||-++...+|..+|..|---+ ...|..-.  ..-.+-+|||+|.+..+|.+|+.. ||..++   +..|+
T Consensus        33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYE-gslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh  111 (284)
T KOG1457|consen   33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYE-GSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH  111 (284)
T ss_pred             ccceeeeccCCcccCHHHHHHHhccCCCcc-ceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence            458999999999999999999999985444 34444332  223557999999999999999976 999986   89999


Q ss_pred             EEECCh
Q 029263          180 LFPSSH  185 (196)
Q Consensus       180 V~~~~~  185 (196)
                      +.+++.
T Consensus       112 iElAKS  117 (284)
T KOG1457|consen  112 IELAKS  117 (284)
T ss_pred             eeehhc
Confidence            999854

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

Probab=98.67  E-value=4.6e-07  Score=60.52  Aligned_cols=82  Identities=12%  Similarity=0.172  Sum_probs=66.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcC-CCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccC----CeEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG----SRYIEL  180 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~-g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~----gr~i~V  180 (196)
                      .+|.++|+|-..|.++|.+++... ...-+-+.|+.|. ++.+.|||||-|.+++.|.+-... +|..+.    .+..+|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            379999999999999999999653 3333567888876 788999999999999999988876 998885    677888


Q ss_pred             EECChHHHH
Q 029263          181 FPSSHEEMD  189 (196)
Q Consensus       181 ~~~~~~~~~  189 (196)
                      .+|.-...+
T Consensus        82 ~yAriQG~~   90 (97)
T PF04059_consen   82 SYARIQGKD   90 (97)
T ss_pred             ehhHhhCHH
Confidence            888654333

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

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

Probab=98.66  E-value=4.8e-08  Score=81.73  Aligned_cols=64  Identities=16%  Similarity=0.178  Sum_probs=57.5

Q ss_pred             chHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            4 PQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +||++|.++|++.|.|.++. +.|+ +|+++||||++|.+.++|..|+ .+|+..++||.++|....
T Consensus        30 ~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~   96 (435)
T KOG0108|consen   30 GSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS   96 (435)
T ss_pred             ccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence            68999999999999999985 4565 9999999999999999999999 579999999999996544

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

Probab=98.62  E-value=3.6e-07  Score=60.87  Aligned_cols=67  Identities=15%  Similarity=0.175  Sum_probs=56.2

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      -|.+++.++|.+||.|..|.+=. +..-+|.|||.|++-.||.+|+ ++++..+.++++.|........
T Consensus        30 ITseemydlFGkyg~IrQIRiG~-~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~~   97 (124)
T KOG0114|consen   30 ITSEEMYDLFGKYGTIRQIRIGN-TKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPEDA   97 (124)
T ss_pred             ccHHHHHHHhhcccceEEEEecC-ccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHHH
Confidence            47889999999999999997643 3345789999999999999999 6899999999999866655443

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

Probab=98.62  E-value=1.6e-06  Score=69.92  Aligned_cols=163  Identities=17%  Similarity=0.227  Sum_probs=107.6

Q ss_pred             hHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccccC
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDV   82 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~   82 (196)
                      +-+-|-++|=-||.|..|.++ .+.    |.|.|++.+....++|+ .+|+..+-|..+.|+.+...-.... ..-.-  
T Consensus       301 N~drlFNl~ClYGNV~rvkFmkTk~----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~-~pflL--  373 (494)
T KOG1456|consen  301 NCDRLFNLFCLYGNVERVKFMKTKP----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPV-QPFLL--  373 (494)
T ss_pred             chhhhhhhhhhcCceeeEEEeeccc----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccC-Cceec--
Confidence            346678888889999999655 444    58999999999999999 6888888888888877663321110 10000  


Q ss_pred             CCCCCC------CCCCCCCCCC--CCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEE
Q 029263           83 RGGSPH------RSIPRAKSHD--EGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFV  154 (196)
Q Consensus        83 ~~~~~~------~~~~~~~~~~--~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV  154 (196)
                      ..+++.      +..++-....  ....-...+.+|+.-|.|..+||+.+..+|...+....+|++..-++-++ --+.+
T Consensus       374 pDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~kserS-ssGll  452 (494)
T KOG1456|consen  374 PDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLKSERS-SSGLL  452 (494)
T ss_pred             CCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccccccc-cccee
Confidence            000000      0000000000  00112235678999999999999999999988775555677754443332 24899


Q ss_pred             EeCCHHHHHHHHHh-CCCccCC
Q 029263          155 EFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      +|++.++|..||.+ |-+.+.+
T Consensus       453 Efe~~s~Aveal~~~NH~pi~~  474 (494)
T KOG1456|consen  453 EFENKSDAVEALMKLNHYPIEG  474 (494)
T ss_pred             eeehHHHHHHHHHHhccccccC
Confidence            99999999999976 8777654

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

Probab=98.60  E-value=1.8e-08  Score=75.56  Aligned_cols=78  Identities=13%  Similarity=0.046  Sum_probs=70.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      +..++|||.||-..++++-|.++|-+.|.+. .|.|+.+.++..+ ||||.|.++.+..-|+++ ||..|.++.|+|.+-
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~-kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r   84 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVY-KVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR   84 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceE-EEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence            4568999999999999999999999999776 6888888888888 999999999999999998 999999999999875


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        85 ~   85 (267)
T KOG4454|consen   85 C   85 (267)
T ss_pred             c
Confidence            3

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

Probab=98.55  E-value=4.9e-08  Score=73.29  Aligned_cols=120  Identities=15%  Similarity=0.120  Sum_probs=94.8

Q ss_pred             CCchHHHHHHHhcccCcceeEEEec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ++.||+-|.++|-..|.|+.|.|.+ .+++.+ ||||.|+++-....|++ +|+..+.++++.+..-             
T Consensus        19 ~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r-------------   84 (267)
T KOG4454|consen   19 SGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR-------------   84 (267)
T ss_pred             hhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc-------------
Confidence            5678999999999988889997764 577777 99999999999999997 5888888888776321             


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcC----CCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEE
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRG----LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVE  155 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~n----Lp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~  155 (196)
                                                      .++    |...++++.+...|+.-|.++ .+++..+.+|+++-++|++
T Consensus        85 --------------------------------~G~shapld~r~~~ei~~~v~s~a~p~~-~~R~~~~~d~rnrn~~~~~  131 (267)
T KOG4454|consen   85 --------------------------------CGNSHAPLDERVTEEILYEVFSQAGPIE-GVRIPTDNDGRNRNFGFVT  131 (267)
T ss_pred             --------------------------------cCCCcchhhhhcchhhheeeecccCCCC-CccccccccCCccCccchh
Confidence                                            222    455677888888888888665 6888888889999999998


Q ss_pred             eCCHHHHHHHHHh
Q 029263          156 FANAEDSKAAMAK  168 (196)
Q Consensus       156 F~~~~~A~~Al~~  168 (196)
                      +-..-..-.++..
T Consensus       132 ~qr~~~~P~~~~~  144 (267)
T KOG4454|consen  132 YQRLCAVPFALDL  144 (267)
T ss_pred             hhhhhcCcHHhhh
Confidence            8766555666644

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

Probab=98.46  E-value=1.9e-07  Score=74.68  Aligned_cols=60  Identities=17%  Similarity=0.124  Sum_probs=55.3

Q ss_pred             chHHHHHHHhcccCcceeE-EEec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDV-LFVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEV   63 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v-~~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v   63 (196)
                      .|++||.-+||.||.|+++ +|.| ++|-+--||||+|++.++++.|. +|++..++.+.|.|
T Consensus       251 TtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  251 TTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV  313 (479)
T ss_pred             ccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence            5889999999999999987 4565 59999999999999999999998 89999999999998

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

Probab=98.42  E-value=1.7e-06  Score=73.34  Aligned_cols=81  Identities=16%  Similarity=0.262  Sum_probs=67.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ..++-|.|.+|...+-..||+.+|++||-+. ..+++.+- +--.+.|+||++.+..+|.+||.. |.+.|.||.|.|..
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVv-GAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEk  481 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVV-GAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEK  481 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHhccee-ceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeee
Confidence            3456799999999999999999999999665 55666543 333567999999999999999975 99999999999988


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      ++-+
T Consensus       482 aKNE  485 (940)
T KOG4661|consen  482 AKNE  485 (940)
T ss_pred             cccC
Confidence            7543

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

Probab=98.37  E-value=4.2e-07  Score=72.86  Aligned_cols=83  Identities=23%  Similarity=0.310  Sum_probs=70.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccc-------eEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccC
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED-------SIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG  174 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~-------~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~  174 (196)
                      .....+|||.+||.++++++|.++|.+++++.-       .|.|-++. |+.++|.|.|.|.++..|++|+.. ++..+.
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            445678999999999999999999999985431       14444444 999999999999999999999976 999999


Q ss_pred             CeEEEEEECChH
Q 029263          175 SRYIELFPSSHE  186 (196)
Q Consensus       175 gr~i~V~~~~~~  186 (196)
                      |..|.|+++...
T Consensus       143 gn~ikvs~a~~r  154 (351)
T KOG1995|consen  143 GNTIKVSLAERR  154 (351)
T ss_pred             CCCchhhhhhhc
Confidence            999999988654

>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=98.36  E-value=2.3e-06  Score=58.29  Aligned_cols=78  Identities=24%  Similarity=0.417  Sum_probs=46.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh---C---CCccCCeEEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK---D---RMTLGSRYIELF  181 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~---~---g~~l~gr~i~V~  181 (196)
                      .+|++.|++..++.++|++.|+.||.+. .|.+.   .|..  .|+|.|.+++.|+.|+..   .   +..+.+..+++.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~-yVD~~---~G~~--~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~   75 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVA-YVDFS---RGDT--EGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE   75 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EE-EEE-----TT-S--EEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcc-eEEec---CCCC--EEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence            4789999999999999999999999543 44443   3333  799999999999999953   4   568889999999


Q ss_pred             ECChHHHHHH
Q 029263          182 PSSHEEMDEA  191 (196)
Q Consensus       182 ~~~~~~~~~~  191 (196)
                      +-..++-..+
T Consensus        76 vLeGeeE~~Y   85 (105)
T PF08777_consen   76 VLEGEEEEEY   85 (105)
T ss_dssp             ---HHHHHHH
T ss_pred             ECCCHHHHHH
Confidence            8876655554

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

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

Probab=98.27  E-value=1.2e-06  Score=73.94  Aligned_cols=71  Identities=25%  Similarity=0.417  Sum_probs=61.4

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      ....++|+|-|||.++++++|..+|+.||.+. .|+...    ..+|..||+|-+.-+|++|++. ++..+.|+.|.
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir-~ir~t~----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIR-EIRETP----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchh-hhhccc----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            44568999999999999999999999999776 366544    3567999999999999999976 99999998887

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

Probab=98.25  E-value=6.8e-06  Score=52.79  Aligned_cols=67  Identities=16%  Similarity=0.208  Sum_probs=45.0

Q ss_pred             EEEEcCCCCCCCHHH----HHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDD----IMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~----l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .|+|.|||-+.+...    |++++..+|-..  +.+.       .|.|+|.|.+++.|.+|... +|..+-|+.|.|+..
T Consensus         4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkV--l~v~-------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen    4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKV--LSVS-------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             EEEEES--TTS-HHHHHHHHHHHHHTTT--E--EE---------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHhhccCCEE--EEEe-------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            589999999998865    557777888533  2322       35899999999999999965 999999999999987


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        75 ~   75 (90)
T PF11608_consen   75 P   75 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

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

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

Probab=98.22  E-value=8.8e-07  Score=67.99  Aligned_cols=66  Identities=18%  Similarity=0.264  Sum_probs=50.7

Q ss_pred             hHHHHHHHhcccCcceeE-EEec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHH
Q 029263            5 QVQVLCTIHHQLMDIVDV-LFVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v-~~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      |++-|-..|++|-..... .+.| .+|+++||+||-|.+..|+..|+ ++++.++|.++|+...+...+
T Consensus       203 nd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke  271 (290)
T KOG0226|consen  203 NDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE  271 (290)
T ss_pred             cHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence            445555666664444433 2344 59999999999999999999999 799999999999987766554

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

Probab=98.19  E-value=1.9e-06  Score=66.70  Aligned_cols=64  Identities=14%  Similarity=0.030  Sum_probs=54.5

Q ss_pred             chHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            4 PQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .|-+++...|+.||.|..+ +.+|. .|+++|||||+|.+.+.+..|+++++..+.++.|.|....
T Consensus       113 ~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r  178 (231)
T KOG4209|consen  113 VTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKR  178 (231)
T ss_pred             cccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeee
Confidence            3555699999999999876 34454 6789999999999999999999999999999999986544

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

Probab=98.18  E-value=2.1e-06  Score=65.29  Aligned_cols=69  Identities=23%  Similarity=0.365  Sum_probs=59.2

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      .+||++||+.+.+.+|..||..||-+. .+.+.       .||+||+|.+..+|.-|+. +|+..|.|-.+.|.++..
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~-d~~mk-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~   72 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIP-DADMK-------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG   72 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccc-cceee-------cccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence            589999999999999999999999655 45444       3699999999999999996 499999888888888764

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.17  E-value=1.9e-06  Score=76.30  Aligned_cols=142  Identities=15%  Similarity=0.094  Sum_probs=108.4

Q ss_pred             chHHHHHHHhcccCcceeEEEecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      -|+.+|+..|..+|.+.+|.|..+ -+.-.-||||.|.+.+.+-.|. ++.+..++...+.+....              
T Consensus       384 l~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~--------------  449 (975)
T KOG0112|consen  384 LTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ--------------  449 (975)
T ss_pred             hhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccccccc--------------
Confidence            478899999999999999876644 4555569999999999998887 667776654433321111              


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED  161 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~  161 (196)
                                          .....+..+++++|+..+....+...|..||.+.    .+....|.+  ||+|.|.++..
T Consensus       450 --------------------~kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir----~Idy~hgq~--yayi~yes~~~  503 (975)
T KOG0112|consen  450 --------------------PKSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIR----IIDYRHGQP--YAYIQYESPPA  503 (975)
T ss_pred             --------------------cccccceeeccCCCCCCChHHHHHHHhhccCcce----eeecccCCc--ceeeecccCcc
Confidence                                0122456799999999999999999999999754    333444555  99999999999


Q ss_pred             HHHHHHh-CCCccCC--eEEEEEECCh
Q 029263          162 SKAAMAK-DRMTLGS--RYIELFPSSH  185 (196)
Q Consensus       162 A~~Al~~-~g~~l~g--r~i~V~~~~~  185 (196)
                      |+.|+.- -|.-|+|  +.|.|.++..
T Consensus       504 aq~a~~~~rgap~G~P~~r~rvdla~~  530 (975)
T KOG0112|consen  504 AQAATHDMRGAPLGGPPRRLRVDLASP  530 (975)
T ss_pred             chhhHHHHhcCcCCCCCcccccccccC
Confidence            9999964 8888875  7899998854

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

Probab=98.16  E-value=4.3e-06  Score=73.08  Aligned_cols=61  Identities=13%  Similarity=0.169  Sum_probs=53.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +.+|+||.++|+.||+|.+|++..    ++|||||.+....+|.+|| ++.+..+.++.|+|..+.
T Consensus       432 ~v~e~dL~~~feefGeiqSi~li~----~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~  493 (894)
T KOG0132|consen  432 NVTEQDLANLFEEFGEIQSIILIP----PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV  493 (894)
T ss_pred             hhhHHHHHHHHHhcccceeEeecc----CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence            468999999999999999997653    5679999999999999999 578888999999886554

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.15  E-value=5.9e-08  Score=85.05  Aligned_cols=150  Identities=15%  Similarity=0.087  Sum_probs=108.7

Q ss_pred             HHHHHHhcccCcceeEEEec-CCCcccc-eEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccccCCC
Q 029263            7 QVLCTIHHQLMDIVDVLFVH-KNNKFTG-EAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRG   84 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~~~~-~~g~~~G-~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~   84 (196)
                      +..+..|.+++.|..|.+.+ ....+.+ +++++++...+++.|....+.-++++...|....+.+.....         
T Consensus       587 e~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~av~~ad~~~~~~~~---------  657 (881)
T KOG0128|consen  587 EIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSAAVGLADAEEKEENF---------  657 (881)
T ss_pred             HhhHHHhhcccccccccCccccccccccchhhhhhccccchhhcccccccccCCccccCCCCCchhhhhcc---------
Confidence            36678899988888886654 3333333 899999999999999988888888887777555543310000         


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEE-eCCCCCCceEEEEEeCCHHHHH
Q 029263           85 GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT-MNSDGRPTGEAFVEFANAEDSK  163 (196)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~-~~~~g~~~G~afV~F~~~~~A~  163 (196)
                                   ...+.......++|++||++.+.+.+|...|.++|.+. .+++. .-.+++.+|.|+|.|..++++.
T Consensus       658 -------------kvs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e-~vqi~~h~n~~~~rG~~Y~~F~~~~~~~  723 (881)
T KOG0128|consen  658 -------------KVSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIE-VVQIVIHKNEKRFRGKAYVEFLKPEHAG  723 (881)
T ss_pred             -------------CcCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhh-hHHHHHHhhccccccceeeEeecCCchh
Confidence                         00001112345799999999999999999999999766 55554 3347889999999999999999


Q ss_pred             HHHHh-CCCccCCeEEE
Q 029263          164 AAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       164 ~Al~~-~g~~l~gr~i~  179 (196)
                      +|+.. +++.++...+.
T Consensus       724 aaV~f~d~~~~gK~~v~  740 (881)
T KOG0128|consen  724 AAVAFRDSCFFGKISVA  740 (881)
T ss_pred             hhhhhhhhhhhhhhhhh
Confidence            99987 66666643333

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

Probab=98.14  E-value=6.6e-06  Score=63.84  Aligned_cols=69  Identities=10%  Similarity=-0.005  Sum_probs=59.3

Q ss_pred             CCchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHH
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      .+.+++||+++|..|+++..+. -++++|++.|.|=|.|...+||..|+ +.++..++|++|.+.......
T Consensus        93 ~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~  163 (243)
T KOG0533|consen   93 YGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPS  163 (243)
T ss_pred             cCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcc
Confidence            3567899999999988777774 47899999999999999999999999 578999999999987665443

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

Probab=98.11  E-value=1.5e-05  Score=69.18  Aligned_cols=79  Identities=20%  Similarity=0.195  Sum_probs=66.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEE--eCC--CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT--MNS--DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~--~~~--~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      +.+.-|||.||++.++++.|...|+.||.+. +|+++  +..  ..+.+-+|||-|-+..||++|+.. +|..+.++.+.
T Consensus       172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPla-svKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K  250 (877)
T KOG0151|consen  172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLA-SVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK  250 (877)
T ss_pred             CcccceeeecCCccccHHHHHHHhcccCccc-ceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence            3456799999999999999999999999665 66654  332  455667999999999999999975 99999999999


Q ss_pred             EEECC
Q 029263          180 LFPSS  184 (196)
Q Consensus       180 V~~~~  184 (196)
                      +.++.
T Consensus       251 ~gWgk  255 (877)
T KOG0151|consen  251 LGWGK  255 (877)
T ss_pred             ecccc
Confidence            98874

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

Probab=98.10  E-value=7.9e-06  Score=65.38  Aligned_cols=61  Identities=13%  Similarity=0.083  Sum_probs=51.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHh--cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR--NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~--~~~~l~~~~i~v~~~~   67 (196)
                      .-+|+||+++|-+||+|..+.+...    +|+|||+|.+++.|+.|.+.  +...+.|+.|.|....
T Consensus       239 ~v~e~dIrdhFyqyGeirsi~~~~~----~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~  301 (377)
T KOG0153|consen  239 EVLEQDIRDHFYQYGEIRSIRILPR----KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGR  301 (377)
T ss_pred             chhHHHHHHHHhhcCCeeeEEeecc----cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCC
Confidence            4589999999999999999876643    35999999999999999954  7778899999997544

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

Probab=97.99  E-value=2.8e-05  Score=52.28  Aligned_cols=77  Identities=12%  Similarity=0.217  Sum_probs=51.3

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-------CCCCCceEEEEEeCCHHHHHHHHHhCCCccCCe-EE
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-------SDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSR-YI  178 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-------~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr-~i  178 (196)
                      ...|.|-|.|+. ....|.+.|+.||.+.+...+..+       +.-.....-.|+|.++.+|.+||+.||..++|. .+
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv   84 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV   84 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence            457999999988 667788999999965533312111       111123478899999999999999999999885 55


Q ss_pred             EEEECC
Q 029263          179 ELFPSS  184 (196)
Q Consensus       179 ~V~~~~  184 (196)
                      -|.+.+
T Consensus        85 GV~~~~   90 (100)
T PF05172_consen   85 GVKPCD   90 (100)
T ss_dssp             EEEE-H
T ss_pred             EEEEcH
Confidence            576663

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.

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

Probab=97.92  E-value=1.8e-05  Score=67.28  Aligned_cols=65  Identities=12%  Similarity=0.194  Sum_probs=54.0

Q ss_pred             hHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~   69 (196)
                      --.||+++|++||.|+-..++ + .+-..+.|+||.+.+.++|.++| .++.+.|-|+.|.|..+...
T Consensus       418 RAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNE  485 (940)
T KOG4661|consen  418 RATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNE  485 (940)
T ss_pred             hhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccC
Confidence            357999999999999986433 2 34446789999999999999999 68999999999999877644

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

Probab=97.79  E-value=4.5e-05  Score=63.77  Aligned_cols=65  Identities=15%  Similarity=0.090  Sum_probs=54.2

Q ss_pred             CchHHHHHHHhcccCcceeE--EEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV--LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v--~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|+.+|+++|..||.|...  ....+.+++.+||||+|.+.+++..||+.+-..++++.+.|....
T Consensus       299 da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~  365 (419)
T KOG0116|consen  299 DATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKR  365 (419)
T ss_pred             CCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecc
Confidence            46788999999999999885  334445666699999999999999999999889999998886543

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

Probab=97.78  E-value=0.00013  Score=49.13  Aligned_cols=60  Identities=13%  Similarity=0.086  Sum_probs=44.8

Q ss_pred             HHHHHHHhcccCcceeEE--E---------ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEE-EEEcC
Q 029263            6 VQVLCTIHHQLMDIVDVL--F---------VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVE-VFRSK   67 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~--~---------~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~-v~~~~   67 (196)
                      ...|.+.|++||+|++..  .         ..+.|.  .+-.|.|+++.+|.+||.+||..++|..|- |.++.
T Consensus        19 ~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~--NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvGV~~~~   90 (100)
T PF05172_consen   19 SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGG--NWIHITYDNPLSAQRALQKNGTIFSGSLMVGVKPCD   90 (100)
T ss_dssp             HHHHHHHHHCCS-EECEEGGG----------E-CCT--TEEEEEESSHHHHHHHHTTTTEEETTCEEEEEEE-H
T ss_pred             HHHHHHHHHhcceEEEeecccccccccccccCCCCC--CEEEEECCCHHHHHHHHHhCCeEEcCcEEEEEEEcH
Confidence            457889999999999864  1         112333  389999999999999999999999987755 55553

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

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

Probab=97.53  E-value=0.00017  Score=42.72  Aligned_cols=41  Identities=15%  Similarity=0.071  Sum_probs=33.3

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL   49 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al   49 (196)
                      ..++|..+|+.||+|+++.+..    ..-+.||.|.++.+|++||
T Consensus        13 ~~~~vl~~F~~fGeI~~~~~~~----~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen   13 LAEEVLEHFASFGEIVDIYVPE----STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             HHHHHHHHHHhcCCEEEEEcCC----CCcEEEEEECCHHHHHhhC
Confidence            3467888999999999976552    1238999999999999996

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

Probab=97.51  E-value=0.00042  Score=49.50  Aligned_cols=57  Identities=12%  Similarity=0.256  Sum_probs=43.7

Q ss_pred             HHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECChHH
Q 029263          123 DIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       123 ~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~~~  187 (196)
                      +|.+.|..||.+. -|++..       +.=.|+|.+-.+|-+|+.++|..++|+.|+|++.++.-
T Consensus        52 ~ll~~~~~~Gevv-LvRfv~-------~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpdW  108 (146)
T PF08952_consen   52 ELLQKFAQYGEVV-LVRFVG-------DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPDW  108 (146)
T ss_dssp             HHHHHHHCCS-EC-EEEEET-------TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE-----
T ss_pred             HHHHHHHhCCceE-EEEEeC-------CeEEEEECccHHHHHHHccCCcEECCEEEEEEeCCccH
Confidence            6778888999644 455553       25899999999999999999999999999999997653

; PDB: 1UFW_A 2DNR_A.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.49  E-value=0.00049  Score=55.27  Aligned_cols=85  Identities=14%  Similarity=0.347  Sum_probs=62.7

Q ss_pred             ccEEEEcCCCCCCCHHHH------HHHhhcCCCccceEEEEeCC-----CCCCceEEEEEeCCHHHHHHHHHh-CCCccC
Q 029263          107 TGILRLRGLPFSAGKDDI------MDFFKDFVLSEDSIHITMNS-----DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG  174 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l------~~~F~~~g~~~~~v~l~~~~-----~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~  174 (196)
                      ..-+||-+||+.+..++.      .++|++||-+. .|.+-+.-     +..+-| .||+|.+.+||.+|+.. +|..++
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~-KIvvNkkt~s~nst~~h~g-vYITy~~kedAarcIa~vDgs~~D  191 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIK-KIVVNKKTSSLNSTASHAG-VYITYSTKEDAARCIAEVDGSLLD  191 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhcccee-EEEecccccccccccccce-EEEEecchHHHHHHHHHhcccccc
Confidence            457899999998777762      38999999654 23332111     122222 49999999999999987 999999


Q ss_pred             CeEEEEEECChHHHHHHHH
Q 029263          175 SRYIELFPSSHEEMDEALS  193 (196)
Q Consensus       175 gr~i~V~~~~~~~~~~~~~  193 (196)
                      ||.|+.++.+.+=--.++|
T Consensus       192 Gr~lkatYGTTKYCtsYLR  210 (480)
T COG5175         192 GRVLKATYGTTKYCTSYLR  210 (480)
T ss_pred             CceEeeecCchHHHHHHHc
Confidence            9999999998775555554

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=97.48  E-value=0.00012  Score=58.87  Aligned_cols=79  Identities=13%  Similarity=0.179  Sum_probs=63.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCcc-ceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSE-DSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~-~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..|+||+||-+.+|++||.+.+...|+.. -.+++..+. +|+++|||+|...+....++-|.. ..+.|.|+.=.|...
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~  159 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY  159 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence            46899999999999999999998888432 013443333 899999999999999888999986 888999988777766


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus       160 NK  161 (498)
T KOG4849|consen  160 NK  161 (498)
T ss_pred             ch
Confidence            54

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=97.46  E-value=0.00049  Score=53.21  Aligned_cols=73  Identities=26%  Similarity=0.312  Sum_probs=59.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-h-CCC---ccCCeEEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-K-DRM---TLGSRYIELF  181 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~-~g~---~l~gr~i~V~  181 (196)
                      ..|+|.||+.-+..+.+.+-|+.||.++ ...++.|..|++.|.++|.|.....|..|+. + ++.   ...+++.-|.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e-~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve  109 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIE-RAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE  109 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccc-hheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence            4699999999999999999999999887 5556677789999999999999999998885 4 333   3345555543

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=97.29  E-value=0.0012  Score=55.69  Aligned_cols=61  Identities=16%  Similarity=0.305  Sum_probs=49.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC----CCCCce---EEEEEeCCHHHHHHHHH
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS----DGRPTG---EAFVEFANAEDSKAAMA  167 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~----~g~~~G---~afV~F~~~~~A~~Al~  167 (196)
                      .....|||++||++++|+.|...|..||.+.  |.|+...    .-.++|   |+|+.|+++.+....+.
T Consensus       257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~--VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~  324 (520)
T KOG0129|consen  257 RYSRKVFVGGLPWDITEAQINASFGQFGSVK--VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLS  324 (520)
T ss_pred             ccccceeecCCCccccHHHHHhhcccccceE--eecCCCccccccCCCCCcccEEEEEecchHHHHHHHH
Confidence            3457899999999999999999999999765  7787432    222566   99999999888877664

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

Probab=97.24  E-value=0.00068  Score=53.63  Aligned_cols=62  Identities=10%  Similarity=0.067  Sum_probs=51.7

Q ss_pred             HHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCee-EEEEEcChHHHHH
Q 029263            8 VLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRY-VEVFRSKRQEYYK   73 (196)
Q Consensus         8 dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~-i~v~~~~~~~~~~   73 (196)
                      -|...|+.||+|+++... .+|+   +-+|.|.++.+|.+||.+|+..|++.. |.|.+|.......
T Consensus       212 ~vL~~F~~cG~Vvkhv~~-~ngN---wMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDksvi~  274 (350)
T KOG4285|consen  212 IVLNLFSRCGEVVKHVTP-SNGN---WMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDKSVIN  274 (350)
T ss_pred             HHHHHHHhhCeeeeeecC-CCCc---eEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCHHHhc
Confidence            467899999999998744 4554   899999999999999999999998865 6789988766544

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

Probab=97.21  E-value=0.00088  Score=39.66  Aligned_cols=52  Identities=15%  Similarity=0.389  Sum_probs=38.7

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM  166 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al  166 (196)
                      ..|-|.|.|+...+ .+..+|..||.+. .+.+.     ...-..+|.|.++.+|++||
T Consensus         2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~-~~~~~-----~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAE-EVLEHFASFGEIV-DIYVP-----ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHH-HHHHHHHhcCCEE-EEEcC-----CCCcEEEEEECCHHHHHhhC
Confidence            46889998877664 4556888999765 44444     22337999999999999985

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

Probab=97.13  E-value=0.00095  Score=56.98  Aligned_cols=84  Identities=17%  Similarity=0.271  Sum_probs=62.3

Q ss_pred             cccEEEEcCCCCCCC------HHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccC-CeE
Q 029263          106 HTGILRLRGLPFSAG------KDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLG-SRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t------~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~-gr~  177 (196)
                      ...+|+|-|+|---.      ..-|.++|+.+|-+. ...++.++.|..+|+.|++|++..+|+.|+.. ||+.|. +-.
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~v-n~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt  135 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIV-NMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT  135 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhhcccc-ceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccce
Confidence            346899999985322      234668999999554 67888888888999999999999999999965 998885 444


Q ss_pred             EEEEECChHHHHHHH
Q 029263          178 IELFPSSHEEMDEAL  192 (196)
Q Consensus       178 i~V~~~~~~~~~~~~  192 (196)
                      ..|.  +-.++++++
T Consensus       136 f~v~--~f~d~eky~  148 (698)
T KOG2314|consen  136 FFVR--LFKDFEKYE  148 (698)
T ss_pred             EEee--hhhhHHHhc
Confidence            4443  345555554

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=97.06  E-value=0.0047  Score=37.65  Aligned_cols=53  Identities=21%  Similarity=0.340  Sum_probs=43.2

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcC--CCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA  167 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~--g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~  167 (196)
                      ..|+|+|+ .+.+.+||+.+|..|  ......|.|+.|..      |=|.|.+.+.|.+||.
T Consensus         6 eavhirGv-d~lsT~dI~~y~~~y~~~~~~~~IEWIdDtS------cNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    6 EAVHIRGV-DELSTDDIKAYFSEYFDEEGPFRIEWIDDTS------CNVVFKDEETAARALV   60 (62)
T ss_pred             ceEEEEcC-CCCCHHHHHHHHHHhcccCCCceEEEecCCc------EEEEECCHHHHHHHHH
Confidence            47999999 668889999999998  12223689997753      8899999999999985

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=97.06  E-value=0.0014  Score=53.60  Aligned_cols=76  Identities=17%  Similarity=0.275  Sum_probs=60.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCC----CCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD----GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~----g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ..|.|.||.+++|.++++.+|+..|-++ .+.|.....    .-..-.|||.|.+...+..|--+..+.+-++.|.|-++
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~-elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~   86 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIP-ELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPY   86 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccc-cccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEec
Confidence            4899999999999999999999999665 466543221    12345899999999999999888667777888888776


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      -
T Consensus        87 ~   87 (479)
T KOG4676|consen   87 G   87 (479)
T ss_pred             C
Confidence            3

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=97.02  E-value=0.00031  Score=57.31  Aligned_cols=177  Identities=12%  Similarity=-0.014  Sum_probs=109.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEec-----CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcCh--HHHH---
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVH-----KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR--QEYY---   72 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~-----~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~--~~~~---   72 (196)
                      .+|.+++.++|.-.|+|.++.++-     .---..-.|||.|.+...+..|-.+-++.+-++.+.|.+...  .++.   
T Consensus        18 sat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~~~~~p~r~af   97 (479)
T KOG4676|consen   18 SATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYGDEVIPDRFAF   97 (479)
T ss_pred             hhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecCCCCCccHHHH
Confidence            468899999999889998874431     111234589999999999999999988888888777755432  1221   


Q ss_pred             HHHhhccccCCCCCCCCCCCCC--------------CCCCCCC-----CCCCcccEEEEcCCCCCCCHHHHHHHhhcCCC
Q 029263           73 KAIANEVSDVRGGSPHRSIPRA--------------KSHDEGK-----DSAVHTGILRLRGLPFSAGKDDIMDFFKDFVL  133 (196)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~-----~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~  133 (196)
                      ..++....-.+.-++..-.+..              ..+..+.     ....-..+++|.+|+-.+...++.+.|..+|.
T Consensus        98 ~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e~~e~f~r~Ge  177 (479)
T KOG4676|consen   98 VELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPESGESFERKGE  177 (479)
T ss_pred             HhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchhhhhhhhhcch
Confidence            2222221111111111000000              0000000     01112367999999999999999999999986


Q ss_pred             ccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          134 SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       134 ~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +. ..++-   .|...-++-|.|....+...|+..+|..+.-+-..+.+.
T Consensus       178 v~-ya~~a---sk~~s~~c~~sf~~qts~~halr~~gre~k~qhsr~ai~  223 (479)
T KOG4676|consen  178 VS-YAHTA---SKSRSSSCSHSFRKQTSSKHALRSHGRERKRQHSRRAII  223 (479)
T ss_pred             hh-hhhhh---ccCCCcchhhhHhhhhhHHHHHHhcchhhhhhhhhhhhc
Confidence            54 33332   344445677999999999999998887765433333333

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

Probab=96.99  E-value=0.00085  Score=57.27  Aligned_cols=52  Identities=15%  Similarity=0.251  Sum_probs=45.0

Q ss_pred             HHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCe
Q 029263            8 VLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRR   59 (196)
Q Consensus         8 dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~   59 (196)
                      -|..+|+++|+|+.+.+ .+..|..+|+.|++|.+..+|..|+ .+||..|+.+
T Consensus        80 vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldkn  133 (698)
T KOG2314|consen   80 VLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKN  133 (698)
T ss_pred             HHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceeccc
Confidence            46789999999999754 4888889999999999999999999 5799988754

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

Probab=96.98  E-value=0.0013  Score=54.43  Aligned_cols=63  Identities=21%  Similarity=0.312  Sum_probs=52.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC---C---CCCC--------ceEEEEEeCCHHHHHHHHHh
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN---S---DGRP--------TGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~---~---~g~~--------~G~afV~F~~~~~A~~Al~~  168 (196)
                      -..++|.+.|||.+-.-+.|.++|+.+|.+. +|+|+.-   +   .|.+        +-+|+|+|...+.|.+|..+
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~Ik-sIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~  305 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIK-SIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAREL  305 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhccccee-eeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHh
Confidence            3568999999999988899999999999876 8998765   2   3333        34799999999999999876

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

Probab=96.97  E-value=0.0017  Score=51.25  Aligned_cols=59  Identities=12%  Similarity=0.009  Sum_probs=45.8

Q ss_pred             hHHHHHHHhcccCcceeEEEe-cCCC--cccceEEEEeCCHHHHHHHH-HhcccccCCeeEEE
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-HKNN--KFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEV   63 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~~~g--~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v   63 (196)
                      -|+++++-+++||.|..|+|. .++.  .-.---||+|+..++|.+|+ .+||.++|||.+.-
T Consensus       299 lede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A  361 (378)
T KOG1996|consen  299 LEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSA  361 (378)
T ss_pred             HHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeh
Confidence            367889999999999998644 3211  11123699999999999999 79999999998654

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

Probab=96.86  E-value=0.0012  Score=51.04  Aligned_cols=71  Identities=15%  Similarity=0.276  Sum_probs=56.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-C--------CCCce----EEEEEeCCHHHHHHHHH-hCCC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-D--------GRPTG----EAFVEFANAEDSKAAMA-KDRM  171 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~--------g~~~G----~afV~F~~~~~A~~Al~-~~g~  171 (196)
                      ....||++++|+..+..-|+++|+.||.+- .|.|.... .        |.+.+    .|.|+|.+...|++... +|+.
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVG-RvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~  151 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVG-RVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNT  151 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccc-eEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCC
Confidence            457999999999999999999999999765 77775443 2        33333    46699999999987775 4999


Q ss_pred             ccCCeE
Q 029263          172 TLGSRY  177 (196)
Q Consensus       172 ~l~gr~  177 (196)
                      .|+|+.
T Consensus       152 ~Iggkk  157 (278)
T KOG3152|consen  152 PIGGKK  157 (278)
T ss_pred             ccCCCC
Confidence            999975

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

Probab=96.84  E-value=0.00072  Score=52.33  Aligned_cols=69  Identities=22%  Similarity=0.326  Sum_probs=52.3

Q ss_pred             HHHHHHhh-cCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChHHHHHH
Q 029263          122 DDIMDFFK-DFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEA  191 (196)
Q Consensus       122 ~~l~~~F~-~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~  191 (196)
                      +|+...|+ +||.++ .+.+..+---...|-++|.|...++|++|+.. |+..+.|++|...++-...+.++
T Consensus        83 Ed~f~E~~~kygEie-e~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea  153 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIE-ELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREA  153 (260)
T ss_pred             HHHHHHHHHHhhhhh-hhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhh
Confidence            45555555 788665 44444433334678899999999999999976 99999999999999876666654

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

Probab=96.76  E-value=0.0047  Score=39.78  Aligned_cols=51  Identities=24%  Similarity=0.386  Sum_probs=39.2

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      ..+|. .|...-..||.++|++||-+.  |.++.|.      -|||...+.+.|..|+..
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I~--VsWi~dT------SAfV~l~~r~~~~~v~~~   61 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQIY--VSWINDT------SAFVALHNRDQAKVVMNT   61 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCEE--EEEECTT------EEEEEECCCHHHHHHHHH
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcEE--EEEEcCC------cEEEEeecHHHHHHHHHH
Confidence            44555 999999999999999999865  8888653      499999999999998865

; 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.

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

Probab=96.67  E-value=0.0097  Score=40.46  Aligned_cols=61  Identities=13%  Similarity=0.129  Sum_probs=33.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHh---c---ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR---N---RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~---~---~~~l~~~~i~v~~~~   67 (196)
                      ..|-++|++.|+.|+.|.-|.+..  |.  ..|||.|.+.++|++|++.   .   +..+.+..+.+....
T Consensus        12 ~~~re~iK~~f~~~g~V~yVD~~~--G~--~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vLe   78 (105)
T PF08777_consen   12 PTSREDIKEAFSQFGEVAYVDFSR--GD--TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVLE   78 (105)
T ss_dssp             S--HHHHHHHT-SS--EEEEE--T--T---SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE---
T ss_pred             CcCHHHHHHHHHhcCCcceEEecC--CC--CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEECC
Confidence            456889999999988666554433  32  2799999999999999953   2   335667666665544

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

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

Probab=96.63  E-value=0.0094  Score=42.66  Aligned_cols=61  Identities=16%  Similarity=0.142  Sum_probs=44.9

Q ss_pred             HHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            8 VLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         8 dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      +|-+.|+.||+++=|.+..      +.-+|.|.+-+.|-+||.+++..++|+.+.|...++ +|....
T Consensus        52 ~ll~~~~~~GevvLvRfv~------~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtp-dW~~~l  112 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVG------DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTP-DWLKGL  112 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEET------TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE----------
T ss_pred             HHHHHHHhCCceEEEEEeC------CeEEEEECccHHHHHHHccCCcEECCEEEEEEeCCc-cHHHHH
Confidence            6788899999887776654      358999999999999999999999999999987663 343333

; PDB: 1UFW_A 2DNR_A.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.59  E-value=0.0053  Score=49.48  Aligned_cols=59  Identities=8%  Similarity=0.071  Sum_probs=44.8

Q ss_pred             HHHhcccCcceeEEEecCC---Ccccce--EEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263           10 CTIHHQLMDIVDVLFVHKN---NKFTGE--AFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus        10 ~~~F~~~g~i~~v~~~~~~---g~~~G~--afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      .++|..||.|..|.+..++   ....+-  .||.|.+.|||.+|| +-++..++||.++....+.
T Consensus       138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTT  202 (480)
T COG5175         138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTT  202 (480)
T ss_pred             hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCch
Confidence            4799999999998654322   111122  499999999999999 6799999999988765553

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

Probab=96.27  E-value=0.0029  Score=53.93  Aligned_cols=56  Identities=16%  Similarity=0.166  Sum_probs=45.6

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEE
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVE   62 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~   62 (196)
                      -|+++|..+|+.||+|..|.   .+-..+|..||+|-+.-+|+.|+ +++++.+.++.|.
T Consensus        87 Vsn~~L~~~f~~yGeir~ir---~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   87 VSNDTLLRIFGAYGEIREIR---ETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             CCHHHHHHHHHhhcchhhhh---cccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            47899999999999999964   22345678999999999999999 5788877766555

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

Probab=96.26  E-value=0.016  Score=37.50  Aligned_cols=51  Identities=14%  Similarity=0.053  Sum_probs=32.8

Q ss_pred             HHHHhcccC-cceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            9 LCTIHHQLM-DIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         9 l~~~F~~~g-~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      |+.++.-|| .|.+|.     |   |.|+|.|.+.+.|++|.+ +++...-|+.|.|.-..
T Consensus        23 L~qLsdNCGGkVl~v~-----~---~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~   75 (90)
T PF11608_consen   23 LRQLSDNCGGKVLSVS-----G---GTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP   75 (90)
T ss_dssp             HHHHHHTTT--EEE-------T---T-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred             HHHHhhccCCEEEEEe-----C---CEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence            566666775 444432     2   589999999999999995 78888888888885543

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

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=96.18  E-value=0.0026  Score=50.98  Aligned_cols=65  Identities=14%  Similarity=0.067  Sum_probs=53.5

Q ss_pred             CCchHHHHHHHhcccCcceeEEEe--cCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFV--HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~--~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ...|+++|+.+|..|+.|..+.+.  ..+|.++|+|||.|.+..++..|+......++++++.+...
T Consensus       195 f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (285)
T KOG4210|consen  195 FSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEED  261 (285)
T ss_pred             cccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccC
Confidence            346899999999999999998654  35999999999999999999999966566677787777443

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

Probab=95.87  E-value=0.0052  Score=47.66  Aligned_cols=61  Identities=13%  Similarity=0.118  Sum_probs=47.0

Q ss_pred             HHHHHHhc-ccCcceeEEEec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            7 QVLCTIHH-QLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         7 ~dl~~~F~-~~g~i~~v~~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +||-..|+ +||+|.++.+.+ .--+-.|-+||.|...++|++|+ .+|+..+.|++|....+.
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p  146 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence            56666666 789998874443 23345788999999999999999 579999999998764443

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

Probab=95.84  E-value=0.028  Score=48.63  Aligned_cols=82  Identities=10%  Similarity=0.107  Sum_probs=66.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhh-cCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc---CCeEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFK-DFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL---GSRYIE  179 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~-~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l---~gr~i~  179 (196)
                      ..+..|+|.||-.-.|.-+|+.++. ..|++++.  |+.    +-+..|||.|.+.++|.+-... ||..+   +++.|.
T Consensus       442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmD----kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~  515 (718)
T KOG2416|consen  442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMD----KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLI  515 (718)
T ss_pred             CccceEeeecccccchHHHHHHHHhhccCchHHH--HHH----HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeE
Confidence            4467999999999999999999998 55666633  442    2344699999999999888854 88876   689999


Q ss_pred             EEECChHHHHHHH
Q 029263          180 LFPSSHEEMDEAL  192 (196)
Q Consensus       180 V~~~~~~~~~~~~  192 (196)
                      +.+....++.++.
T Consensus       516 adf~~~deld~hr  528 (718)
T KOG2416|consen  516 ADFVRADELDKHR  528 (718)
T ss_pred             eeecchhHHHHHh
Confidence            9999999998774

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

Probab=95.65  E-value=0.058  Score=42.86  Aligned_cols=79  Identities=19%  Similarity=0.245  Sum_probs=55.3

Q ss_pred             EEEcCC--CCCCC---HHHHHHHhhcCCCccceEEEEeCCCCCC---ceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEE
Q 029263          110 LRLRGL--PFSAG---KDDIMDFFKDFVLSEDSIHITMNSDGRP---TGEAFVEFANAEDSKAAMA-KDRMTLGSRYIEL  180 (196)
Q Consensus       110 l~v~nL--p~~~t---~~~l~~~F~~~g~~~~~v~l~~~~~g~~---~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V  180 (196)
                      |.++|+  +-.++   ++++++..++||.+. .|.|...+ +.+   .---||+|...++|.+|+- +||..+|||.+.-
T Consensus       284 lllrnmVg~gevd~elede~keEceKyg~V~-~viifeip-~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A  361 (378)
T KOG1996|consen  284 LLLRNMVGAGEVDEELEDETKEECEKYGKVG-NVIIFEIP-SQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSA  361 (378)
T ss_pred             HHhhhhcCcccccHHHHHHHHHHHHhhccee-eEEEEecC-CCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeh
Confidence            445554  23333   357888899999665 45444333 111   2247999999999999995 5999999999998


Q ss_pred             EECChHHHHH
Q 029263          181 FPSSHEEMDE  190 (196)
Q Consensus       181 ~~~~~~~~~~  190 (196)
                      .+...+.+..
T Consensus       362 ~Fyn~ekfs~  371 (378)
T KOG1996|consen  362 CFYNLEKFSN  371 (378)
T ss_pred             eeccHHhhhh
Confidence            8887776653

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

Probab=95.61  E-value=0.011  Score=47.96  Aligned_cols=68  Identities=13%  Similarity=0.044  Sum_probs=55.6

Q ss_pred             CCchHHHHHHHhcccCccee--------EEEe-c-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChH
Q 029263            2 ELPQVQVLCTIHHQLMDIVD--------VLFV-H-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~--------v~~~-~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~   69 (196)
                      +..|+++|.++|..|+.|-.        |.++ + .|+..+|-|.|.|.+...|+.|+. .++..+.++.|+|..+...
T Consensus        76 d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r  154 (351)
T KOG1995|consen   76 DSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERR  154 (351)
T ss_pred             ccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhc
Confidence            46789999999999776631        3233 3 599999999999999999999996 6888898999999776644

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

Probab=95.55  E-value=0.033  Score=44.36  Aligned_cols=80  Identities=9%  Similarity=0.142  Sum_probs=60.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCC-eEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGS-RYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~g-r~i~V~~~~~  185 (196)
                      ...|-|.++|+..+ .-|..+|+.||.+.   ..+.   ++.-.+=+|.|.+..+|.+||.+||+.|+| -.|-|..++.
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vv---khv~---~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtD  269 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVV---KHVT---PSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTD  269 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhCeee---eeec---CCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCC
Confidence            45688889987654 45778899999764   2222   233348899999999999999999999976 5677888887


Q ss_pred             HHHHHHHH
Q 029263          186 EEMDEALS  193 (196)
Q Consensus       186 ~~~~~~~~  193 (196)
                      +.+....+
T Consensus       270 ksvi~~sn  277 (350)
T KOG4285|consen  270 KSVINGSN  277 (350)
T ss_pred             HHHhcccc
Confidence            77766554

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

Probab=95.45  E-value=0.13  Score=34.39  Aligned_cols=53  Identities=21%  Similarity=0.112  Sum_probs=37.3

Q ss_pred             hHHHHHHHhccc-Cccee-E-EEec-CCCcccceEEEEeCCHHHHHHHH-HhcccccC
Q 029263            5 QVQVLCTIHHQL-MDIVD-V-LFVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMG   57 (196)
Q Consensus         5 te~dl~~~F~~~-g~i~~-v-~~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~   57 (196)
                      |.++|.+++... .+-.| + +..| .++.+.|||||-|.+++.|.+-. ..+|....
T Consensus        14 t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~   71 (97)
T PF04059_consen   14 TQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP   71 (97)
T ss_pred             CHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence            567777777552 22233 3 3345 58899999999999999999877 45666654

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

>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=95.38  E-value=0.12  Score=31.89  Aligned_cols=54  Identities=9%  Similarity=0.275  Sum_probs=44.3

Q ss_pred             CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          118 SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       118 ~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      .++-++++.-+..|+-.    ++..+++|     =||.|.+..+|+++... ||+.+.+..|.+
T Consensus        11 ~~~v~d~K~~Lr~y~~~----~I~~d~tG-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRWD----RIRDDRTG-----FYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCCcc----eEEecCCE-----EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            46778999999999863    45567676     78999999999999976 999888877654

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

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=95.20  E-value=0.0044  Score=51.34  Aligned_cols=142  Identities=14%  Similarity=0.144  Sum_probs=100.0

Q ss_pred             CchHHHHHHHhcccCcce-eEEEecCCCcccceEEEEeCCHHHHHHHHHh-ccc-ccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIV-DVLFVHKNNKFTGEAFCVLGYPLQVDFALQR-NRQ-NMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~-~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~-~~~-~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|..||..+|.. ..+- +--++-    ..|||||...+..-|.+|++. +++ .+-|..+++...-+..         
T Consensus        12 ~~~psdl~svfg~-ak~~~~g~fl~----k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kk---------   77 (584)
T KOG2193|consen   12 QVTPSDLESVFGD-AKIPGSGQFLV----KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKK---------   77 (584)
T ss_pred             CCChHHHHHHhcc-ccCCCCcceee----ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHH---------
Confidence            4577899999987 4332 211121    237999999999999999964 444 4667777774333211         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEE-eCCCCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT-MNSDGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~-~~~~g~~~G~afV~F~~  158 (196)
                                               ...+.+-++|+|+...++-+..+...||.++ ++..+ .+..   .-.-=|+|.+
T Consensus        78 -------------------------qrsrk~Qirnippql~wevld~Ll~qyg~ve-~~eqvnt~~e---tavvnvty~~  128 (584)
T KOG2193|consen   78 -------------------------QRSRKIQIRNIPPQLQWEVLDSLLAQYGTVE-NCEQVNTDSE---TAVVNVTYSA  128 (584)
T ss_pred             -------------------------HHhhhhhHhcCCHHHHHHHHHHHHhccCCHh-HhhhhccchH---HHHHHHHHHH
Confidence                                     1234478999999999999999999999887 44332 3321   1123368888


Q ss_pred             HHHHHHHHHh-CCCccCCeEEEEEECChHH
Q 029263          159 AEDSKAAMAK-DRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~  187 (196)
                      .+.+..|+.. +|..|.+.-+.|.+.-.++
T Consensus       129 ~~~~~~ai~kl~g~Q~en~~~k~~YiPdeq  158 (584)
T KOG2193|consen  129 QQQHRQAIHKLNGPQLENQHLKVGYIPDEQ  158 (584)
T ss_pred             HHHHHHHHHhhcchHhhhhhhhcccCchhh
Confidence            9999999976 9999999999998874443

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=95.20  E-value=0.044  Score=45.65  Aligned_cols=75  Identities=17%  Similarity=0.218  Sum_probs=58.2

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CC-CccCCeEEEEEECChH
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DR-MTLGSRYIELFPSSHE  186 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g-~~l~gr~i~V~~~~~~  186 (196)
                      .+|+.||.+.++..|+..+|....+....-.|+      ..|||||.+.+..-|.+|+.. +| ..+.|.++.|..+-++
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence            589999999999999999998765433122233      247999999999999999975 54 5889999999877655


Q ss_pred             HHH
Q 029263          187 EMD  189 (196)
Q Consensus       187 ~~~  189 (196)
                      ..+
T Consensus        77 kqr   79 (584)
T KOG2193|consen   77 KQR   79 (584)
T ss_pred             HHH
Confidence            443

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.16  E-value=0.094  Score=37.39  Aligned_cols=69  Identities=10%  Similarity=0.073  Sum_probs=51.1

Q ss_pred             cEEEEc----CCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          108 GILRLR----GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       108 ~~l~v~----nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      .+|.|+    |+.+.-+-..+...++.||.+. +|.+.-      +..|.|.|++..+|..|++.=.....|+.++.++-
T Consensus        87 sTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~-SVT~cG------rqsavVvF~d~~SAC~Av~Af~s~~pgtm~qCsWq  159 (166)
T PF15023_consen   87 STIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQ-SVTLCG------RQSAVVVFKDITSACKAVSAFQSRAPGTMFQCSWQ  159 (166)
T ss_pred             eeEEeehhhhcCChHHHHHHHHHHHHhcCCcc-eeeecC------CceEEEEehhhHHHHHHHHhhcCCCCCceEEeecc
Confidence            356664    5555555566777788999876 887763      33699999999999999987444677888877664

>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=95.15  E-value=0.41  Score=32.78  Aligned_cols=68  Identities=15%  Similarity=0.179  Sum_probs=48.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      ...+.+...|+..+-++|..+.+.+-.....++++++... ++=.++++|.+.++|..=... ||+.+..
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~p-nrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTP-NRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCC-ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            3455556666777777887666776533336888877542 555789999999999887766 9988763

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

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

Probab=95.14  E-value=0.012  Score=49.34  Aligned_cols=63  Identities=13%  Similarity=0.137  Sum_probs=54.7

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcCh
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~   68 (196)
                      ++.|-.+|..+|..||+|.++.+.+.    .--|.|.|.+..+|-+|-.-++..|++|.|+|+....
T Consensus       383 glnt~a~ln~hfA~fG~i~n~qv~~~----~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnp  445 (526)
T KOG2135|consen  383 GLNTIADLNPHFAQFGEIENIQVDYS----SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNP  445 (526)
T ss_pred             CCchHhhhhhhhhhcCccccccccCc----hhhheeeeeccccccchhccccceecCceeEEEEecC
Confidence            57889999999999999999876544    2259999999999999998999999999999987763

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=94.63  E-value=0.008  Score=54.09  Aligned_cols=80  Identities=18%  Similarity=0.101  Sum_probs=62.7

Q ss_pred             CCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          103 SAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       103 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      +...+.+||++||+..+++.+|+..|..+|.++ .|.|..-.-+.-.-||||.|-+...+-+|... .+..|+.-.+++.
T Consensus       368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve-~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~g  446 (975)
T KOG0112|consen  368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVE-EVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIG  446 (975)
T ss_pred             chhhhhhhhhcCcccchhhhhhhhhhhhhcccc-ccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccc
Confidence            345578999999999999999999999999776 67776554444556999999999988888854 7777766565555


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      +.
T Consensus       447 lG  448 (975)
T KOG0112|consen  447 LG  448 (975)
T ss_pred             cc
Confidence            54

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

Probab=94.22  E-value=0.027  Score=47.39  Aligned_cols=71  Identities=28%  Similarity=0.374  Sum_probs=55.5

Q ss_pred             EEEEcCCCCCC-CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          109 ILRLRGLPFSA-GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       109 ~l~v~nLp~~~-t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      .+-+.-.|+.. |-.+|-..|.+||.++ .|.+-+..     --|.|+|.+..+|-.|-..++..|+||.|.|.|.++
T Consensus       374 ~l~lek~~~glnt~a~ln~hfA~fG~i~-n~qv~~~~-----~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnp  445 (526)
T KOG2135|consen  374 PLALEKSPFGLNTIADLNPHFAQFGEIE-NIQVDYSS-----LHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNP  445 (526)
T ss_pred             hhhhhccCCCCchHhhhhhhhhhcCccc-cccccCch-----hhheeeeeccccccchhccccceecCceeEEEEecC
Confidence            34455555554 4479999999999776 66654432     249999999999988888899999999999999765

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

Probab=94.20  E-value=0.15  Score=32.92  Aligned_cols=44  Identities=11%  Similarity=0.024  Sum_probs=33.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRN   52 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~   52 (196)
                      .|-..||.++|+.||.|.=-.|.| +     -|||....++.|..|+...
T Consensus        19 eWK~~DI~qlFspfG~I~VsWi~d-T-----SAfV~l~~r~~~~~v~~~~   62 (87)
T PF08675_consen   19 EWKTSDIYQLFSPFGQIYVSWIND-T-----SAFVALHNRDQAKVVMNTL   62 (87)
T ss_dssp             T--HHHHHHHCCCCCCEEEEEECT-T-----EEEEEECCCHHHHHHHHHH
T ss_pred             HhhhhhHHHHhccCCcEEEEEEcC-C-----cEEEEeecHHHHHHHHHHh
Confidence            466789999999988775444444 3     5999999999999988543

; 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.

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=93.04  E-value=0.25  Score=32.40  Aligned_cols=72  Identities=14%  Similarity=0.067  Sum_probs=45.9

Q ss_pred             EEEEeCCHHHHHHHHHh--cccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEE
Q 029263           35 AFCVLGYPLQVDFALQR--NRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRL  112 (196)
Q Consensus        35 afV~F~~~~~a~~Al~~--~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v  112 (196)
                      |.|.|....=|+.-+++  +.-.+++..+.|....-...      .               ....  +-....+.++|.|
T Consensus         1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~------~---------------~~k~--qv~~~vs~rtVlv   57 (88)
T PF07292_consen    1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLG------H---------------LQKF--QVFSGVSKRTVLV   57 (88)
T ss_pred             CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecC------C---------------ceEE--EEEEcccCCEEEE
Confidence            78999999999999865  55566776665533320000      0               0000  0001234578999


Q ss_pred             cCCCCCCCHHHHHHHhh
Q 029263          113 RGLPFSAGKDDIMDFFK  129 (196)
Q Consensus       113 ~nLp~~~t~~~l~~~F~  129 (196)
                      .|||...++++|++..+
T Consensus        58 sgip~~l~ee~l~D~Le   74 (88)
T PF07292_consen   58 SGIPDVLDEEELRDKLE   74 (88)
T ss_pred             eCCCCCCChhhheeeEE
Confidence            99999999999987654

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

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

Probab=92.54  E-value=0.2  Score=44.52  Aligned_cols=61  Identities=8%  Similarity=0.010  Sum_probs=48.8

Q ss_pred             hHHHHHHHhcccCcceeEEEe--c---CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEE
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV--H---KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFR   65 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~--~---~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~   65 (196)
                      +|+.|..-|..||.+..|.|+  .   ...+.+-||||-|-+..||++|+ .+++..+.++.+++..
T Consensus       187 ~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gW  253 (877)
T KOG0151|consen  187 DENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGW  253 (877)
T ss_pred             cHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecc
Confidence            688999999999999887544  1   13445569999999999999999 5789888888777643

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=92.46  E-value=0.62  Score=28.39  Aligned_cols=44  Identities=7%  Similarity=0.015  Sum_probs=32.6

Q ss_pred             CCchHHHHHHHhcccC---cceeEEEecCCCcccceEEEEeCCHHHHHHHHH
Q 029263            2 ELPQVQVLCTIHHQLM---DIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ   50 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g---~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~   50 (196)
                      +.-+.+||+.+|..|.   .+..|-..|.+     -|=|.|.+.+.|.+||.
T Consensus        14 d~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-----ScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen   14 DELSTDDIKAYFSEYFDEEGPFRIEWIDDT-----SCNVVFKDEETAARALV   60 (62)
T ss_pred             CCCCHHHHHHHHHHhcccCCCceEEEecCC-----cEEEEECCHHHHHHHHH
Confidence            3456779999999972   44567434333     38899999999999994

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=92.33  E-value=0.54  Score=40.71  Aligned_cols=67  Identities=19%  Similarity=0.237  Sum_probs=47.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCcc-ceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh---CCCccCCeEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSE-DSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK---DRMTLGSRYIEL  180 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~-~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~---~g~~l~gr~i~V  180 (196)
                      .+|.++-||.++-.++++.+|+.-.... .++.+-.+.      -=||+|++..||+.|...   .-+.|.|++|--
T Consensus       176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~------nWyITfesd~DAQqAykylreevk~fqgKpImA  246 (684)
T KOG2591|consen  176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA  246 (684)
T ss_pred             eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence            4677899999999999999998633211 134433221      268999999999999853   456778877643

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=92.10  E-value=0.21  Score=37.17  Aligned_cols=67  Identities=13%  Similarity=0.112  Sum_probs=40.3

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhc-CCCcc--ceEEEEeCC--C-CCCceEEEEEeCCHHHHHHHHHh-CCCcc
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKD-FVLSE--DSIHITMNS--D-GRPTGEAFVEFANAEDSKAAMAK-DRMTL  173 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~-~g~~~--~~v~l~~~~--~-g~~~G~afV~F~~~~~A~~Al~~-~g~~l  173 (196)
                      ...|.|++||++.|++++.+.+++ ++...  ..+.-....  . -..-.-|||.|.+.+++..-... +|..+
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F   80 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVF   80 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEE
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEE
Confidence            458999999999999999997776 44321  123211222  1 11234799999999997776655 87654

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

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

Probab=91.80  E-value=0.15  Score=42.62  Aligned_cols=49  Identities=10%  Similarity=-0.090  Sum_probs=38.7

Q ss_pred             hHHHHHHHhcccCcceeEEEecC-------CCcc--------cceEEEEeCCHHHHHHHHHhcc
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHK-------NNKF--------TGEAFCVLGYPLQVDFALQRNR   53 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~-------~g~~--------~G~afV~F~~~~~a~~Al~~~~   53 (196)
                      .-+.|.++|+.||.|..|.|.++       .|..        +-+|+|+|+..+.|.+|.+.++
T Consensus       244 ~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~  307 (484)
T KOG1855|consen  244 SYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN  307 (484)
T ss_pred             HHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence            34789999999999999876654       2222        4689999999999999987643

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=91.78  E-value=0.055  Score=43.69  Aligned_cols=78  Identities=13%  Similarity=0.348  Sum_probs=55.2

Q ss_pred             cEEEEcCCCCCCCHHHHH---HHhhcCCCccceEEEEeCCC--CCC--ceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          108 GILRLRGLPFSAGKDDIM---DFFKDFVLSEDSIHITMNSD--GRP--TGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~---~~F~~~g~~~~~v~l~~~~~--g~~--~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      .-+||-+||.....+++.   ++|.+||.+. .|.+-.+..  ...  .--++|+|...++|..|+.. +|..+.|+.|+
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~-ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk  156 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKIN-KIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK  156 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccce-EEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence            457788888775554443   6788888654 455544331  111  11389999999999999987 99999999988


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      ..+.+..
T Consensus       157 a~~gttk  163 (327)
T KOG2068|consen  157 ASLGTTK  163 (327)
T ss_pred             HhhCCCc
Confidence            8877655

>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=90.81  E-value=1.1  Score=33.55  Aligned_cols=60  Identities=8%  Similarity=0.141  Sum_probs=40.9

Q ss_pred             CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-C--CCccCCeEEEEEECCh
Q 029263          120 GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-D--RMTLGSRYIELFPSSH  185 (196)
Q Consensus       120 t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~--g~~l~gr~i~V~~~~~  185 (196)
                      ..+.|+++|..++... ....+.     +-+=..|.|.+.++|.+|... +  +..+.|..++|.++..
T Consensus         8 ~~~~l~~l~~~~~~~~-~~~~L~-----sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~   70 (184)
T PF04847_consen    8 NLAELEELFSTYDPPV-QFSPLK-----SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP   70 (184)
T ss_dssp             -HHHHHHHHHTT-SS--EEEEET-----TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred             hHHHHHHHHHhcCCce-EEEEcC-----CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence            4588999999998543 343332     233589999999999999976 8  8999999999988743

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.

>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT

Probab=90.71  E-value=0.43  Score=32.98  Aligned_cols=58  Identities=22%  Similarity=0.289  Sum_probs=33.0

Q ss_pred             cEEEEcCCCCCC---------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHH-HHHHHHh
Q 029263          108 GILRLRGLPFSA---------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED-SKAAMAK  168 (196)
Q Consensus       108 ~~l~v~nLp~~~---------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~-A~~Al~~  168 (196)
                      .++.|.|+|-..         +.+.|.+.|..|....  ++.+.+..| +.|+++|+|...-. -..|+.+
T Consensus         9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k--v~~l~~~~g-h~g~aiv~F~~~w~Gf~~A~~l   76 (116)
T PF03468_consen    9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK--VKPLYGKQG-HTGFAIVEFNKDWSGFKNAMRL   76 (116)
T ss_dssp             -EEEEE----EE-TTS-EE---SHHHHHHHHH---SE--EEEEEETTE-EEEEEEEE--SSHHHHHHHHHH
T ss_pred             CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce--eEECcCCCC-CcEEEEEEECCChHHHHHHHHH
Confidence            467777876443         4578999999988755  776666654 78999999998433 3555544

SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=89.91  E-value=0.32  Score=38.03  Aligned_cols=49  Identities=18%  Similarity=0.060  Sum_probs=42.8

Q ss_pred             CchHHHHHHHhcccCccee-EEEecCCCcccceEEEEeCCHHHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDIVD-VLFVHKNNKFTGEAFCVLGYPLQVDFALQR   51 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v~~~~~~g~~~G~afV~F~~~~~a~~Al~~   51 (196)
                      ..+-|.+.+-|+.||.|.. |.++|..|+..|.++|.|...-.|.+|+.+
T Consensus        42 ~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr   91 (275)
T KOG0115|consen   42 GASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARR   91 (275)
T ss_pred             hhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHH
Confidence            3566889999999999987 567888999999999999999999999964

>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]

Probab=89.54  E-value=1.4  Score=35.09  Aligned_cols=47  Identities=19%  Similarity=0.222  Sum_probs=38.5

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA  159 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~  159 (196)
                      .-|+|.|||.++--.||+..+...+.+.-++.|.     -+.|-||.+|.+.
T Consensus       331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk-----g~~~k~flh~~~~  377 (396)
T KOG4410|consen  331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK-----GHFGKCFLHFGNR  377 (396)
T ss_pred             cceeeccCccccchHHHHHHHHhcCCCceeEeee-----cCCcceeEecCCc
Confidence            4599999999999999999999888666455554     2567899999874

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=89.35  E-value=2.1  Score=36.33  Aligned_cols=68  Identities=15%  Similarity=0.272  Sum_probs=55.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      +..|+|-.+|-..|..||..|...+--....|++++|..+ ++=..+|+|++..+|..=... ||..+..
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~p-nrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMP-NRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCC-ceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            6789999999999999999999988633347999996532 333588999999999998865 9988764

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=89.03  E-value=0.39  Score=42.31  Aligned_cols=68  Identities=7%  Similarity=0.030  Sum_probs=56.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ...++||+|+.+.+..+-++.+...+|.+. +.  ++..      |||..|....-+.+|+.+ +...++|..+.+..
T Consensus        39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~-s~--kr~~------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~  107 (668)
T KOG2253|consen   39 PRDTVFVGNISYLVSQEFWKSILAKSGFVP-SW--KRDK------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENV  107 (668)
T ss_pred             CCceeEecchhhhhhHHHHHHHHhhCCcch-hh--hhhh------hcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence            456899999999999999999999999765 32  2221      899999999999999876 88889888887755

>KOG2891 consensus Surface glycoprotein [General function prediction only]

Probab=87.34  E-value=2.8  Score=33.39  Aligned_cols=116  Identities=16%  Similarity=0.222  Sum_probs=59.9

Q ss_pred             eEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCC----CCCCCCCCCCCCCcccE
Q 029263           34 EAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIP----RAKSHDEGKDSAVHTGI  109 (196)
Q Consensus        34 ~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~  109 (196)
                      .-||.|+..-.-.-.++..-.+++|..|++..-...--........ +.   +...+|.    ..+.... --+.....+
T Consensus        77 id~iifeael~n~gimkk~l~~ldgfsiklsgfad~lkvka~eaki-df---psrhdwdd~fm~~kdmde-mkpgerpdt  151 (445)
T KOG2891|consen   77 IDFIIFEAELENKGIMKKFLACLDGFSIKLSGFADILKVKAAEAKI-DF---PSRHDWDDFFMDAKDMDE-MKPGERPDT  151 (445)
T ss_pred             cceEEeeHhhhhhhHHHHHHHHhcCCeeeecccchHHhhhHHhhcC-CC---CcccchHHHHhhhhhhhc-cCCCCCCCc
Confidence            5788888766555455666677788887774432111111111111 00   0111111    0000111 011223467


Q ss_pred             EEEcCCCC------------CCCHHHHHHHhhcCCCccceEEEEeCC------CCCCceEEEEE
Q 029263          110 LRLRGLPF------------SAGKDDIMDFFKDFVLSEDSIHITMNS------DGRPTGEAFVE  155 (196)
Q Consensus       110 l~v~nLp~------------~~t~~~l~~~F~~~g~~~~~v~l~~~~------~g~~~G~afV~  155 (196)
                      |++.+||-            -.+++-|...|+.||.+. .|.|+..+      +|+..|.-|-.
T Consensus       152 i~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir-~vdipicdplr~~mn~kisgiq~~g  214 (445)
T KOG2891|consen  152 IHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIR-NVDIPICDPLREEMNGKISGIQFHG  214 (445)
T ss_pred             eeecCCcceeeeecccccccCChHHHHHHHHHHhccce-ecCCcccchhHHHhcCccccceeec
Confidence            88888872            257789999999999665 56654332      67765544433

>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=85.98  E-value=4.7  Score=24.85  Aligned_cols=52  Identities=4%  Similarity=-0.056  Sum_probs=38.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYV   61 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i   61 (196)
                      ..|-+|++..+..| .-.+|+ .|.+|     =||.|.+..+|+++.. .++..+.+..|
T Consensus        11 ~~~v~d~K~~Lr~y-~~~~I~-~d~tG-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m   63 (66)
T PF11767_consen   11 GVTVEDFKKRLRKY-RWDRIR-DDRTG-----FYIVFNDSKEAERCFRAEDGTLFFTYRM   63 (66)
T ss_pred             CccHHHHHHHHhcC-CcceEE-ecCCE-----EEEEECChHHHHHHHHhcCCCEEEEEEE
Confidence            35678899999883 344554 66665     5999999999999994 57776655444

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

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=85.91  E-value=3.7  Score=29.46  Aligned_cols=48  Identities=10%  Similarity=-0.045  Sum_probs=35.5

Q ss_pred             HHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeE
Q 029263            9 LCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYV   61 (196)
Q Consensus         9 l~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i   61 (196)
                      |-..++.||.|.+|...-   +  -.|.|.|.+..+|.+|+...+....|.-+
T Consensus       107 V~~~Ls~fGpI~SVT~cG---r--qsavVvF~d~~SAC~Av~Af~s~~pgtm~  154 (166)
T PF15023_consen  107 VIQRLSVFGPIQSVTLCG---R--QSAVVVFKDITSACKAVSAFQSRAPGTMF  154 (166)
T ss_pred             HHHHHHhcCCcceeeecC---C--ceEEEEehhhHHHHHHHHhhcCCCCCceE
Confidence            445568899999986553   2  26999999999999999776655555443

>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=83.60  E-value=8.1  Score=24.13  Aligned_cols=59  Identities=15%  Similarity=0.146  Sum_probs=32.4

Q ss_pred             CCCCHHHHHHHhhcC-CCccceE---EEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          117 FSAGKDDIMDFFKDF-VLSEDSI---HITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       117 ~~~t~~~l~~~F~~~-g~~~~~v---~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..++..+|..++... |+....|   .+...       |+||+-.. +.|..++.. ++..+.|+.|.|..|
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~-------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDN-------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS--------EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEeee-------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence            567888999999766 5444333   33322       89999865 467777865 999999999999875

; PDB: 2G0C_A 3MOJ_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	196
2hgm_A	126	Nmr Structure Of The Second Qrrm Domain Of Human Hn		2e-15
2hgl_A	136	Nmr Structure Of The First Qrrm Domain Of Human Hnr		1e-14
1wel_A	124	Solution Structure Of Rna Binding Domain In Np_0060		1e-14
2lxu_A	108	Solution Nmr Structure Of The Eukaryotic Rna Recogn		2e-14
2db1_A	118	Solution Structure Of The Rna Binding Domain In Het		3e-14
1wg5_A	104	Solution Structure Of The First Rrm Domain In Heter		7e-14
1wez_A	102	Solution Structure Of Rrm Domain In Heterogeneous N		1e-13
2dha_A	123	Solution Structure Of The Second Rna Recognition Mo		3e-13
2hgn_A	139	Nmr Structure Of The Third Qrrm Domain Of Human Hnr		3e-13
2lmi_A	107	Nmr Structure Of The Protein Bc040485 From Homo Sap		1e-12
2dgw_A	91	Solution Structure Of The Second Rna Recognition Mo		2e-09
2dnn_A	109	Solution Structure Of Rna Binding Domain In Rna-Bin		3e-08
2cqp_A	98	Solution Structure Of The Rna Binding Domain Of Rna		3e-07
2ek6_A	95	Crystal Structure Of Human Rna-Binding Protein 12 L		4e-07
2ek1_A	95	Crystal Structure Of Rna-Binding Motif Of Human Rna		1e-06
2cpy_A	114	Solution Structure Of Rna Binding Domain 3 In Rna B		1e-05
2do4_A	100	Solution Structure Of The Rna Binding Domain Of Squ		1e-04

>pdb|2HGM|A Chain A, Nmr Structure Of The Second Qrrm Domain Of Human Hnrnp F Length = 126

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 41/106 (38%), Positives = 65/106 (61%), Gaps = 2/106 (1%)
Query: 85  GSPHRSIPRAKSHDEGKDSA--VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM 142
           GS   S+   +    G +SA   + G +RLRGLPF   K++I+ FF    +  + I + +
Sbjct: 18  GSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPV 77
Query: 143 NSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEM 188
           + +G+ TGEAFV+FA+ E ++ A+ K +  +G RYIE+F SS EE+
Sbjct: 78  DPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV 123

>pdb|2HGL|A Chain A, Nmr Structure Of The First Qrrm Domain Of Human Hnrnp F Length = 136

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 54/86 (62%), Gaps = 2/86 (2%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDS--IHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           +++LRGLP+S   +D+ +F  D  + + +  +H     +GR +GEAFVE  + +D K A+
Sbjct: 46  VVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMAL 105
Query: 167 AKDRMTLGSRYIELFPSSHEEMDEAL 192
            KDR ++G RYIE+F S   EMD  L
Sbjct: 106 KKDRESMGHRYIEVFKSHRTEMDWVL 131

>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038 Length = 124

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 52/81 (64%)
Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           L+GLPF A    ++DFFK   + EDSI+I    +G+ TGE FVEF N  D KAA+ + + 
Sbjct: 30  LKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQ 89
Query: 172 TLGSRYIELFPSSHEEMDEAL 192
            +G+R+I++ P + + M E +
Sbjct: 90  YMGNRFIQVHPITKKGMLEKI 110

>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition Motif, Rrm1, From The Heterogeneous Nuclear Ribonucleoprotein H From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr8614a Length = 108

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 55/86 (63%), Gaps = 2/86 (2%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDS--IHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           ++++RGLP+S   D++  FF D  +   +  I      +GRP+GEAFVE  + ++ K A+
Sbjct: 9   VVKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDEVKLAL 68
Query: 167 AKDRMTLGSRYIELFPSSHEEMDEAL 192
            KDR T+G RY+E+F S++ EMD  L
Sbjct: 69  KKDRETMGHRYVEVFKSNNVEMDWVL 94

>pdb|2DB1|A Chain A, Solution Structure Of The Rna Binding Domain In Heterogeneous Nuclear Ribonucleoprotein F Homolog Length = 118

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 53/86 (61%), Gaps = 2/86 (2%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSED--SIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           +++LRGLP+S   +D+ +F  D  + +    +H     +GR +GEAFVE  + +D K A+
Sbjct: 19  VVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLAL 78
Query: 167 AKDRMTLGSRYIELFPSSHEEMDEAL 192
            KDR ++G RYIE+F S   EMD  L
Sbjct: 79  KKDRESMGHRYIEVFKSHRTEMDWVL 104

>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In Heterogeneous Nuclear Ribonucleoprotein H Length = 104

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 53/81 (65%)
Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G +RLRGLPF   K++I+ FF    +  + + + ++  GR TGEAFV+FA+ E ++ A+ 
Sbjct: 16  GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK 75
Query: 168 KDRMTLGSRYIELFPSSHEEM 188
           K +  +G RYIE+F SS  E+
Sbjct: 76  KHKERIGHRYIEIFKSSRAEV 96

>pdb|1WEZ|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear Ribonucleoprotein H' Length = 102

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 51/75 (68%), Gaps = 2/75 (2%)
Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + +RGLP+ A ++DI +FF    L+   +HI +  DGR TGEA VEFA  ED+ AAMAKD
Sbjct: 18  VHMRGLPYRATENDIYNFFSP--LNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 75
Query: 170 RMTLGSRYIELFPSS 184
           +  +  RY+ELF +S
Sbjct: 76  KANMQHRYVELFLNS 90

>pdb|2DHA|A Chain A, Solution Structure Of The Second Rna Recognition Motif In Hypothetical Protein Flj201171 Length = 123

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/89 (41%), Positives = 55/89 (61%), Gaps = 3/89 (3%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKD---FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAA 165
           I+R+RGLPF+A  ++++ FF         ++ I      DGRPTG+AFV FA  E ++ A
Sbjct: 25  IVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNA 84
Query: 166 MAKDRMTLGSRYIELFPSSHEEMDEALSR 194
           + K +  LG RYIELF S+  E+ + L+R
Sbjct: 85  LRKHKDLLGKRYIELFRSTAAEVQQVLNR 113

>pdb|2HGN|A Chain A, Nmr Structure Of The Third Qrrm Domain Of Human Hnrnp F Length = 139

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 51/75 (68%), Gaps = 2/75 (2%)
Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + +RGLP+ A ++DI +FF    L+   +HI +  DGR TGEA VEFA  E++ AAM+KD
Sbjct: 49  VHMRGLPYKATENDIYNFFSP--LNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKD 106
Query: 170 RMTLGSRYIELFPSS 184
           R  +  RYIELF +S
Sbjct: 107 RANMQHRYIELFLNS 121

>pdb|2LMI|A Chain A, Nmr Structure Of The Protein Bc040485 From Homo Sapiens Length = 107

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 55/83 (66%), Gaps = 2/83 (2%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVL--SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           ++R +GLP+S   +D+++FF D  +   E+ IH  +N DG+  G+A +E  + +D + A+
Sbjct: 13  LIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKAL 72
Query: 167 AKDRMTLGSRYIELFPSSHEEMD 189
            K RM +G RY+E++  ++E++D
Sbjct: 73  EKHRMYMGQRYVEVYEINNEDVD 95

>pdb|2DGW|A Chain A, Solution Structure Of The Second Rna Recognition Motif In Rna-Binding Protein 19 Length = 91

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 4/79 (5%)
Query: 103 SAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDS 162
           +  HT  ++LRG PF+  + ++M+F     L   +I I  N+ G  TG  FV+F+N E+ 
Sbjct: 8   TTCHT--VKLRGAPFNVTEKNVMEFLAP--LKPVAIRIVRNAHGNKTGYIFVDFSNEEEV 63
Query: 163 KAAMAKDRMTLGSRYIELF 181
           K A+  +R  +G RYIE+F
Sbjct: 64  KQALKCNREYMGGRYIEVF 82

>pdb|2DNN|A Chain A, Solution Structure Of Rna Binding Domain In Rna-Binding Protein 12 Length = 109

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 49/82 (59%), Gaps = 2/82 (2%)
Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + + G+PFSA ++D+ DFF    L  D++H+  +  GR  G   V+F + +D+  A+ ++
Sbjct: 19  VSVHGMPFSAMENDVRDFFHG--LRVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRN 76
Query: 170 RMTLGSRYIELFPSSHEEMDEA 191
           RM +  RY+E+ P++  +   A
Sbjct: 77  RMLMIQRYVEVSPATERQWVAA 98

>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of Rna-Binding Protein 12 Length = 98

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 46/74 (62%), Gaps = 3/74 (4%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA- 167
           I++++ +PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+  
Sbjct: 17  IIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 76
Query: 168 -KDRMTLGSRYIEL 180
             DR  +GSR ++L
Sbjct: 77  LNDR-PIGSRKVKL 89

>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12 Length = 95

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 49/79 (62%), Gaps = 4/79 (5%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA- 167
           +++++ +PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+  
Sbjct: 17  VIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 76
Query: 168 -KDRMTLGSRYIELF-PSS 184
             DR  +GSR ++L  PSS
Sbjct: 77  LNDR-PIGSRKVKLSGPSS 94

>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human Rna-Binding Protein 12 Length = 95

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 4/79 (5%)
Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA- 167
           +++++  PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+  
Sbjct: 17  VIKVQNXPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGXPTGEAXVAFESRDEATAAVID 76
Query: 168 -KDRMTLGSRYIELF-PSS 184
             DR  +GSR ++L  PSS
Sbjct: 77  LNDR-PIGSRKVKLSGPSS 94

>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna Binding Motif Protein 12 Length = 114

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/79 (26%), Positives = 45/79 (56%)
Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           +  +PFS  K D++ F +   + E+++H+ ++++G+  G+A V+F N +D++ +    R 
Sbjct: 20  ITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRK 79
Query: 172 TLGSRYIELFPSSHEEMDE 190
            L  R   +   + E+M E
Sbjct: 80  KLNGREAFVHVVTLEDMRE 98

>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous Cell Carcinoma Antigen Recognized By T Cells 3 Length = 100

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFAN-AEDSKAAMAK 168
           L + GLPFS  K+++ +  K     +D + +  N  G+P G A+VE+ N ++ S+A M  
Sbjct: 20  LFISGLPFSCTKEELEEICKAHGTVKD-LRLVTNRAGKPKGLAYVEYENESQASQAVMKM 78
Query: 169 DRMTLGSRYIEL 180
           D MT+    I++
Sbjct: 79  DGMTIKENIIKV 90

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	196
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	6e-39
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	1e-08
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	7e-38
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	3e-09
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	6e-36
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	3e-10
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	1e-34
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	1e-07
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	1e-34
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-10
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	8e-34
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	1e-09
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	1e-33
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	3e-09
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	1e-33
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	3e-09
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	5e-33
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	8e-10
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-32
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	1e-08
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	3e-32
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	3e-13
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	2e-31
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	2e-05
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	4e-31
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	9e-05
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-30
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	1e-10
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	3e-10
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	1e-09
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	1e-08
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-08
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	2e-08
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	4e-08
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-08
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	6e-08
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	9e-08
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	1e-07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	1e-07
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	1e-07
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	2e-07
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-07
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	2e-07
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	2e-07
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	3e-07
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	3e-07
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	3e-07
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	4e-07
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	4e-07
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	6e-07
2dis_A	109	Unnamed protein product; structural genomics, RRM	8e-07
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	9e-07
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	1e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-05
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	2e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-06
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-06
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	2e-06
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	3e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	7e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-04
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	3e-06
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	4e-06
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	5e-06
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	5e-06
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	5e-06
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	6e-06
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	7e-06
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	7e-06
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	7e-06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	9e-06
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	1e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	1e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	8e-05
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	1e-05
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-05
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	1e-05
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	2e-05
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-05
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-05
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	3e-05
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	3e-05
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	4e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	4e-05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	6e-05
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	6e-05
2div_A	99	TRNA selenocysteine associated protein; structural	6e-05
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	8e-05
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	8e-05
1x4e_A	85	RNA binding motif, single-stranded interacting pro	8e-05
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	1e-04
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	1e-04
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	1e-04
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	1e-04
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	1e-04
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	1e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-04
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	1e-04
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	2e-04
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	2e-04
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-04
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	2e-04
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	2e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	2e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	3e-04
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	4e-04
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	4e-04
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	5e-04
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	5e-04
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	5e-04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	5e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	6e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	7e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	7e-04

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score =  129 bits (326), Expect = 6e-39
 Identities = 40/149 (26%), Positives = 62/149 (41%), Gaps = 17/149 (11%)

Query: 48  ALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHT 107
               +  +     V                  S +   +  + + R     E    +   
Sbjct: 2   GSSHHHHHHSSGLVPRG---------------SHMASMTGGQQMGRGSGDSEFTVQSTTG 46

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
             + +RGLP+ A ++DI +FF     +   +HI +  DGR TGEA VEFA  E++ AAM+
Sbjct: 47  HCVHMRGLPYKATENDIYNFFSPL--NPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMS 104

Query: 168 KDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           KDR  +  RYIELF +S           +
Sbjct: 105 KDRANMQHRYIELFLNSTTGASNGAYSSQ 133

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 51.0 bits (122), Expect = 1e-08
 Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 19  IVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI 75
            V V      + + TGEA        +   A+ ++R NM  RY+E+F +         
Sbjct: 72  PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTTGASNGA 129

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score =  126 bits (318), Expect = 7e-38
 Identities = 36/112 (32%), Positives = 57/112 (50%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS 144
                  P  +     +        + L+GLPF A    ++DFFK   + EDSI+I    
Sbjct: 3   SGSSGKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGP 62

Query: 145 DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           +G+ TGE FVEF N  D KAA+ + +  +G+R+I++ P + + M E +   R
Sbjct: 63  NGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIR 114

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 51.8 bits (124), Expect = 3e-09
 Identities = 16/66 (24%), Positives = 27/66 (40%)

Query: 22  VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD 81
            +    N K TGE F           AL R++Q MG R+++V    ++   + I      
Sbjct: 57  YIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKR 116

Query: 82  VRGGSP 87
           ++ G  
Sbjct: 117 LQSGPS 122

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score =  121 bits (305), Expect = 6e-36
 Identities = 41/115 (35%), Positives = 61/115 (53%), Gaps = 3/115 (2%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF---VLSEDSIHIT 141
           GS   S     +      S  +  I+R+RGLPF+A  ++++ FF         ++ I   
Sbjct: 1   GSSGSSGGGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFV 60

Query: 142 MNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
              DGRPTG+AFV FA  E ++ A+ K +  LG RYIELF S+  E+ + L+R  
Sbjct: 61  TYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQVLNRFS 115

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 54.5 bits (131), Expect = 3e-10
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 26  HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGG 85
           + + + TG+AF +         AL++++  +G+RY+E+FRS   E  + +    S     
Sbjct: 62  YPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQVLNRFSSASGPS 121

Query: 86  S 86
           S
Sbjct: 122 S 122

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score =  117 bits (296), Expect = 1e-34
 Identities = 24/112 (21%), Positives = 49/112 (43%), Gaps = 8/112 (7%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS 144
           GS   S     +               +  +PFS  K D++ F +   + E+++H+ +++
Sbjct: 1   GSSGSSGEGDVNSA--------KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN 52

Query: 145 DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
           +G+  G+A V+F N +D++ +    R  L  R   +   + E+M E      
Sbjct: 53  NGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPP 104

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 47.0 bits (112), Expect = 1e-07
 Identities = 9/64 (14%), Positives = 22/64 (34%)

Query: 22  VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD 81
            + V  N +  G+A            + + +R+ +  R   V     ++  +   N  + 
Sbjct: 47  HVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPPAQ 106

Query: 82  VRGG 85
            + G
Sbjct: 107 GKSG 110

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score =  117 bits (295), Expect = 1e-34
 Identities = 34/91 (37%), Positives = 55/91 (60%)

Query: 101 KDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAE 160
                + G +RLRGLPF   K++I+ FF    +  + + + ++  GR TGEAFV+FA+ E
Sbjct: 9   SPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQE 68

Query: 161 DSKAAMAKDRMTLGSRYIELFPSSHEEMDEA 191
            ++ A+ K +  +G RYIE+F SS  E+  +
Sbjct: 69  IAEKALKKHKERIGHRYIEIFKSSRAEVRTS 99

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 54.0 bits (130), Expect = 3e-10
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 22 VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKA 74
           L V    + TGEAF         + AL+++++ +G RY+E+F+S R E   +
Sbjct: 47 TLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAEVRTS 99

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score =  116 bits (291), Expect = 8e-34
 Identities = 38/143 (26%), Positives = 67/143 (46%), Gaps = 19/143 (13%)

Query: 48  ALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHT 107
               +  +     V                  S +   +  + + R  +  +  +     
Sbjct: 2   GSSHHHHHHSSGLVPRG---------------SHMASMTGGQQMGRGSNSADSAND---- 42

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G +RLRGLPF   K++I+ FF    +  + I + ++ +G+ TGEAFV+FA+ E ++ A+ 
Sbjct: 43  GFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG 102

Query: 168 KDRMTLGSRYIELFPSSHEEMDE 190
           K +  +G RYIE+F SS EE+  
Sbjct: 103 KHKERIGHRYIEVFKSSQEEVRS 125

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 53.3 bits (128), Expect = 1e-09
 Identities = 18/52 (34%), Positives = 28/52 (53%)

Query: 22  VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYK 73
            L V    K TGEAF         + AL ++++ +G RY+EVF+S ++E   
Sbjct: 74  TLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEVRS 125

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score =  114 bits (288), Expect = 1e-33
 Identities = 41/100 (41%), Positives = 56/100 (56%), Gaps = 3/100 (3%)

Query: 96  SHDEGKDSAVHTG-ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFV 154
           S   G      TG  + +RGLP+ A ++DI +FF    L+   +HI +  DGR TGEA V
Sbjct: 3   SGSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSP--LNPMRVHIEIGPDGRVTGEADV 60

Query: 155 EFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSR 194
           EFA  ED+ AAMAKD+  +  RY+ELF +S      +   
Sbjct: 61  EFATHEDAVAAMAKDKANMQHRYVELFLNSTAGTSGSGPS 100

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 51.2 bits (123), Expect = 3e-09
 Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 18 DIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE 70
          + + V      + + TGEA            A+ +++ NM  RYVE+F +    
Sbjct: 40 NPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNSTAG 93

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score =  114 bits (287), Expect = 1e-33
 Identities = 29/101 (28%), Positives = 59/101 (58%), Gaps = 2/101 (1%)

Query: 98  DEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVE 155
            + ++      ++R +GLP+S   +D+++FF D      E+ IH  +N DG+  G+A +E
Sbjct: 2   SKLEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIE 61

Query: 156 FANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
             + +D + A+ K RM +G RY+E++  ++E++D  +   +
Sbjct: 62  MESEQDVQKALEKHRMYMGQRYVEVYEINNEDVDALMKSLQ 102

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 51.8 bits (124), Expect = 3e-09
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 2/66 (3%)

Query: 10 CTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ 69
          C I +    I     ++++ K  G+A   +     V  AL+++R  MG+RYVEV+    +
Sbjct: 35 CRIRNGENGIH--FLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVYEINNE 92

Query: 70 EYYKAI 75
          +    +
Sbjct: 93 DVDALM 98

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score =  113 bits (284), Expect = 5e-33
 Identities = 39/115 (33%), Positives = 58/115 (50%), Gaps = 9/115 (7%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSED--SIHIT 141
           G S    +       EG        +++LRGLP+S   +D+ +F  D  + +    +H  
Sbjct: 1   GSSGSSGMMLGPEGGEGY-------VVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFI 53

Query: 142 MNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
              +GR +GEAFVE  + +D K A+ KDR ++G RYIE+F S   EMD  L    
Sbjct: 54  YTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTEMDWVLKHSG 108

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 53.4 bits (128), Expect = 8e-10
 Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 8/83 (9%)

Query: 10  CTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ 69
           CTIH  +  +       +  + +GEAF  L     V  AL+++R++MG RY+EVF+S R 
Sbjct: 41  CTIHDGVAGVH--FIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRT 98

Query: 70  EYYKAIANEVSDVRGGSPHRSIP 92
           E    +         G    S P
Sbjct: 99  EMDWVLK------HSGPNSASGP 115

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score =  113 bits (283), Expect = 2e-32
 Identities = 38/150 (25%), Positives = 62/150 (41%), Gaps = 19/150 (12%)

Query: 48  ALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHT 107
               +  +     V                 ++ + GG         +            
Sbjct: 2   GSSHHHHHHSSGLVPRGS------------HMASMTGGQQ-----MGRGSMMLGPEGGEG 44

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSED--SIHITMNSDGRPTGEAFVEFANAEDSKAA 165
            +++LRGLP+S   +D+ +F  D  + +    +H     +GR +GEAFVE  + +D K A
Sbjct: 45  FVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMA 104

Query: 166 MAKDRMTLGSRYIELFPSSHEEMDEALSRG 195
           + KDR ++G RYIE+F S   EMD  L   
Sbjct: 105 LKKDRESMGHRYIEVFKSHRTEMDWVLKHS 134

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 50.8 bits (121), Expect = 1e-08
 Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 2/67 (2%)

Query: 10  CTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ 69
           CTIH     +       +  + +GEAF  LG    V  AL+++R++MG RY+EVF+S R 
Sbjct: 68  CTIHDGAAGVH--FIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRT 125

Query: 70  EYYKAIA 76
           E    + 
Sbjct: 126 EMDWVLK 132

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score =  111 bits (280), Expect = 3e-32
 Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 10/113 (8%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN 143
           G S     P   + D+          + + G+PFSA ++D+ DFF    +  D++H+  +
Sbjct: 1   GSSGSSGKPLPINPDDL--------YVSVHGMPFSAMENDVRDFFHGLRV--DAVHLLKD 50

Query: 144 SDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
             GR  G   V+F + +D+  A+ ++RM +  RY+E+ P++  +   A     
Sbjct: 51  HVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAAGGHIT 103

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 62.1 bits (151), Expect = 3e-13
 Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 18  DIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
            +  V  +     +  G        P     AL+RNR  M +RYVEV  +  +++  A  
Sbjct: 41  RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAAGG 100

Query: 77  NEVSDVRGG 85
           +  S    G
Sbjct: 101 HITSGPSSG 109

>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 =  108 bits (273), Expect = 2e-31
 Identities = 25/80 (31%), Positives = 46/80 (57%), Gaps = 1/80 (1%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           I++++ +PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+  
Sbjct: 17  IIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 76

Query: 169 -DRMTLGSRYIELFPSSHEE 187
            +   +GSR ++L   S   
Sbjct: 77  LNDRPIGSRKVKLVLGSGPS 96

>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 = 41.1 bits (97), Expect = 2e-05
 Identities = 10/50 (20%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 22 VLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQE 70
           L  ++    TGEA        +   A+   N + +G R V++       
Sbjct: 47 CLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSGPS 96

>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 =  108 bits (271), Expect = 4e-31
 Identities = 24/80 (30%), Positives = 46/80 (57%), Gaps = 1/80 (1%)

Query: 107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
             +++++ +PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+
Sbjct: 15  PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAV 74

Query: 167 AK-DRMTLGSRYIELFPSSH 185
              +   +GSR ++L   S 
Sbjct: 75  IDLNDRPIGSRKVKLSGPSS 94

>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 = 38.8 bits (91), Expect = 9e-05
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 1/46 (2%)

Query: 22 VLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRS 66
           L  ++    TGEA        +   A+   N + +G R V++   
Sbjct: 47 CLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP 92

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score =  106 bits (266), Expect = 2e-30
 Identities = 28/79 (35%), Positives = 44/79 (55%), Gaps = 2/79 (2%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            ++LRG PF+  + ++M+F     L   +I I  N+ G  TG  FV+F+N E+ K A+  
Sbjct: 12  TVKLRGAPFNVTEKNVMEFLAP--LKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKC 69

Query: 169 DRMTLGSRYIELFPSSHEE 187
           +R  +G RYIE+F      
Sbjct: 70  NREYMGGRYIEVFREKSGP 88

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 54.6 bits (132), Expect = 1e-10
 Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 18 DIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE 70
            V +  V + +   TG  F       +V  AL+ NR+ MG RY+EVFR K   
Sbjct: 35 KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREKSGP 88

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 53.8 bits (130), Expect = 3e-10
 Identities = 18/95 (18%), Positives = 41/95 (43%), Gaps = 11/95 (11%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN 143
            GS    +P++  +              L  LP+   ++ I +FF+   +S   +    +
Sbjct: 3   SGSSGSRLPKSPPY-----------TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPS 51

Query: 144 SDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYI 178
           +  R  G  + EF + +   +A++ +  +LG++ I
Sbjct: 52  NPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRI 86

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 52.6 bits (127), Expect = 1e-09
 Identities = 15/64 (23%), Positives = 33/64 (51%)

Query: 115 LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLG 174
           LP+   ++ I +FF+   +S   +    ++  R  G  + EF + +   +A++ +  +LG
Sbjct: 27  LPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLG 86

Query: 175 SRYI 178
           +R I
Sbjct: 87  NRRI 90

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 50.5 bits (121), Expect = 1e-08
 Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 8/109 (7%)

Query: 73  KAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF- 131
             +    S +  G+     P+  S +E K+    +  + +  + + +   D+   F    
Sbjct: 4   PCMQTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRS--VYVGNVDYGSTAQDLEAHFSSCG 61

Query: 132 -VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYI 178
            +   + I I  +   G P G A++EFA      AA+A D      R I
Sbjct: 62  SI---NRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTI 107

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 49.6 bits (119), Expect = 2e-08
 Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 6/72 (8%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           L + GLPFS  K+++ +  K    V     + +  N  G+P G A+VE+ N   +  A+ 
Sbjct: 20  LFISGLPFSCTKEELEEICKAHGTVKD---LRLVTNRAGKPKGLAYVEYENESQASQAVM 76

Query: 168 K-DRMTLGSRYI 178
           K D MT+    I
Sbjct: 77  KMDGMTIKENII 88

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 49.2 bits (118), Expect = 2e-08
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 3/66 (4%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAKDRMT 172
            LPF+  + DI   FKD  +   S+ +  + D  +  G  +VEF   +  K A+  D   
Sbjct: 22  NLPFNTVQGDIDAIFKDLSIR--SVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGAL 79

Query: 173 LGSRYI 178
           LG R +
Sbjct: 80  LGDRSL 85

>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 = 48.9 bits (117), Expect = 4e-08
 Identities = 25/98 (25%), Positives = 36/98 (36%), Gaps = 11/98 (11%)

Query: 79  VSDVRGGSPHRSIPRAKSHD-----EGKDSAVHTGI-LRLRGLPFSAGKDDIMDFFKDF- 131
           ++ + GG      P    HD      G    V TG  L +  L F     DI + F +F 
Sbjct: 1   MASMTGGQQMGRDPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFG 60

Query: 132 -VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            +       +  +  GR  G A V F    D+  AM +
Sbjct: 61  TL---KKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95

>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 = 48.0 bits (115), Expect = 5e-08
 Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 7/88 (7%)

Query: 100 GKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEF 156
           G   +  +G L +R L +++ ++D+   F  +  +     +H  ++S   +P G AFV F
Sbjct: 1   GSSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPL---SELHYPIDSLTKKPKGFAFVTF 57

Query: 157 ANAEDSKAAMAK-DRMTLGSRYIELFPS 183
              E +  A A+ D      R + + PS
Sbjct: 58  MFPEHAVKAYAEVDGQVFQGRMLHVLPS 85

>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 = 47.5 bits (114), Expect = 6e-08
 Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 6/67 (8%)

Query: 115 LPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAKDRM 171
           + + A  +++   F     V     + I  +   G P G A++EF++ E  + ++A D  
Sbjct: 14  VDYGATAEELEAHFHGCGSVNR---VTILCDKFSGHPKGFAYIEFSDKESVRTSLALDES 70

Query: 172 TLGSRYI 178
               R I
Sbjct: 71  LFRGRQI 77

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 47.4 bits (113), Expect = 9e-08
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 5/70 (7%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDR 170
           +G P  A  DDI ++ +D   VL+   I +         G  FV F + E +K  +    
Sbjct: 17  KGFPTDATLDDIKEWLEDKGQVLN---IQMRRTLHKAFKGSIFVVFDSIESAKKFVETPG 73

Query: 171 MTLGSRYIEL 180
                  + +
Sbjct: 74  QKYKETDLLI 83

>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 = 47.3 bits (113), Expect = 1e-07
 Identities = 10/67 (14%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL 173
            L  +    ++     +   +++ + +     G      +V+F +AED + A+    + +
Sbjct: 24  NLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKV 82

Query: 174 GSRYIEL 180
               I+L
Sbjct: 83  FGNEIKL 89

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

 Score = 47.1 bits (112), Expect = 1e-07
 Identities = 9/71 (12%), Positives = 29/71 (40%), Gaps = 4/71 (5%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L++R +P     + +      + + E    +   +    T    V +++ + ++ A+ K 
Sbjct: 18  LQIRNIPPHLQWEVLDSLLVQYGVVESCEQV---NTDSETAVVNVTYSSKDQARQALDKL 74

Query: 169 DRMTLGSRYIE 179
           +   L +  ++
Sbjct: 75  NGFQLENFTLK 85

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 48.3 bits (115), Expect = 1e-07
 Identities = 24/125 (19%), Positives = 37/125 (29%), Gaps = 8/125 (6%)

Query: 49  LQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTG 108
           ++ NR           R  R    +   N  +      P     +    D G        
Sbjct: 27  IKLNRNQRRVNRGGGPRRNRPAIARGGRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVE 86

Query: 109 ---ILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSK 163
               L +  L F     DI + F +F  +       +  +  GR  G A V F    D+ 
Sbjct: 87  TGAKLLVSNLDFGVSDADIQELFAEFGTL---KKAAVDYDRSGRSLGTADVHFERRADAL 143

Query: 164 AAMAK 168
            AM +
Sbjct: 144 KAMKQ 148

>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 = 46.9 bits (112), Expect = 2e-07
 Identities = 28/110 (25%), Positives = 41/110 (37%), Gaps = 14/110 (12%)

Query: 85  GSPHRSIPRAKSHD------EGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSED 136
           GS  + +P    HD       G       G L +  L F     DI + F +F  +    
Sbjct: 1   GSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTL---K 57

Query: 137 SIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSR--YIELFPS 183
              +  +  GR  G A V F    D+  AM + + + L  R   I+L  S
Sbjct: 58  KAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVTS 107

>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 = 48.5 bits (115), Expect = 2e-07
 Identities = 19/157 (12%), Positives = 45/157 (28%), Gaps = 9/157 (5%)

Query: 18  DIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR-NRQNMGRRYVEVFRSKRQEYYKAIA 76
           ++  V F+       G A   +     VD A+   N   M  + + V  SK+       +
Sbjct: 31  NVEKVKFMKSKP---GAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQS 87

Query: 77  NEVSDVRGGSPHRSIPR-----AKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF 131
             + D        S  R                  + +L     P    +++  +   + 
Sbjct: 88  YGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDEL 147

Query: 132 VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            +   +     +     +    +E+ +  D+   +  
Sbjct: 148 GVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGF 184

>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 = 46.9 bits (112), Expect = 2e-07
 Identities = 24/96 (25%), Positives = 40/96 (41%), Gaps = 7/96 (7%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS 144
           G   R IP   S++ G+ + V    L L+ L     + D++  F  F   +    I    
Sbjct: 7   GEEIRKIPMFSSYNPGEPNKV----LYLKNLSPRVTERDLVSLFARFQ-EKKGPPIQFRM 61

Query: 145 D-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
             GR  G+AF+ F N E +  A+   +   L  + +
Sbjct: 62  MTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKIL 97

>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 = 46.5 bits (111), Expect = 2e-07
 Identities = 23/100 (23%), Positives = 31/100 (31%), Gaps = 11/100 (11%)

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHI 140
            G SP R      S +E     V         L       D+ DFF     V     + I
Sbjct: 6   SGKSPVREPVDNLSPEERDARTVFCM-----QLAARIRPRDLEDFFSAVGKV---RDVRI 57

Query: 141 TMNSD-GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIE 179
             + +  R  G A+VEF   +    A+      L    I 
Sbjct: 58  ISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPII 97

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 15/69 (21%), Positives = 29/69 (42%), Gaps = 2/69 (2%)

Query: 100 GKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITMNSD-GRPTGEAFVEFA 157
           G     H   + LR +      D IM     +  L+ ++I +  +    +  G AFV+ +
Sbjct: 2   GHHHHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLS 61

Query: 158 NAEDSKAAM 166
           +A D+   +
Sbjct: 62  SAMDASQLL 70

>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 = 45.5 bits (108), Expect = 3e-07
 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 5/70 (7%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMN-----SDGRPTGEAFVEFANAEDSKAAMAK 168
            +PF   ++ +MDFF   +          N        +    AF+EF + +++  AMA 
Sbjct: 13  NIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAF 72

Query: 169 DRMTLGSRYI 178
           D +    + +
Sbjct: 73  DGIIFQGQSL 82

>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 = 45.7 bits (109), Expect = 3e-07
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 15/105 (14%)

Query: 93  RAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEA 152
              S +        T  L L  L +SA ++ + + F+        I +  N +G+  G A
Sbjct: 3   SGSSGNSTWSGESKT--LVLSNLSYSATEETLQEVFEKAT----FIKVPQNQNGKSKGYA 56

Query: 153 FVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEALSRGR 196
           F+EFA+ ED+K A+   ++  +  R I L        +    RG 
Sbjct: 57  FIEFASFEDAKEALNSCNKREIEGRAIRL--------ELQGPRGS 93

>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 = 45.9 bits (109), Expect = 4e-07
 Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 8/61 (13%)

Query: 114 GLPFSAGKDDIMDFF-------KDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAA 165
           GL  S   DD+ DFF        +    +  IHI ++ + G+P G+A V + +   +KAA
Sbjct: 22  GLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAA 81

Query: 166 M 166
           +
Sbjct: 82  V 82

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 45.8 bits (109), Expect = 4e-07
 Identities = 16/94 (17%), Positives = 37/94 (39%), Gaps = 21/94 (22%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA-- 167
           R L F + ++ + +  + F  +     + + ++ D     G AF +F   E ++  +A  
Sbjct: 21  RNLSFDSEEEALGEVLQQFGDL---KYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77

Query: 168 -----KDRMTLGSRYIELFPSSHEEMDEALSRGR 196
                   + L  R +++        D A++R  
Sbjct: 78  SLEAEGGGLKLDGRQLKV--------DLAVTRDE 103

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 45.6 bits (108), Expect = 6e-07
 Identities = 13/99 (13%), Positives = 27/99 (27%), Gaps = 4/99 (4%)

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM 142
                H S                   + ++ LP      D+ D  ++  L      +  
Sbjct: 4   SHHHHHHSSGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVN- 62

Query: 143 NSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL 180
                  G   +EF + E    A+ + + +      I +
Sbjct: 63  --TRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITV 99

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 45.2 bits (107), Expect = 8e-07
 Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 5/75 (6%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFAN---AEDSKA 164
           L + G+P    +++I++        + +  ++ +     +  G AFVE+ +   A  ++ 
Sbjct: 11  LFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARR 70

Query: 165 AMAKDRMTLGSRYIE 179
            +   R+ L    I 
Sbjct: 71  KLMPGRIQLWGHQIA 85

>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 = 44.6 bits (106), Expect = 9e-07
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 7/58 (12%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD--GRPTGEAFVEFANAEDSKAAM 166
           R +PF A + +I + F  F  + +   + +       G   G  FV+F   +D+K A 
Sbjct: 21  RNIPFQANQREIRELFSTFGELKT---VRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 16/96 (16%), Positives = 35/96 (36%), Gaps = 3/96 (3%)

Query: 100 GKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA 159
           G   +     + +RGLP +   + +  +F++   S     ++     R      + F   
Sbjct: 1   GSSGSSGGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQ---RLGCGGVLTFREP 57

Query: 160 EDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRG 195
            D++  +A+    L    + L P+        L +G
Sbjct: 58  ADAERVLAQADHELHGAQLSLRPAPPRAPARLLLQG 93

>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 = 45.8 bits (109), Expect = 1e-06
 Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 114 GLPFSAGKDDIMDFFKDF-----VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            +PF   ++ +MDFF        +       +      +    AF+EF + +++  AMA 
Sbjct: 11  NIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAF 70

Query: 169 DRMTLGSRYIE 179
           D +    + ++
Sbjct: 71  DGIIFQGQSLK 81

>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 = 43.5 bits (103), Expect = 1e-05
 Identities = 26/137 (18%), Positives = 50/137 (36%), Gaps = 17/137 (12%)

Query: 45  VDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSA 104
              A+  +      + +++ R    +    ++   S    G     +P         DSA
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVP---------DSA 114

Query: 105 VHTGILRLRGLPFSAGKDDIMDFFKDF-VLSEDSIHITMNSD-GRPTGEAFVEFANAEDS 162
                L + GLP     D + +    F  L   + ++  +S  G   G AF E+ +   +
Sbjct: 115 HK---LFIGGLPNYLNDDQVKELLTSFGPLK--AFNLVKDSATGLSKGYAFCEYVDINVT 169

Query: 163 KAAMAK-DRMTLGSRYI 178
             A+A  + M LG + +
Sbjct: 170 DQAIAGLNGMQLGDKKL 186

>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 = 43.8 bits (104), Expect = 2e-06
 Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 13/83 (15%)

Query: 92  PRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFF-------KDFVLSEDSIHITMNS 144
                H    ++ +        GL  +   + + D+F        +    +  I++  + 
Sbjct: 3   HHHHHHSHSDNNTIFVQ-----GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDR 57

Query: 145 D-GRPTGEAFVEFANAEDSKAAM 166
           + G+  GEA V F +   +KAA+
Sbjct: 58  ETGKLKGEATVSFDDPPSAKAAI 80

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

 Score = 44.9 bits (107), Expect = 2e-06
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 10/90 (11%)

Query: 93  RAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM-NSDGRPTGE 151
           + K  D  K  A  T  L  + L F+  +D++ + F+D +       I + + DG+  G 
Sbjct: 87  KPKGRDSKKVRAART--LLAKNLSFNITEDELKEVFEDAL------EIRLVSQDGKSKGI 138

Query: 152 AFVEFANAEDSKAAM-AKDRMTLGSRYIEL 180
           A++EF +  D++  +  K    +  R + L
Sbjct: 139 AYIEFKSEADAEKNLEEKQGAEIDGRSVSL 168

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

 Score = 44.9 bits (107), Expect = 2e-06
 Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 5/68 (7%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDR 170
             L  +    ++     +         + +     G      +V+F +AED + A+    
Sbjct: 19  GNLNPNKSVAELKVAISELFAKND---LAVVDVRTGTNRKFGYVDFESAEDLEKALELTG 75

Query: 171 MTLGSRYI 178
           + +    I
Sbjct: 76  LKVFGNEI 83

>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 = 45.2 bits (106), Expect = 2e-06
 Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 1/73 (1%)

Query: 112 LRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           ++G P  A  DDI ++ +D      +I +         G  FV F + E +K  +     
Sbjct: 114 IKGFPTDATLDDIKEWLEDKG-QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQ 172

Query: 172 TLGSRYIELFPSS 184
                 + +    
Sbjct: 173 KYKETDLLILFKD 185

>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 = 43.8 bits (104), Expect = 2e-06
 Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 14/88 (15%)

Query: 90  SIPRAKSHDEGKDSAVHTGILRLR--------GLPFSAGKDDIMDFFKDF--VLSEDSIH 139
           +I   +      D  +  G  R           +   A +D+I + F D+  +    +IH
Sbjct: 1   AIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEI---KNIH 57

Query: 140 ITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           + ++   G   G A VE+   + + AA 
Sbjct: 58  LNLDRRTGFSKGYALVEYETHKQALAAK 85

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 43.4 bits (103), Expect = 3e-06
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           G+   A ++DI D F ++  +    +IH+ ++   G   G   VE+   ++++AAM
Sbjct: 30  GVHEEATEEDIHDKFAEYGEI---KNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82

>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 = 45.4 bits (108), Expect = 3e-06
 Identities = 21/109 (19%), Positives = 45/109 (41%), Gaps = 6/109 (5%)

Query: 72  YKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF 131
           + A  +    +  GSP  +   +K  +E          + ++ LP S  ++ +  +FK  
Sbjct: 6   HHARPDSKRPLDEGSPAAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHC 65

Query: 132 --VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYI 178
             ++    + +  +S  +    A +EFA  + + AA+ K    +G   I
Sbjct: 66  GPIIH---VDV-ADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEI 110

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

 Score = 44.2 bits (105), Expect = 7e-06
 Identities = 11/66 (16%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMT 172
             P S  + +I D  +D  +   SI +           A+++  + ED++  + K + + 
Sbjct: 124 NFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLK 183

Query: 173 LGSRYI 178
           +    +
Sbjct: 184 IEGYTL 189

>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 = 40.4 bits (95), Expect = 1e-04
 Identities = 15/73 (20%), Positives = 34/73 (46%), Gaps = 2/73 (2%)

Query: 110 LRLRGLPFSAGKDDIM-DFFKDF-VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           + +R L      ++++ + F+ F  + + +I             AF+ F N + ++ A+ 
Sbjct: 213 IMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ 272

Query: 168 KDRMTLGSRYIEL 180
            +R  LG+R I +
Sbjct: 273 MNRSLLGNREISV 285

>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 = 43.0 bits (102), Expect = 3e-06
 Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 15/98 (15%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITM 142
           GS   S P  ++ D           +R+  L     + D+ + F+ F  +     I++  
Sbjct: 1   GSSGSSGPNRRADDNAT--------IRVTNLSEDTRETDLQELFRPFGSI---SRIYLAK 49

Query: 143 NSD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
           +   G+  G AF+ F   ED+  A+A           +
Sbjct: 50  DKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLIL 87

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 44.1 bits (104), Expect = 4e-06
 Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 11/95 (11%)

Query: 80  SDVRGGSPHRSIPRAKSHDE-----GKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--V 132
           SD        S  R ++ D+     G   +V   IL +  +   A +D+I + F D+  +
Sbjct: 40  SDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEI 99

Query: 133 LSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
            +   IH+ ++   G   G A VE+   + + AA 
Sbjct: 100 KN---IHLNLDRRTGFSKGYALVEYETHKQALAAK 131

>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 = 42.7 bits (101), Expect = 5e-06
 Identities = 19/102 (18%), Positives = 35/102 (34%), Gaps = 16/102 (15%)

Query: 80  SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDS 137
           S   G S    I     +++ +        + +  LP      DI D F  +  +     
Sbjct: 3   SGSSGMSGGGVIRGPAGNNDCR--------IYVGNLPPDIRTKDIEDVFYKYGAIRD--- 51

Query: 138 IHITMNSDGRPTGEAFVEFANAEDSKAAM-AKDRMTLGSRYI 178
             I + +       AFVEF +  D++ A+  +D        +
Sbjct: 52  --IDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRL 91

>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 = 43.2 bits (102), Expect = 5e-06
 Identities = 23/104 (22%), Positives = 41/104 (39%), Gaps = 7/104 (6%)

Query: 79  VSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSED 136
            S +   +  + + R   H   + +      L + GL     + D+ + F  +  +    
Sbjct: 18  GSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPI---A 74

Query: 137 SIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
            + I  +    R  G AFV F N +D+K A  + + M L  R I
Sbjct: 75  DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI 118

>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 = 42.6 bits (101), Expect = 5e-06
 Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 7/73 (9%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           L++  L +    D +   F+ +  V     ++I        P G AFV F +  D++ A 
Sbjct: 16  LKVDNLTYRTSPDSLRRVFEKYGRVGD---VYIPREPHTKAPRGFAFVRFHDRRDAQDAE 72

Query: 167 AK-DRMTLGSRYI 178
           A  D   L  R +
Sbjct: 73  AAMDGAELDGREL 85

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 42.8 bits (101), Expect = 6e-06
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 8/61 (13%)

Query: 114 GLPFSAGKDDIMDFFK-------DFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAA 165
           GL  +   + + D+FK       +    +  I++  + + G+  GEA V F +   +KAA
Sbjct: 14  GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 73

Query: 166 M 166
           +
Sbjct: 74  I 74

>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 = 43.8 bits (104), Expect = 7e-06
 Identities = 25/111 (22%), Positives = 44/111 (39%), Gaps = 3/111 (2%)

Query: 87  PHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDG 146
           P R++ R  S   G    V    + + G+     +  + D+F+ +   E    +T    G
Sbjct: 86  PKRAVSREDSQRPGAHLTVKK--IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSG 143

Query: 147 RPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL-FPSSHEEMDEALSRGR 196
           +  G AFV F + +     + +   T+     E+    S +EM  A S  R
Sbjct: 144 KKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMASASSSQR 194

>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 = 40.0 bits (94), Expect = 2e-04
 Identities = 16/66 (24%), Positives = 27/66 (40%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL 173
           GL F    + +   F+ +    D + +   +  R  G  FV +A  E+  AAM      +
Sbjct: 20  GLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKV 79

Query: 174 GSRYIE 179
             R +E
Sbjct: 80  DGRVVE 85

>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 = 41.9 bits (99), Expect = 7e-06
 Identities = 17/85 (20%), Positives = 37/85 (43%), Gaps = 14/85 (16%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM-AKDRM 171
           + L F+  +D++ + F+D +     I   ++ DG+  G A++EF +  D++  +  K   
Sbjct: 22  KNLSFNITEDELKEVFEDAL----EI-RLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGA 76

Query: 172 TLGSRYIELFPSSHEEMDEALSRGR 196
            +  R + L             +G 
Sbjct: 77  EIDGRSVSL--------YYTGEKGG 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 = 42.3 bits (100), Expect = 7e-06
 Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 6/68 (8%)

Query: 115 LPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRM 171
           L +  G   + + F     V+  D   I  + DG+  G   V F  + ++  A++  +  
Sbjct: 23  LDYKVGWKKLKEVFSMAGVVVRAD---ILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQ 79

Query: 172 TLGSRYIE 179
            L  R + 
Sbjct: 80  LLFDRPMH 87

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 42.8 bits (101), Expect = 9e-06
 Identities = 18/100 (18%), Positives = 34/100 (34%), Gaps = 7/100 (7%)

Query: 83  RGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHI 140
                 +    + S+            L++  L +    D +   F+ +  V     ++I
Sbjct: 23  SMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRV---GDVYI 79

Query: 141 TMNSD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
             +       G AFV F +  D++ AM   D   L  R +
Sbjct: 80  PRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGREL 119

>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 = 42.9 bits (102), Expect = 1e-05
 Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 8/94 (8%)

Query: 87  PHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDG 146
           P R+IPR +    GK   +  G     G+       +  +FF  +    D+  +     G
Sbjct: 75  PKRAIPRDEQDKTGK---IFVG-----GIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTG 126

Query: 147 RPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL 180
           +  G  FV + +A+          +    R IE+
Sbjct: 127 QSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEI 160

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 15/83 (18%), Positives = 35/83 (42%), Gaps = 6/83 (7%)

Query: 114 GLPFSAGKDDIMDFFKDF-----VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
            +PF   ++ +MDFF        +       +      +    AF+EF + +++  AMA 
Sbjct: 11  NIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAF 70

Query: 169 DRMTLGSRYIEL-FPSSHEEMDE 190
           D +    + +++  P  ++ +  
Sbjct: 71  DGIIFQGQSLKIRRPHDYQPLPG 93

>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 = 40.7 bits (96), Expect = 8e-05
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-D 169
           GLP     D + +    F  + +    ++  +S  G   G AF E+ +   +  A+A  +
Sbjct: 101 GLPNYLNDDQVKELLTSFGPLKA---FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLN 157

Query: 170 RMTLGSRYIE 179
            M LG + + 
Sbjct: 158 GMQLGDKKLL 167

>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 = 41.6 bits (98), Expect = 1e-05
 Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 8/73 (10%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           IL +R LP+    +++ D F  +  +       I + +     G A+V + +  D+K A+
Sbjct: 10  ILYIRNLPYKITAEEMYDIFGKYGPIRQ-----IRVGNTPETRGTAYVVYEDIFDAKNAV 64

Query: 167 AK-DRMTLGSRYI 178
                  + +RY+
Sbjct: 65  DHLSGFNVSNRYL 77

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

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 1/76 (1%)

Query: 104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSK 163
                +L +  LP S  +    +  + F   E    +     G+  G  F E+   + + 
Sbjct: 92  QPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAA 151

Query: 164 AAMAK-DRMTLGSRYI 178
            A +      LG R +
Sbjct: 152 RAKSDLLGKPLGPRTL 167

>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 = 43.2 bits (101), Expect = 1e-05
 Identities = 18/96 (18%), Positives = 28/96 (29%), Gaps = 7/96 (7%)

Query: 75  IANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF-VL 133
           +      V       + P       GK  A++ G      L +    +D+ +      V 
Sbjct: 41  MDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYIG-----NLTWWTTDEDLTEAVHSLGVN 95

Query: 134 SEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK 168
               I    N   G+  G A V   +   SK  M  
Sbjct: 96  DILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL 131

>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 = 42.1 bits (99), Expect = 2e-05
 Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 7/97 (7%)

Query: 86  SPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMN 143
           +   ++     H            L++  L +    D +   F+ +  V     ++I  +
Sbjct: 49  TKTFTVTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRV---GDVYIPRD 105

Query: 144 SD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
                  G AFV F +  D++ AM   D   L  R +
Sbjct: 106 RYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGREL 142

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 40.6 bits (96), Expect = 2e-05
 Identities = 18/69 (26%), Positives = 28/69 (40%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DR 170
            LPF      + D F +   VL  D        +G+  G   V+F + E ++ A    + 
Sbjct: 15  NLPFDFTWKMLKDKFNECGHVLYAD----IKMENGKSKGCGVVKFESPEVAERACRMMNG 70

Query: 171 MTLGSRYIE 179
           M L  R I+
Sbjct: 71  MKLSGREID 79

>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 = 40.6 bits (96), Expect = 2e-05
 Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 6/57 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
            L F+  +D +   F+ F  +   D+I +  +SD GR  G  F+ F+++E ++ A+ 
Sbjct: 12  SLHFNITEDMLRGIFEPFGKI---DNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65

>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 = 40.3 bits (95), Expect = 3e-05
 Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 6/57 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
            LPFS   +D+   F  +  V     + I  + D  +  G AF+ F + + ++    
Sbjct: 23  NLPFSLTNNDLYRIFSKYGKV---VKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTR 76

>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 = 40.2 bits (95), Expect = 3e-05
 Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 7/58 (12%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD--GRPTGEAFVEFANAEDSKAAMA 167
            L  +  KD IM+ F  +  +     I + +         G A+VEF N ++++ A+ 
Sbjct: 11  RLTRNVTKDHIMEIFSTYGKI---KMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65

>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 = 40.3 bits (95), Expect = 3e-05
 Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-D 169
           GL     + D+ + F  +  +     + I  +    R  G AFV F N +D+K A  + +
Sbjct: 22  GLSLYTTERDLREVFSKYGPI---ADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN 78

Query: 170 RMTLGSRYI 178
            M L  R I
Sbjct: 79  GMELDGRRI 87

>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 = 39.9 bits (94), Expect = 4e-05
 Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-D 169
            +P+   ++ I+D   +   V    ++ +  +   GR  G AF+EF + E S +A+   +
Sbjct: 9   SIPYDQTEEQILDLCSNVGPV---INLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLN 65

Query: 170 RMTLGSRYI 178
              LGSR++
Sbjct: 66  GYQLGSRFL 74

>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 = 39.7 bits (93), Expect = 4e-05
 Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 8/67 (11%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRM 171
           + LP  +   ++ D  KD+ L    +        R    AFV   N E ++ A+    + 
Sbjct: 11  KNLPQDSNCQEVHDLLKDYDLKYCYV-------DRNKRTAFVTLLNGEQAQNAIQMFHQY 63

Query: 172 TLGSRYI 178
           +   + +
Sbjct: 64  SFRGKDL 70

>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 = 40.0 bits (94), Expect = 6e-05
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           G+   A ++DI D F ++  +    +IH+ ++   G   G   VE+   ++++AAM
Sbjct: 29  GVHEEATEEDIHDKFAEYGEI---KNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81

>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 = 39.5 bits (93), Expect = 6e-05
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 5/55 (9%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
           GL     ++ + + F   V       I  + + G   G  FV+F + ED+KAA  
Sbjct: 22  GLSEDTTEETLKESFDGSV----RARIVTDRETGSSKGFGFVDFNSEEDAKAAKE 72

>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 = 39.6 bits (93), Expect = 6e-05
 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 1/56 (1%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK 168
            L     ++ I   F     +  S+ I  N   G P G  FVEFA+   ++  + K
Sbjct: 16  DLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71

>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 = 39.6 bits (93), Expect = 8e-05
 Identities = 19/86 (22%), Positives = 37/86 (43%), Gaps = 13/86 (15%)

Query: 85  GSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITM 142
           GS   S   ++   + K        L +  L     ++D++  F+ F  +   D   +  
Sbjct: 1   GSSGSSGSESRGGRDRK--------LFVGMLNKQQSEEDVLRLFQPFGVI---DECTVLR 49

Query: 143 NSDGRPTGEAFVEFANAEDSKAAMAK 168
             DG   G AFV+F++  +++AA+  
Sbjct: 50  GPDGSSKGCAFVKFSSHTEAQAAIHA 75

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

 Score = 39.3 bits (92), Expect = 8e-05
 Identities = 9/62 (14%), Positives = 23/62 (37%), Gaps = 6/62 (9%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           +    L  +  +  + D  + +  V   + + I ++    +  G A V F +   +K  +
Sbjct: 9   VTFARLNDNVRETFLKDMCRKYGEV---EEVEILLHPRTRKHLGLARVLFTSTRGAKETV 65

Query: 167 AK 168
             
Sbjct: 66  KN 67

>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 = 38.7 bits (91), Expect = 8e-05
 Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
           RGL       D++   + +  +    S    ++    +  G  FV+F +   ++ A+ 
Sbjct: 11  RGLQPGTTDQDLVKLCQPYGKI---VSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 65

>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 = 39.2 bits (92), Expect = 1e-04
 Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 6/58 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK 168
            L F+  +D +   F+ F  +   +SI + M+S+ GR  G  F+ F+++E +K A+ +
Sbjct: 33  SLHFNITEDMLRGIFEPFGRI---ESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87

>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 = 38.3 bits (90), Expect = 1e-04
 Identities = 20/69 (28%), Positives = 29/69 (42%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-D 169
           GL        +   F  F  +     I I ++ +  +  G AFVEF  AED+ AA+   +
Sbjct: 14  GLAEEVDDKVLHAAFIPFGDITD---IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 70

Query: 170 RMTLGSRYI 178
              L  R I
Sbjct: 71  ESELFGRTI 79

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 39.2 bits (91), Expect = 1e-04
 Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 2/69 (2%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           GLP    +D+I   F+ F  ++ +        S   P G AF+ F      +A +     
Sbjct: 15  GLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE 74

Query: 172 TLGSRYIEL 180
             G  Y+ +
Sbjct: 75  EDGKLYLCV 83

>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 = 39.2 bits (92), Expect = 1e-04
 Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 6/68 (8%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM-AKDR 170
           GL     +  +   F     +     + +  +   +  G AF+ F N  D+K A    + 
Sbjct: 14  GLNRETNEKMLKAVFGKHGPISE---VLLIKDRTSKSRGFAFITFENPADAKNAAKDMNG 70

Query: 171 MTLGSRYI 178
            +L  + I
Sbjct: 71  KSLHGKAI 78

>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 = 38.8 bits (91), Expect = 1e-04
 Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 7/86 (8%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
           G+     + +I  FF  +  V     + I  +  G   G  FV F N  D +  + + ++
Sbjct: 16  GIDVRMDETEIRSFFARYGSVKE---VKIITDRTGVSKGYGFVSFYNDVDVQKIV-ESQI 71

Query: 172 TLGSRYIELFPS-SHEEMDEALSRGR 196
               + ++L P+   + +     + R
Sbjct: 72  NFHGKKLKLGPAIRKQNLSTYHVQPR 97

>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 = 38.7 bits (91), Expect = 1e-04
 Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-DRM 171
            L     +  + D F  F +   +  I  + D G   G AF+ FA+ + S AA+   +  
Sbjct: 12  NLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQ 71

Query: 172 TLGSRYI 178
            L +R I
Sbjct: 72  YLCNRPI 78

>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 = 40.4 bits (95), Expect = 1e-04
 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 7/79 (8%)

Query: 104 AVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAED 161
           A H   L ++ L      + +   F  F  V       + ++  GR TG+ FVEFA    
Sbjct: 93  ATHGAALTVKNLSPVVSNELLEQAFSQFGPVEK---AVVVVDDRGRATGKGFVEFAAKPP 149

Query: 162 SKAAMAK--DRMTLGSRYI 178
           ++ A+ +  D   L +   
Sbjct: 150 ARKALERCGDGAFLLTTTP 168

>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 = 38.7 bits (91), Expect = 1e-04
 Identities = 20/69 (28%), Positives = 29/69 (42%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-D 169
           GL        +   F  F  +     I I ++ +  +  G AFVEF  AED+ AA+   +
Sbjct: 19  GLAEEVDDKVLHAAFIPFGDITD---IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN 75

Query: 170 RMTLGSRYI 178
              L  R I
Sbjct: 76  ESELFGRTI 84

>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 = 37.9 bits (89), Expect = 2e-04
 Identities = 11/57 (19%), Positives = 20/57 (35%), Gaps = 2/57 (3%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSE-DSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK 168
            L +    +D+ +      +++   I    N   G+  G A V   +   SK  M  
Sbjct: 8   NLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL 64

>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 = 39.0 bits (91), Expect = 2e-04
 Identities = 14/85 (16%), Positives = 35/85 (41%), Gaps = 9/85 (10%)

Query: 89  RSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDS-----IHITMN 143
            ++   +S++ G+ +      + ++ L     + D+   F  +V            I + 
Sbjct: 31  ETLSVFRSYEPGEPNCR----IYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLM 86

Query: 144 SDGRPTGEAFVEFANAEDSKAAMAK 168
            +GR  G+AF+   N + +  A+ +
Sbjct: 87  KEGRMKGQAFIGLPNEKAAAKALKE 111

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 24/110 (21%), Positives = 36/110 (32%), Gaps = 13/110 (11%)

Query: 74  AIANEVSDVRGGSPHRSIPRAKSHDEGKDSA-VHTGILRLRGLPFSAGKDDIMDFFKDF- 131
                V+         S     S         ++ G     GL        +   F  F 
Sbjct: 34  VAYTCVNCTERHVDGGSGGSGGSGGSATTKRVLYVG-----GLAEEVDDKVLHAAFIPFG 88

Query: 132 -VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI 178
            +     I I ++ +  +  G AFVEF  AED+ AA+   +   L  R I
Sbjct: 89  DI---TDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTI 135

>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 = 38.0 bits (89), Expect = 2e-04
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM-AKD 169
           GL F   +  +   F  +  +     + +  + +  R  G  FV F N +D+K AM A +
Sbjct: 19  GLSFDTNEQSLEQVFSKYGQISE---VVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN 75

Query: 170 RMTLGSRYIE 179
             ++  R I 
Sbjct: 76  GKSVDGRQIR 85

>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 = 37.9 bits (89), Expect = 2e-04
 Identities = 14/66 (21%), Positives = 31/66 (46%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL 173
           G+P + G+ ++ ++FK F +  + + I      RP G  F+ F + +    A+      +
Sbjct: 17  GIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDI 76

Query: 174 GSRYIE 179
             + +E
Sbjct: 77  MGKKVE 82

>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 = 37.6 bits (88), Expect = 2e-04
 Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 5/56 (8%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
            L     ++ + + F     +     + I  + +G+P    FV F + E    A+A
Sbjct: 23  NLEARVREEILYELFLQAGPL---TKVTICKDREGKPKSFGFVCFKHPESVSYAIA 75

>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 = 37.9 bits (88), Expect = 3e-04
 Identities = 22/98 (22%), Positives = 31/98 (31%), Gaps = 16/98 (16%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN 143
           GG+P           E +        + + GLP S    D+ D  ++             
Sbjct: 1   GGAPRGRYGPPSRRSENR--------VVVSGLPPSGSWQDLKDHMREA-------GDVCY 45

Query: 144 SDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL 180
           +D    G   VEF   ED   A+ K D     S   E 
Sbjct: 46  ADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGET 83

>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 = 37.5 bits (87), Expect = 4e-04
 Identities = 18/72 (25%), Positives = 25/72 (34%), Gaps = 8/72 (11%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           + + GLP S    D+ D  ++             +D    G   VEF   ED   A+ K 
Sbjct: 18  VVVSGLPPSGSWQDLKDHMREA-------GDVCYADVYRDGTGVVEFVRKEDMTYAVRKL 70

Query: 169 DRMTLGSRYIEL 180
           D     S   E 
Sbjct: 71  DNTKFRSHEGET 82

>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 = 37.6 bits (88), Expect = 4e-04
 Identities = 23/113 (20%), Positives = 43/113 (38%), Gaps = 1/113 (0%)

Query: 84  GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN 143
           G S           +  K        L + GL F   ++ + ++++ +    D + +   
Sbjct: 4   GSSGMEKTLETVPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDP 63

Query: 144 SDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL-FPSSHEEMDEALSRG 195
           +  R  G  FV F++  +  AAMA    ++  R +E     + EE     S G
Sbjct: 64  ASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVAREESGSGPSSG 116

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 38.0 bits (88), Expect = 5e-04
 Identities = 9/105 (8%), Positives = 27/105 (25%), Gaps = 2/105 (1%)

Query: 66  SKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIM 125
                Y++++       +  SP  +                   + +    +      ++
Sbjct: 14  GTENLYFQSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLI 73

Query: 126 DFFKDFVLSE-DSIHITMNSD-GRPTGEAFVEFANAEDSKAAMAK 168
              +   + +   +    N   G+  G A V  A+       +  
Sbjct: 74  QVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLEL 118

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 36.9 bits (86), Expect = 5e-04
 Identities = 17/86 (19%), Positives = 33/86 (38%), Gaps = 11/86 (12%)

Query: 113 RGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGE-AFVEFANAEDSKAAMAKD 169
            G P       + ++F  F  V       + M+ D    G  A VE  +    +A +++ 
Sbjct: 14  SGFPRGVDSAQLSEYFLAFGPV-----ASVVMDKD---KGVFAIVEMGDVGAREAVLSQS 65

Query: 170 RMTLGSRYIELFPSSHEEMDEALSRG 195
           + +LG   + + P   +E     S+ 
Sbjct: 66  QHSLGGHRLRVRPREQKEFQSPASKS 91

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

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 18/93 (19%), Positives = 37/93 (39%), Gaps = 13/93 (13%)

Query: 91  IPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRP 148
           +PR       ++  +    L +R  P    + ++ + F  F  +     + I        
Sbjct: 15  VPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPM---KEVKI-------L 64

Query: 149 TGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL 180
            G AFVEF  AE +  A+ +    +  ++ +E+
Sbjct: 65  NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEV 97

>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 = 36.9 bits (86), Expect = 5e-04
 Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 6/57 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAMA 167
            +P+ A ++ + D F +   V+S     +  + + G+P G  F E+ + E + +AM 
Sbjct: 15  NIPYEATEEQLKDIFSEVGPVVS---FRLVYDRETGKPKGYGFCEYQDQETALSAMR 68

>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 = 36.9 bits (86), Expect = 5e-04
 Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 7/69 (10%)

Query: 114 GLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DR 170
            +PF     D+   F  F  +L    + I  N      G  FV F N+ D+  A  K   
Sbjct: 22  NIPFRFRDPDLRQMFGQFGKILD---VEIIFNER-GSKGFGFVTFENSADADRAREKLHG 77

Query: 171 MTLGSRYIE 179
             +  R IE
Sbjct: 78  TVVEGRKIE 86

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 37.6 bits (87), Expect = 6e-04
 Identities = 11/107 (10%), Positives = 33/107 (30%), Gaps = 8/107 (7%)

Query: 79  VSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDD----IMDFFKDFVLS 134
           + +       R    +            + ++ +  +     K+     +          
Sbjct: 1   MKETAAAKFERQHMDSPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQ--- 57

Query: 135 EDSIHITMNSDGRPTGEAFVEFANAEDSKAAM-AKDRMTLGSRYIEL 180
            D + I ++     +G+A++ FA  E ++A + A          + +
Sbjct: 58  GDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVI 104

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

 Score = 38.1 bits (89), Expect = 7e-04
 Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 7/103 (6%)

Query: 82  VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIH 139
           ++ G P          D+  + A     + +  +      DDI   F+ F  + S     
Sbjct: 100 IKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKS---AT 156

Query: 140 ITMNSD-GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL 180
           +  +   G+  G  F+E+  A+ S+ A++  +   LG +Y+ +
Sbjct: 157 LARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199

>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 = 37.5 bits (87), Expect = 7e-04
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 7/73 (9%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSD-GRPTGEAFVEFANAEDSKAAM 166
           L +  L F   ++ I + F     +     I + ++       G  FVE+ +  D++ AM
Sbjct: 42  LYVGNLSFYTTEEQIYELFSKSGDI---KKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98

Query: 167 AK-DRMTLGSRYI 178
              +   L  R I
Sbjct: 99  RYINGTRLDDRII 111

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	196
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	100.0
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	100.0
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	100.0
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	100.0
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.98
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.98
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.97
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.97
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.97
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.97
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.97
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.97
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.96
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.96
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.96
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.96
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.96
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.96
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.95
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.94
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.92
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.89
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.89
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.89
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.88
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.88
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.88
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.88
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.87
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.87
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.87
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.86
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.85
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.85
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.85
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.84
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.83
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.83
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.83
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.83
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.83
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.83
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.82
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.82
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.82
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.82
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.82
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.82
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.82
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.82
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.82
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.82
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.82
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.82
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.81
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.81
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.81
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.81
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.81
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.81
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.81
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.81
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.81
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.81
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.81
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.81
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.81
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.81
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.81
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.8
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.8
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.8
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.8
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.8
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.8
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.8
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.8
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.8
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.8
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.8
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.8
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.8
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.8
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.8
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.8
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.8
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.79
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.79
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.79
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.79
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.79
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.79
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.79
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.79
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.79
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.79
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.79
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.79
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.79
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.79
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.79
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.79
2div_A	99	TRNA selenocysteine associated protein; structural	99.79
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.78
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.78
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.78
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.78
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.78
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.78
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.78
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.78
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.77
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.77
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.77
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.77
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.77
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.77
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.77
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.76
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.76
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.76
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.76
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.76
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.76
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.76
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.76
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.76
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.75
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.75
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.75
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.75
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.75
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.75
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.75
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.75
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.74
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.74
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.74
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.74
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.74
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.74
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.73
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.73
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.73
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.73
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.73
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.73
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.73
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.73
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.72
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.72
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.72
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.72
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.72
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.71
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.71
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.71
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.71
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.71
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.71
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.71
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.71
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.55
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.71
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.71
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.7
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.7
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.7
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.7
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.7
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.69
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.69
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.69
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.69
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.68
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.68
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.68
1x5p_A	97	Negative elongation factor E; structure genomics,	99.67
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.66
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.66
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.66
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.65
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.65
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.65
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.65
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.64
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.64
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.64
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.64
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.64
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.63
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.63
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.62
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.62
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.61
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.61
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.61
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.6
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.6
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.6
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.6
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.59
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.58
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.58
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.58
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.58
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.57
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.57
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.56
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.56
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.55
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.55
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.55
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.55
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.54
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.54
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.54
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.53
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.53
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.52
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.52
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.52
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.52
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.52
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.51
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.51
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.51
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.51
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.51
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.5
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.5
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.49
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.49
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.49
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.48
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.47
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.47
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.47
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.47
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.46
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.46
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.46
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.46
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.46
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.46
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.45
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.45
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.45
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.45
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.45
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.45
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.45
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.44
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.44
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.44
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.44
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.44
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.44
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.44
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.44
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.44
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.44
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.44
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.44
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.44
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.44
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.43
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.43
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.43
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.43
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.42
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.42
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.42
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.42
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.42
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.42
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.42
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.41
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.41
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.41
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.41
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.41
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.41
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.4
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.4
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.4
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.4
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.39
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.39
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.39
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.39
2div_A	99	TRNA selenocysteine associated protein; structural	99.39
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.39
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.39
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.38
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.38
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.38
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.38
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.38
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.38
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.38
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.37
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.37
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.37
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.37
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.37
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.36
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.36
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.36
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.36
1x5p_A	97	Negative elongation factor E; structure genomics,	99.35
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.35
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.35
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.35
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.34
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.34
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.34
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.34
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.33
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.33
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.33
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.33
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.33
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.33
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.32
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.32
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.32
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.32
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.3
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.3
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.3
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.3
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.3
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.29
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.29
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.29
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.29
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.29
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.29
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.29
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.29
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.28
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.28
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.27
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.27
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.27
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.26
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.26
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.25
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.25
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.24
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.24
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.24
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.89
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.24
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.24
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.24
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.23
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.23
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.23
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.22
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.21
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.21
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.2
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.2
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.2
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.19
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.18
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.17
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.14
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.11
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.08
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.07
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	99.07
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.01
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.93
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.85
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.84
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.78
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.73
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.23
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	98.14
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	98.09
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	98.07
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	98.05
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.94
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.68
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	97.59
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.5
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.25
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.18
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	96.94
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	95.98
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.57
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	95.38
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	95.05
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	94.71
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	93.73
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	92.34
4e8u_A	172	Putative uncharacterized protein T8P19.180; XS dom	86.06
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	82.38

>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=100.00  E-value=1.8e-33  Score=211.41  Aligned_cols=163  Identities=17%  Similarity=0.216  Sum_probs=132.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..|+++|+++|+.||.|.+|. +.++ +|.++|||||+|.+.++|.+||+.++..++|+.|.|..+.......       
T Consensus        24 ~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v~~~~~~~~~~-------   96 (196)
T 1l3k_A           24 ETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQ-------   96 (196)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCC------------
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeecccCccccc-------
Confidence            469999999999999999985 4554 7999999999999999999999889999999999997765332100       


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~  159 (196)
                                         .........+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.
T Consensus        97 -------------------~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~F~~~  156 (196)
T 1l3k_A           97 -------------------RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFDDH  156 (196)
T ss_dssp             -------------------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEE-EEEEEECTTTCCEEEEEEEEESSH
T ss_pred             -------------------ccccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeE-EEEEeecCCCCCccceEEEEECCH
Confidence                               000122357899999999999999999999999876 78888886 899999999999999


Q ss_pred             HHHHHHHHhCCCccCCeEEEEEECChHHHHHHH
Q 029263          160 EDSKAAMAKDRMTLGSRYIELFPSSHEEMDEAL  192 (196)
Q Consensus       160 ~~A~~Al~~~g~~l~gr~i~V~~~~~~~~~~~~  192 (196)
                      ++|.+|+..++..|+|+.|.|.++.+.+.....
T Consensus       157 ~~A~~A~~~~~~~~~G~~i~v~~a~~k~~~~~~  189 (196)
T 1l3k_A          157 DSVDKIVIQKYHTVNGHNCEVRKALSKQEMASA  189 (196)
T ss_dssp             HHHHHHHHCSCCEETTEECEEEECC--------
T ss_pred             HHHHHHHHhCCcEECCEEEEEEecCChhHhccc
Confidence            999999988999999999999999888665543

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

Probab=100.00  E-value=1.3e-32  Score=201.24  Aligned_cols=152  Identities=21%  Similarity=0.247  Sum_probs=132.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..|+++|+++|+.||.|.++. +.+++|+++|||||+|.+.++|.+|+ .+++..+.++.|.|..+....          
T Consensus        11 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~----------   80 (166)
T 3md3_A           11 AITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQ----------   80 (166)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC----------
T ss_pred             cCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCC----------
Confidence            478999999999999999985 45778999999999999999999999 789999999999997665210          


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-CCCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-SDGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-~~g~~~G~afV~F~~~  159 (196)
                                          ........+|||+|||+.+|+++|+++|++||.+. .+.++.+ .+|.++|+|||+|.+.
T Consensus        81 --------------------~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~~~~~g~afV~f~~~  139 (166)
T 3md3_A           81 --------------------QSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYL-SGHVMWDMQTGSSRGYGFVSFTSQ  139 (166)
T ss_dssp             --------------------CCCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEE-EEEEEECTTTCCEEEEEEEEESCH
T ss_pred             --------------------CCCCCCCceEEECCCCCCCCHHHHHHHHhccCCee-EEEEEecCCCCCcceEEEEEeCCH
Confidence                                01122457899999999999999999999999876 7888887 4899999999999999


Q ss_pred             HHHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          160 EDSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       160 ~~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      ++|.+|+. +||..++|+.|+|.++++
T Consensus       140 ~~A~~A~~~l~g~~~~g~~i~v~~a~~  166 (166)
T 3md3_A          140 DDAQNAMDSMQGQDLNGRPLRINWAAK  166 (166)
T ss_dssp             HHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             HHHHHHHHHhCCCccCCcEEEEEecCC
Confidence            99999997 499999999999999864

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

Probab=100.00  E-value=1.4e-32  Score=210.10  Aligned_cols=157  Identities=19%  Similarity=0.209  Sum_probs=133.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..||++|+++|+.||.|.+|. +.|. +|+++|||||+|.+.++|.+|| .+++..+.++.|.+..+.......      
T Consensus        26 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~~~~~~------   99 (213)
T 4f02_A           26 DVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLR------   99 (213)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCTHHH------
T ss_pred             CCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccccccccccc------
Confidence            468999999999999999985 4554 8999999999999999999999 579999999999887655322111      


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA  159 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~  159 (196)
                                              .....+|||+|||+.+|+++|+++|+.||.+. .|+|+.+.. .++|||||+|.+.
T Consensus       100 ------------------------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~-~~~i~~d~~-~~~g~~fV~f~~~  153 (213)
T 4f02_A          100 ------------------------KSGVGNIFIKNLDKSIDNKALYDTFSAFGNIL-SCKVVCDEN-GSKGYGFVHFETQ  153 (213)
T ss_dssp             ------------------------HHCTTEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEEETT-EEEEEEEEEESSH
T ss_pred             ------------------------ccccccceECCcccccHHHHHHHHHhhcCCeE-EEEeeccCC-CCceEEEEEeCCH
Confidence                                    01235799999999999999999999999776 788888764 4799999999999


Q ss_pred             HHHHHHHHh-CCCccCCeEEEEEECChHHHHHH
Q 029263          160 EDSKAAMAK-DRMTLGSRYIELFPSSHEEMDEA  191 (196)
Q Consensus       160 ~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~~  191 (196)
                      ++|.+|+.. ||..|+||.|+|.++.+......
T Consensus       154 ~~a~~Ai~~lng~~~~g~~i~V~~a~~~~~~~~  186 (213)
T 4f02_A          154 EAAERAIEKMNGMLLNDRKVFVGRFKSRKEREA  186 (213)
T ss_dssp             HHHHHHHHHHTTCEETTEECEEEECCCHHHHHH
T ss_pred             HHHHHHHHHhCCCEECCEEEEEEEcCCCcccch
Confidence            999999975 99999999999999987755544

>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=100.00  E-value=9.9e-33  Score=202.42  Aligned_cols=150  Identities=14%  Similarity=0.217  Sum_probs=131.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|+++|||||+|.+.++|.+||+. +..++|+.|.+..+......        
T Consensus        14 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-~~~~~g~~i~v~~~~~~~~~--------   84 (167)
T 2cjk_A           14 DTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAIPRDEQ--------   84 (167)
T ss_dssp             TCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS-CCEETTEECCCEECCCHHHH--------
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc-ccccCCeEcccccccchhhc--------
Confidence            4699999999999999999864 45 4899999999999999999999974 67889999988766543210        


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~  159 (196)
                                              ....+|||+|||+++|+++|+++|++||.+. .+.++.+. +|.++|+|||+|.+.
T Consensus        85 ------------------------~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~~~i~~~~~~g~~~g~afV~f~~~  139 (167)
T 2cjk_A           85 ------------------------DKTGKIFVGGIGPDVRPKEFEEFFSQWGTII-DAQLMLDKDTGQSRGFGFVTYDSA  139 (167)
T ss_dssp             ------------------------HHCEEEEEEEECTTCCHHHHHHHHHTTSCCS-EEECCCSSSSSTTSEEEEEEESSH
T ss_pred             ------------------------cCCCeEEECCCCCCCCHHHHHHHHHhCccEE-EEEEEEcCCCCccceEEEEEECCH
Confidence                                    1245899999999999999999999999776 78888885 899999999999999


Q ss_pred             HHHHHHHHhCCCccCCeEEEEEECChH
Q 029263          160 EDSKAAMAKDRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       160 ~~A~~Al~~~g~~l~gr~i~V~~~~~~  186 (196)
                      ++|.+|+.+|+..++|++|.|.++.++
T Consensus       140 ~~a~~A~~~~~~~~~g~~i~V~~a~pk  166 (167)
T 2cjk_A          140 DAVDRVCQNKFIDFKDRKIEIKRAEPR  166 (167)
T ss_dssp             HHHHHHHHCSEECSSSSCEEEEECCCC
T ss_pred             HHHHHHHhCCCEEeCCeEEEEeecCCC
Confidence            999999999999999999999999764

>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=99.98  E-value=2.5e-31  Score=194.92  Aligned_cols=148  Identities=16%  Similarity=0.212  Sum_probs=129.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|+++|||||+|.+.++|.+|++ +++..++++.|.|..+.+..         
T Consensus        14 ~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~---------   84 (168)
T 1b7f_A           14 DMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGG---------   84 (168)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCS---------
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecCCCc---------
Confidence            4689999999999999999854 44 489999999999999999999995 89999999999997665210         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                                             ......+|||+|||+.+|+++|+++|++||.+. .+.++.+. +|.++|+|||+|.+
T Consensus        85 -----------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~~~~~g~afV~f~~  140 (168)
T 1b7f_A           85 -----------------------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIV-QKNILRDKLTGRPRGVAFVRYNK  140 (168)
T ss_dssp             -----------------------STTTTCEEEEESCCTTCCHHHHHHHHTSSSCEE-EEEEEECTTTCCEEEEEEEEESS
T ss_pred             -----------------------ccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEE-EEEEEEcCCCCCcceEEEEEECC
Confidence                                   112356899999999999999999999999776 78888887 89999999999999


Q ss_pred             HHHHHHHHHh-CCCccCC--eEEEEEEC
Q 029263          159 AEDSKAAMAK-DRMTLGS--RYIELFPS  183 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~g--r~i~V~~~  183 (196)
                      .++|.+|+.. ||..+.|  ++|+|.+|
T Consensus       141 ~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          141 REEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             HHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             HHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            9999999975 9999977  99999876

>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=99.98  E-value=4.4e-31  Score=193.22  Aligned_cols=148  Identities=14%  Similarity=0.204  Sum_probs=128.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|.++. +.+. +|+++|||||+|.+.++|.+|++ +++..++++.|.|..+.+..         
T Consensus        13 ~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~---------   83 (167)
T 1fxl_A           13 NMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSS---------   83 (167)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC---------
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCCCc---------
Confidence            469999999999999999985 4565 99999999999999999999995 89999999999997665210         


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                                             ......+|||+|||+.+|+++|+++|++||.+. .+.++.+. +|.++|+|||+|.+
T Consensus        84 -----------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~g~~~g~afV~f~~  139 (167)
T 1fxl_A           84 -----------------------ASIRDANLYVSGLPKTMTQKELEQLFSQYGRII-TSRILVDQVTGVSRGVGFIRFDK  139 (167)
T ss_dssp             -----------------------GGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESS
T ss_pred             -----------------------ccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEe-EEEEEecCCCCCccceEEEEeCC
Confidence                                   112346899999999999999999999999776 78888876 89999999999999


Q ss_pred             HHHHHHHHHh-CCCccCCeE--EEEEEC
Q 029263          159 AEDSKAAMAK-DRMTLGSRY--IELFPS  183 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~gr~--i~V~~~  183 (196)
                      .++|.+|+.. ||..++|+.  |+|.+|
T Consensus       140 ~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          140 RIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             HHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             HHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            9999999975 999999975  888765

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

Probab=99.97  E-value=1.4e-31  Score=203.88  Aligned_cols=162  Identities=19%  Similarity=0.272  Sum_probs=131.3

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|+++|||||+|.+.++|.+||+ +++..++++.|.|................
T Consensus        39 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~  118 (216)
T 2qfj_A           39 ELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQL  118 (216)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSCCGGGHHHHHHH
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCCccccchhhhhh
Confidence            4689999999999999999865 454 89999999999999999999996 89999999999996654322111100000


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~  158 (196)
                      .                     .......+|||+|||+++|+++|+++|++||.+. .|.++.+. +|.++|+|||+|.+
T Consensus       119 ~---------------------~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~g~~~g~afV~F~~  176 (216)
T 2qfj_A          119 A---------------------EEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIK-SATLARDPTTGKHKGYGFIEYEK  176 (216)
T ss_dssp             H---------------------HHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEE-EEEEEECTTTCCEEEEEEEEESS
T ss_pred             h---------------------cccCCCcEEEEeCCCCcCCHHHHHHHHhccCCee-EEEEEecCCCCCcCceEEEEecC
Confidence            0                     0012357899999999999999999999999776 78888885 89999999999999


Q ss_pred             HHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          159 AEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      .++|.+|+.. ||..|+|+.|+|.++.+.
T Consensus       177 ~~~A~~A~~~l~g~~~~g~~i~V~~a~~~  205 (216)
T 2qfj_A          177 AQSSQDAVSSMNLFDLGGQYLRVGKAVTP  205 (216)
T ss_dssp             HHHHHHHHHHHTTCBCSSSBCEEEECSSC
T ss_pred             HHHHHHHHHHccCCEeCCcEEEEEEecCC
Confidence            9999999985 999999999999998654

>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=99.97  E-value=2.6e-31  Score=195.74  Aligned_cols=149  Identities=16%  Similarity=0.190  Sum_probs=123.9

Q ss_pred             CchHHHHHHHhcccCccee-------EEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVD-------VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-------v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|+++|+++|+.||.|..       .+.....++++|||||+|.+.++|.+||++++..+.|+.|.|......      
T Consensus        15 ~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~~~~~------   88 (172)
T 2g4b_A           15 GITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY------   88 (172)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHGGGTTCEETTEECEEECCSSC------
T ss_pred             ccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHHHhCCcEecCceeeecCCccc------
Confidence            4699999999999953322       111112345689999999999999999999999999999999654311      


Q ss_pred             hhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEE
Q 029263           76 ANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFV  154 (196)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV  154 (196)
                                                .......+|||+|||+.+|+++|+++|++||.+. .+.++.+. +|.++|+|||
T Consensus        89 --------------------------~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~g~~~g~afV  141 (172)
T 2g4b_A           89 --------------------------QPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLK-AFNLVKDSATGLSKGYAFC  141 (172)
T ss_dssp             --------------------------CCCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEE-EEEEEECTTTCSEEEEEEE
T ss_pred             --------------------------CCCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCce-EEEEEecCCCCCcceEEEE
Confidence                                      0112357899999999999999999999999876 89998886 9999999999


Q ss_pred             EeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          155 EFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +|.+.++|.+|+.. ||..++|+.|.|.+|+
T Consensus       142 ~f~~~~~A~~A~~~l~g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          142 EYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  172 (172)
T ss_dssp             EESSTTHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EeCCHHHHHHHHHHcCCCEECCeEEEEEeCC
Confidence            99999999999975 9999999999999985

>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=99.97  E-value=2.2e-30  Score=191.01  Aligned_cols=150  Identities=15%  Similarity=0.130  Sum_probs=124.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCC---cccceEEEEeCCHHHHHHHHH-hcccccC---CeeEEEEEcChHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNN---KFTGEAFCVLGYPLQVDFALQ-RNRQNMG---RRYVEVFRSKRQEYYKA   74 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g---~~~G~afV~F~~~~~a~~Al~-~~~~~l~---~~~i~v~~~~~~~~~~~   74 (196)
                      ..|+++|+++|++||.|.++. +.+..+   +++|||||+|.+.++|++|++ +++..+.   ++.+.+.......    
T Consensus        14 ~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~~~~~----   89 (175)
T 3nmr_A           14 TWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEK----   89 (175)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECGGGC----
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEccccccc----
Confidence            469999999999999999985 455543   899999999999999999994 7877654   4566665544211    


Q ss_pred             HhhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEE
Q 029263           75 IANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFV  154 (196)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV  154 (196)
                                                 .......+|||+|||+.+|+++|+++|++||.+. .|.++.+.+|.++|+|||
T Consensus        90 ---------------------------~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~-~v~~~~~~~g~~~g~afV  141 (175)
T 3nmr_A           90 ---------------------------NNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIE-ECRILRGPDGLSRGCAFV  141 (175)
T ss_dssp             ---------------------------CSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTSCEEEEEEE
T ss_pred             ---------------------------cccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEE-EEEEEECCCCCEEEEEEE
Confidence                                       0122467899999999999999999999999876 899999999999999999


Q ss_pred             EeCCHHHHHHHHHh-CCCccC---CeEEEEEECC
Q 029263          155 EFANAEDSKAAMAK-DRMTLG---SRYIELFPSS  184 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~---gr~i~V~~~~  184 (196)
                      +|.+.++|.+|+.. ||..+.   |++|.|.++.
T Consensus       142 ~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          142 TFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD  175 (175)
T ss_dssp             EESSHHHHHHHHHHHTTSCCCTTCSSCCEEEECC
T ss_pred             EECCHHHHHHHHHHhcCCcccCCCCCCeEEEecC
Confidence            99999999999965 987665   4999999873

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

Probab=99.97  E-value=8.1e-31  Score=197.19  Aligned_cols=171  Identities=15%  Similarity=0.153  Sum_probs=130.3

Q ss_pred             CchHHHHHHHhcccCccee-------EEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVD-------VLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-------v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|+++|+++|+.||.|..       .+.....++++|||||+|.+.++|.+||++++..++|+.|.|..+.....    
T Consensus        15 ~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al~l~g~~~~g~~i~v~~~~~~~~----   90 (198)
T 2yh0_A           15 GITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQP----   90 (198)
T ss_dssp             TCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHGGGTTEEETTEEEEEECCCCCCC----
T ss_pred             CCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHHHhcCCEEcCceEEEeCCCCCCC----
Confidence            4689999999999965543       12222346778999999999999999999999999999999976542110    


Q ss_pred             hhccccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEE
Q 029263           76 ANEVSDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFV  154 (196)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV  154 (196)
                          .......+....+    ............+|||+|||+.+|+++|+++|++||.+. .|.++.+. +|.++|+|||
T Consensus        91 ----~~~~~~~~~~~~~----~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~-~~~~~~~~~~~~~~g~afV  161 (198)
T 2yh0_A           91 ----LPGMSENPSVYVP----GVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLK-AFNLVKDSATGLSKGYAFC  161 (198)
T ss_dssp             ----CCCSSSCSSCCCT----TSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEE-EEEEEECTTTCSEEEEEEE
T ss_pred             ----CCCCcCCCcCCCC----CCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCcc-EEEEeecCCCCCcceEEEE
Confidence                0000000000000    001111224568999999999999999999999999776 78998886 9999999999


Q ss_pred             EeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          155 EFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       155 ~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      +|.+.++|.+|+.. ||..|+|+.|.|.++.+.
T Consensus       162 ~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  194 (198)
T 2yh0_A          162 EYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG  194 (198)
T ss_dssp             EESSSSHHHHHHHHHTTCEETTEECEEEESCCC
T ss_pred             EECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            99999999999975 999999999999998753

>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=99.97  E-value=2.2e-31  Score=196.85  Aligned_cols=148  Identities=16%  Similarity=0.274  Sum_probs=126.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||.+..+.+. ..+|+++|||||+|.+.++|.+||++++..+.|+.|.|..+....           
T Consensus        24 ~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~~~~~~-----------   92 (175)
T 1fje_B           24 NKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKGRD-----------   92 (175)
T ss_dssp             TSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCCCSS-----------
T ss_pred             CCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEecCCCcc-----------
Confidence            46899999999999988874333 358899999999999999999999999999999999997665211           


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED  161 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~  161 (196)
                                         ........+|||+|||+.+|+++|+++|++||.    |.++ ..+|.++|+|||+|.+.++
T Consensus        93 -------------------~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~----v~~~-~~~~~~~g~afV~f~~~~~  148 (175)
T 1fje_B           93 -------------------SKKVRAARTLLAKNLSFNITEDELKEVFEDALE----IRLV-SQDGKSKGIAYIEFKSEAD  148 (175)
T ss_dssp             -------------------CSTTGGGGEEEEESCCSSCCHHHHHHHCTTCSE----EEEE-CSSSSCCSEEEEECSSHHH
T ss_pred             -------------------ccccccCCEEEEeCCCCCCCHHHHHHHHHhcCe----EEEe-cCCCCCceEEEEEECCHHH
Confidence                               011234679999999999999999999999985    4444 7789999999999999999


Q ss_pred             HHHHHHh-CCCccCCeEEEEEECCh
Q 029263          162 SKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       162 A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      |.+|+.. ||..|+|+.|+|.++.+
T Consensus       149 A~~A~~~l~g~~~~g~~i~v~~a~~  173 (175)
T 1fje_B          149 AEKNLEEKQGAEIDGRSVSLYYTGE  173 (175)
T ss_dssp             HHHHHHHHTEEEETTEEEEEEECSS
T ss_pred             HHHHHHHhCCCEECCeEEEEEecCC
Confidence            9999985 99999999999999875

>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=99.97  E-value=3.9e-30  Score=204.06  Aligned_cols=158  Identities=15%  Similarity=0.147  Sum_probs=136.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|.++|||||+|.+.++|.+|+ .+++..++|+.|.|..+.+...        
T Consensus       106 ~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~--------  177 (284)
T 3smz_A          106 SLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQL--------  177 (284)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGC--------
T ss_pred             cCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCC--------
Confidence            468999999999999999984 455 48999999999999999999999 7899999999999987763320        


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCC
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFAN  158 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~  158 (196)
                                           ........+|||+|||+. +|+++|+++|+.||.+. .+.++.+.+|.++|+|||+|.+
T Consensus       178 ---------------------~~~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~-~v~i~~~~~g~~~g~afV~f~~  235 (284)
T 3smz_A          178 ---------------------TPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPT-FCQLACGQDGQLKGFAVLEYET  235 (284)
T ss_dssp             ---------------------CTTTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCS-EEEEEECSSCCEEEEEEEECSS
T ss_pred             ---------------------CcccCCccEEEEecCCcccCCHHHHHHHhhCCCCeE-EEEEEECCCCCcccEEEEEeCC
Confidence                                 001224578999999999 59999999999999776 7999999999999999999999


Q ss_pred             HHHHHHHHHh-CCCccCCeEEEEEECChHHHHH
Q 029263          159 AEDSKAAMAK-DRMTLGSRYIELFPSSHEEMDE  190 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~gr~i~V~~~~~~~~~~  190 (196)
                      .++|.+|+.. ||..++|++|.|.++.+.+...
T Consensus       236 ~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~~~  268 (284)
T 3smz_A          236 AEMAEEAQQQADGLSLGGSHLRVSFCAPGPPGR  268 (284)
T ss_dssp             HHHHHHHHHHHTTCEETTEECEEEECCSSSCHH
T ss_pred             HHHHHHHHHHhCCCccCCeEEEEEEecCCCccc
Confidence            9999999975 9999999999999998765433

>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=99.96  E-value=8.4e-30  Score=202.89  Aligned_cols=158  Identities=15%  Similarity=0.144  Sum_probs=127.3

Q ss_pred             CchHHHHHHHhcccC-cceeEEE-ecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc
Q 029263            3 LPQVQVLCTIHHQLM-DIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g-~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~   79 (196)
                      ..|+++|+++|+.|| .|.++.+ .+..|.++|||||+|.+.++|.+|++ +++..++|+.|.|..+.+.......    
T Consensus       128 ~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~~~----  203 (292)
T 2ghp_A          128 SYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRT----  203 (292)
T ss_dssp             TCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC----------
T ss_pred             CCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCcccccc----
Confidence            468999999999999 9999864 46678999999999999999999996 8999999999999776532210000    


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCC--CCCceEEEEEe
Q 029263           80 SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSD--GRPTGEAFVEF  156 (196)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~--g~~~G~afV~F  156 (196)
                                           ........+|||+|||+. +|+++|+++|++||.+. .|.++.+..  |.++|+|||+|
T Consensus       204 ---------------------~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~-~v~i~~~~~~tg~~~g~afV~F  261 (292)
T 2ghp_A          204 ---------------------DSATLEGREIMIRNLSTELLDENLLRESFEGFGSIE-KINIPAGQKEHSFNNCCAFMVF  261 (292)
T ss_dssp             ------------------------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEE-EEECCSCCC---CCCEEEEEEE
T ss_pred             ---------------------cccCCCCceEEEECCCcccCCHHHHHHHHhccCCee-EEEEEecCCcCCCCceEEEEEe
Confidence                                 011234679999999999 99999999999999876 788888876  99999999999


Q ss_pred             CCHHHHHHHHHhCCCccCCeEEEEEECChH
Q 029263          157 ANAEDSKAAMAKDRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       157 ~~~~~A~~Al~~~g~~l~gr~i~V~~~~~~  186 (196)
                      .+.++|.+|+.+||..|+|+.|.|.++.++
T Consensus       262 ~~~~~A~~A~~l~g~~~~g~~i~V~~a~~k  291 (292)
T 2ghp_A          262 ENKDSAERALQMNRSLLGNREISVSLADKK  291 (292)
T ss_dssp             SSHHHHHHHGGGTTEEETTEEEEEEECCCC
T ss_pred             CCHHHHHHHHHhcCCEECCcEEEEEEecCC
Confidence            999999999944999999999999999764

>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=99.96  E-value=9e-29  Score=196.93  Aligned_cols=144  Identities=13%  Similarity=0.068  Sum_probs=123.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||.|.+|.+ .+..| ++|||||+|.+.++|.+||++++..++|+.|.|....              
T Consensus        52 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~-~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~~~--------------  116 (292)
T 2ghp_A           52 SYNQNKVYKYFKHCGPIIHVDVADSLKK-NFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLT--------------  116 (292)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTS-SSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEECC--------------
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCC-CcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEEEECC--------------
Confidence            4789999999999999999864 45555 6899999999999999999999999999999986532              


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCCCCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNSDGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~~g~~~G~afV~F~~~~  160 (196)
                                               ..+|||+|||+.+|+++|+++|+.|| .+. .|.++.+..|.++|||||+|.+.+
T Consensus       117 -------------------------~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~-~v~i~~~~~~~~~g~afV~f~~~~  170 (292)
T 2ghp_A          117 -------------------------ECTLWMTNFPPSYTQRNIRDLLQDINVVAL-SIRLPSLRFNTSRRFAYIDVTSKE  170 (292)
T ss_dssp             -------------------------SCEEEEECCCTTCCHHHHHHHHHHTTCCCC-EEECC-------CCEEEEECSSHH
T ss_pred             -------------------------CCEEEEECCCCCCCHHHHHHHHHHhCCCeE-EEEEEeCCCCCcceEEEEEECCHH
Confidence                                     45899999999999999999999999 766 899998888999999999999999


Q ss_pred             HHHHHHH-hCCCccCCeEEEEEECChHH
Q 029263          161 DSKAAMA-KDRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       161 ~A~~Al~-~~g~~l~gr~i~V~~~~~~~  187 (196)
                      +|.+|+. +||..++|+.|.|.++.+..
T Consensus       171 ~a~~A~~~l~g~~~~g~~l~v~~a~~~~  198 (292)
T 2ghp_A          171 DARYCVEKLNGLKIEGYTLVTKVSNPLE  198 (292)
T ss_dssp             HHHHHHHHHTTCEETTEECEEEECCCC-
T ss_pred             HHHHHHHHhCCCEeCCcEEEEEECCCCc
Confidence            9999998 59999999999999987654

>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=99.96  E-value=1.9e-28  Score=186.16  Aligned_cols=175  Identities=12%  Similarity=0.179  Sum_probs=124.1

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      +..|+++|+++|+.||.|.+|.+...   ++|||||+|.+.++|++|| .+|+..+.|+.|.|..+.......  .....
T Consensus        15 ~~~~~~~L~~~F~~~G~v~~v~i~~~---~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~~~~p--~~~~~   89 (205)
T 3tyt_A           15 SKMNCDRVFNVFCLYGNVEKVKFMKS---KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMP--GQSYG   89 (205)
T ss_dssp             TTCCHHHHHHHHTTTSCEEEEEECTT---STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSCCCC--CSCCB
T ss_pred             ccCCHHHHHHHHHhcCCeEEEEEecC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCCccCC--Ccccc
Confidence            35789999999999999999976532   4799999999999999999 589999999999998765321100  00000


Q ss_pred             cCCCCCCC-CC--CCCCCCCC-----CCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCcc-ceEEEEeCCCCCCceE
Q 029263           81 DVRGGSPH-RS--IPRAKSHD-----EGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSE-DSIHITMNSDGRPTGE  151 (196)
Q Consensus        81 ~~~~~~~~-~~--~~~~~~~~-----~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~-~~v~l~~~~~g~~~G~  151 (196)
                       .....+. .+  ........     ........+.+|||+|||+++|+++|+++|++||.+. .++++..+. |.++|+
T Consensus        90 -~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~-~~~~g~  167 (205)
T 3tyt_A           90 -LEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK-SERSSS  167 (205)
T ss_dssp             -CTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC-SSSSEE
T ss_pred             -cccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC-CCCceE
Confidence             0000000 00  00000000     0000123457899999999999999999999999761 378887665 556799


Q ss_pred             EEEEeCCHHHHHHHHHh-CCCccCCe----EEEEEEC
Q 029263          152 AFVEFANAEDSKAAMAK-DRMTLGSR----YIELFPS  183 (196)
Q Consensus       152 afV~F~~~~~A~~Al~~-~g~~l~gr----~i~V~~~  183 (196)
                      |||+|.+.++|.+|+.. ||..|.|+    ++.|.++
T Consensus       168 gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          168 GLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             EEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             EEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence            99999999999999975 99999887    6777764

>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=99.96  E-value=4.6e-28  Score=192.14  Aligned_cols=141  Identities=17%  Similarity=0.222  Sum_probs=125.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.|| |.++.+    ++++|||||+|.+.++|.+|+ .+++..+.|+.|.|....              
T Consensus        33 ~~te~~l~~~F~~~G-i~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~--------------   93 (284)
T 3smz_A           33 DVTNQEVHDLLSDYE-LKYCFV----DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQP--------------   93 (284)
T ss_dssp             TCCHHHHHHHTTTSC-EEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC--------------
T ss_pred             CCCHHHHHHHHHHcC-CEEEEE----ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecC--------------
Confidence            478999999999998 888866    578899999999999999999 579999999999996432              


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAE  160 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~  160 (196)
                                              ...+|||+|||+.+|+++|+++|+.||.+. .+.++.+. +|.++|+|||+|.+.+
T Consensus        94 ------------------------~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~g~~~g~afV~f~~~~  148 (284)
T 3smz_A           94 ------------------------TDALLCVANLPPSLTQQQFEELVRPFGSLE-RCFLVYSERTGQSKGYGFAEYMKKD  148 (284)
T ss_dssp             ------------------------CSCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHH
T ss_pred             ------------------------CCCEEEEcCCCCcCCHHHHHHHHHhcCCee-EEEEEeeCCCCccceEEEEEECCHH
Confidence                                    235899999999999999999999999876 78888776 8999999999999999


Q ss_pred             HHHHHHH-hCCCccCCeEEEEEECChHH
Q 029263          161 DSKAAMA-KDRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       161 ~A~~Al~-~~g~~l~gr~i~V~~~~~~~  187 (196)
                      +|.+|+. +||..++|+.|.|.++.+..
T Consensus       149 ~a~~A~~~l~~~~~~g~~i~v~~a~~~~  176 (284)
T 3smz_A          149 SAARAKSDLLGKPLGPRTLYVHWTDAGQ  176 (284)
T ss_dssp             HHHHHHHHHTTCEETTEECEEEECCGGG
T ss_pred             HHHHHHHHhCCCEeCCcEEEEEECCCCC
Confidence            9999995 59999999999999997653

>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=99.96  E-value=2.3e-28  Score=192.08  Aligned_cols=141  Identities=18%  Similarity=0.216  Sum_probs=125.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||.|.+|.+.    +++|||||+|.+.++|.+|++ +++..++|+.|.|..+.              
T Consensus        33 ~~te~~l~~~F~~~G~i~~v~i~----~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~--------------   94 (261)
T 3sde_A           33 DITEEDFKRLFERYGEPSEVFIN----RDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT--------------   94 (261)
T ss_dssp             TCCHHHHHHHTGGGCCCSEEEEE----TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC--------------
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEe----CCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc--------------
Confidence            46899999999999999998764    357999999999999999995 89999999999997655              


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAED  161 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~  161 (196)
                                              .+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+.+|.++|+|||+|.+.++
T Consensus        95 ------------------------~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~  149 (261)
T 3sde_A           95 ------------------------HGAALTVKNLSPVVSNELLEQAFSQFGPVE-KAVVVVDDRGRATGKGFVEFAAKPP  149 (261)
T ss_dssp             ------------------------CSSEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEEETTSCEEEEEEEEESSHHH
T ss_pred             ------------------------cCCcccccCCCCCCCHHHHHHHHHhcCCeE-EEEeeeCCCCCcCcEEEEEeCCHHH
Confidence                                    235899999999999999999999999776 7999999999999999999999999


Q ss_pred             HHHHHHh--CCCccC---CeEEEEEECChH
Q 029263          162 SKAAMAK--DRMTLG---SRYIELFPSSHE  186 (196)
Q Consensus       162 A~~Al~~--~g~~l~---gr~i~V~~~~~~  186 (196)
                      |.+|+..  ++..+.   +|+|.|.++.+.
T Consensus       150 A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          150 ARKALERCGDGAFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             HHHHHHHHHHSCEESSSSCCBCEEEECCCE
T ss_pred             HHHHHHHhcCCeEEecCCCceEEEeecccc
Confidence            9999965  566665   999999998654

>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=99.96  E-value=5e-28  Score=191.72  Aligned_cols=176  Identities=18%  Similarity=0.168  Sum_probs=126.6

Q ss_pred             CchHHHHH----HHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH-HHHHh
Q 029263            3 LPQVQVLC----TIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY-YKAIA   76 (196)
Q Consensus         3 ~~te~dl~----~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~-~~~~~   76 (196)
                      ..|+++|+    ++|+.||.|.+|.+.. +|+++|||||+|.+.++|.+|| .+|+..+.|+.|.|..+..... .....
T Consensus        20 ~~~~~~l~~~L~~~F~~~G~i~~v~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~~~~~   98 (282)
T 3pgw_A           20 KIKKDELKKSLYAIFSQFGQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMK   98 (282)
T ss_pred             CCCHHHHHHHHHHHHhccCCeEEEEEcC-CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEeccCcchhhhhc
Confidence            46899977    9999999999987654 8899999999999999999999 6899999999999966543211 00000


Q ss_pred             hc-cc---------------------cCCC-------CCCCC------------------------C------CCCCCCC
Q 029263           77 NE-VS---------------------DVRG-------GSPHR------------------------S------IPRAKSH   97 (196)
Q Consensus        77 ~~-~~---------------------~~~~-------~~~~~------------------------~------~~~~~~~   97 (196)
                      .. ..                     ....       ..+..                        .      .+.....
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~p~~~~~~~~~~~  178 (282)
T 3pgw_A           99 GTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPPGLAPG  178 (282)
T ss_pred             CCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCcc
Confidence            00 00                     0000       00000                        0      0000000


Q ss_pred             -------------------CCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCC
Q 029263           98 -------------------DEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFAN  158 (196)
Q Consensus        98 -------------------~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~  158 (196)
                                         .........+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+.    +|+|||+|.+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~-~v~~~~~~----~g~afV~f~~  253 (282)
T 3pgw_A          179 QIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFK-EVRLVPGR----HDIAFVEFDN  253 (282)
T ss_pred             ccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeE-EEEEecCC----CcEEEEEeCC
Confidence                               00001223457899999999999999999999999776 78887543    5799999999


Q ss_pred             HHHHHHHHHh-CCCccC-CeEEEEEECC
Q 029263          159 AEDSKAAMAK-DRMTLG-SRYIELFPSS  184 (196)
Q Consensus       159 ~~~A~~Al~~-~g~~l~-gr~i~V~~~~  184 (196)
                      .++|.+|+.. ||..|+ |+.|+|.++.
T Consensus       254 ~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          254 EVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             HHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            9999999975 999999 9999999985

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.95  E-value=5.3e-27  Score=176.69  Aligned_cols=174  Identities=15%  Similarity=0.183  Sum_probs=124.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc--
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV--   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~--   79 (196)
                      ..|+++|+++|+.||.|.+|.+....   +|||||+|.+.++|.+||+ +++..++|+.|.|..+.............  
T Consensus        15 ~~~~~~l~~~F~~~G~i~~v~i~~~~---~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~~~~~~~~~~~~   91 (198)
T 1qm9_A           15 RVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQ   91 (198)
T ss_dssp             SCCHHHHHHHHHTTCCCSEEECSTTC---SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCSCCCSSSSSSSS
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCCcCCCCcCCccc
Confidence            56999999999999999998655321   7899999999999999995 89999999999997765321000000000  


Q ss_pred             ccCC--CCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCCCCCCceEEEEEe
Q 029263           80 SDVR--GGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNSDGRPTGEAFVEF  156 (196)
Q Consensus        80 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~~g~~~G~afV~F  156 (196)
                      ...+  ...+......+. ..........+.+|||+|||+.+|+++|+++|+.|| .+. .|.+..+    .+|+|||+|
T Consensus        92 ~~~~~~~~~~~~r~~~~~-~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~-~v~i~~~----~~g~afV~f  165 (198)
T 1qm9_A           92 GLTKDYGNSPLHRFKKPG-SKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVK-GFKFFQK----DRKMALIQM  165 (198)
T ss_dssp             SCEEESSCCCTTSSSSCC-CCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCC-EEEESST----TSSCEEEEC
T ss_pred             cccccccCCchhhccCcc-ccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCce-EEEEEeC----CCcEEEEEe
Confidence            0000  000000000000 000011123468999999999999999999999999 665 7877653    368999999


Q ss_pred             CCHHHHHHHHHh-CCCccC-CeEEEEEECCh
Q 029263          157 ANAEDSKAAMAK-DRMTLG-SRYIELFPSSH  185 (196)
Q Consensus       157 ~~~~~A~~Al~~-~g~~l~-gr~i~V~~~~~  185 (196)
                      .+.++|.+|+.. ||..++ |+.|+|.++.+
T Consensus       166 ~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~  196 (198)
T 1qm9_A          166 GSVEEAVQALIDLHNHDLGENHHLRVSFSKS  196 (198)
T ss_dssp             SSHHHHHHHHHHHTSSCCSSCCSCCEEEECC
T ss_pred             CCHHHHHHHHHHhcCCccCCCCeEEEEeecc
Confidence            999999999974 999999 99999999864

>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=99.94  E-value=1.4e-26  Score=178.62  Aligned_cols=173  Identities=16%  Similarity=0.179  Sum_probs=124.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcc--
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEV--   79 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~--   79 (196)
                      ..|+++|+++|+.||.|.+|.+....   +|||||+|.+.++|++||+ +++..+.|+.|.|..+.............  
T Consensus        46 ~~te~~L~~~F~~~G~i~~v~i~~~~---~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~~~~~~~~~~~~~  122 (229)
T 2adc_A           46 RVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQ  122 (229)
T ss_dssp             TCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCCCCCCCCSSSSTT
T ss_pred             cCCHHHHHHHHHhCCCeEEEEEEECC---CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCccccCcccccccc
Confidence            57999999999999999998655321   7899999999999999995 89999999999997665221000000000  


Q ss_pred             ---ccCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCCCCCCceEEEEE
Q 029263           80 ---SDVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNSDGRPTGEAFVE  155 (196)
Q Consensus        80 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~~g~~~G~afV~  155 (196)
                         .........+ ...+.. .........+.+|||+|||+.+|+++|+++|+.|| .+. .|.+..+    .+|+|||+
T Consensus       123 ~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~-~v~i~~~----~~g~afV~  195 (229)
T 2adc_A          123 GLTKDYGNSPLHR-FKKPGS-KNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVK-GFKFFQK----DRKMALIQ  195 (229)
T ss_dssp             TTEEECTTCSSCC-CCSTTS-GGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEE-EEEECSS----STTCEEEE
T ss_pred             ccccccccCcccc-cCCccc-cccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCee-EEEEEEC----CCcEEEEE
Confidence               0000000000 000000 00001123468999999999999999999999999 665 7777543    46899999


Q ss_pred             eCCHHHHHHHHH-hCCCccC-CeEEEEEECCh
Q 029263          156 FANAEDSKAAMA-KDRMTLG-SRYIELFPSSH  185 (196)
Q Consensus       156 F~~~~~A~~Al~-~~g~~l~-gr~i~V~~~~~  185 (196)
                      |.+.++|.+|+. +||..++ |+.|+|.++++
T Consensus       196 f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~  227 (229)
T 2adc_A          196 MGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  227 (229)
T ss_dssp             ESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             ECCHHHHHHHHHHHCCCccCCCCeEEEEEecC
Confidence            999999999997 5999999 99999999865

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.92  E-value=1.1e-24  Score=158.78  Aligned_cols=141  Identities=16%  Similarity=0.191  Sum_probs=102.1

Q ss_pred             EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCCCCCCCCCCCC
Q 029263           24 FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKD  102 (196)
Q Consensus        24 ~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (196)
                      +.+.. +++|||||+|.+.++|++|++ .++....+..+.+.......       ...  ..  .        .......
T Consensus         6 ~ln~~-~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~-------~~~--~~--~--------~~~~~~~   65 (158)
T 2kn4_A            6 ILNGK-TLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTF-------TVT--EG--S--------HHHHHHM   65 (158)
T ss_dssp             EEECS-SCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEE-------EEE--CC--C--------CCSSCCC
T ss_pred             EecCc-cccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccc-------ccc--cc--c--------ccccccc
Confidence            34433 689999999999999999995 45443322222221111000       000  00  0        0000011


Q ss_pred             CCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          103 SAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       103 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      ......+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. ||..|+|++|+|
T Consensus        66 ~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~-~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  144 (158)
T 2kn4_A           66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVG-DVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRV  144 (158)
T ss_dssp             CCCBCCEEEEESCCTTCCHHHHHHHHHHHSCEE-EEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            223467999999999999999999999999776 78888885 899999999999999999999975 999999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .++.+
T Consensus       145 ~~a~~  149 (158)
T 2kn4_A          145 QMARY  149 (158)
T ss_dssp             EEECC
T ss_pred             EECCC
Confidence            99875

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.89  E-value=1.9e-23  Score=145.97  Aligned_cols=90  Identities=41%  Similarity=0.695  Sum_probs=82.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCc---cceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLS---EDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~---~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~  182 (196)
                      ...+|||+|||+++|+++|+++|++||.+   ...|.|+.+.+|+++|||||+|.+.++|++||..|+..|+||.|+|..
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~V~~  101 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFR  101 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCEECCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            45789999999999999999999999864   247999999999999999999999999999998899999999999999


Q ss_pred             CChHHHHHHHHcC
Q 029263          183 SSHEEMDEALSRG  195 (196)
Q Consensus       183 ~~~~~~~~~~~~~  195 (196)
                      +++++|..++.+.
T Consensus       102 a~~~e~~~~~~~~  114 (123)
T 2dha_A          102 STAAEVQQVLNRF  114 (123)
T ss_dssp             ECHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhc
Confidence            9999999998653

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.89  E-value=1e-22  Score=141.51  Aligned_cols=91  Identities=38%  Similarity=0.697  Sum_probs=84.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCC---ccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVL---SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~---~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~  181 (196)
                      ....+|||+|||+++|+++|+++|+.||.   +. .|+|+.+..|+++|||||+|.+.++|++||.+|+..|+||.|+|.
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~-~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~   93 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVA-GVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVF   93 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGG-GEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCce-eEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            34678999999999999999999999997   44 799999989999999999999999999999999999999999999


Q ss_pred             ECChHHHHHHHHcCC
Q 029263          182 PSSHEEMDEALSRGR  196 (196)
Q Consensus       182 ~~~~~~~~~~~~~~~  196 (196)
                      ++++.++..++++++
T Consensus        94 ~a~~~~~~~~~~~~~  108 (118)
T 2db1_A           94 KSHRTEMDWVLKHSG  108 (118)
T ss_dssp             EECHHHHHHHHHTTS
T ss_pred             ECCHHHHHHHHHHhC
Confidence            999999999887653

>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=99.89  E-value=1.2e-22  Score=144.23  Aligned_cols=90  Identities=39%  Similarity=0.717  Sum_probs=84.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCC---ccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVL---SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~---~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~  181 (196)
                      ....+|||+|||+++|+++|+++|++||.   +. .|.|+.+..|+++|||||+|.+.++|++|+.+|+..|+||.|+|.
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~-~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~~~g~~l~gr~i~V~  120 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAA-GVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVF  120 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSST-TEEEEECSSSCEEEEEEEECSSHHHHHHHHTTTEEESSSSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCcee-EEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEECCEEEEEE
Confidence            34679999999999999999999999997   44 799999989999999999999999999999999999999999999


Q ss_pred             ECChHHHHHHHHcC
Q 029263          182 PSSHEEMDEALSRG  195 (196)
Q Consensus       182 ~~~~~~~~~~~~~~  195 (196)
                      ++++.++..++++.
T Consensus       121 ~a~~~e~~~~~~~~  134 (136)
T 2hgl_A          121 KSHRTEMDWVLKHS  134 (136)
T ss_dssp             ECCHHHHHHHHTTS
T ss_pred             ECChHHHHHHHhhc
Confidence            99999999998764

>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=99.88  E-value=8.9e-23  Score=147.47  Aligned_cols=136  Identities=18%  Similarity=0.152  Sum_probs=104.4

Q ss_pred             CCcccceEEEEeCCHHHHHHHH-Hh-cccccCCeeEEEEEcChHHHHHHHhhccccCCCCCCCCCCCCCCCCCCCCCCCC
Q 029263           28 NNKFTGEAFCVLGYPLQVDFAL-QR-NRQNMGRRYVEVFRSKRQEYYKAIANEVSDVRGGSPHRSIPRAKSHDEGKDSAV  105 (196)
Q Consensus        28 ~g~~~G~afV~F~~~~~a~~Al-~~-~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (196)
                      ....+|+++|+|.+.++|++|+ ++ |+..++| .|.+..+....        .........        ..........
T Consensus         9 g~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~--------~~~~~~~~~--------~~~~~~~~~~   71 (150)
T 2i2y_A            9 GKTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTF--------TVTEGSHHH--------HHHMHRDSCP   71 (150)
T ss_dssp             CSSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEE--------EEECSSSSC--------CCCSCSSSST
T ss_pred             cccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcc--------ccccccccc--------cccccccCCC
Confidence            3467899999999999999999 67 8999999 88876444211        000000000        0000111233


Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+.+|+++|+++|++||.+. .|.++.+    ++|||||+|.+.++|.+|+. +||..|+|++|+|.++.
T Consensus        72 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~-~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A           72 LDCKVYVGNLGNNGNKTELERAFGYYGPLR-SVWVARN----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             TSCEEEEESCCSCCSCHHHHHHHHHHSCEE-EEEECSS----SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEE-EEEEeeC----CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            467999999999999999999999999776 7888865    68899999999999999997 59999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus       147 ~  147 (150)
T 2i2y_A          147 G  147 (150)
T ss_dssp             C
T ss_pred             C
Confidence            5

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.88  E-value=2.3e-22  Score=137.70  Aligned_cols=86  Identities=28%  Similarity=0.556  Sum_probs=79.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|++|++ . .|.|+.+++|+++|||||+|.+.++|++||.+|+..|+||.|+|..++
T Consensus        14 ~~~~~v~V~nLp~~~te~dl~~~F~~~~v-~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~   91 (109)
T 2dnn_A           14 PDDLYVSVHGMPFSAMENDVRDFFHGLRV-D-AVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPAT   91 (109)
T ss_dssp             HHHHEEEEECCCSSCCHHHHHHHTTTSCC-C-EEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhccCCe-e-EEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            34579999999999999999999999954 3 699999999999999999999999999999889999999999999999


Q ss_pred             hHHHHHHH
Q 029263          185 HEEMDEAL  192 (196)
Q Consensus       185 ~~~~~~~~  192 (196)
                      +.+|..+-
T Consensus        92 ~~~~~~~~   99 (109)
T 2dnn_A           92 ERQWVAAG   99 (109)
T ss_dssp             HHHHHHHH
T ss_pred             ccchhhcC
Confidence            99998764

>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=99.88  E-value=3.5e-22  Score=137.90  Aligned_cols=90  Identities=23%  Similarity=0.438  Sum_probs=83.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|+.||.+...|.|+.+.+|.++|||||+|.+.++|.+||.+|+..|+||.|.|.+++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~v~~a~   92 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVT   92 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEEC
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCCeEEEEEECC
Confidence            34679999999999999999999999998733799999999999999999999999999999889999999999999999


Q ss_pred             hHHHHHHHHc
Q 029263          185 HEEMDEALSR  194 (196)
Q Consensus       185 ~~~~~~~~~~  194 (196)
                      ++++.....+
T Consensus        93 ~~~~~~~~~~  102 (114)
T 2cpy_A           93 LEDMREIEKN  102 (114)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhC
Confidence            9999887654

>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=99.88  E-value=1.3e-22  Score=138.54  Aligned_cols=90  Identities=31%  Similarity=0.668  Sum_probs=83.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCC---ccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVL---SEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~---~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~  181 (196)
                      ....+|||+|||+++|+++|+++|+.||.   +. .|.|+.+..|+++|||||+|.+.++|.+||.+|+..|+||.|.|.
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~-~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~   87 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGEN-GIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVY   87 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTT-TEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCCCCE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcc-eEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCcceeCCeEEEEE
Confidence            35679999999999999999999999997   55 799999888999999999999999999999999999999999999


Q ss_pred             ECChHHHHHHHHcC
Q 029263          182 PSSHEEMDEALSRG  195 (196)
Q Consensus       182 ~~~~~~~~~~~~~~  195 (196)
                      ++++.++..+++++
T Consensus        88 ~a~~~~~~~~~~~~  101 (107)
T 2lmi_A           88 EINNEDVDALMKSL  101 (107)
T ss_dssp             ECCHHHHHHHHHTT
T ss_pred             ECCHHHHHHHHHhh
Confidence            99999999998765

>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=99.87  E-value=4.5e-22  Score=134.04  Aligned_cols=80  Identities=21%  Similarity=0.332  Sum_probs=73.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+++|+++|+++|++||.+. +|.+++++ +|.++|||||+|.+.++|.+|+.. ||..|+||.|+|.+
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~-~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~   95 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVE-SAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSY   95 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3456899999999999999999999999776 79998886 799999999999999999999975 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      |.|
T Consensus        96 AkP   98 (99)
T 4fxv_A           96 ARP   98 (99)
T ss_dssp             CCB
T ss_pred             eeC
Confidence            875

>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=99.87  E-value=7.1e-23  Score=139.17  Aligned_cols=88  Identities=39%  Similarity=0.741  Sum_probs=80.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|++||.+.+.|.|+.+.+|+++|||||+|.++++|++|+..|+..|+||.|.|.+++
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~v~~~~   92 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEEEEEECC
Confidence            34679999999999999999999999998764588888899999999999999999999999889999999999999999


Q ss_pred             hHHHHHHH
Q 029263          185 HEEMDEAL  192 (196)
Q Consensus       185 ~~~~~~~~  192 (196)
                      +.++..+.
T Consensus        93 ~~~~~~~~  100 (104)
T 1wg5_A           93 RAEVRTSG  100 (104)
T ss_dssp             TTTSCCSS
T ss_pred             HHHHHHhc
Confidence            88876544

>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=99.87  E-value=7.3e-22  Score=138.26  Aligned_cols=88  Identities=39%  Similarity=0.682  Sum_probs=80.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|+.||.+...+.+..+.+|.++|||||+|.+.++|.+||.+|+..|+||.|.|.+++
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~  102 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPIT  102 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECC
Confidence            34579999999999999999999999998774467777789999999999999999999999999999999999999999


Q ss_pred             hHHHHHHH
Q 029263          185 HEEMDEAL  192 (196)
Q Consensus       185 ~~~~~~~~  192 (196)
                      ++++...+
T Consensus       103 ~~~~~~~~  110 (124)
T 1wel_A          103 KKGMLEKI  110 (124)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99987664

>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=99.86  E-value=3.5e-22  Score=139.91  Aligned_cols=85  Identities=41%  Similarity=0.795  Sum_probs=77.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|++|+++.+.|.|+.++.|+++|||||+|.++++|++|+.+++..|+||+|.|.+++
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~~a~  119 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSS  119 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTSCEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
Confidence            34678999999999999999999999976633699999989999999999999999999999988899999999999999


Q ss_pred             hHHHH
Q 029263          185 HEEMD  189 (196)
Q Consensus       185 ~~~~~  189 (196)
                      ++++.
T Consensus       120 ~~e~~  124 (126)
T 2hgm_A          120 QEEVR  124 (126)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            98874

>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=99.85  E-value=1.8e-21  Score=131.82  Aligned_cols=80  Identities=45%  Similarity=0.720  Sum_probs=74.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|++||++  .|.|+.+++|+++|||||+|.+.++|++||.+|+..|+||.|+|.+++
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~--~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM--RVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS--EEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCce--EEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECC
Confidence            345799999999999999999999999954  699999999999999999999999999999889999999999999987


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        91 ~~   92 (102)
T 1wez_A           91 TA   92 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.85  E-value=4.9e-22  Score=131.83  Aligned_cols=78  Identities=26%  Similarity=0.390  Sum_probs=70.6

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh--CCCccCCeEEEEEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK--DRMTLGSRYIELFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~--~g~~l~gr~i~V~~~  183 (196)
                      .+|||+|||+++|+++|+++|++|| .+. +|++++++ +|.++|||||+|.+.++|.+|+..  |+..++||+|+|.++
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~-~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAR-EVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCS-BCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeE-EEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            5899999999999999999999999 555 78998886 799999999999999999999964  677899999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        81 ~~~   83 (91)
T 2lxi_A           81 DPK   83 (91)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            764

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

Probab=99.85  E-value=1e-20  Score=129.79  Aligned_cols=82  Identities=12%  Similarity=0.116  Sum_probs=75.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .|.|+.++ +|+++|||||+|.+.++|++|+.. ||..|+||.|+|.++
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G~i~-~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a   83 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYGEVE-EVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLD   83 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCee-EEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            457899999999999999999999999876 79998887 699999999999999999999975 999999999999999


Q ss_pred             ChHHH
Q 029263          184 SHEEM  188 (196)
Q Consensus       184 ~~~~~  188 (196)
                      ....-
T Consensus        84 ~~~~~   88 (110)
T 3s8s_A           84 IKGQQ   88 (110)
T ss_dssp             STTHH
T ss_pred             CCCcH
Confidence            76543

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.84  E-value=1e-20  Score=126.35  Aligned_cols=77  Identities=17%  Similarity=0.252  Sum_probs=69.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCc-cceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCC----ccCCeEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLS-EDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRM----TLGSRYIEL  180 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~-~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~----~l~gr~i~V  180 (196)
                      .+|||+|||+++|+++|+++|++||.+ ...|++++|+ +|.++|||||+|.+.++|.+|+.. |+.    .|+||+|.|
T Consensus        10 ~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V   89 (95)
T 2lkz_A           10 DTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGV   89 (95)
T ss_dssp             CEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEE
Confidence            689999999999999999999999942 2379998887 799999999999999999999975 876    489999999


Q ss_pred             EECC
Q 029263          181 FPSS  184 (196)
Q Consensus       181 ~~~~  184 (196)
                      .+|.
T Consensus        90 ~~Ak   93 (95)
T 2lkz_A           90 DFAK   93 (95)
T ss_dssp             EECC
T ss_pred             EEcc
Confidence            9985

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=1.2e-20  Score=127.90  Aligned_cols=79  Identities=18%  Similarity=0.238  Sum_probs=73.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|++||.+. +|.++.+..|.++|||||+|.+.++|.+|+.+|+..++|+.|.|.++..
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~-~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVL-NIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEE-EEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEEHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEE-EEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEchH
Confidence            467899999999999999999999999876 8999998889999999999999999999999999999999999998754

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.83  E-value=2.9e-20  Score=120.79  Aligned_cols=80  Identities=16%  Similarity=0.181  Sum_probs=73.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      +..|||+||++.+|+++|+++|.+||.+. ++++..     ++|||||+|.++++|.+|+.. |+..|+||.|+|..+++
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~-~~~l~~-----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~e   80 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLV-SFHPYL-----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPSE   80 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEE-EEEEET-----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCCH
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEE-EEEEcC-----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECCH
Confidence            45799999999999999999999999876 777764     789999999999999999975 99999999999999999


Q ss_pred             HHHHHHH
Q 029263          186 EEMDEAL  192 (196)
Q Consensus       186 ~~~~~~~  192 (196)
                      .|+...+
T Consensus        81 ~~~~~~~   87 (89)
T 2wbr_A           81 NEVQSIM   87 (89)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9988765

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.83  E-value=3.9e-20  Score=122.40  Aligned_cols=79  Identities=34%  Similarity=0.638  Sum_probs=73.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|+.| .+. .|.++.+.+|+++|+|||+|.+.++|.+|+.+|+..|+||.|.|.++++
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~-~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~~a~~   86 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPV-AIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREKS   86 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCS-EEEEEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEEEESS
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-Cce-EEEEEECCCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEEECCc
Confidence            46799999999999999999999999 444 6999999999999999999999999999999999999999999999875


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        87 ~   87 (91)
T 2dgw_A           87 G   87 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.83  E-value=4.1e-20  Score=121.24  Aligned_cols=78  Identities=24%  Similarity=0.437  Sum_probs=71.9

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++.++ +|.++|||||+|.+.++|.+|+..++..|+|+.|.|..|
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVV-DCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEE-EEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            3567999999999999999999999999776 78998886 799999999999999999999988889999999999875

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

Probab=99.83  E-value=7.7e-20  Score=123.07  Aligned_cols=81  Identities=28%  Similarity=0.487  Sum_probs=74.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|.+|+.. |+..++|+.|+|.++
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   93 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVK-DLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS   93 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEE-EEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeE-EEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            3467899999999999999999999999776 79999999999999999999999999999965 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        94 ~~~   96 (100)
T 2do4_A           94 NSG   96 (100)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            753

>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=99.83  E-value=3.5e-20  Score=120.39  Aligned_cols=78  Identities=23%  Similarity=0.304  Sum_probs=72.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .+|||+|||+++|+++|+++|++||.+. .+.++.+. +|.++|+|||+|.+.++|++|+.. ||..++|+.|+|.++.+
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   80 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYL-SGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK   80 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEE-EEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCc
Confidence            5799999999999999999999999776 78888884 899999999999999999999985 99999999999999976


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        81 ~   81 (83)
T 3md1_A           81 L   81 (83)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.82  E-value=8.4e-20  Score=121.59  Aligned_cols=81  Identities=26%  Similarity=0.375  Sum_probs=73.6

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....+|||+|||+.+|+++|+++|+.||.+. .|.++.++ +|.++|+|||+|.+.++|.+|+.. |+..++|+.|+|.
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   90 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIA-DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVS   90 (95)
T ss_dssp             CCGGGCEEEESCCSSCCHHHHHHHHHTTSCEE-EEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCee-EEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            34568999999999999999999999999776 78888876 689999999999999999999985 9999999999999


Q ss_pred             ECCh
Q 029263          182 PSSH  185 (196)
Q Consensus       182 ~~~~  185 (196)
                      +++.
T Consensus        91 ~a~~   94 (95)
T 2cqc_A           91 GPSS   94 (95)
T ss_dssp             CCSC
T ss_pred             ecCC
Confidence            9863

>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=99.82  E-value=1.4e-21  Score=139.18  Aligned_cols=83  Identities=43%  Similarity=0.695  Sum_probs=74.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|++||++  .|.|+.+++|+++|||||+|.+.++|++||.+|+..|+||.|+|.++++
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~Gi~--~v~i~~d~~g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i~V~~a~~  122 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLNPV--RVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNST  122 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCCCS--EEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCe--EEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEEECCC
Confidence            45789999999999999999999999943  6999999999999999999999999999997799999999999999987


Q ss_pred             HHHHH
Q 029263          186 EEMDE  190 (196)
Q Consensus       186 ~~~~~  190 (196)
                      .+...
T Consensus       123 ~~~~~  127 (139)
T 2hgn_A          123 TGASN  127 (139)
T ss_dssp             SCC--
T ss_pred             CCCCC
Confidence            76543

>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=99.82  E-value=5.6e-20  Score=120.49  Aligned_cols=80  Identities=20%  Similarity=0.205  Sum_probs=72.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. ||..++|+.|+|.++
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRIS-DARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   83 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEe-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEec
Confidence            457899999999999999999999999876 78998885 899999999999999999999975 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        84 ~~k   86 (87)
T 3bs9_A           84 TRK   86 (87)
T ss_dssp             C--
T ss_pred             CCC
Confidence            763

>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=99.82  E-value=7.1e-20  Score=124.68  Aligned_cols=80  Identities=24%  Similarity=0.379  Sum_probs=74.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ...+.+|||+|||+.+|+++|+++|++||.+. .|.++.+.+|.++|||||+|.+.++|.+|+.. |+..|+|+.|.|.+
T Consensus        26 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  104 (107)
T 3ulh_A           26 VETGGKLLVSNLDFGVSDADIQELFAEFGTLK-KAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL  104 (107)
T ss_dssp             CCCSEEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            34568999999999999999999999999776 89999999999999999999999999999985 99999999999998


Q ss_pred             CC
Q 029263          183 SS  184 (196)
Q Consensus       183 ~~  184 (196)
                      ++
T Consensus       105 a~  106 (107)
T 3ulh_A          105 VT  106 (107)
T ss_dssp             EC
T ss_pred             eC
Confidence            75

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.82  E-value=8e-20  Score=122.74  Aligned_cols=81  Identities=16%  Similarity=0.404  Sum_probs=74.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|.+|+.+|+..|+|+.|.|.++
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVT-EVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEE-EEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3567999999999999999999999999776 78888875 799999999999999999999999999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        87 ~~~   89 (99)
T 2dgs_A           87 EPR   89 (99)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            754

>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=99.82  E-value=6.9e-20  Score=122.06  Aligned_cols=79  Identities=19%  Similarity=0.232  Sum_probs=73.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|++||.+. .|.++.+.+|.++|||||+|.+.++|.+|+. +|+..++|+.|+|.++
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLT-KVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGP   92 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEE-EEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEc
Confidence            3568999999999999999999999999776 7999999899999999999999999999998 5999999999999988


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      +
T Consensus        93 ~   93 (95)
T 2ywk_A           93 S   93 (95)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.82  E-value=1.7e-20  Score=126.45  Aligned_cols=83  Identities=17%  Similarity=0.245  Sum_probs=75.4

Q ss_pred             cccEEEEcCCCC------CCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCC-e
Q 029263          106 HTGILRLRGLPF------SAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGS-R  176 (196)
Q Consensus       106 ~~~~l~v~nLp~------~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~g-r  176 (196)
                      .+.+|||+|||+      ++++++|+++|++||.+. +|.|+.++ +|+++|||||+|.+.++|.+|+. +||..|+| +
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~-~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r   83 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVV-NMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH   83 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEE-EEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEe-EEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCe
Confidence            467999999999      999999999999999776 79998887 69999999999999999999996 59999999 9


Q ss_pred             EEEEEECChHHHH
Q 029263          177 YIELFPSSHEEMD  189 (196)
Q Consensus       177 ~i~V~~~~~~~~~  189 (196)
                      .|.|.++.+.+-.
T Consensus        84 ~l~V~~a~~~~~~   96 (100)
T 3ns6_A           84 RLFLYTMKDVERY   96 (100)
T ss_dssp             BCEEEESHHHHHH
T ss_pred             EEEEEECchhhhh
Confidence            9999999776543

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.82  E-value=1.3e-19  Score=122.64  Aligned_cols=80  Identities=24%  Similarity=0.348  Sum_probs=72.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.|| +. .|.++.+. +|.++|||||+|.+.++|.+|+.+|+..|+|+.|+|.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   90 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IR-SVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIA   90 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSC-EE-EEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC-ce-EEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEe
Confidence            3467999999999999999999999998 43 69998887 799999999999999999999966999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        91 ~~~   93 (103)
T 2dng_A           91 EGR   93 (103)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            753

>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=99.82  E-value=1.7e-20  Score=123.96  Aligned_cols=79  Identities=20%  Similarity=0.207  Sum_probs=67.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCC--CccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g--~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      .+|||+|||+++|+++|+++|++||  .+. ++.++.+. +|.++|||||+|.+.++|++|+. +||..++||.|.|.++
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~-~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~   80 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDIL-EIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPS   80 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCC-CEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceE-EEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEEC
Confidence            3699999999999999999999999  665 79998886 89999999999999999999996 5999999999999999


Q ss_pred             ChHH
Q 029263          184 SHEE  187 (196)
Q Consensus       184 ~~~~  187 (196)
                      .+..
T Consensus        81 ~~~~   84 (90)
T 3p5t_L           81 NKLE   84 (90)
T ss_dssp             ----
T ss_pred             CCCc
Confidence            7653

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.82  E-value=1.6e-19  Score=121.25  Aligned_cols=79  Identities=22%  Similarity=0.357  Sum_probs=72.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccce--------EEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDS--------IHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLG  174 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~--------v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~  174 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .        |.++.++ +|.++|||||+|.+.++|.+|+. +||..++
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQIGIIK-TNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTTSCBC-EETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCEe-eccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3567999999999999999999999999876 6        8888885 89999999999999999999997 5999999


Q ss_pred             CeEEEEEECC
Q 029263          175 SRYIELFPSS  184 (196)
Q Consensus       175 gr~i~V~~~~  184 (196)
                      |+.|+|.+++
T Consensus        90 g~~l~V~~A~   99 (99)
T 2la6_A           90 GNPIKVSFAT   99 (99)
T ss_dssp             SSBCEEEECC
T ss_pred             CcEEEEEecC
Confidence            9999999874

>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=99.82  E-value=9.3e-20  Score=122.39  Aligned_cols=81  Identities=26%  Similarity=0.475  Sum_probs=74.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|+|.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   84 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLS-ELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLP   84 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEe-EEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            3567999999999999999999999999776 78888887 89999999999999999999995 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        85 a~~~   88 (99)
T 1whw_A           85 STIK   88 (99)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9765

>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=99.82  E-value=6.3e-20  Score=119.73  Aligned_cols=78  Identities=27%  Similarity=0.310  Sum_probs=71.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-CCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-SDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .|.++.+ .+|.++|+|||+|.+.++|.+|+. +||..++|+.|+|.++
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDIT-DIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEE-EEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEE-EEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            567999999999999999999999999776 7888777 589999999999999999999996 4999999999999987


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        85 k   85 (85)
T 3mdf_A           85 K   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.81  E-value=1.8e-19  Score=122.28  Aligned_cols=80  Identities=18%  Similarity=0.275  Sum_probs=74.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC---eEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS---RYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g---r~i~V~  181 (196)
                      .+.+|||+|||+.+|+++|+++|+.||.+. .|.|+.+.+|.++|||||+|.+.++|.+|+.. |+..+.|   +.|.|.
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~   92 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVID-ECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVK   92 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEE-EEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEE
Confidence            467999999999999999999999999776 89999999999999999999999999999974 9999988   999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus        93 ~a~~~   97 (105)
T 2dnh_A           93 FADTD   97 (105)
T ss_dssp             ESCSS
T ss_pred             ECccC
Confidence            99754

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

Probab=99.81  E-value=1.9e-19  Score=119.67  Aligned_cols=79  Identities=18%  Similarity=0.296  Sum_probs=72.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|.+|+. +|+..|+|+.|+|.+
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVV-KVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTTSCEE-EEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeE-EEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            3457899999999999999999999999776 78888776 68999999999999999999996 599999999999998


Q ss_pred             CC
Q 029263          183 SS  184 (196)
Q Consensus       183 ~~  184 (196)
                      +.
T Consensus        93 ak   94 (94)
T 2e5h_A           93 AI   94 (94)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

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

Probab=99.81  E-value=2.7e-19  Score=123.41  Aligned_cols=82  Identities=21%  Similarity=0.234  Sum_probs=74.8

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. |+..|+|+.|+|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   90 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRIS-DARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   90 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            34568999999999999999999999999876 79998885 899999999999999999999975 9999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus        91 ~a~~~   95 (115)
T 2dgo_A           91 WATRK   95 (115)
T ss_dssp             ESSCC
T ss_pred             EccCC
Confidence            99653

>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=99.81  E-value=1.1e-19  Score=125.14  Aligned_cols=84  Identities=20%  Similarity=0.192  Sum_probs=75.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|.+|+.+|+..|+|+.|.|.++
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a  101 (114)
T 2cq4_A           23 RDARTVFCMQLAARIRPRDLEDFFSAVGKVR-DVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTSCEE-EEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEe-EEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEEec
Confidence            3457999999999999999999999999776 78888877 589999999999999999999966999999999999998


Q ss_pred             ChHHHH
Q 029263          184 SHEEMD  189 (196)
Q Consensus       184 ~~~~~~  189 (196)
                      .+....
T Consensus       102 ~~~~~~  107 (114)
T 2cq4_A          102 QAEKNR  107 (114)
T ss_dssp             HHHHHH
T ss_pred             CCCccC
Confidence            766543

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

Probab=99.81  E-value=1.8e-19  Score=121.87  Aligned_cols=81  Identities=19%  Similarity=0.302  Sum_probs=74.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|.+|+. +|+..|+|+.|+|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPFGSIS-RIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEE-EEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeE-EEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            4568999999999999999999999999776 79998885 89999999999999999999998 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        92 a~~~   95 (103)
T 2cq0_A           92 AKPS   95 (103)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            8653

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.81  E-value=1.3e-19  Score=131.63  Aligned_cols=84  Identities=10%  Similarity=0.220  Sum_probs=75.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCC--CccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g--~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      ...+|||+|||+++|+++|+++|+.||  .+. .|.++.|. +|.++|||||+|.+.++|.+|+.. ||..|+||.|.|.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~-~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~  132 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVV-ELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEE-EEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            357999999999999999999999999  565 78998886 899999999999999999999987 9999999999999


Q ss_pred             ECChHHHHH
Q 029263          182 PSSHEEMDE  190 (196)
Q Consensus       182 ~~~~~~~~~  190 (196)
                      ++.+.....
T Consensus       133 ~a~~~~~~~  141 (156)
T 3n9u_C          133 PATRQNLSQ  141 (156)
T ss_dssp             ECCHHHHHH
T ss_pred             EcCCCcchh
Confidence            998875443

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.81  E-value=4.1e-20  Score=117.87  Aligned_cols=74  Identities=15%  Similarity=0.296  Sum_probs=69.1

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. .|.++.++ +|.++|||||+|.+.++|++|+.+|+..++|+.|.|.+|
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVD-DAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCS-EECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEE-EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEeC
Confidence            489999999999999999999999776 78888886 899999999999999999999999999999999999865

>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=99.81  E-value=1.2e-19  Score=119.38  Aligned_cols=79  Identities=19%  Similarity=0.409  Sum_probs=73.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .+.++.+. +|.++|+|||+|.+.++|.+|+.+|+..++|+.|+|.++.
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V~~a~   83 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVN-RVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPKR   83 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEE-EEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEETT
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEEcc
Confidence            357899999999999999999999999776 89998886 8999999999999999999999669999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus        84 ~   84 (89)
T 3ucg_A           84 T   84 (89)
T ss_dssp             T
T ss_pred             C
Confidence            5

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

Probab=99.81  E-value=1.9e-19  Score=121.81  Aligned_cols=80  Identities=18%  Similarity=0.276  Sum_probs=74.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+ +|.++|||||+|.+.++|.+|+.. |+..|+|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTIT-SAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALA   90 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEE-EEEEEEC-SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEcC-CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            3567999999999999999999999999876 7899988 999999999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        91 ~~~   93 (103)
T 2d9p_A           91 QRK   93 (103)
T ss_dssp             SSC
T ss_pred             ccc
Confidence            764

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

Probab=99.81  E-value=1.4e-19  Score=120.83  Aligned_cols=80  Identities=21%  Similarity=0.245  Sum_probs=73.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceE-EEEeC-CCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSI-HITMN-SDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v-~l~~~-~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .+ .++.+ .+|.++|||||+|.+.++|++|+. +|+..|+|+.|+|.+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   82 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVIL-QTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   82 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBS-SCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            457999999999999999999999999776 67 88888 589999999999999999999998 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        83 a~~~   86 (96)
T 1x5t_A           83 AFKK   86 (96)
T ss_dssp             SCCC
T ss_pred             eccc
Confidence            9754

>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=99.81  E-value=7.2e-20  Score=134.22  Aligned_cols=84  Identities=21%  Similarity=0.240  Sum_probs=74.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|.+|+. +||..|+|+.|.|.+
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  148 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIK-NIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDW  148 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEE-EEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3467899999999999999999999999776 78998885 89999999999999999999997 599999999999999


Q ss_pred             CChHHHH
Q 029263          183 SSHEEMD  189 (196)
Q Consensus       183 ~~~~~~~  189 (196)
                      +.+..-.
T Consensus       149 a~~~~~~  155 (165)
T 1rk8_A          149 CFVKGPK  155 (165)
T ss_dssp             SEECC--
T ss_pred             ecCCCCC
Confidence            9765433

>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=99.81  E-value=1.5e-19  Score=122.68  Aligned_cols=81  Identities=21%  Similarity=0.277  Sum_probs=74.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. |+..|+|+.|+|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVV-NTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            3567999999999999999999999999776 78888887 899999999999999999999985 99999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        92 a~~~   95 (105)
T 1x5u_A           92 ASAH   95 (105)
T ss_dssp             TTTT
T ss_pred             CCCC
Confidence            9765

>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=99.81  E-value=3.1e-19  Score=119.57  Aligned_cols=79  Identities=30%  Similarity=0.576  Sum_probs=70.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEE-EeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHI-TMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l-~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .+.+ ....+|.++|||||+|.+.++|++|+.. |+..|+|+.|+|.++
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~-~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGYQVIP-GSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCT-TTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcc-ceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            457899999999999999999999999776 4444 4456899999999999999999999964 999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      ..
T Consensus        93 ~~   94 (98)
T 2cqp_A           93 SG   94 (98)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

>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=99.81  E-value=3.9e-19  Score=122.59  Aligned_cols=81  Identities=17%  Similarity=0.283  Sum_probs=74.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|++|+.. |+..|+|+.|+|.+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  101 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVV-SAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL  101 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCS-EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3457899999999999999999999999776 79998887 899999999999999999999965 99999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus       102 a~~~  105 (115)
T 2cpz_A          102 KRSK  105 (115)
T ss_dssp             CCCS
T ss_pred             cCCC
Confidence            8754

>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=99.81  E-value=1.1e-19  Score=125.49  Aligned_cols=78  Identities=22%  Similarity=0.296  Sum_probs=70.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      ..+|||+|||+++|+++|+++|+.||.+. +|+|+.+.. .++|||||+|.+.++|++|+.. |+..|+||.|.|.++.+
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~-~v~i~~d~~-~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~   82 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNIL-SCKVVCDEN-GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS   82 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEEETT-EEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSC
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEE-EEEEeecCC-CCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            35799999999999999999999999876 799988864 4899999999999999999965 99999999999999865


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        83 ~   83 (115)
T 4f25_A           83 R   83 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.80  E-value=2.1e-19  Score=119.70  Aligned_cols=80  Identities=21%  Similarity=0.354  Sum_probs=73.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|+|.++
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKID-NIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEE-EEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEe-EEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            457999999999999999999999999776 78888876 79999999999999999999998 5999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        83 ~~~   85 (95)
T 2dnz_A           83 TER   85 (95)
T ss_dssp             SCC
T ss_pred             ccc
Confidence            653

>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=99.80  E-value=2.1e-19  Score=121.81  Aligned_cols=79  Identities=18%  Similarity=0.368  Sum_probs=72.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-C-CCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-D-GRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~-g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.|| +. .|.++.+. + |.++|||||+|.+.++|++|+.+|+..|+|+.|.|.++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~-~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           14 PPYTAFLGNLPYDVTEESIKEFFRGLN-IS-AVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EE-EEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHCC-ce-EEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEc
Confidence            457999999999999999999999999 55 78988887 3 89999999999999999999966999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        92 ~~~   94 (104)
T 1wi8_A           92 DQA   94 (104)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            764

>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=99.80  E-value=4.7e-19  Score=119.80  Aligned_cols=81  Identities=25%  Similarity=0.382  Sum_probs=73.2

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      .....+|||+|||+++|+++|+++|+.||.+. .|.++.+..+ ++|||||+|.+.++|.+|+.. |+..|+|+.|+|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~-~v~i~~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   89 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKIL-DVEIIFNERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNN   89 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEE-EEEEECCTTT-TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCC-CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            34568999999999999999999999999776 7888888765 899999999999999999975 99999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        90 a~~~   93 (103)
T 2cq3_A           90 ATAR   93 (103)
T ss_dssp             CCSS
T ss_pred             cccC
Confidence            9764

>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=99.80  E-value=1.9e-19  Score=124.49  Aligned_cols=80  Identities=20%  Similarity=0.306  Sum_probs=74.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|++|+.. ||..|+|+.|.|.++.
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A            6 HPGKLFIGGLNRETNEKMLKAVFGKHGPIS-EVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             SCCEEEEECCTTTCCHHHHHHHHHTSSCCS-EEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            457999999999999999999999999776 79999998999999999999999999999975 9999999999999997


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        85 ~~   86 (116)
T 2fy1_A           85 KP   86 (116)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=1.8e-19  Score=121.67  Aligned_cols=81  Identities=26%  Similarity=0.286  Sum_probs=73.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. |+..|+|+.|+|.+
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDIT-DIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   88 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCC-CEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccCCEE-EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEe
Confidence            3567899999999999999999999999776 78888774 899999999999999999999964 99999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        89 a~~~   92 (102)
T 2cqb_A           89 AKPM   92 (102)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            9754

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

Probab=99.80  E-value=5e-19  Score=121.78  Aligned_cols=80  Identities=15%  Similarity=0.178  Sum_probs=74.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|.+|+. +|+..|+|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~-~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   91 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVV-RADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMD   91 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEE-EEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEc
Confidence            3467899999999999999999999999776 7999999999999999999999999999998 5999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      ..
T Consensus        92 ~~   93 (114)
T 2do0_A           92 ER   93 (114)
T ss_dssp             SC
T ss_pred             cc
Confidence            64

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.80  E-value=9.3e-19  Score=122.30  Aligned_cols=82  Identities=22%  Similarity=0.336  Sum_probs=75.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ...+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|.+|+. +||..++|+.|+|.+
T Consensus        32 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  110 (124)
T 2kt5_A           32 VETGAKLLVSNLDFGVSDADIQELFAEFGTLK-KAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  110 (124)
T ss_dssp             CSSCEEEEEESCCSSCCHHHHHHHHHTTSCCS-EEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            34568999999999999999999999999776 7999988899999999999999999999998 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus       111 a~~~  114 (124)
T 2kt5_A          111 VASQ  114 (124)
T ss_dssp             ECCT
T ss_pred             eCCC
Confidence            8653

>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=99.80  E-value=2e-19  Score=120.14  Aligned_cols=80  Identities=25%  Similarity=0.498  Sum_probs=73.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +.+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. ||..++|+.|+|.++.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVI-NLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEE-EEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            46899999999999999999999999776 78888875 799999999999999999999965 9999999999999997


Q ss_pred             hHH
Q 029263          185 HEE  187 (196)
Q Consensus       185 ~~~  187 (196)
                      +..
T Consensus        81 ~~~   83 (96)
T 2x1f_A           81 NSD   83 (96)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            653

>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=99.80  E-value=3.3e-19  Score=121.81  Aligned_cols=82  Identities=26%  Similarity=0.388  Sum_probs=74.0

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~  181 (196)
                      ...+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +||..++|+.|+|.
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  101 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIE-SIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVG  101 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEE-EEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34567999999999999999999999999776 78888775 79999999999999999999997 49999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus       102 ~a~~k  106 (108)
T 2jrs_A          102 HVTER  106 (108)
T ss_dssp             CSCSS
T ss_pred             EcccC
Confidence            98753

>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=99.80  E-value=2.6e-19  Score=119.24  Aligned_cols=79  Identities=29%  Similarity=0.557  Sum_probs=69.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEe-CCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITM-NSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~-~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|++||.+. .+.++. ..+|.++|||||+|.+.++|++|+.. |+..|+||.|+|.++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a   92 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIP-GSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP   92 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCT-TCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCcc-ceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEec
Confidence            357999999999999999999999999776 455554 45899999999999999999999974 999999999999988


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      +.
T Consensus        93 ~s   94 (95)
T 2ek1_A           93 SS   94 (95)
T ss_dssp             C-
T ss_pred             cC
Confidence            63

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=2e-19  Score=121.41  Aligned_cols=81  Identities=22%  Similarity=0.389  Sum_probs=73.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|+|.+
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   88 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQIS-EVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   88 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCC-EEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeE-EEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            3567999999999999999999999999776 78888775 88899999999999999999995 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        89 a~~~   92 (102)
T 1x5s_A           89 AGKS   92 (102)
T ss_dssp             EECC
T ss_pred             CCCC
Confidence            8653

>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=99.80  E-value=4e-19  Score=121.67  Aligned_cols=81  Identities=15%  Similarity=0.315  Sum_probs=73.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-C------CCccCCe
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-D------RMTLGSR  176 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~------g~~l~gr  176 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. |      +..|+|+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~   91 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLK-YVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   91 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCE
Confidence            3567899999999999999999999999776 78888876 789999999999999999999975 8      9999999


Q ss_pred             EEEEEECChH
Q 029263          177 YIELFPSSHE  186 (196)
Q Consensus       177 ~i~V~~~~~~  186 (196)
                      .|.|.++.+.
T Consensus        92 ~l~v~~a~~~  101 (111)
T 1x4h_A           92 QLKVDLAVTR  101 (111)
T ss_dssp             EEEEECCCCC
T ss_pred             EEEEEECCCC
Confidence            9999998754

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.80  E-value=1.6e-19  Score=122.51  Aligned_cols=83  Identities=22%  Similarity=0.329  Sum_probs=75.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~  182 (196)
                      .....+|||+|||+.+|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|.+|+..|+..|+|+.|.|.+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~V~~   91 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVV-DCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKP   91 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEE-EEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            34568999999999999999999999999776 78898885 89999999999999999999998899999999999999


Q ss_pred             CChHH
Q 029263          183 SSHEE  187 (196)
Q Consensus       183 ~~~~~  187 (196)
                      +.+..
T Consensus        92 a~~~~   96 (105)
T 2dh8_A           92 CTPRG   96 (105)
T ss_dssp             SCCSS
T ss_pred             ccCCC
Confidence            87653

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.80  E-value=3.3e-19  Score=118.01  Aligned_cols=79  Identities=23%  Similarity=0.288  Sum_probs=72.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|++||.+. .|.++. .+|.++|||||+|.+.++|.+|+.. |+..++|+.|+|.++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~-~~~i~~-~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   83 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVL-YADIKM-ENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRID   83 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEE-EEEEEE-SSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEc-cCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            3567999999999999999999999999776 788887 4889999999999999999999975 999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        84 ~~   85 (92)
T 2dgv_A           84 RN   85 (92)
T ss_dssp             SC
T ss_pred             CC
Confidence            65

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.80  E-value=9e-20  Score=129.47  Aligned_cols=80  Identities=20%  Similarity=0.309  Sum_probs=73.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|++|+.. |+..|+|+.|+|.+
T Consensus        45 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~-~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  123 (135)
T 2lea_A           45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVG-DVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM  123 (135)
T ss_dssp             GGCCCEEEECCCSSCHHHHHHHHHGGGSCCS-EEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3467899999999999999999999999776 78888776 899999999999999999999975 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus       124 a~~  126 (135)
T 2lea_A          124 ARY  126 (135)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            865

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=2.8e-19  Score=121.51  Aligned_cols=80  Identities=25%  Similarity=0.313  Sum_probs=73.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. ||..|+|+.|.|.+
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   99 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIK-NIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   99 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeE-EEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEe
Confidence            3567899999999999999999999999776 78888876 799999999999999999999974 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus       100 a~~  102 (106)
T 1p27_B          100 CFV  102 (106)
T ss_dssp             SEE
T ss_pred             ecC
Confidence            864

>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=99.80  E-value=7.4e-19  Score=118.83  Aligned_cols=80  Identities=21%  Similarity=0.391  Sum_probs=72.9

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. ++..|+|+.|.|.++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVL-MVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEE-EEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeE-EEEEEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeEEEEEec
Confidence            3467899999999999999999999999776 78998886 79999999999999999999998 578999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        91 ~~~   93 (103)
T 2cqg_A           91 NSK   93 (103)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            765

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.79  E-value=2e-19  Score=121.65  Aligned_cols=80  Identities=21%  Similarity=0.304  Sum_probs=73.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|.|.+
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   89 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVG-DVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV   89 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEE-EEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEE
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            3567999999999999999999999999776 78888776 69999999999999999999998 599999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        90 a~~   92 (103)
T 2dnm_A           90 ARY   92 (103)
T ss_dssp             CSS
T ss_pred             CCc
Confidence            964

>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=99.79  E-value=1.7e-19  Score=122.11  Aligned_cols=85  Identities=19%  Similarity=0.369  Sum_probs=76.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +||..++|+.|+|.++
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~-~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   85 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVV-SFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCS-EEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCee-EEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeC
Confidence            457899999999999999999999999776 78888775 89999999999999999999997 5999999999999999


Q ss_pred             ChHHHHHH
Q 029263          184 SHEEMDEA  191 (196)
Q Consensus       184 ~~~~~~~~  191 (196)
                      .+......
T Consensus        86 ~~~~~~~~   93 (104)
T 1p1t_A           86 ASEKNKEE   93 (104)
T ss_dssp             TCTTHHHH
T ss_pred             CCccchhh
Confidence            87755544

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.79  E-value=5.2e-19  Score=120.31  Aligned_cols=81  Identities=25%  Similarity=0.387  Sum_probs=73.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHH-h-CCCccCCeEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMA-K-DRMTLGSRYIEL  180 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~-~-~g~~l~gr~i~V  180 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+.  +|.++|||||+|.+.++|.+|+. + |+..|+|+.|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v   91 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTFGELK-TVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   91 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHccCCeE-EEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEE
Confidence            3567899999999999999999999999776 78888873  89999999999999999999996 6 899999999999


Q ss_pred             EECChH
Q 029263          181 FPSSHE  186 (196)
Q Consensus       181 ~~~~~~  186 (196)
                      .++.+.
T Consensus        92 ~~a~~~   97 (107)
T 2cph_A           92 EWADSE   97 (107)
T ss_dssp             EECCCC
T ss_pred             EeCCCC
Confidence            999764

>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=99.79  E-value=8.5e-19  Score=118.53  Aligned_cols=80  Identities=16%  Similarity=0.169  Sum_probs=72.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+..+ ++|||||+|.+.++|.+|+. +|+..|.|+.|+|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCK-SCKMITEHTS-NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWA   90 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEE-EEEEECCCCS-SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEe-EEEEEecCCC-CCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEEC
Confidence            3568999999999999999999999999776 7888887644 79999999999999999997 5999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        91 ~~~   93 (103)
T 2cqi_A           91 TTP   93 (103)
T ss_dssp             CCT
T ss_pred             CCC
Confidence            764

>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=99.79  E-value=6.6e-20  Score=116.88  Aligned_cols=74  Identities=24%  Similarity=0.376  Sum_probs=68.6

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. .|.++.++ +|.++|||||+|.+.++|.+|+..++..++|+.|.|.++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVE-SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCS-EECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEC
Confidence            589999999999999999999999776 78888775 799999999999999999999999999999999999875

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=5.6e-19  Score=121.99  Aligned_cols=80  Identities=19%  Similarity=0.327  Sum_probs=73.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|.+|+..|+..|+|+.|+|.++.
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a~  104 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLT-DCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV  104 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCS-EEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEEEECC
Confidence            458999999999999999999999999776 78998885 7999999999999999999999889999999999999987


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus       105 ~~  106 (116)
T 1x4b_A          105 AR  106 (116)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.79  E-value=2.6e-19  Score=121.21  Aligned_cols=80  Identities=19%  Similarity=0.303  Sum_probs=74.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhc-CCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCc-cCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKD-FVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMT-LGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~-~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~-l~gr~i~V~~  182 (196)
                      ...+|||+|||+++|+++|+++|+. ||.+. .|.++.+.+|.++|||||+|.+.++|.+|+.. |+.. |+|+.|.|.+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~-~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~   86 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCR-GGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSV   86 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHCTTEE-EEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCB
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCCeE-EEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEE
Confidence            4578999999999999999999999 99776 79999998999999999999999999999984 9999 9999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        87 a~~~   90 (104)
T 2dhg_A           87 AIPK   90 (104)
T ss_dssp             CCCC
T ss_pred             ccCC
Confidence            8654

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=7.7e-19  Score=120.70  Aligned_cols=82  Identities=26%  Similarity=0.417  Sum_probs=73.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccc-------eEEEEeC-CCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSED-------SIHITMN-SDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~-------~v~l~~~-~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+..       .|.++.+ .+|.++|||||+|.+.++|.+|+.. |+..|+|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   92 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCC
Confidence            35679999999999999999999999997652       4888888 5899999999999999999999975 9999999


Q ss_pred             eEEEEEECChH
Q 029263          176 RYIELFPSSHE  186 (196)
Q Consensus       176 r~i~V~~~~~~  186 (196)
                      +.|+|.++.+.
T Consensus        93 ~~l~V~~a~~~  103 (113)
T 2cpe_A           93 SKLKVSLARKK  103 (113)
T ss_dssp             EECEEECSSCC
T ss_pred             CEEEEEECCCC
Confidence            99999998754

>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=99.79  E-value=7.4e-20  Score=123.27  Aligned_cols=80  Identities=19%  Similarity=0.356  Sum_probs=71.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.|| +. .|.++.+.  +|+++|||||+|.+.++|.+|+.+||..|+|+.|+|.+
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~-~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~l~V~~   94 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-IS-AVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDV   94 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EE-EEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-Ce-EEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEe
Confidence            3568999999999999999999999999 65 79998885  89999999999999999999996699999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        95 a~~~   98 (100)
T 2j76_E           95 ADQA   98 (100)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            8653

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.79  E-value=3.8e-19  Score=121.69  Aligned_cols=81  Identities=17%  Similarity=0.291  Sum_probs=72.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+..++..|+|+.|.|.++
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~-~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~a  101 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVK-ECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA  101 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEE-EEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeE-EEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEc
Confidence            4567999999999999999999999999876 78998886 799999999999999999999988779999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus       102 ~~~  104 (109)
T 2rs2_A          102 FPR  104 (109)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            653

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.79  E-value=2.2e-19  Score=126.79  Aligned_cols=81  Identities=12%  Similarity=0.228  Sum_probs=73.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccc-eEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCC----ccCCeE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSED-SIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRM----TLGSRY  177 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~-~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~----~l~gr~  177 (196)
                      ....+|||+|||+++|+++|+++|++||.+.. .|+|++++ +|.++|||||+|.+. +|.+|+.. ||.    .|+||.
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~   99 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKT   99 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEE
Confidence            45679999999999999999999999997751 28999988 999999999999999 99999975 999    999999


Q ss_pred             EEEEECChH
Q 029263          178 IELFPSSHE  186 (196)
Q Consensus       178 i~V~~~~~~  186 (196)
                      |.|.++.+.
T Consensus       100 l~V~~a~~~  108 (131)
T 2m2b_A          100 INVEFAKGS  108 (131)
T ss_dssp             CCCEECCCS
T ss_pred             EEEEECCCC
Confidence            999999753

>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=99.79  E-value=2.4e-19  Score=126.30  Aligned_cols=80  Identities=26%  Similarity=0.353  Sum_probs=73.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|++|+.. ||..|+|+.|.|.+
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~-~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIA-DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEE-EEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            4567899999999999999999999999776 78888875 789999999999999999999975 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus       123 a~~  125 (129)
T 2kxn_B          123 SIT  125 (129)
T ss_dssp             CSS
T ss_pred             ecC
Confidence            865

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=4.7e-19  Score=121.20  Aligned_cols=81  Identities=23%  Similarity=0.357  Sum_probs=72.8

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      .....+|||+|||+++|+++|+++|+.||.+. .|.++.+.. .++|||||+|.+.++|++|+.. ||..++|+.|+|.+
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~~~-~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  103 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKIL-DVEIIFNER-GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNN  103 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCS-CEEECCBTT-BCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEE-EEEEEECCC-CCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            34568999999999999999999999999776 789888764 4899999999999999999975 99999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus       104 a~~~  107 (109)
T 2err_A          104 ATAR  107 (109)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8764

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.79  E-value=1e-18  Score=120.99  Aligned_cols=79  Identities=16%  Similarity=0.226  Sum_probs=72.1

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....+|||+|||+++|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|++|+.. ||..|+|+.|+|.
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  115 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVI-SAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQ  115 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEE-EEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34568999999999999999999999999776 78888775 799999999999999999999975 9999999999999


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      ++
T Consensus       116 ~a  117 (118)
T 2khc_A          116 LK  117 (118)
T ss_dssp             EC
T ss_pred             ec
Confidence            87

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=1.4e-18  Score=120.01  Aligned_cols=79  Identities=16%  Similarity=0.293  Sum_probs=72.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.|+.++ +|.++|||||+|.+.++|++|+.. |+ .|.|+.|+|.+
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~   92 (116)
T 2cqd_A           15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIE-EAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   92 (116)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEE-EEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCee-EEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEE
Confidence            3568999999999999999999999999776 78888875 799999999999999999999987 77 89999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        93 a~~   95 (116)
T 2cqd_A           93 AYL   95 (116)
T ss_dssp             STT
T ss_pred             ccc
Confidence            864

>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=99.79  E-value=4.6e-19  Score=120.43  Aligned_cols=81  Identities=19%  Similarity=0.270  Sum_probs=73.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCcc---CCeEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTL---GSRYIE  179 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l---~gr~i~  179 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..+   .|+.|.
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIY-ELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCC-EEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            3567999999999999999999999999776 78888876 79999999999999999999997 599887   899999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++.+.
T Consensus        90 v~~a~~~   96 (106)
T 2dgp_A           90 VKPADSE   96 (106)
T ss_dssp             EEECCCC
T ss_pred             EEECCcc
Confidence            9999754

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.79  E-value=7.3e-19  Score=117.97  Aligned_cols=81  Identities=22%  Similarity=0.226  Sum_probs=73.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeE----E
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRY----I  178 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~----i  178 (196)
                      ....+|||+|||+++|+++|+++|++||.+...|.++.++ +|.++|||||+|.+.++|++|+.. ||..+.|+.    |
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l   86 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRF   86 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEEC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeE
Confidence            3567999999999999999999999999654368888886 899999999999999999999985 999999999    9


Q ss_pred             EEEECCh
Q 029263          179 ELFPSSH  185 (196)
Q Consensus       179 ~V~~~~~  185 (196)
                      +|.++++
T Consensus        87 ~v~~a~~   93 (99)
T 2div_A           87 KLNYATY   93 (99)
T ss_dssp             CEEETTC
T ss_pred             EEeecCC
Confidence            9999864

>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=99.78  E-value=4.8e-19  Score=121.15  Aligned_cols=80  Identities=23%  Similarity=0.258  Sum_probs=73.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +||..|+|+.|.|.+
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  102 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIK-NIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDW  102 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEE-EEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            3567999999999999999999999999776 78888775 89999999999999999999997 599999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus       103 a~~  105 (110)
T 1oo0_B          103 CFV  105 (110)
T ss_dssp             SEE
T ss_pred             ccc
Confidence            864

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=4.9e-19  Score=118.60  Aligned_cols=80  Identities=20%  Similarity=0.260  Sum_probs=71.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC----CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS----DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~----~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.++.+.    +|.++|||||+|.+.++|.+|+.. |+..|+|+.|+|
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIK-SCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEV   82 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            457899999999999999999999999776 78887765    348999999999999999999985 999999999999


Q ss_pred             EECChH
Q 029263          181 FPSSHE  186 (196)
Q Consensus       181 ~~~~~~  186 (196)
                      .++.+.
T Consensus        83 ~~a~~~   88 (98)
T 2cpf_A           83 RISERA   88 (98)
T ss_dssp             ECSSCS
T ss_pred             EEccCC
Confidence            998654

>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=99.78  E-value=7.1e-19  Score=117.55  Aligned_cols=77  Identities=16%  Similarity=0.265  Sum_probs=70.6

Q ss_pred             cccEEEEcCCCCCCCHHHHH----HHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIM----DFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~----~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V  180 (196)
                      ...+|||+|||+.+|+++|+    ++|++||.+. .|.++.+..+  +|||||+|.+.++|.+|+. +||..|+||.|+|
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~-~v~i~~~~~~--rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V   84 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVK-SVELSPHTDY--QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILV   84 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEE-EEEECSCCST--TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEE-EEEEEeCCCC--CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            45789999999999999999    9999999776 7999888766  8999999999999999997 5999999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .++.+
T Consensus        85 ~~a~~   89 (96)
T 2dgx_A           85 SLATG   89 (96)
T ss_dssp             EECCC
T ss_pred             EEcCC
Confidence            99865

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.78  E-value=1.3e-18  Score=117.28  Aligned_cols=78  Identities=28%  Similarity=0.465  Sum_probs=71.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.    |.++.+.+|.++|||||+|.+.++|++|+. +|+..|+|+.|+|.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~----v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATF----IKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSE----EECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCE----EEEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            35689999999999999999999999984    567777899999999999999999999998 5999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        89 ~~~   91 (101)
T 2fc9_A           89 GPR   91 (101)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            764

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.78  E-value=6.3e-19  Score=118.09  Aligned_cols=76  Identities=14%  Similarity=0.173  Sum_probs=66.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCc--cCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMT--LGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~--l~gr~i~V~  181 (196)
                      .++.+|||+|||+.+|+++|+++|++||.+. +|.+++     ++|+|||+|.+.++|.+|+.. |+..  ++||+|.|.
T Consensus        19 ~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~-~v~i~~-----~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~   92 (100)
T 3r27_A           19 PASPVVHIRGLIDGVVEADLVEALQEFGPIS-YVVVMP-----KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVN   92 (100)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEET-----TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHhccCCEE-EEEEEc-----CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEE
Confidence            3567999999999999999999999999876 777773     578999999999999999975 7664  899999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      +++.+
T Consensus        93 ~S~~k   97 (100)
T 3r27_A           93 YSTSQ   97 (100)
T ss_dssp             ECSCS
T ss_pred             ecccc
Confidence            99764

>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=99.78  E-value=4.5e-19  Score=116.33  Aligned_cols=79  Identities=20%  Similarity=0.327  Sum_probs=70.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCC-CceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGR-PTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~-~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .+.++.+. ++. ++|+|||+|.+.++|.+|+.. ||..++|+.|+|.+
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   81 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIK-MIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATA   81 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEE
Confidence            356899999999999999999999999776 78887776 333 899999999999999999985 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        82 a~~   84 (88)
T 4a8x_A           82 VLA   84 (88)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            865

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=3.6e-19  Score=113.96  Aligned_cols=73  Identities=18%  Similarity=0.333  Sum_probs=68.1

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. .+.++.++ +|.++|+|||+|.+.++|.+|+.. | ..++|+.|.|.++
T Consensus         2 ~l~v~nlp~~~t~~~l~~~F~~~G~v~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            2 KMFIGGLSWQTTQEGLREYFGQFGEVK-ECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCC-CEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            699999999999999999999999776 78998886 799999999999999999999987 7 9999999999886

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.78  E-value=2.1e-18  Score=122.71  Aligned_cols=79  Identities=28%  Similarity=0.307  Sum_probs=71.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~  181 (196)
                      .....+|||+|||+.+|+++|+++|++||.+. .|.++.++ +|.++|||||+|.+.++|.+|+. +||..|+|+.|+|.
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  138 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDIT-DIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN  138 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEE-EEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEE-EEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            34568999999999999999999999999876 78888874 89999999999999999999996 49999999999998


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      +|
T Consensus       139 ~A  140 (140)
T 2ku7_A          139 LA  140 (140)
T ss_dssp             C-
T ss_pred             eC
Confidence            75

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.77  E-value=8.3e-19  Score=122.48  Aligned_cols=79  Identities=23%  Similarity=0.405  Sum_probs=72.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.++.++ +|.++|||||+|.+.++|.+|+.+||..|+|+.|.|.++.
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSIN-RITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTSCEE-EEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEEESS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            357999999999999999999999999776 78888874 8999999999999999999999669999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus       114 ~  114 (124)
T 2jwn_A          114 T  114 (124)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.77  E-value=6.7e-19  Score=119.60  Aligned_cols=78  Identities=18%  Similarity=0.275  Sum_probs=70.9

Q ss_pred             cccEEEEcCCCCCC------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCe-E
Q 029263          106 HTGILRLRGLPFSA------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSR-Y  177 (196)
Q Consensus       106 ~~~~l~v~nLp~~~------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr-~  177 (196)
                      .+.+|||+|||+.+      |+++|+++|++||.+. .|.++ ..+|.++|||||+|.+.++|.+|+.. ||..|+|+ .
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~-~v~i~-~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~   91 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKIT-NDFYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHT   91 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEE-EEECC-CBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCE
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEE-EEEee-CCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCce
Confidence            35789999999999      7899999999999776 67777 57899999999999999999999985 99999999 9


Q ss_pred             EEEEECCh
Q 029263          178 IELFPSSH  185 (196)
Q Consensus       178 i~V~~~~~  185 (196)
                      |.|.+++.
T Consensus        92 l~V~~a~~   99 (105)
T 2nlw_A           92 FRVNLFTD   99 (105)
T ss_dssp             EEEECSCC
T ss_pred             EEEEEcch
Confidence            99999864

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=4.7e-19  Score=119.85  Aligned_cols=76  Identities=17%  Similarity=0.291  Sum_probs=67.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hC--CCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KD--RMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~--g~~l~gr~i~V~  181 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++.+     +|||||+|.+.++|..|+. ++  +..|.||+|.|.
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~-~v~i~~~-----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~   87 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVT-NLLMLKG-----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ   87 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEE-EEEEETT-----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEcC-----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            3567999999999999999999999999776 7888754     7899999999999999997 44  578999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus        88 ~A~~~   92 (105)
T 1sjq_A           88 FSNHK   92 (105)
T ss_dssp             CCSSS
T ss_pred             EcCCC
Confidence            99764

>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=99.77  E-value=5.6e-18  Score=116.53  Aligned_cols=80  Identities=19%  Similarity=0.237  Sum_probs=73.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCcc--------CC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTL--------GS  175 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l--------~g  175 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|.+|+. +||..|        .+
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~  101 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVI-STRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT  101 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEE-EEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCC
Confidence            3457999999999999999999999999776 7999999899999999999999999999997 499999        68


Q ss_pred             eEEEEEECCh
Q 029263          176 RYIELFPSSH  185 (196)
Q Consensus       176 r~i~V~~~~~  185 (196)
                      ++|.|.++.+
T Consensus       102 ~~l~v~~a~p  111 (114)
T 1x5o_A          102 EPLLCKFSGP  111 (114)
T ss_dssp             SCBEEEECCC
T ss_pred             CceeEEccCC
Confidence            8899999874

>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=99.77  E-value=1.7e-18  Score=133.34  Aligned_cols=85  Identities=16%  Similarity=0.181  Sum_probs=76.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCC--CccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFV--LSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g--~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~  181 (196)
                      ...+|||+|||+++|+++|+++|+.||  .+. .|.|+.+. +|+++|||||+|.+.++|.+||. +|+..|+|+.|.|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~-~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~  145 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDIL-EIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT  145 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEE-EEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEE
Confidence            456899999999999999999999999  565 79999886 99999999999999999999997 49999999999999


Q ss_pred             ECChHHHHHH
Q 029263          182 PSSHEEMDEA  191 (196)
Q Consensus       182 ~~~~~~~~~~  191 (196)
                      ++.+......
T Consensus       146 ~a~~~~~~~~  155 (229)
T 3q2s_C          146 PVNKQFLSQF  155 (229)
T ss_dssp             ECCHHHHHHH
T ss_pred             ECCCCccchh
Confidence            9998765543

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.77  E-value=2e-18  Score=122.92  Aligned_cols=82  Identities=15%  Similarity=0.262  Sum_probs=74.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      .....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+.. |+..|+|+.|+|.
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  117 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIE-SVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA  117 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEE-EEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            34568999999999999999999999999776 78888776 789999999999999999999975 9999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus       118 ~a~~~  122 (139)
T 1u6f_A          118 LAASG  122 (139)
T ss_dssp             ESSCC
T ss_pred             ECCCC
Confidence            99754

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

Probab=99.77  E-value=3.4e-19  Score=115.37  Aligned_cols=71  Identities=20%  Similarity=0.342  Sum_probs=64.8

Q ss_pred             cEEEEcCCCCCC------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCe-EEE
Q 029263          108 GILRLRGLPFSA------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSR-YIE  179 (196)
Q Consensus       108 ~~l~v~nLp~~~------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr-~i~  179 (196)
                      .+|||+|||+.+      |+++|+++|++||.+. .|.++ ..+|.++|||||+|.+.++|.+|+.. ||..++|+ +|+
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~-~v~i~-~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~   79 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKIT-NDFYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFR   79 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEE-EEECC-CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCC
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeE-EEEec-CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEE
Confidence            589999999999      7899999999999776 67777 56899999999999999999999975 99999999 887


Q ss_pred             E
Q 029263          180 L  180 (196)
Q Consensus       180 V  180 (196)
                      |
T Consensus        80 V   80 (81)
T 2krb_A           80 V   80 (81)
T ss_dssp             C
T ss_pred             e
Confidence            6

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.76  E-value=6.7e-19  Score=118.83  Aligned_cols=80  Identities=18%  Similarity=0.368  Sum_probs=74.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+.+|.++|||||+|.+.++|.+|+. |+..|+|+.|.|..+.
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~v~~a~   84 (102)
T 2xs2_A            7 IMPNTVFVGGIDVRMDETEIRSFFARYGSVK-EVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLKLGPAI   84 (102)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeE-EEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeECCEEEEEEECC
Confidence            3457999999999999999999999999776 8999999899999999999999999999999 9999999999999886


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        85 ~~   86 (102)
T 2xs2_A           85 RK   86 (102)
T ss_dssp             EC
T ss_pred             cC
Confidence            44

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.76  E-value=4.1e-18  Score=114.90  Aligned_cols=78  Identities=22%  Similarity=0.311  Sum_probs=69.9

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+++|+++|+++|+.|+    .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|.|.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~----~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSV----RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDW   88 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCS----EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCe----EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            3567899999999999999999999863    47777775 89999999999999999999997 599999999999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        89 a~~~   92 (102)
T 2fc8_A           89 AKPK   92 (102)
T ss_dssp             CCCC
T ss_pred             ecCC
Confidence            9764

>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=99.76  E-value=1.4e-18  Score=119.19  Aligned_cols=80  Identities=15%  Similarity=0.344  Sum_probs=71.4

Q ss_pred             cccEEEEcCCCCCCCHHHHH---HHhhcCCCccceEEEEeCC----CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeE
Q 029263          106 HTGILRLRGLPFSAGKDDIM---DFFKDFVLSEDSIHITMNS----DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~---~~F~~~g~~~~~v~l~~~~----~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~  177 (196)
                      ...+|||+|||+++|+++|+   ++|++||.+. .|.++.+.    .+.++|||||+|.+.++|++|+.. |+..|+|+.
T Consensus        14 ~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~-~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~   92 (111)
T 2cpi_A           14 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIH-KVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   92 (111)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEE-EEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhhccCCEE-EEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEE
Confidence            45789999999999999999   9999999776 78888775    236779999999999999999986 999999999


Q ss_pred             EEEEECChH
Q 029263          178 IELFPSSHE  186 (196)
Q Consensus       178 i~V~~~~~~  186 (196)
                      |+|.++.+.
T Consensus        93 l~V~~a~~k  101 (111)
T 2cpi_A           93 LKASLGTTK  101 (111)
T ss_dssp             EEEESCCCC
T ss_pred             EEEEecccc
Confidence            999999764

>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=99.76  E-value=1.8e-18  Score=121.12  Aligned_cols=80  Identities=25%  Similarity=0.309  Sum_probs=73.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|.+|+. +|+..|+|+.|.|.+
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   98 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIK-NIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   98 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            3467999999999999999999999999776 78888886 89999999999999999999996 599999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        99 a~~  101 (126)
T 3ex7_B           99 CFV  101 (126)
T ss_dssp             SEE
T ss_pred             ecC
Confidence            954

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=2.8e-19  Score=116.73  Aligned_cols=78  Identities=15%  Similarity=0.243  Sum_probs=70.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+|||+.+|+++|+++|++||.+. .+.++.++ +|.++|||||+|.+.++|.+|+.. ||..++|+.|+|..+
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~-~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIV-STKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEE-EEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            467999999999999999999999999776 78888875 799999999999999999999974 999999999988765


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      +
T Consensus        83 ~   83 (85)
T 1x4e_A           83 S   83 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.76  E-value=4.1e-18  Score=123.65  Aligned_cols=80  Identities=20%  Similarity=0.259  Sum_probs=73.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.|+.+. ++.++|||||+|.+.++|++|+.. |+..|+|+.|+|.+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  115 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIK-KIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW  115 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            4568999999999999999999999999876 79998887 799999999999999999999985 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus       116 a~~  118 (156)
T 1h2v_Z          116 DAG  118 (156)
T ss_dssp             ESC
T ss_pred             CCC
Confidence            964

>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=99.76  E-value=5.1e-18  Score=114.40  Aligned_cols=77  Identities=21%  Similarity=0.254  Sum_probs=67.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh---CCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK---DRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~---~g~~l~gr~i~V~  181 (196)
                      ..+.+|||+|||+.+|+++|+++|++||.+. .|.++.+     +|||||+|.+.++|.+|+..   ++..+.||+|.|.
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~-~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~   86 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFGKVT-NILMLKG-----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQ   86 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEE-EEEEETT-----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEECC-----CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEE
Confidence            3567999999999999999999999999776 6777753     78999999999999999963   5788999999999


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      ++...+
T Consensus        87 ~a~~~~   92 (101)
T 2cq1_A           87 YSNHKE   92 (101)
T ss_dssp             ECSCSS
T ss_pred             EcCccc
Confidence            997643

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.1e-17  Score=114.19  Aligned_cols=78  Identities=19%  Similarity=0.222  Sum_probs=69.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.+..  ++.++|||||+|.+.++|.+|+. +|+..|+|+.|.|.++
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~-~~~i~~--~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   96 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIR-DIDLKN--RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFP   96 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEECC--SSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEE--CCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEc
Confidence            3467999999999999999999999999776 677744  46689999999999999999995 5999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        97 ~~   98 (109)
T 1x4a_A           97 RS   98 (109)
T ss_dssp             CC
T ss_pred             cc
Confidence            65

>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=99.76  E-value=1.8e-18  Score=119.39  Aligned_cols=97  Identities=15%  Similarity=0.071  Sum_probs=57.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||.|.+|.+....+.++|||||+|.+.++|++|| ++++..++|+.|.|..+.+.....        
T Consensus        16 ~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~~~~~--------   87 (115)
T 4f25_A           16 SIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKERE--------   87 (115)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCCCC----------
T ss_pred             CCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCccccc--------
Confidence            47999999999999999998654334568999999999999999999 589999999999997665221000        


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHH
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDD  123 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~  123 (196)
                                   .   ...........|||+|||+++|++.
T Consensus        88 -------------~---~~~~~~~~~~~lyv~Nl~~~~T~~a  113 (115)
T 4f25_A           88 -------------A---ELGARAKEFTNVYIKNFGPGSTRAA  113 (115)
T ss_dssp             ------------------------------------------
T ss_pred             -------------c---ccccccCCCCceEeCCCCCCccccc
Confidence                         0   0000111234699999999999874

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.75  E-value=5.1e-19  Score=119.20  Aligned_cols=80  Identities=15%  Similarity=0.148  Sum_probs=70.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|+.||.+.. +.+....+|.++|||||+|.+.++|.+|+.+|+..|+|+.|.|.++.+
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~~   94 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKG   94 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEEECCSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEEEEcCC
Confidence            4679999999999999999999999997763 333333478999999999999999999999999999999999999865


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        95 ~   95 (101)
T 1fj7_A           95 R   95 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.75  E-value=2.6e-18  Score=118.84  Aligned_cols=77  Identities=18%  Similarity=0.303  Sum_probs=67.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-C--CCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-D--RMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~--g~~l~gr~i~V~  181 (196)
                      ..+.+|||+|||+++|+++|+++|++||.+. .|.++.+     +|||||+|.+.++|.+|+.. +  +..|+||+|.|.
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~-~v~i~~~-----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~  102 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVT-NLLMLKG-----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ  102 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSCCC-EEEEEGG-----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEeCC-----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEE
Confidence            3467999999999999999999999999776 7888854     78999999999999999974 5  578999999999


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      ++.+.+
T Consensus       103 ~a~~k~  108 (119)
T 2ad9_A          103 FSNHKE  108 (119)
T ss_dssp             ECSSSS
T ss_pred             EccCCC
Confidence            997653

>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=99.75  E-value=4.9e-19  Score=116.77  Aligned_cols=79  Identities=20%  Similarity=0.350  Sum_probs=69.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      ++|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.+ |.+|+.. ||..++|+.|+|.++.+
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVF-NVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANP   79 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCS-EEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC--
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEE-EEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCC
Confidence            4799999999999999999999999776 78888876 6999999999999999 9999976 99999999999999977


Q ss_pred             HHH
Q 029263          186 EEM  188 (196)
Q Consensus       186 ~~~  188 (196)
                      ...
T Consensus        80 ~~~   82 (90)
T 2ki2_A           80 KKS   82 (90)
T ss_dssp             ---
T ss_pred             CCC
Confidence            543

>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=99.75  E-value=1.1e-18  Score=145.98  Aligned_cols=80  Identities=18%  Similarity=0.307  Sum_probs=73.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|.++|+.||.+. .|.|+.+. +|.++|||||+|.+.++|.+||.. ||..|+|+.|.|.++
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~-~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a  179 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIK-RIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVE  179 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCee-EEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            457899999999999999999999999776 78888885 899999999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      ...
T Consensus       180 ~~~  182 (437)
T 3pgw_S          180 RGR  182 (437)
T ss_pred             CCC
Confidence            754

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.75  E-value=3e-18  Score=117.43  Aligned_cols=77  Identities=13%  Similarity=0.185  Sum_probs=67.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCC-CccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFV-LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g-~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++|| .+. .+.+..   +.++|||||+|.+.++|++|+.. ||..|+||.|.|.++
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~-~v~i~~---~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a  102 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETT-FSSVNT---RDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERD  102 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCS-EEECSS---CSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeE-EEEEEc---CCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            457899999999999999999999999 665 566642   35889999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      ...
T Consensus       103 ~~~  105 (111)
T 2jvr_A          103 DNP  105 (111)
T ss_dssp             CC-
T ss_pred             CCC
Confidence            754

>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=99.75  E-value=3.1e-18  Score=116.86  Aligned_cols=80  Identities=19%  Similarity=0.203  Sum_probs=70.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCC-ccceEEEE-eCC-CCCCceEEEEEeCCHHHHHHHHHh-C--CCccCCeEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVL-SEDSIHIT-MNS-DGRPTGEAFVEFANAEDSKAAMAK-D--RMTLGSRYIE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~-~~~~v~l~-~~~-~g~~~G~afV~F~~~~~A~~Al~~-~--g~~l~gr~i~  179 (196)
                      ...+|||+|||+.+|+++|+++|+.||. +. .|.++ .+. +|.++|||||+|.+.++|.+|+.. |  +..++|+.|+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~-~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~   85 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVL-DVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIA   85 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEE-EEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCce-EEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEE
Confidence            4578999999999999999999999986 65 67776 444 789999999999999999999974 5  5899999999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++.+.
T Consensus        86 V~~a~~~   92 (109)
T 2dis_A           86 VDWAEPE   92 (109)
T ss_dssp             EEESCSS
T ss_pred             EEEcCCC
Confidence            9999754

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.75  E-value=2.7e-18  Score=120.41  Aligned_cols=79  Identities=11%  Similarity=0.144  Sum_probs=68.9

Q ss_pred             cccEEEEcCCCCCCCHHHHH----HHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIM----DFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~----~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      .+.+|||+|||+.+++++|+    ++|++||.+. .|.+.  .+|.++|||||+|.+.++|..|+.. ||..|.|++|.|
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~-~v~i~--~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V  104 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDIL-DIVVD--LSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVI  104 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEE-EEEEC--CCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeE-EEEec--cCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEE
Confidence            46789999999999999876    7999999765 55553  4788999999999999999999965 999999999999


Q ss_pred             EECChHH
Q 029263          181 FPSSHEE  187 (196)
Q Consensus       181 ~~~~~~~  187 (196)
                      .++....
T Consensus       105 ~~a~~~~  111 (127)
T 2a3j_A          105 TFSETPQ  111 (127)
T ss_dssp             EECCCCC
T ss_pred             EEccCcc
Confidence            9997653

>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=99.75  E-value=3.1e-18  Score=115.52  Aligned_cols=74  Identities=16%  Similarity=0.231  Sum_probs=65.1

Q ss_pred             cccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CC--CccCCeEEEEE
Q 029263          106 HTGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DR--MTLGSRYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g--~~l~gr~i~V~  181 (196)
                      .+.+|||+|||+ .+|+++|+++|++||.+. +|.++.+     +|||||+|.+.++|.+|+.. |+  ..|.||+|.|.
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~-~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~   87 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVIS-NHLILNK-----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVH   87 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEE-EEEECSS-----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEE-EEEEEcC-----CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEE
Confidence            567999999999 999999999999999776 7888753     47999999999999999964 64  56999999999


Q ss_pred             ECCh
Q 029263          182 PSSH  185 (196)
Q Consensus       182 ~~~~  185 (196)
                      ++..
T Consensus        88 ~a~~   91 (102)
T 1x4d_A           88 LSQK   91 (102)
T ss_dssp             EECC
T ss_pred             ECCC
Confidence            9874

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.74  E-value=1.1e-17  Score=111.81  Aligned_cols=77  Identities=14%  Similarity=0.277  Sum_probs=67.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+.  +.++.   +.++|||||+|.+.++|.+|+.. ||..|+|+.|.|.++
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~--~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   91 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP--LRLTW---QGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALA   91 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC--SEEEE---ETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEEC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE--EEEEc---CCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            3467999999999999999999999999775  45553   47889999999999999999965 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        92 ~~~   94 (97)
T 2e5j_A           92 RQQ   94 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            753

>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=99.74  E-value=1.4e-17  Score=113.53  Aligned_cols=74  Identities=24%  Similarity=0.300  Sum_probs=67.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC-----eEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS-----RYIE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g-----r~i~  179 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .|.++.+      |||||+|.+.++|++|+.. |+..|.|     +.|.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~   86 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVC-YADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   86 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEE-EEEEETT------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEe-EEEEecC------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEE
Confidence            467999999999999999999999999776 7888765      8999999999999999985 9999999     9999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++.+.
T Consensus        87 V~~a~~~   93 (108)
T 1x4c_A           87 VKVDGPR   93 (108)
T ss_dssp             EEESSCC
T ss_pred             EEeCCCC
Confidence            9999764

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.74  E-value=1.7e-17  Score=122.94  Aligned_cols=81  Identities=22%  Similarity=0.354  Sum_probs=74.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..+.+|||+|||+.+|+++|+++|+.||.+. .|.|+.+.+|.++|||||+|.+.++|.+|+.. |+..|+|+.|.|.++
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~-~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a  164 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLK-KAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  164 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCS-EEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            4467999999999999999999999999776 79999888999999999999999999999985 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      ...
T Consensus       165 ~~~  167 (177)
T 2f3j_A          165 ASQ  167 (177)
T ss_dssp             SSG
T ss_pred             cCC
Confidence            654

>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=99.74  E-value=1.4e-17  Score=114.78  Aligned_cols=78  Identities=21%  Similarity=0.403  Sum_probs=70.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      .+.+|||+|||+.+|+++|+++|+.||.+. .|.++.+  +.++|||||+|.+.++|.+|+. +||..++|+.|.|.++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~v~i~~~--~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   83 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIR-QIRVGNT--PETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYN   83 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEECS--TTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeeC--CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            457999999999999999999999999776 7888764  5669999999999999999998 59999999999999998


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        84 ~~   85 (115)
T 3lqv_A           84 AN   85 (115)
T ss_dssp             HH
T ss_pred             CC
Confidence            64

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=8.1e-18  Score=115.86  Aligned_cols=79  Identities=20%  Similarity=0.325  Sum_probs=68.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccc---eEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSED---SIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~---~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      ..+.+|||+|||+++|+++|+++|+.||.+..   .+.+.   +|.++|||||+|.+.++|.+|+.. |+..|+|+.|.|
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v   99 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM---TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI   99 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE---CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC---CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            35679999999999999999999999996531   23333   889999999999999999999975 999999999999


Q ss_pred             EECChH
Q 029263          181 FPSSHE  186 (196)
Q Consensus       181 ~~~~~~  186 (196)
                      .++.+.
T Consensus       100 ~~a~~~  105 (115)
T 2cpx_A          100 EFGKNK  105 (115)
T ss_dssp             EECCCC
T ss_pred             EEccCC
Confidence            999754

>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=99.74  E-value=8.3e-18  Score=113.98  Aligned_cols=76  Identities=17%  Similarity=0.215  Sum_probs=65.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hC--CCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KD--RMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~--g~~l~gr~i~V~  181 (196)
                      ..+.+|||+|||+.+|+++|+++|++||.+. .|.++.     .+|||||+|.+.++|.+|+. +|  +..|+|++|.|.
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~-~v~i~~-----~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~   86 (104)
T 1wex_A           13 SVSPVVHVRGLCESVVEADLVEALEKFGTIC-YVMMMP-----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFN   86 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEE-EEEEET-----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEC-----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            3467999999999999999999999999776 677764     37899999999999999996 34  456999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++...
T Consensus        87 ~a~~~   91 (104)
T 1wex_A           87 YSTSK   91 (104)
T ss_dssp             ECSSS
T ss_pred             EccCc
Confidence            99754

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.73  E-value=1.5e-17  Score=109.69  Aligned_cols=74  Identities=18%  Similarity=0.209  Sum_probs=66.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++       +|||||+|.+.++|.+|+. +|+..++|+.|+|.++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   77 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVL-ECDII-------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEAS   77 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEE-EEEEE-------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECS
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEE-------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEEC
Confidence            3567999999999999999999999999776 67776       5799999999999999996 5999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        78 ~~~   80 (90)
T 2dnq_A           78 KNK   80 (90)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            653

>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=99.73  E-value=1.6e-17  Score=111.42  Aligned_cols=76  Identities=16%  Similarity=0.288  Sum_probs=67.9

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+. .|.+..     ++|||||+|.+.++|.+|+.. |+..|+|+.|+|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~-~v~~~~-----~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   86 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAG-EVFIHK-----DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA   86 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCS-EEEEET-----TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcCCeE-EEEEec-----CCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEc
Confidence            3567999999999999999999999999776 788774     378999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        87 ~~~   89 (99)
T 2cpj_A           87 CHS   89 (99)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            754

>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=99.73  E-value=2.4e-17  Score=110.16  Aligned_cols=76  Identities=20%  Similarity=0.224  Sum_probs=67.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccC--CeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLG--SRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~--gr~i~V~  181 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.+..+     +|||||+|.+.++|++|+.. |+..+.  |+.|+|.
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~v~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~   88 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIR-TIDHVKG-----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVD   88 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEE-EEEECSS-----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEeCC-----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEE
Confidence            3457899999999999999999999999776 6777643     78999999999999999974 999999  9999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.+.
T Consensus        89 ~a~~~   93 (97)
T 1why_A           89 FAKSG   93 (97)
T ss_dssp             ECCCC
T ss_pred             ECCCC
Confidence            98753

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

Probab=99.73  E-value=1.5e-17  Score=126.45  Aligned_cols=82  Identities=16%  Similarity=0.177  Sum_probs=74.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++||.+. +|+|+++. +|+++|||||+|.+.++|.+|+.. |+..+.|+.|+|..+
T Consensus        14 p~~tlfVgnLp~~~te~~L~~~F~~~G~I~-~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~   92 (213)
T 4f02_A           14 PMASLYVGDLHPDVTEAMLYEKFSPAGPIL-SIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS   92 (213)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhhCCEE-EEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccc
Confidence            457899999999999999999999999876 89999886 899999999999999999999976 999999999999998


Q ss_pred             ChHHH
Q 029263          184 SHEEM  188 (196)
Q Consensus       184 ~~~~~  188 (196)
                      .....
T Consensus        93 ~~~~~   97 (213)
T 4f02_A           93 QRDPS   97 (213)
T ss_dssp             CCCTH
T ss_pred             ccccc
Confidence            65433

>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=99.73  E-value=2.4e-17  Score=107.42  Aligned_cols=74  Identities=18%  Similarity=0.266  Sum_probs=66.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-h-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-K-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~-~g~~l~gr~i~V~~  182 (196)
                      ....+|||+|||+.+|+++|+++|++||.+. .|.++.     ++|+|||+|.+.++|.+|+. + |+..++|++|+|.+
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~-~~~~~~-----~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~   83 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIR-TITVVQ-----RQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKW   83 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEE-EEEEEG-----GGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEE
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEe-EEEEEC-----CCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEe
Confidence            3457899999999999999999999999776 788875     47899999999999999997 6 99999999999998


Q ss_pred             CC
Q 029263          183 SS  184 (196)
Q Consensus       183 ~~  184 (196)
                      +.
T Consensus        84 ak   85 (85)
T 2ytc_A           84 GR   85 (85)
T ss_dssp             CC
T ss_pred             cC
Confidence            73

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.73  E-value=8.6e-18  Score=112.07  Aligned_cols=76  Identities=21%  Similarity=0.459  Sum_probs=67.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+.    ++ ..+|.++|||||+|.+.++|.+|+. +||..|+|+.|.|.++
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~----~~-~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   88 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDALEIR----LV-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEEC----CE-EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEE----Ee-CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            3568999999999999999999999998543    22 5678999999999999999999998 5999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        89 ~~   90 (96)
T 1fjc_A           89 GE   90 (96)
T ss_dssp             SS
T ss_pred             CC
Confidence            65

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.73  E-value=2.1e-18  Score=115.24  Aligned_cols=78  Identities=15%  Similarity=0.237  Sum_probs=69.9

Q ss_pred             cccEEEEcCCCCCCCHHHHH----HHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIM----DFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~----~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      .+.+|||+|||+++|+++|+    ++|++||.+. .|.+.  .+|.++|||||+|.+.++|.+|+.. ||..++|+.|.|
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~-~v~i~--~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   83 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQIL-DILVS--RSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   83 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEE-EEECC--HHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEE-EEEEE--cCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEE
Confidence            46799999999999999999    9999999765 56665  3678899999999999999999975 999999999999


Q ss_pred             EECChH
Q 029263          181 FPSSHE  186 (196)
Q Consensus       181 ~~~~~~  186 (196)
                      .++.+.
T Consensus        84 ~~a~~~   89 (97)
T 1nu4_A           84 QYAKTD   89 (97)
T ss_dssp             EECSSC
T ss_pred             EEccCC
Confidence            999765

>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=99.73  E-value=2.4e-17  Score=123.16  Aligned_cols=82  Identities=21%  Similarity=0.304  Sum_probs=74.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+..++..++|+.|.|.++
T Consensus        11 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v~~~   89 (196)
T 1l3k_A           11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLT-DCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRA   89 (196)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeecc
Confidence            4568999999999999999999999999776 78888886 799999999999999999999998999999999999998


Q ss_pred             ChHH
Q 029263          184 SHEE  187 (196)
Q Consensus       184 ~~~~  187 (196)
                      ....
T Consensus        90 ~~~~   93 (196)
T 1l3k_A           90 VSRE   93 (196)
T ss_dssp             CC--
T ss_pred             cCcc
Confidence            7654

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.72  E-value=2.2e-17  Score=114.29  Aligned_cols=80  Identities=11%  Similarity=0.127  Sum_probs=69.4

Q ss_pred             cEEEEcCC----CCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCC----HHH----HHHHHH--h-CCC
Q 029263          108 GILRLRGL----PFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFAN----AED----SKAAMA--K-DRM  171 (196)
Q Consensus       108 ~~l~v~nL----p~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~----~~~----A~~Al~--~-~g~  171 (196)
                      ..|||+||    |+.+++++|+++|+.||.+. ++.++.|+ ||.++|||||+|.+    +++    |.+|+.  . ||.
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~-~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~   81 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEIS-HFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGC   81 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCS-EEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeE-EEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCC
Confidence            46999999    99999999999999999776 89999998 99999999999996    444    788876  4 999


Q ss_pred             ccCCeEEEEEECChHHH
Q 029263          172 TLGSRYIELFPSSHEEM  188 (196)
Q Consensus       172 ~l~gr~i~V~~~~~~~~  188 (196)
                      .|+||.|+|.+...-..
T Consensus        82 ~I~Gr~irV~ln~~g~~   98 (136)
T 2j8a_A           82 FIMGFKFEVILNKHSIL   98 (136)
T ss_dssp             EETTEEEEEEECCTTHH
T ss_pred             eecCcEEEEEECcccHH
Confidence            99999999999865443

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

Probab=99.72  E-value=1.7e-17  Score=111.73  Aligned_cols=74  Identities=12%  Similarity=0.247  Sum_probs=67.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.+.     .++|||||+|.+.++|.+|+.. ||..++|+.|+|.++.
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~-~~~~~-----~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFIL-DFKHY-----PEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCS-EEEEE-----TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEE-EEEEe-----cCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            457999999999999999999999999776 78777     4689999999999999999965 9999999999999886


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus       100 ~  100 (101)
T 2la4_A          100 E  100 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.72  E-value=2.8e-17  Score=112.15  Aligned_cols=74  Identities=23%  Similarity=0.380  Sum_probs=67.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++       +|||||+|.+.++|.+|+.. ||..++|+.|.|.++
T Consensus        29 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~-~v~i~-------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (108)
T 2jvo_A           29 LSNTRLFVRPFPLDVQESELNEIFGPFGPMK-EVKIL-------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYS  100 (108)
T ss_dssp             CSCSEEEECSSCTTCCHHHHHHHHTTTSCCC-EEEEE-------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEE-EEEEE-------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            4567999999999999999999999999776 67777       68999999999999999975 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus       101 ~~~  103 (108)
T 2jvo_A          101 KLP  103 (108)
T ss_dssp             SCC
T ss_pred             cCC
Confidence            653

>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=99.72  E-value=3e-17  Score=123.23  Aligned_cols=79  Identities=18%  Similarity=0.238  Sum_probs=72.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ..++|||+|||+++|+++|+++|++||.+. .|+++++.+|.++|||||+|.+.++|.+|+...+..++|+.|.|.++..
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~-~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVL-NIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD  186 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEE-EEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEETTT
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEE-EEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEhHH
Confidence            357999999999999999999999999876 8999999999999999999999999999998866799999999998754

>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=99.72  E-value=2.2e-17  Score=112.98  Aligned_cols=76  Identities=17%  Similarity=0.267  Sum_probs=66.0

Q ss_pred             CCcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-h--CCCccCCeEEE
Q 029263          104 AVHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-K--DRMTLGSRYIE  179 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~--~g~~l~gr~i~  179 (196)
                      ...+.+|||+|||++ +|+++|+++|++||.+. .|.|+     +++|||||+|.+.++|..|+. +  ++..|.||.|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~-~v~i~-----~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~   95 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIK-NYILM-----RMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVK   95 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCS-EEEEE-----TTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEE-EEEEe-----cCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEE
Confidence            345689999999998 99999999999999776 68776     357899999999999999996 3  45679999999


Q ss_pred             EEECCh
Q 029263          180 LFPSSH  185 (196)
Q Consensus       180 V~~~~~  185 (196)
                      |.++.+
T Consensus        96 V~~a~~  101 (112)
T 1x4f_A           96 VDLSEK  101 (112)
T ss_dssp             EEEECS
T ss_pred             EEECcc
Confidence            999864

>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=99.71  E-value=4.7e-17  Score=108.90  Aligned_cols=73  Identities=21%  Similarity=0.296  Sum_probs=65.7

Q ss_pred             CcccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+ .+|+++|+++|+.||.+. .|.+       ++|||||+|.+.++|.+|+. +||..++|+.|.|.+
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~-~v~i-------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~   91 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIM-QINI-------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEV   91 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGGSCEE-EEEE-------CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEE-EEEE-------eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            3567999999999 999999999999999776 6766       37899999999999999997 499999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +..
T Consensus        92 a~~   94 (97)
T 2xnq_A           92 SSS   94 (97)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            864

>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=99.71  E-value=2.3e-17  Score=109.40  Aligned_cols=75  Identities=20%  Similarity=0.235  Sum_probs=65.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCC-CccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDR-MTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g-~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++||.+...+.+.      ++|||||+|.+.++|.+|+. +|+ ..|+|+.|+|.++
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~------~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   80 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc------CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEc
Confidence            457899999999999999999999999733255553      57899999999999999997 499 9999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        81 ~~~   83 (93)
T 2cqh_A           81 VSK   83 (93)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            754

>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=99.71  E-value=2.7e-17  Score=112.31  Aligned_cols=75  Identities=15%  Similarity=0.218  Sum_probs=67.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .|.++.+     +|||||+|.+.++|.+|+.. ||..|+|+.|+|.++.
T Consensus        24 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~-~v~i~~~-----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   97 (109)
T 1x4g_A           24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIM-EIRVFPE-----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   97 (109)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEE-EEEEETT-----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeCC-----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecC
Confidence            457999999999999999999999999776 7888765     78999999999999999965 9999999999999987


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        98 ~~   99 (109)
T 1x4g_A           98 ES   99 (109)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.71  E-value=1.5e-17  Score=112.00  Aligned_cols=73  Identities=25%  Similarity=0.331  Sum_probs=67.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      +|||+|||+++|+++|+++|++||.+. .|.++.+    ++|||||+|.+.++|.+|+.. |+..++|+.|+|.++.+.
T Consensus         2 ~l~V~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   75 (101)
T 2hvz_A            2 KVYVGNLGTGAGKGELERAFSYYGPLR-TVWIARN----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGM   75 (101)
T ss_dssp             EEEEECCCSSCSHHHHHHHHHHHCCCS-EEEEESS----SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEeeC----CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCC
Confidence            799999999999999999999999776 7888876    789999999999999999975 999999999999999764

>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=99.71  E-value=4.9e-17  Score=118.20  Aligned_cols=78  Identities=18%  Similarity=0.305  Sum_probs=72.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      ..+|||+|||+++|+++|+++|+.||.+. .+.++.+. +|.++|+|||+|.+.++|.+|+. +||..++|++|.|.++.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~-~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   80 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIE-SCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeE-EEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecC
Confidence            46899999999999999999999999776 78998887 99999999999999999999997 59999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus        81 ~   81 (167)
T 1fxl_A           81 P   81 (167)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=8e-17  Score=106.55  Aligned_cols=74  Identities=16%  Similarity=0.228  Sum_probs=66.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|++||.+. .|.++       ++||||+|.+.++|.+|+.. |+..++|+.|+|.++
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~-~v~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   79 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVI-ECDIV-------KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLS   79 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCC-EEEEC-------SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEE-------CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            3567999999999999999999999999776 67776       34999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        80 ~~~   82 (92)
T 2dgt_A           80 TSR   82 (92)
T ss_dssp             SCC
T ss_pred             cCC
Confidence            653

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

Probab=99.71  E-value=9.5e-17  Score=107.62  Aligned_cols=75  Identities=27%  Similarity=0.286  Sum_probs=65.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcC--CCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDF--VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIEL  180 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~--g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V  180 (196)
                      .....+|||+|||+.+|+++|+++|+.|  |.+. .|.+.       +|||||+|.+.++|.+|+. +|+..|+|+.|+|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~-~~~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   83 (99)
T 2cpd_A           12 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVE-RVKKI-------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEV   83 (99)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEE-EEEEC-------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEE
T ss_pred             cCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceE-EEEEe-------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            3456899999999999999999999999  6554 45543       6799999999999999998 5999999999999


Q ss_pred             EECChH
Q 029263          181 FPSSHE  186 (196)
Q Consensus       181 ~~~~~~  186 (196)
                      .++.+.
T Consensus        84 ~~a~~~   89 (99)
T 2cpd_A           84 TLAKPV   89 (99)
T ss_dssp             ECCCCC
T ss_pred             EECCCC
Confidence            999754

>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=99.71  E-value=2.2e-17  Score=118.03  Aligned_cols=79  Identities=18%  Similarity=0.249  Sum_probs=68.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceE------EEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSI------HITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYI  178 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v------~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i  178 (196)
                      .+.+|||+|||+.+|+++|+++|+.||.+. .+      .+....+|.++|||||+|.+.++|.+|+. +||..|+|+.|
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~-~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l  122 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFS-SETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPM  122 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGGCCTT-CHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcc-cccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEE
Confidence            457899999999999999999999999665 32      22233579999999999999999999997 59999999999


Q ss_pred             EEEECCh
Q 029263          179 ELFPSSH  185 (196)
Q Consensus       179 ~V~~~~~  185 (196)
                      .|.++..
T Consensus       123 ~V~~a~~  129 (143)
T 3egn_A          123 VVQFARS  129 (143)
T ss_dssp             EEEECCC
T ss_pred             EEEECCC
Confidence            9999954

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.55  E-value=6.9e-19  Score=121.59  Aligned_cols=81  Identities=21%  Similarity=0.357  Sum_probs=73.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccce--------EEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDS--------IHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGS  175 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~--------v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~g  175 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .        |.++.+. +|.++|||||+|.+.++|.+|+. +|+..++|
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~-~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   84 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQIGIIK-TNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG   84 (116)
Confidence            457899999999999999999999999776 5        7788774 79999999999999999999997 49999999


Q ss_pred             eEEEEEECChHH
Q 029263          176 RYIELFPSSHEE  187 (196)
Q Consensus       176 r~i~V~~~~~~~  187 (196)
                      +.|.|.++.+..
T Consensus        85 ~~l~V~~a~~~~   96 (116)
T 2lcw_A           85 NPIKVSFATRRA   96 (116)
Confidence            999999997764

>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=99.71  E-value=4.3e-17  Score=110.15  Aligned_cols=74  Identities=19%  Similarity=0.264  Sum_probs=66.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++       +|||||+|.+.++|.+|+.. |+..|.|+.|.|.++
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~-~v~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   80 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLE-RVKKL-------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFA   80 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEE-EEEEC-------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEE-------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEc
Confidence            3567899999999999999999999999776 67765       45999999999999999974 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        81 ~~~   83 (103)
T 2dgu_A           81 KPP   83 (103)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            754

>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=99.71  E-value=4.4e-17  Score=107.00  Aligned_cols=73  Identities=16%  Similarity=0.286  Sum_probs=65.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+.+|+++|+++|++| .+. .+.+.     .++|||||+|.+.++|.+|+.. ||..++|+.|+|.++.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~-~~~i~-----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   76 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLK-YCYVD-----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCC-CEEEE-----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeE-EEEEe-----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcC
Confidence            35689999999999999999999999 444 57774     6889999999999999999974 9999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        77 ~   77 (88)
T 1wg1_A           77 T   77 (88)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.70  E-value=4.6e-17  Score=118.20  Aligned_cols=77  Identities=16%  Similarity=0.242  Sum_probs=70.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~~  185 (196)
                      ++|||+|||+++|+++|+++|++||.+. +|.++.+++|.++|+|||+|.+.++|.+|+. +||..++|+.|.|.++.+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~   78 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIA-NIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQ   78 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEE-EEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeE-EEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCC
Confidence            4799999999999999999999999776 8999999999999999999999999999995 599999999999998853

>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=99.70  E-value=5.2e-17  Score=107.00  Aligned_cols=77  Identities=12%  Similarity=0.166  Sum_probs=61.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .|.++.+    ++|||||+|.+.++|.++ ......++|+.|.|..+.
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~-~v~i~~~----srGfaFV~F~~~~~A~~~-~~~~~~~~g~~v~v~~a~   82 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVV-DVFIPKP----FRAFAFVTFADDKVAQSL-CGEDLIIKGISVHISNAE   82 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTTSCEE-EEECCSS----CCSEEEEEESCHHHHHHH-TTCEEEETTEEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCEE-EEEEeeC----CCCEEEEEECCHHHHHHH-cCCCcccCCEEEEEEEcC
Confidence            3567999999999999999999999999776 7888764    789999999999999843 222344579999999998


Q ss_pred             hHH
Q 029263          185 HEE  187 (196)
Q Consensus       185 ~~~  187 (196)
                      +..
T Consensus        83 ~k~   85 (89)
T 3d2w_A           83 PKH   85 (89)
T ss_dssp             ---
T ss_pred             CCC
Confidence            764

>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=99.70  E-value=2.6e-17  Score=112.83  Aligned_cols=74  Identities=15%  Similarity=0.124  Sum_probs=66.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+.+|+++|+++|++||.+. .|.++.     ++|||||+|.+.++|.+|+.. ||..|+|+.|.|.++.
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~-~v~i~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   82 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLG-RVLLPE-----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCS-----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEE-EEEEeC-----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            457899999999999999999999999775 676652     678999999999999999975 9999999999999985


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        83 ~   83 (111)
T 1whx_A           83 I   83 (111)
T ss_dssp             T
T ss_pred             C
Confidence            4

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

Probab=99.70  E-value=7.2e-17  Score=106.33  Aligned_cols=74  Identities=16%  Similarity=0.182  Sum_probs=66.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+.+|+++|+++|++||.+. .|.++       +|||||+|.+.++|.+|+.. |+..++|+.|+|.++
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~~~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   78 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVI-ECDVV-------KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELS   78 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEE-EEEEC-------SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEE-EEEEE-------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            3467899999999999999999999999776 67776       34999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        79 ~~~   81 (90)
T 2dnp_A           79 TKG   81 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            754

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.70  E-value=6.4e-17  Score=107.48  Aligned_cols=76  Identities=17%  Similarity=0.339  Sum_probs=65.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .| +....+|.   ||||+|.+.++|.+|+.+|+..|+|+.|.|.++.+
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~-~v-~~~~~~g~---~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~~a~~   81 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVA-SV-VMDKDKGV---FAIVEMGDVGAREAVLSQSQHSLGGHRLRVRPREQ   81 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEE-EE-EECSSSCC---EEEEEESSHHHHHHHHTCSCCEETTEECCCBCSCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeE-EE-EEcCCCCc---EEEEEECCHHHHHHHHhcCCeEECCEEEEEEECCc
Confidence            456899999999999999999999999776 45 33333554   99999999999999999999999999999998864


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        82 ~   82 (94)
T 2e5g_A           82 K   82 (94)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.69  E-value=1e-16  Score=109.55  Aligned_cols=72  Identities=17%  Similarity=0.298  Sum_probs=65.4

Q ss_pred             cccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+. +|+++|+++|++||.+. .|.+       ++|||||+|.+.++|.+|+. +|+..|+|+.|+|.++
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~-~v~i-------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   97 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVA-GCSV-------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA   97 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCS-EEEE-------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEES
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeE-EEEE-------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            4579999999999 99999999999999776 6776       57899999999999999995 4999999999999999


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        98 ~~   99 (110)
T 1wf1_A           98 GE   99 (110)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

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

Probab=99.69  E-value=2.2e-16  Score=107.14  Aligned_cols=84  Identities=13%  Similarity=0.106  Sum_probs=72.7

Q ss_pred             cccEEEEcCCCC-----CCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeE
Q 029263          106 HTGILRLRGLPF-----SAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp~-----~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~  177 (196)
                      .+.+|+|+||..     +.++++|+++|++||.+. +|.++.++  ++.++|+|||+|.+.++|.+|+.. ||..++||.
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~-~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~   85 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVG-KCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRV   85 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEE-EEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEE-EEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcE
Confidence            467999999963     347899999999999876 78898875  368999999999999999999965 999999999


Q ss_pred             EEEEECChHHHHH
Q 029263          178 IELFPSSHEEMDE  190 (196)
Q Consensus       178 i~V~~~~~~~~~~  190 (196)
                      |.|.++.+..+..
T Consensus        86 i~v~~a~~~~f~~   98 (105)
T 2pe8_A           86 VKACFYNLDKFRV   98 (105)
T ss_dssp             CEEEECCHHHHHT
T ss_pred             EEEEEcCHHHhhh
Confidence            9999999877653

>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=99.69  E-value=7.1e-17  Score=105.52  Aligned_cols=71  Identities=23%  Similarity=0.379  Sum_probs=61.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcC----C-------CccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCcc
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDF----V-------LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL  173 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~----g-------~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l  173 (196)
                      ....+|||+|||+++|+++|+++|++|    |       .+. ++.+..     ++|||||+|.+.++|.+|+.+|+..+
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~-~~~~~~-----~kg~afV~f~~~~~a~~A~~l~g~~~   77 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVL-AVQINQ-----DKNFAFLEFRSVDETTQAMAFDGIIF   77 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEE-EEEECS-----SSSEEEEEESSHHHHHHHGGGTTCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcce-EEEecC-----CCcEEEEEcCCHHHHHHHHhcCCCEE
Confidence            356899999999999999999999999    7       443 566553     37999999999999999995599999


Q ss_pred             CCeEEEEE
Q 029263          174 GSRYIELF  181 (196)
Q Consensus       174 ~gr~i~V~  181 (196)
                      +|+.|+|.
T Consensus        78 ~g~~l~V~   85 (87)
T 2hzc_A           78 QGQSLKIR   85 (87)
T ss_dssp             TTEECEEE
T ss_pred             CCeEEEEe
Confidence            99999986

>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=99.69  E-value=6.2e-17  Score=117.95  Aligned_cols=78  Identities=19%  Similarity=0.284  Sum_probs=71.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      +.+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|+|||+|.+.++|.+|+. +|+..++|+.|.|.++.
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAIGPIN-TCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCee-EEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            46899999999999999999999999776 78888775 89999999999999999999997 59999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus        82 ~   82 (168)
T 1b7f_A           82 P   82 (168)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.68  E-value=4.9e-17  Score=108.52  Aligned_cols=73  Identities=21%  Similarity=0.283  Sum_probs=65.3

Q ss_pred             CcccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+ .+|+++|+++|++||.+. .|.+.       +|||||+|.+.++|.+|+.. |+..+.|+.|.|.+
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~-~v~i~-------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   79 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIM-QINIK-------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEV   79 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCC-EEEEE-------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEE-EEEEe-------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            3567999999999 999999999999999776 67774       68999999999999999975 99999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        80 a~~   82 (96)
T 2kvi_A           80 SSS   82 (96)
T ss_dssp             EEC
T ss_pred             cCc
Confidence            854

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

Probab=99.68  E-value=7.1e-17  Score=107.57  Aligned_cols=78  Identities=14%  Similarity=0.218  Sum_probs=67.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceE-EEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSI-HITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v-~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .+ .++.+.   ..|.|||+|.+.++|.+|+. +||..|+|+.|.|.++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~-~~~~i~~~~---~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   89 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVE-SCEQVNTDS---ETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYI   89 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEE-EEEEECCSS---SSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeE-EEEEeecCC---CCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            457899999999999999999999999776 67 466654   23459999999999999997 5999999999999999


Q ss_pred             ChHH
Q 029263          184 SHEE  187 (196)
Q Consensus       184 ~~~~  187 (196)
                      .+++
T Consensus        90 ~~~~   93 (96)
T 2e44_A           90 PDEM   93 (96)
T ss_dssp             CCCC
T ss_pred             Cccc
Confidence            8763

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=1.9e-16  Score=108.09  Aligned_cols=72  Identities=24%  Similarity=0.227  Sum_probs=65.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|++||+++|++| .|.+|.+ .+.+|+++|||||+|.++++|++||++|+..|++|.|.|..+...+|....
T Consensus        27 ~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~~~~~~~~~   99 (109)
T 2dnn_A           27 SAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAAG   99 (109)
T ss_dssp             SCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEEECCHHHHHHHH
T ss_pred             CCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECCccchhhcC
Confidence            47899999999998 8999854 577899999999999999999999999999999999999999988886654

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.67  E-value=4.3e-16  Score=104.04  Aligned_cols=74  Identities=16%  Similarity=0.195  Sum_probs=65.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+||  ++|+++|+++|++||.+. .|.+.     .++|||||+|.+.++|.+|+.. |+..|+|+.|.|.++
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~-~v~i~-----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a   84 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNII-DLSMD-----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA   84 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEE-EEEEE-----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECC
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEE-EEEec-----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEC
Confidence            34579999996  999999999999999775 67763     6789999999999999999965 999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        85 ~~~   87 (97)
T 1x5p_A           85 RKQ   87 (97)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            654

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=1.9e-16  Score=110.34  Aligned_cols=76  Identities=22%  Similarity=0.378  Sum_probs=67.4

Q ss_pred             CchHHHHHHHhcccCcc----eeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhh
Q 029263            3 LPQVQVLCTIHHQLMDI----VDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIAN   77 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i----~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~   77 (196)
                      ..|++||+++|++||.|    .+|. +.+.+|+++|||||+|.+.++|++||++|+..|++|.|.|..+.+.++...+..
T Consensus        34 ~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~V~~a~~~e~~~~~~~  113 (123)
T 2dha_A           34 TATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQVLNR  113 (123)
T ss_dssp             TCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCEECCEEECHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEEEEECCHHHHHHHHHh
Confidence            46899999999999875    5674 567899999999999999999999998899999999999999999988877765


Q ss_pred             c
Q 029263           78 E   78 (196)
Q Consensus        78 ~   78 (196)
                      .
T Consensus       114 ~  114 (123)
T 2dha_A          114 F  114 (123)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=99.66  E-value=1.9e-16  Score=115.32  Aligned_cols=81  Identities=15%  Similarity=0.341  Sum_probs=72.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ++.+|||+|||+++|+++|+++|++||.+. +|.++.+. +|.++|||||+|.+.++|.+|+.. +..++|+.|.|..+.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-~~~~~g~~i~v~~~~   79 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVT-DLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAI   79 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEE-EEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS-CCEETTEECCCEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEECCCCCCccceEEEEEccHHHHHHHHhc-ccccCCeEccccccc
Confidence            357899999999999999999999999776 78888885 899999999999999999999984 678999999999987


Q ss_pred             hHHH
Q 029263          185 HEEM  188 (196)
Q Consensus       185 ~~~~  188 (196)
                      +...
T Consensus        80 ~~~~   83 (167)
T 2cjk_A           80 PRDE   83 (167)
T ss_dssp             CHHH
T ss_pred             chhh
Confidence            6543

>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=99.66  E-value=3.1e-17  Score=113.17  Aligned_cols=74  Identities=22%  Similarity=0.234  Sum_probs=63.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeE-----EE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRY-----IE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~-----i~  179 (196)
                      ...+|||.|||+++|+++|+++|++||.+. .|.|+.+      |||||+|.+.++|++|+. +|+..|+|+.     |.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~-~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~   87 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVC-YADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   87 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEE-EEEECTT------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeE-EEEEecC------CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEE
Confidence            457899999999999999999999999765 6777755      899999999999999997 5999999988     88


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |..+.+.
T Consensus        88 v~~~~~~   94 (115)
T 3beg_B           88 VKVDGPR   94 (115)
T ss_dssp             EEECC--
T ss_pred             eccCCCC
Confidence            8887764

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.65  E-value=2.7e-16  Score=108.19  Aligned_cols=61  Identities=21%  Similarity=0.302  Sum_probs=53.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-C---CCCceEEEEEeCCHHHHHHHHHh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-D---GRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~---g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      ...+|||+|||+++|+++|+++|++||.+.  +.++.+. +   |+++|||||+|.+.++|++|+..
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~--~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~   71 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV--VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDA   71 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC--EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE--EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHh
Confidence            457899999999999999999999999876  6666555 3   79999999999999999999964

>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=99.65  E-value=1.4e-16  Score=104.50  Aligned_cols=75  Identities=12%  Similarity=0.160  Sum_probs=63.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      .+.+|||+|||+++|+++|+++|++||.+. .|.++.+    ++|||||+|.+.++|++|+.. ...+.|+.|.|.++.+
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~----~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~~a~~   77 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVM-DVFIPKP----FRAFAFVTFADDQIAQSLCGE-DLIIKGISVHISNAEP   77 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCC-EEECCSS----CCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEECCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCee-EEEEecC----CCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEEecCC
Confidence            457999999999999999999999999776 7887754    789999999999999865332 4566999999999876


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        78 ~   78 (88)
T 1wf0_A           78 K   78 (88)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.65  E-value=8.1e-16  Score=111.63  Aligned_cols=76  Identities=13%  Similarity=0.092  Sum_probs=66.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC--eEEEEEEC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS--RYIELFPS  183 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~~~  183 (196)
                      ..+|||+|||+.+|+++|+++|++||.+. .|.+..+   .++|||||+|.+.++|+.|+.. ||..|.|  +.|+|.++
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~-~V~i~~k---~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~A  121 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVL-KIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFS  121 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEE-EEEEEES---SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEEC
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEE-EEEEEeC---CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEe
Confidence            46799999999999999999999999876 6777643   3679999999999999999975 9999955  99999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus       122 k~~  124 (164)
T 1sjr_A          122 KLT  124 (164)
T ss_dssp             SSS
T ss_pred             cCC
Confidence            765

>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=1.1e-15  Score=105.83  Aligned_cols=75  Identities=27%  Similarity=0.420  Sum_probs=66.6

Q ss_pred             CchHHHHHHHhcccCc---ceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhh
Q 029263            3 LPQVQVLCTIHHQLMD---IVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIAN   77 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~---i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~   77 (196)
                      ..|++||+++|+.||.   |.+|. +.+.+|+++|||||+|.+.++|++||++++..++++.|.|..+.+.++...+..
T Consensus        28 ~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~~~~~~~~~~~  106 (118)
T 2db1_A           28 SCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTEMDWVLKH  106 (118)
T ss_dssp             TCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEEEEECHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECCHHHHHHHHHH
Confidence            4689999999999998   78884 567789999999999999999999999999999999999999998887665543

>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=99.64  E-value=2.2e-16  Score=108.18  Aligned_cols=76  Identities=14%  Similarity=0.176  Sum_probs=65.2

Q ss_pred             CcccEEEE--cCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc-----CCe
Q 029263          105 VHTGILRL--RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL-----GSR  176 (196)
Q Consensus       105 ~~~~~l~v--~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l-----~gr  176 (196)
                      .++.+|||  +|||+.+|+++|+++|++||.+. .|.++.     .+|||||+|.+.++|++|+.. ||..+     +|+
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~-~v~i~~-----~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~   96 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVD-ALLMPP-----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKI   96 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEE-EEECCT-----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEE
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeE-EEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCc
Confidence            34678999  77999999999999999999775 666652     378999999999999999975 99988     799


Q ss_pred             EEEEEECChH
Q 029263          177 YIELFPSSHE  186 (196)
Q Consensus       177 ~i~V~~~~~~  186 (196)
                      +|.|.++...
T Consensus        97 ~l~v~~a~~~  106 (114)
T 2cq2_A           97 TLYLNFVEKV  106 (114)
T ss_dssp             ECEEEEESCC
T ss_pred             EEEEEecccC
Confidence            9999988643

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.64  E-value=1e-15  Score=107.20  Aligned_cols=75  Identities=13%  Similarity=0.088  Sum_probs=66.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceE-EEEEeCCHHHHHHHHHh-CCCccCC--eEEEEEE
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGE-AFVEFANAEDSKAAMAK-DRMTLGS--RYIELFP  182 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~-afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~~  182 (196)
                      -..|||+|||+.+|+++|+++|++||.+. .|.+..+    ++|+ |||+|.+.++|..|+.. ||..|.|  +.|+|.+
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG~V~-~V~i~~~----~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~  102 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFGTVL-KIITFTK----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDF  102 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSSCEE-EEEEEEE----TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcCCEE-EEEEEcC----CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEe
Confidence            45788999999999999999999999876 7777653    3577 99999999999999975 9999988  9999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus       103 ak~~  106 (130)
T 3zzy_A          103 SKLT  106 (130)
T ss_dssp             CSCS
T ss_pred             cCCC
Confidence            9764

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

Probab=99.64  E-value=4.8e-16  Score=117.71  Aligned_cols=80  Identities=25%  Similarity=0.346  Sum_probs=70.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+|+. +|+..++|+.|.|..+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~  105 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIK-SIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRP  105 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEE-EEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEE-EEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecC
Confidence            357899999999999999999999999776 78888876 89999999999999999999998 5999999999999887


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      ...
T Consensus       106 ~~~  108 (216)
T 2qfj_A          106 SNI  108 (216)
T ss_dssp             SCC
T ss_pred             CCc
Confidence            543

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.64  E-value=4.8e-15  Score=103.20  Aligned_cols=73  Identities=15%  Similarity=0.113  Sum_probs=63.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceE-EEEEeCCHHHHHHHHHh-CCCccCC--eEEEEEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGE-AFVEFANAEDSKAAMAK-DRMTLGS--RYIELFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~-afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~~~  183 (196)
                      ..|||+|||+.+|+++|+++|++||.+. .|.+...     .|| |||+|.+.++|..|+.. ||..|.|  +.|+|.++
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~-~v~i~~~-----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~A   99 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQ-RIVIFKR-----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYA   99 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEE-EEEEEES-----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECC
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEE-EEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEe
Confidence            4578999999999999999999999876 6777642     286 99999999999999975 9999977  79999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus       100 k~~  102 (124)
T 2e5i_A          100 RPT  102 (124)
T ss_dssp             SCS
T ss_pred             cCC
Confidence            654

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=6.8e-16  Score=101.20  Aligned_cols=69  Identities=16%  Similarity=0.142  Sum_probs=59.2

Q ss_pred             ccE-EEEcCCCCCCCHHH----HHHHhhcCC-CccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEE
Q 029263          107 TGI-LRLRGLPFSAGKDD----IMDFFKDFV-LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIE  179 (196)
Q Consensus       107 ~~~-l~v~nLp~~~t~~~----l~~~F~~~g-~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~  179 (196)
                      ..+ |||+|||+.+++++    |+++|++|| .+. .|      +|   |+|||.|.+.++|.+|+. +||..+.||+|+
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl-~V------tg---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~   77 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVL-SI------TG---CSAILRFINQDSAERAQKRMENEDVFGNRII   77 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEE-EC------CT---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCE
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeE-EE------ec---CEEEEEECCHHHHHHHHHHhcCCccCCceEE
Confidence            445 99999999999988    558999995 553 34      34   999999999999999996 599999999999


Q ss_pred             EEECCh
Q 029263          180 LFPSSH  185 (196)
Q Consensus       180 V~~~~~  185 (196)
                      |.++..
T Consensus        78 v~~A~~   83 (96)
T 2diu_A           78 VSFTPK   83 (96)
T ss_dssp             EESSCC
T ss_pred             EEecCC
Confidence            999864

>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=99.63  E-value=1.3e-16  Score=117.20  Aligned_cols=80  Identities=14%  Similarity=0.129  Sum_probs=70.2

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .+.+....+|.++|||||+|.+.++|.+|+.+||..++|+.|.|.++.
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~-~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~~~   89 (175)
T 1fje_B           11 TTPFNLFIGNLNPNKSVAELKVAISELFAKN-DLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (175)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHH-TCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCcc-eEEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEecCC
Confidence            4568999999999999999999999998665 344444457899999999999999999999889999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus        90 ~   90 (175)
T 1fje_B           90 G   90 (175)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.63  E-value=8.6e-16  Score=116.28  Aligned_cols=75  Identities=17%  Similarity=0.229  Sum_probs=67.3

Q ss_pred             cccEEEEcCCC-CCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLP-FSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp-~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+||| +.+|+++|+++|+.||.+. +|+++.+    ++|||||+|.+.++|.+|+. +||..|.|+.|+|.++
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~-~v~i~~~----~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s   77 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVE-KVKFMKS----KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVS   77 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEE-EEEECTT----STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeE-EEEEecC----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEc
Confidence            35689999999 8999999999999999876 7888754    47899999999999999997 5999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      ..
T Consensus        78 ~~   79 (205)
T 3tyt_A           78 KQ   79 (205)
T ss_dssp             SC
T ss_pred             cC
Confidence            53

>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=99.62  E-value=1.2e-15  Score=108.09  Aligned_cols=73  Identities=30%  Similarity=0.443  Sum_probs=65.6

Q ss_pred             CchHHHHHHHhcccCc---ceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMD---IVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~---i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|++||+++|+.||.   |.+|. +.|.+|+++|||||+|.+.++|++||++|+..+++|.|.|..+.+.++.+.+
T Consensus        55 ~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~~~g~~l~gr~i~V~~a~~~e~~~~~  131 (136)
T 2hgl_A           55 SCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRTEMDWVL  131 (136)
T ss_dssp             TCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHTTTEEESSSSEEEEEECCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEECCEEEEEEECChHHHHHHH
Confidence            4699999999999998   77874 5677899999999999999999999999999999999999999988876554

>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=99.62  E-value=1.3e-15  Score=111.50  Aligned_cols=79  Identities=15%  Similarity=0.251  Sum_probs=68.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCC---CCceEEEEEeCCHHHHHHHHHh-CCCccC---CeEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDG---RPTGEAFVEFANAEDSKAAMAK-DRMTLG---SRYI  178 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g---~~~G~afV~F~~~~~A~~Al~~-~g~~l~---gr~i  178 (196)
                      ...+|||+|||+++|+++|+++|++||.+. +|.++.+..+   .++|||||+|.+.++|.+|+.. |+..+.   ++.|
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~   80 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVY-EINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPI   80 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEE-EEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccce
Confidence            357899999999999999999999999876 7999888754   8999999999999999999975 887765   6888


Q ss_pred             EEEECCh
Q 029263          179 ELFPSSH  185 (196)
Q Consensus       179 ~V~~~~~  185 (196)
                      .+.++..
T Consensus        81 ~~~~~~~   87 (175)
T 3nmr_A           81 QMKPADS   87 (175)
T ss_dssp             EEEECGG
T ss_pred             EEccccc
Confidence            8877653

>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=99.61  E-value=2.7e-15  Score=103.13  Aligned_cols=74  Identities=11%  Similarity=-0.021  Sum_probs=65.0

Q ss_pred             CchHHHHHHHhcccCcc-eeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDI-VDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA   76 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i-~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~   76 (196)
                      ..|+++|+++|+.||.| .+|. +.+.+|+++|||||+|.+.++|.+||++++..++++.|.|..+.+.+......
T Consensus        26 ~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~v~~a~~~~~~~~~~  101 (114)
T 2cpy_A           26 SITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEK  101 (114)
T ss_dssp             TSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEECHHHHHHHHH
T ss_pred             cCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCCeEEEEEECCHHHHHHHHh
Confidence            46899999999999988 6774 45779999999999999999999999889999999999999998877655443

>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=2.7e-15  Score=118.34  Aligned_cols=79  Identities=15%  Similarity=0.218  Sum_probs=70.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHH----HHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIM----DFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIE  179 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~----~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~  179 (196)
                      ....+|||+|||+++|+++|+    ++|+.||.+. .|.+..  +|.++|||||+|.+.++|.+|+. +||..|.|+.|+
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~-~v~~~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   83 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQIL-DILVSR--SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMR   83 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeE-EEEEcC--CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEE
Confidence            356899999999999999976    8999999776 677664  78899999999999999999995 599999999999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++...
T Consensus        84 v~~a~~~   90 (282)
T 3pgw_A           84 IQYAKTD   90 (282)
T ss_pred             EEEeccC
Confidence            9998654

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.61  E-value=2.3e-15  Score=101.03  Aligned_cols=65  Identities=11%  Similarity=0.082  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.|+ +|+++|||||+|.+.++|.+|| .+|+..++|+.|.|..+.
T Consensus        30 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~Ak   97 (99)
T 4fxv_A           30 NMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR   97 (99)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            469999999999999999985 4554 8999999999999999999999 589999999999997654

>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=99.60  E-value=2.6e-15  Score=101.80  Aligned_cols=83  Identities=24%  Similarity=0.266  Sum_probs=70.9

Q ss_pred             cccEEEEcCC--CCCC--------CHHHHHHHhhcCCCccceEEEEeCCC---CCCceEEEEEeCCHHHHHHHHHh-CCC
Q 029263          106 HTGILRLRGL--PFSA--------GKDDIMDFFKDFVLSEDSIHITMNSD---GRPTGEAFVEFANAEDSKAAMAK-DRM  171 (196)
Q Consensus       106 ~~~~l~v~nL--p~~~--------t~~~l~~~F~~~g~~~~~v~l~~~~~---g~~~G~afV~F~~~~~A~~Al~~-~g~  171 (196)
                      ++++|.|+||  |...        .++||++.|++||.+. +|.++++..   +.++|+|||+|.++++|.+|+.. ||.
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~-~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~   82 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVK-SIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   82 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEE-EEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEE-EEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCC
Confidence            4679999998  3333        3479999999999877 888887764   36899999999999999999965 999


Q ss_pred             ccCCeEEEEEECChHHHH
Q 029263          172 TLGSRYIELFPSSHEEMD  189 (196)
Q Consensus       172 ~l~gr~i~V~~~~~~~~~  189 (196)
                      .++||.|+|.++....+.
T Consensus        83 ~f~GR~i~v~~~~~~~f~  100 (105)
T 3v4m_A           83 KFANRVVVTKYCDPDSYH  100 (105)
T ss_dssp             EETTEECEEEEECHHHHH
T ss_pred             EeCCCEEEEEEeCHHHHh
Confidence            999999999999888765

>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=99.60  E-value=8.6e-16  Score=103.96  Aligned_cols=68  Identities=25%  Similarity=0.381  Sum_probs=60.8

Q ss_pred             CchHHHHHHHhcccCccee-EE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVD-VL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      ..|++||+++|+.||.|.+ |. +.+.+|+++|||||+|.++++|++||+.++..++++.|.|..+.+.+
T Consensus        26 ~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~v~~~~~~~   95 (104)
T 1wg5_A           26 GCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAE   95 (104)
T ss_dssp             TCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEECTTT
T ss_pred             CCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEEEEEECCHHH
Confidence            4689999999999999987 64 45789999999999999999999999889999999999998887544

>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=99.60  E-value=1.1e-15  Score=103.09  Aligned_cols=64  Identities=22%  Similarity=0.288  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCcceeE-EEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++|| +++| ++.+++|+++|||||+|.+.++|++||++|+..|+++.|.|..+.
T Consensus        26 ~~te~~l~~~F~~~G-~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           26 RATENDIYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             TCCHHHHHHSSCSCC-CSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCCHHHHHHHHHHcC-ceEEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECC
Confidence            468999999999988 6687 456789999999999999999999999999999999999998876

>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=99.59  E-value=1.8e-15  Score=102.93  Aligned_cols=75  Identities=19%  Similarity=0.286  Sum_probs=66.3

Q ss_pred             CchHHHHHHHhcccCc---ceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhh
Q 029263            3 LPQVQVLCTIHHQLMD---IVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIAN   77 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~---i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~   77 (196)
                      ..|++||+++|+.||.   |.+|. +.+..|+++|||||+|.+.++|++||++++..++++.|.|..+.+.++...+..
T Consensus        22 ~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~~~~~~~~~~~  100 (107)
T 2lmi_A           22 SCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVYEINNEDVDALMKS  100 (107)
T ss_dssp             SCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCCCCEECCHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCcceeCCeEEEEEECCHHHHHHHHHh
Confidence            4689999999999888   78885 457779999999999999999999999999999999999999998887666543

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

Probab=99.58  E-value=5.1e-16  Score=116.06  Aligned_cols=80  Identities=19%  Similarity=0.305  Sum_probs=64.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceE-----EEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSI-----HITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v-----~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V  180 (196)
                      ..++|||+|||+++|+++|+++|+.||.+...+     .+.....+.++|||||+|.+.++|.+|+.+||..|+|+.|.|
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            357899999999999999999999994222100     122223467789999999999999999977999999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .++..
T Consensus        83 ~~~~~   87 (198)
T 2yh0_A           83 RRPHD   87 (198)
T ss_dssp             ECCCC
T ss_pred             eCCCC
Confidence            98754

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

Probab=99.58  E-value=8.5e-15  Score=100.07  Aligned_cols=68  Identities=9%  Similarity=0.053  Sum_probs=60.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      ..|+++|+++|++||.|.+|. +.|. +|+++|||||+|.+.++|++|| .+|+..+.|+.|.|..+....
T Consensus        17 ~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~~~~   87 (110)
T 3s8s_A           17 NVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKGQ   87 (110)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSTTH
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCc
Confidence            469999999999999999984 4565 7999999999999999999999 589999999999998766443

>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=99.58  E-value=2.4e-15  Score=104.94  Aligned_cols=76  Identities=22%  Similarity=0.295  Sum_probs=66.7

Q ss_pred             CchHHHHHHHhcccCccee-EEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhc
Q 029263            3 LPQVQVLCTIHHQLMDIVD-VLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANE   78 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~   78 (196)
                      ..|+++|+++|+.||.|.+ +++ .+.+|+++|||||+|.+.++|.+||++|+..|+++.|.|..+.+.++...+...
T Consensus        36 ~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~~~~~~~~~~~~  113 (124)
T 1wel_A           36 EAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMI  113 (124)
T ss_dssp             TCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEECHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECCHHHHHHHHHHH
Confidence            4689999999999999987 344 457999999999999999999999999999999999999999988876655443

>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=99.58  E-value=2.3e-14  Score=98.12  Aligned_cols=78  Identities=17%  Similarity=0.269  Sum_probs=65.0

Q ss_pred             CcccEEEEcCCCCCCC-----------HHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCc
Q 029263          105 VHTGILRLRGLPFSAG-----------KDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMT  172 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t-----------~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~  172 (196)
                      ..+.+|+|+||....+           +++|+++|++||.+. .|.| .+.  .++|||||+|.+.++|.+|+.. ||..
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~-~v~i-~~~--~~~G~afV~f~~~~~A~~Ai~~lng~~   88 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIR-KLLL-FDR--HPDGVASVSFRDPEEADYCIQTLDGRW   88 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCS-EEEE-ETT--CTTCEEEEECSCHHHHHHHHHHSTTCE
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEe-EEEE-ecC--CCCEEEEEEECCHHHHHHHHHHcCCCE
Confidence            3568999999944432           689999999999776 6755 443  4899999999999999999965 9999


Q ss_pred             cCCeEEEEEECChH
Q 029263          173 LGSRYIELFPSSHE  186 (196)
Q Consensus       173 l~gr~i~V~~~~~~  186 (196)
                      ++||.|.|.++.+.
T Consensus        89 ~~gr~l~v~~a~~~  102 (112)
T 2dit_A           89 FGGRQITAQAWDGT  102 (112)
T ss_dssp             ETTEECEEEECCSC
T ss_pred             ECCcEEEEEEeCCC
Confidence            99999999998763

>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=99.57  E-value=1.3e-15  Score=106.39  Aligned_cols=68  Identities=29%  Similarity=0.462  Sum_probs=60.8

Q ss_pred             CchHHHHHHHhcccCcce--eEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHH
Q 029263            3 LPQVQVLCTIHHQLMDIV--DVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~--~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      ..|++||+++|++| +|+  +|. +.|++|+++|||||+|.++++|++||++++..|++|+|.|.++.+.++
T Consensus        53 ~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~~a~~~e~  123 (126)
T 2hgm_A           53 GCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEV  123 (126)
T ss_dssp             TCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCEEECHHHH
T ss_pred             CCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEEECCHHHh
Confidence            46899999999998 788  775 457789999999999999999999998899999999999999887664

>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=99.57  E-value=1.2e-15  Score=111.57  Aligned_cols=80  Identities=20%  Similarity=0.340  Sum_probs=63.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcC----CCccce-EEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDF----VLSEDS-IHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~----g~~~~~-v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V  180 (196)
                      ...+|||+|||+++|+++|+++|++|    |.+... ..+.....+.++|||||+|.++++|.+|+.+|+..++|+.|.|
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            45799999999999999999999999    521000 0122222346689999999999999999966999999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      ..+..
T Consensus        83 ~~~~~   87 (172)
T 2g4b_A           83 RRPHD   87 (172)
T ss_dssp             ECCSS
T ss_pred             cCCcc
Confidence            98753

>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=99.56  E-value=5.3e-15  Score=113.60  Aligned_cols=76  Identities=18%  Similarity=0.265  Sum_probs=68.6

Q ss_pred             CcccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEE
Q 029263          105 VHTGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFP  182 (196)
Q Consensus       105 ~~~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~  182 (196)
                      ..+.+|||+|||+ ++|+++|+++|+.||.+. .|.++.+.    +|||||+|.+.++|.+|+. +||..+.|+.|.|.+
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~-~v~i~~~~----~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~  106 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVYGDVQ-RVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITL  106 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHHTCEE-EEEECCTT----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEEC
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhCCCeE-EEEEEECC----CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            3567999999999 999999999999999776 78888765    7899999999999999997 599999999999998


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +..
T Consensus       107 a~~  109 (229)
T 2adc_A          107 SKH  109 (229)
T ss_dssp             CSC
T ss_pred             ecC
Confidence            863

>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=99.56  E-value=1.6e-15  Score=102.69  Aligned_cols=71  Identities=17%  Similarity=0.279  Sum_probs=62.9

Q ss_pred             EcCCCCCCCHHHHHHHh------------hcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 029263          112 LRGLPFSAGKDDIMDFF------------KDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYI  178 (196)
Q Consensus       112 v~nLp~~~t~~~l~~~F------------~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i  178 (196)
                      +.|||+.+|+++|++.|            ++||.+. +|.++++.+|+++|||||+|.++++|.+|+.. ||..++||.|
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~-~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i   98 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVE-EMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI   98 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEE-EEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceE-EEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEE
Confidence            56788888888887777            9999877 79999888899999999999999999999975 9999999999


Q ss_pred             EEEEC
Q 029263          179 ELFPS  183 (196)
Q Consensus       179 ~V~~~  183 (196)
                      .|.++
T Consensus        99 ~v~~s  103 (104)
T 1jmt_A           99 HAELS  103 (104)
T ss_dssp             CEEEC
T ss_pred             EEEEc
Confidence            99886

>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=99.55  E-value=2.1e-14  Score=112.37  Aligned_cols=74  Identities=20%  Similarity=0.276  Sum_probs=66.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.+.     +++|||||+|.+.++|.+|+. +||..++|+.|.|.++
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~-----~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a   93 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPS-EVFIN-----RDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFA   93 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCS-EEEEE-----TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEE-EEEEe-----CCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeec
Confidence            4557999999999999999999999999776 67775     357899999999999999997 5999999999999987


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        94 ~   94 (261)
T 3sde_A           94 T   94 (261)
T ss_dssp             C
T ss_pred             c
Confidence            5

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.55  E-value=8.4e-15  Score=112.78  Aligned_cols=78  Identities=14%  Similarity=0.088  Sum_probs=67.7

Q ss_pred             CCcccEEEEcCCCCCC---------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc
Q 029263          104 AVHTGILRLRGLPFSA---------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL  173 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~---------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l  173 (196)
                      .....+|||+|||+.+         |+++|+++|++||.+. .|+++.     ++|||||+|.+.++|+.|+.. ||..|
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~-~v~v~~-----~kG~AFV~F~~~~~Ae~A~~am~g~~l  204 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDID-RIRYVE-----SKNCGFVKFKYQANAEFAKEAMSNQTL  204 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEE-EEEEEG-----GGTEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEE-EEEEEC-----CCCEEEEEeCCHHHHHHHHHHhCCCEE
Confidence            3456899999999998         7999999999999887 788874     589999999999999999965 99999


Q ss_pred             ------------CCeEEEEEECChHH
Q 029263          174 ------------GSRYIELFPSSHEE  187 (196)
Q Consensus       174 ------------~gr~i~V~~~~~~~  187 (196)
                                  .|+.|.|.++....
T Consensus       205 ~~~~~~e~~~~~~gr~L~V~wA~~~p  230 (240)
T 3u1l_A          205 LLPSDKEWDDRREGTGLLVKWANEDP  230 (240)
T ss_dssp             CCTTSTTGGGGGGSCCCEEEECC---
T ss_pred             eccccccccccCCCCEEEEEEccCCC
Confidence                        89999999997653

>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=99.55  E-value=1.3e-14  Score=99.75  Aligned_cols=92  Identities=11%  Similarity=0.136  Sum_probs=78.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHHHHHHhhcccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEYYKAIANEVSD   81 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~~   81 (196)
                      ..|+++|+++|+.||.|.++.+. .++.++|||||+|.+.++|.+|++ +|+..++|+.|.|..+.+...          
T Consensus        19 ~~t~~~l~~~F~~~G~v~~v~i~-~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~----------   87 (115)
T 3lqv_A           19 KITAEEMYDIFGKYGPIRQIRVG-NTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNANRA----------   87 (115)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEE-CSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCHHHH----------
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEe-eCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCChh----------
Confidence            46899999999999999998655 246679999999999999999995 899999999999988774431          


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCcc
Q 029263           82 VRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSE  135 (196)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~  135 (196)
                                                    ..+++...++++|.++|+.||...
T Consensus        88 ------------------------------~~~~~~~~~~~~l~~~~~~~g~~~  111 (115)
T 3lqv_A           88 ------------------------------FQKMDTKKKEEQLKLLKEKYGINT  111 (115)
T ss_dssp             ------------------------------TTTSCHHHHHHHHHHHHHHHCCCC
T ss_pred             ------------------------------hhhhhHhHhHHHHHHHHHHhCCCC
Confidence                                          056788889999999999999643

>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=99.55  E-value=2.3e-14  Score=99.01  Aligned_cols=83  Identities=17%  Similarity=0.208  Sum_probs=70.8

Q ss_pred             cccEEEEcCCCC-----CCCHHHHHHHhhcCCCccceEEEEeCC-----CCCCceEEEEEeCCHHHHHHHHHh-CCCccC
Q 029263          106 HTGILRLRGLPF-----SAGKDDIMDFFKDFVLSEDSIHITMNS-----DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG  174 (196)
Q Consensus       106 ~~~~l~v~nLp~-----~~t~~~l~~~F~~~g~~~~~v~l~~~~-----~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~  174 (196)
                      ++.+|+|+||-.     +-.++||++.|++||.+. +|.++.+.     ++.++|++||+|.+.++|.+|+.. ||..++
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~-~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~   97 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVN-RVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA   97 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEE-EEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEe-EEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC
Confidence            467999999932     224689999999999877 78888764     356789999999999999999975 999999


Q ss_pred             CeEEEEEECChHHHH
Q 029263          175 SRYIELFPSSHEEMD  189 (196)
Q Consensus       175 gr~i~V~~~~~~~~~  189 (196)
                      ||.|+|.++....+.
T Consensus        98 GR~i~v~~~~~~~f~  112 (118)
T 3ue2_A           98 GRKVVAEVYDQERFD  112 (118)
T ss_dssp             TEECEEEEECHHHHH
T ss_pred             CcEEEEEEcChHhcc
Confidence            999999999887765

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.54  E-value=8.1e-15  Score=99.02  Aligned_cols=65  Identities=8%  Similarity=0.065  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+..|.++|||||+|.+.++|.+||++++..++|+.|.|....
T Consensus        22 ~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           22 DATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKD   87 (103)
T ss_dssp             TCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEEHH
T ss_pred             CCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEch
Confidence            4799999999999999999854 5667999999999999999999999999999999999997544

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.54  E-value=7.3e-15  Score=110.02  Aligned_cols=74  Identities=19%  Similarity=0.278  Sum_probs=67.1

Q ss_pred             ccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      +.+|||+|||+ ++|+++|+++|+.||.+. .|.++.+.    +|||||+|.+.++|.+|+. +||..++|+.|.|.++.
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~-~v~i~~~~----~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~   77 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQ-RVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   77 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCS-EEECSTTC----SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEE-EEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEec
Confidence            46899999999 999999999999999776 78887764    6799999999999999997 59999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        78 ~   78 (198)
T 1qm9_A           78 H   78 (198)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.54  E-value=8.9e-15  Score=96.27  Aligned_cols=66  Identities=18%  Similarity=0.197  Sum_probs=56.9

Q ss_pred             CchHHHHHHHhcccC--cceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLM--DIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g--~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|+++|+++|+.||  .|.++. +.+. +|+++|||||+|.+.++|++|| .+|+..++|+.|.|..+.+
T Consensus        12 ~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~~   82 (90)
T 3p5t_L           12 WTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSNK   82 (90)
T ss_dssp             TCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC--
T ss_pred             CCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECCC
Confidence            468999999999999  899985 4564 9999999999999999999999 6899999999999976663

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.53  E-value=2.5e-14  Score=92.81  Aligned_cols=67  Identities=15%  Similarity=-0.005  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYK   73 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~   73 (196)
                      ..||++|+++|++||+|.++.+..    ++|||||+|.++++|.+|+ .+|+..++++.|.|..++..++..
T Consensus        18 ~~te~~L~~lF~q~G~V~~~~l~~----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~e~~~~~   85 (89)
T 2wbr_A           18 QIDGPTLRTLCMQHGPLVSFHPYL----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPSENEVQS   85 (89)
T ss_dssp             TCCCHHHHHHHHHHSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCCHHHHHH
T ss_pred             cCCHHHHHHHHHhhCCEEEEEEcC----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECCHHHHHH
Confidence            468999999999999999986653    7899999999999999999 589999999999998887666543

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.53  E-value=2.2e-14  Score=94.44  Aligned_cols=64  Identities=30%  Similarity=0.355  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.| .|.++. +.+.+|+++|||||+|.+.++|.+||++|+..++|+.|.|..+.
T Consensus        21 ~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A           21 NVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREK   85 (91)
T ss_dssp             SCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEEEES
T ss_pred             CCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEEECC
Confidence            46899999999998 999984 55789999999999999999999999999999999999998776

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.52  E-value=1.2e-14  Score=92.21  Aligned_cols=63  Identities=16%  Similarity=0.188  Sum_probs=56.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|+.||.|.++. +.++ +|+++|||||+|.+.++|++|+++++..++|+.|.|..
T Consensus        10 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~   74 (75)
T 2mss_A           10 NTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             SCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEEC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEe
Confidence            468999999999999999985 4454 89999999999999999999999999999999998854

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.52  E-value=6.1e-15  Score=97.38  Aligned_cols=65  Identities=12%  Similarity=0.018  Sum_probs=56.1

Q ss_pred             CchHHHHHHHhcccC-cceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHh--cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLM-DIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQR--NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g-~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~--~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||+++|++|| .|.+|. +.|+ +|.++|||||+|.+.++|.+||+.  ++..++|+.|.|..+.
T Consensus        12 ~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A           12 AATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             SCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            579999999999999 788885 4454 899999999999999999999963  5667999999997655

>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=99.52  E-value=3.7e-14  Score=92.52  Aligned_cols=63  Identities=13%  Similarity=0.181  Sum_probs=56.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|+.||.|.++. +.++ +|+++|||||+|.+.++|.+||+.++..++|+.|.|..
T Consensus        22 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v~~   86 (87)
T 3s7r_A           22 DTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKK   86 (87)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEe
Confidence            468999999999999999985 4554 79999999999999999999999899999999999864

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

Probab=99.52  E-value=7.9e-15  Score=94.59  Aligned_cols=59  Identities=15%  Similarity=0.231  Sum_probs=54.3

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCe-eEEE
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRR-YVEV   63 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~-~i~v   63 (196)
                      |+++|+++|++||.|.++.+...+|+++|||||+|.+.++|.+||+ +|+..++|+ .|.|
T Consensus        20 t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           20 LKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             HHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             HHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            7899999999999999987667799999999999999999999995 899999998 7765

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.52  E-value=5.2e-14  Score=94.44  Aligned_cols=62  Identities=16%  Similarity=0.027  Sum_probs=55.5

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+...   ++|||||+|.+.++|.+|++ +++..++|+.|.|..+.
T Consensus        11 ~~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A           11 GAGKGELERAFSYYGPLRTVWIARN---PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELST   73 (101)
T ss_dssp             SCSHHHHHHHHHHHCCCSEEEEESS---SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeeC---CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEcc
Confidence            4699999999999999999865533   78999999999999999995 79999999999998776

>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=99.51  E-value=6e-14  Score=91.42  Aligned_cols=66  Identities=17%  Similarity=0.134  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|.++|||||+|.+.++|++|++ +++..++|+.|.|..+.+
T Consensus        17 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   85 (87)
T 3bs9_A           17 EITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR   85 (87)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC-
T ss_pred             CCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecCC
Confidence            468999999999999999985 455 489999999999999999999995 799999999999977653

>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=99.51  E-value=3.1e-15  Score=106.34  Aligned_cols=66  Identities=23%  Similarity=0.279  Sum_probs=59.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..||+||+++|++|| |++|. +.|++|+++|||||+|.+.++|++||++|+..++++.|.|..+.+.
T Consensus        57 ~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i~V~~a~~~  123 (139)
T 2hgn_A           57 KATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTT  123 (139)
T ss_dssp             TCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCEECCCS
T ss_pred             CCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEEECCCC
Confidence            468999999999988 77885 4577899999999999999999999999999999999999887743

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

Probab=99.51  E-value=2.9e-14  Score=95.69  Aligned_cols=68  Identities=12%  Similarity=0.104  Sum_probs=59.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCC-eeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR-RYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~-~~i~v~~~~~~~   70 (196)
                      ..|+++|+++|+.||.|.+|. +.++ +|+++|||||+|.+.++|.+|| .+|+..++| +.|.|..+.+.+
T Consensus        23 ~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a~~~~   94 (100)
T 3ns6_A           23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTMKDVE   94 (100)
T ss_dssp             HHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEESHHHH
T ss_pred             HHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEECchhh
Confidence            457899999999999999985 4455 6999999999999999999999 589999998 999998876544

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

Probab=99.51  E-value=7.8e-14  Score=93.40  Aligned_cols=65  Identities=15%  Similarity=0.096  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+|| .+++..++++.|.|..+.
T Consensus        28 ~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   94 (100)
T 2do4_A           28 SCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISN   94 (100)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            469999999999999999985 45779999999999999999999999 679999999999997765

>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=99.51  E-value=5.3e-14  Score=90.85  Aligned_cols=65  Identities=9%  Similarity=0.060  Sum_probs=58.5

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|.++|||||+|.+.++|.+|++ +++..++|+.|.|..+.
T Consensus        12 ~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A           12 NVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             TCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            578999999999999999985 445 589999999999999999999995 79999999999997765

>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=99.50  E-value=6.1e-14  Score=91.77  Aligned_cols=65  Identities=15%  Similarity=0.116  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+. +|+++|||||+|.+.++|++|+.+++..++|+.|.|..+.
T Consensus        17 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V~~a~   83 (89)
T 3ucg_A           17 GATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPKR   83 (89)
T ss_dssp             TCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEETT
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEEcc
Confidence            468999999999999999985 4554 8999999999999999999999889999999999998765

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.50  E-value=6.2e-14  Score=93.71  Aligned_cols=65  Identities=17%  Similarity=0.174  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+. + .+|+++|||||+|.+.++|.+||++++..++|+.|.|..+.
T Consensus        21 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a~   87 (99)
T 2dgs_A           21 NCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRAE   87 (99)
T ss_dssp             SCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            46899999999999999998654 5 37999999999999999999999999999999999997766

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.49  E-value=3.4e-14  Score=94.48  Aligned_cols=65  Identities=17%  Similarity=0.157  Sum_probs=55.0

Q ss_pred             CchHHHHHHHhcccCc--ceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hccc----ccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMD--IVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQ----NMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~--i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~----~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.  |.+|. +.|+ +|+++|||||+|.+.++|.+||+ +|+.    .++||.|.|..+.
T Consensus        20 ~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           20 HTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK   93 (95)
T ss_dssp             TCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEEEECC
T ss_pred             cCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEEEEcc
Confidence            5799999999999995  56775 4564 89999999999999999999995 6775    4899999997654

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

Probab=99.49  E-value=1.5e-13  Score=93.09  Aligned_cols=68  Identities=9%  Similarity=-0.041  Sum_probs=59.7

Q ss_pred             chHHHHHHHhcccCcceeEEEe-cC--CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFV-HK--NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~-~~--~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      .+++||++.|++||.|.+|.+. ++  +++++|||||+|.+.++|.+|+ .+||..++||.|.|..+....|
T Consensus        25 d~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~a~~~~f   96 (105)
T 2pe8_A           25 DLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKF   96 (105)
T ss_dssp             -CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCHHHH
T ss_pred             HHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcCHHHh
Confidence            3789999999999999998654 44  3689999999999999999999 6899999999999988886655

>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=99.49  E-value=7.6e-14  Score=92.47  Aligned_cols=65  Identities=17%  Similarity=0.171  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        27 ~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           27 RVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            468999999999999999985 457789999999999999999999996 89999999999997654

>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=99.48  E-value=1.2e-13  Score=93.50  Aligned_cols=65  Identities=8%  Similarity=-0.023  Sum_probs=58.5

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        40 ~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           40 GVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            468999999999999999984 557799999999999999999999995 79999999999997653

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

Probab=99.47  E-value=4.3e-14  Score=95.69  Aligned_cols=63  Identities=14%  Similarity=0.174  Sum_probs=57.9

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCe-eEEEEEcC
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRR-YVEVFRSK   67 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~-~i~v~~~~   67 (196)
                      |+++|+++|+.||.|.++.+...+|+++|||||+|.+.++|.+||+ +|+..++|+ .|.|..+.
T Consensus        34 t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~a~   98 (105)
T 2nlw_A           34 LKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNLFT   98 (105)
T ss_dssp             HHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEECSC
T ss_pred             HHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEEcc
Confidence            8899999999999999997667799999999999999999999995 799999998 99997665

>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=99.47  E-value=1.1e-13  Score=92.42  Aligned_cols=65  Identities=17%  Similarity=0.216  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. +|+++|||||+|.+.++|.+|| .+|+..++++.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A           19 TSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            4699999999999999999854 455 8999999999999999999999 789999999999998776

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.47  E-value=1.9e-13  Score=91.36  Aligned_cols=64  Identities=14%  Similarity=0.182  Sum_probs=57.1

Q ss_pred             CchHHHHHHHhcccCccee--------EE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVD--------VL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~--------v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.+        +. +.+ .+|+++|||||+|.+.++|.+||+ +++..++|+.|.|..+
T Consensus        24 ~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           24 NVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   98 (99)
T ss_dssp             SCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             CCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEec
Confidence            4689999999999999998        74 455 489999999999999999999995 8999999999998754

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.47  E-value=1.7e-13  Score=99.23  Aligned_cols=69  Identities=20%  Similarity=0.163  Sum_probs=61.2

Q ss_pred             CchHHHHHHHhcccC--cceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHH
Q 029263            3 LPQVQVLCTIHHQLM--DIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g--~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      ..|+++|+++|+.||  .|.+|. +.| .+|+++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.+...
T Consensus        66 ~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a~~~~~  139 (156)
T 3n9u_C           66 WTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNL  139 (156)
T ss_dssp             TCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEECCHHHH
T ss_pred             CCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEcCCCcc
Confidence            468999999999999  899985 456 489999999999999999999995 599999999999998876543

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

Probab=99.46  E-value=2.1e-13  Score=90.28  Aligned_cols=65  Identities=17%  Similarity=0.133  Sum_probs=57.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.++ +|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (95)
T 2cqc_A           26 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPS   93 (95)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCS
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecC
Confidence            468999999999999999985 4454 78999999999999999999995 79999999999997654

>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=99.46  E-value=1.2e-13  Score=89.61  Aligned_cols=64  Identities=20%  Similarity=0.207  Sum_probs=57.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|++||.|.++.+ .+ .+|+++|||||+|.+.++|.+|+ .+|+..++|+.|.|..+
T Consensus        18 ~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A           18 EVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            4689999999999999999853 45 68999999999999999999999 68999999999998654

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

Probab=99.46  E-value=2e-13  Score=90.45  Aligned_cols=65  Identities=15%  Similarity=0.111  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. +|+++|||||+|.+.++|.+||+ +|+..++++.|.|..+.
T Consensus        16 ~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   83 (95)
T 2dnz_A           16 NITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVT   83 (95)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESS
T ss_pred             CCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            4689999999999999999854 454 79999999999999999999995 89999999999997766

>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=99.46  E-value=1.3e-13  Score=94.97  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+.+|.++|||||+|.+.++|++||+ +++..++|+.|.|..+.
T Consensus        18 ~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A           18 ETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             TCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            468999999999999999985 456799999999999999999999995 79999999999997776

>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=99.46  E-value=3e-14  Score=90.30  Aligned_cols=63  Identities=14%  Similarity=0.138  Sum_probs=56.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|.++|||||+|.+.++|.+||+.++..++|+.|.|..
T Consensus        10 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~   74 (75)
T 1iqt_A           10 DTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             SCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEE
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            4689999999999999999853 45 479999999999999999999998899999999988854

>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=99.46  E-value=1.9e-13  Score=92.19  Aligned_cols=65  Identities=9%  Similarity=0.011  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCC---eeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGR---RYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~---~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+||+ +++..+.+   +.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a~   95 (105)
T 2dnh_A           26 QQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFAD   95 (105)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEESC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEECc
Confidence            468999999999999999985 557799999999999999999999995 89998887   999997766

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.2e-13  Score=94.78  Aligned_cols=68  Identities=15%  Similarity=0.081  Sum_probs=60.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|.++|||||+|.+.++|++||.+|+..++|+.|.|..+....
T Consensus        36 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~~~~  105 (114)
T 2cq4_A           36 RIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQAEK  105 (114)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHHHHH
T ss_pred             CCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEEecCCCc
Confidence            4689999999999999999865 454 6999999999999999999999889999999999998776443

>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=99.45  E-value=1.4e-13  Score=91.13  Aligned_cols=65  Identities=15%  Similarity=0.116  Sum_probs=57.1

Q ss_pred             CchHHHHHHHhcccCcceeE-EEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.++ ++. ..+|+++|||||+|.+.++|++||+ +|+..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           26 TVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             TCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            46899999999999999875 333 4689999999999999999999995 89999999999997654

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

Probab=99.45  E-value=3e-13  Score=92.61  Aligned_cols=65  Identities=15%  Similarity=0.019  Sum_probs=59.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           26 KVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            468999999999999999985 557789999999999999999999995 89999999999997765

>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=99.45  E-value=6.8e-13  Score=91.00  Aligned_cols=82  Identities=15%  Similarity=0.112  Sum_probs=68.0

Q ss_pred             cccEEEEcCCCCCC----------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccC
Q 029263          106 HTGILRLRGLPFSA----------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLG  174 (196)
Q Consensus       106 ~~~~l~v~nLp~~~----------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~  174 (196)
                      .+++|.++||=..-          .++||++.|++||.+. +|.+.++   .++|+|||+|.+.++|.+|+.. ||..++
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~-~v~i~~~---~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~   81 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVI-HIYVDKN---SAQGNVYVKCPSIAAAIAAVNALHGRWFA   81 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCS-EEEECTT---CTTCCEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEE-EEEEecC---CCcEEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            46789999983221          2358899999999876 7877654   2589999999999999999975 999999


Q ss_pred             CeEEEEEECChHHHHHH
Q 029263          175 SRYIELFPSSHEEMDEA  191 (196)
Q Consensus       175 gr~i~V~~~~~~~~~~~  191 (196)
                      ||.|+|.++....+...
T Consensus        82 GR~i~v~~~~~~~y~~~   98 (114)
T 3s6e_A           82 GKMITAAYVPLPTYHNL   98 (114)
T ss_dssp             TEECEEEEECHHHHHHH
T ss_pred             CEEEEEEEEcHHHHHHh
Confidence            99999999998888764

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.45  E-value=1.5e-13  Score=90.54  Aligned_cols=65  Identities=14%  Similarity=0.059  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+...+|+++|||||+|.+.++|++|++ +++..++++.|.|..+.
T Consensus        19 ~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   84 (92)
T 2dgv_A           19 DFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDR   84 (92)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            468999999999999999986555689999999999999999999995 79999999999997665

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

Probab=99.45  E-value=2.9e-13  Score=89.43  Aligned_cols=64  Identities=17%  Similarity=0.105  Sum_probs=56.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.++.+. ++ +|+++|||||+|.+.++|.+|+ .+|+..++++.|.|..+
T Consensus        27 ~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           27 SLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             TSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            46899999999999999998654 44 6899999999999999999999 58999999999999654

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

Probab=99.45  E-value=2.2e-13  Score=91.67  Aligned_cols=65  Identities=12%  Similarity=0.024  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+ .+|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (103)
T 2cq0_A           26 DTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   93 (103)
T ss_dssp             TCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECC
Confidence            468999999999999999985 445 489999999999999999999995 89999999999997766

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.44  E-value=2.4e-13  Score=94.52  Aligned_cols=65  Identities=15%  Similarity=0.096  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+ .+|.++|||||+|.+.++|.+||++++..++|+.|.|..+.
T Consensus        47 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           47 GSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            468999999999999999985 445 58999999999999999999999889999999999997765

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.44  E-value=2.4e-13  Score=92.62  Aligned_cols=65  Identities=14%  Similarity=0.142  Sum_probs=58.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|.++|||||+|.+.++|.+||+.++..++|+.|.|..+.
T Consensus        36 ~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~a~  102 (109)
T 2rs2_A           36 QTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAF  102 (109)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcc
Confidence            4689999999999999999865 454 7999999999999999999999877899999999997765

>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=99.44  E-value=2.1e-13  Score=93.66  Aligned_cols=65  Identities=18%  Similarity=0.189  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+. +|+++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        36 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  103 (115)
T 2cpz_A           36 EFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR  103 (115)
T ss_dssp             SCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            468999999999999999984 4565 8999999999999999999999 679999999999997665

>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=99.44  E-value=2.1e-13  Score=90.63  Aligned_cols=67  Identities=12%  Similarity=0.148  Sum_probs=59.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|.++|||||+|.+.++|.+|+ .+++..++|+.|.|..+.+.
T Consensus        13 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   82 (96)
T 2x1f_A           13 DQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNS   82 (96)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCCC
Confidence            4689999999999999999864 45 37999999999999999999999 58999999999999877643

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=2.3e-13  Score=93.52  Aligned_cols=65  Identities=18%  Similarity=0.183  Sum_probs=58.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+ .+|+++|||||+|.+.++|++||+.++..++|+.|.|..+.
T Consensus        38 ~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a~  104 (116)
T 1x4b_A           38 ETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV  104 (116)
T ss_dssp             CCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEEEECC
Confidence            4789999999999999999854 45 47999999999999999999999779999999999997765

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.44  E-value=2.7e-13  Score=91.24  Aligned_cols=64  Identities=20%  Similarity=0.163  Sum_probs=57.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.|+ |.+|. +.+. +|+++|||||+|.+.++|.+||++++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~   91 (103)
T 2dng_A           26 NTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIAE   91 (103)
T ss_dssp             TCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEec
Confidence            468999999999985 98885 4554 7999999999999999999999999999999999997766

>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=99.44  E-value=1.6e-13  Score=92.59  Aligned_cols=65  Identities=12%  Similarity=0.162  Sum_probs=58.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   93 (105)
T 1x5u_A           26 KVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   93 (105)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            4689999999999999999864 454 89999999999999999999996 79999999999998776

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

Probab=99.44  E-value=3e-13  Score=90.96  Aligned_cols=64  Identities=13%  Similarity=0.082  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+ +|.++|||||+|.+.++|.+||+ +|+..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           26 GIDDERLRKAFSPFGTITSAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             TCCHHHHHHTTTTTSCEEEEEEEEC-SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEcC-CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            4689999999999999999854 46 99999999999999999999995 89999999999997766

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

Probab=99.44  E-value=3.4e-13  Score=92.50  Aligned_cols=65  Identities=15%  Similarity=0.084  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+. +|.++|||||+|.+.++|++||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (115)
T 2dgo_A           26 EITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   93 (115)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            468999999999999999985 4554 89999999999999999999995 79999999999998776

>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=99.44  E-value=2.2e-13  Score=92.68  Aligned_cols=65  Identities=15%  Similarity=0.114  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|+++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        37 ~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  104 (108)
T 2jrs_A           37 NITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVT  104 (108)
T ss_dssp             SCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcc
Confidence            468999999999999999985 445 489999999999999999999994 89999999999997665

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=4e-13  Score=90.80  Aligned_cols=65  Identities=9%  Similarity=0.058  Sum_probs=58.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. +|.++|||||+|.+.++|++||+ +++..++|+.|.|..+.
T Consensus        34 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  101 (106)
T 1p27_B           34 EATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            4689999999999999999854 454 79999999999999999999995 89999999999997665

>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=99.44  E-value=3e-13  Score=91.02  Aligned_cols=68  Identities=16%  Similarity=0.156  Sum_probs=60.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~   70 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|.++|||||+|.+.++|.+||+ +++..++|+.|.|..+.+..
T Consensus        19 ~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   89 (104)
T 1p1t_A           19 EATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASEK   89 (104)
T ss_dssp             TSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCTT
T ss_pred             cCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCCcc
Confidence            468999999999999999985 445 489999999999999999999994 89999999999998776544

>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=99.44  E-value=2.1e-13  Score=90.89  Aligned_cols=65  Identities=15%  Similarity=0.139  Sum_probs=57.4

Q ss_pred             CchHHHHHHHhcccCcceeE-EEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++ ++. ..+|+++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   93 (98)
T 2cqp_A           26 TVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS   93 (98)
T ss_dssp             TCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcC
Confidence            46899999999999999865 333 568999999999999999999999 689999999999997765

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.44  E-value=4e-13  Score=93.44  Aligned_cols=65  Identities=6%  Similarity=-0.055  Sum_probs=59.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+|++ +++..++|+.|.|..+.
T Consensus        46 ~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  112 (124)
T 2kt5_A           46 GVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  112 (124)
T ss_dssp             SCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEEC
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeC
Confidence            468999999999999999985 456799999999999999999999995 89999999999997766

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=1.2e-13  Score=93.36  Aligned_cols=65  Identities=17%  Similarity=0.200  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+ .+|.++|||||+|.+.++|.+||+.++..++++.|.|..+.
T Consensus        27 ~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~V~~a~   93 (105)
T 2dh8_A           27 STTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKPCT   93 (105)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBCCCSC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEcc
Confidence            468999999999999999985 455 48999999999999999999999779999999999996655

>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=99.43  E-value=5.2e-13  Score=89.80  Aligned_cols=65  Identities=18%  Similarity=0.144  Sum_probs=57.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+....+.++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           26 RFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             TCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            468999999999999999996553333489999999999999999995 79999999999997766

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

Probab=99.43  E-value=3.3e-13  Score=89.54  Aligned_cols=65  Identities=17%  Similarity=0.092  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeE-EEe-c-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFV-H-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~-~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++ .+. + .+|.++|||||+|.+.++|++||+ +++..++++.|.|..+.
T Consensus        16 ~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (96)
T 1x5t_A           16 EIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   84 (96)
T ss_dssp             TCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEec
Confidence            46899999999999999988 654 5 589999999999999999999996 89999999999997766

>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=99.43  E-value=2.9e-13  Score=91.27  Aligned_cols=64  Identities=16%  Similarity=0.140  Sum_probs=57.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-C-CcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-N-NKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~-g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.|| |.+|.+ .+. + |+++|||||+|.+.++|++||.+++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~   92 (104)
T 1wi8_A           26 DVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             SCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEcc
Confidence            468999999999998 988854 454 4 899999999999999999999889999999999997766

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=2.8e-13  Score=92.29  Aligned_cols=65  Identities=18%  Similarity=0.144  Sum_probs=57.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+....+.++|||||+|.+.++|++|++ +++..++|+.|.|..+.
T Consensus        40 ~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           40 RFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             TCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            468999999999999999997654445699999999999999999995 79999999999997765

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=2.4e-13  Score=91.24  Aligned_cols=65  Identities=22%  Similarity=0.220  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+ .+|+++|||||+|.+.++|.+|| .+++..++++.|.|..+.
T Consensus        23 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2cqb_A           23 EVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   90 (102)
T ss_dssp             SCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCC
Confidence            4689999999999999999864 45 47999999999999999999999 579999999999997766

>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=99.42  E-value=5.1e-13  Score=89.83  Aligned_cols=65  Identities=11%  Similarity=0.005  Sum_probs=57.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+....+.++|||||+|.+.++|.+||+ +++..+.++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2cqi_A           26 DVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   91 (103)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECC
Confidence            468999999999999999986554344579999999999999999995 89999999999997766

>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=99.42  E-value=2.5e-13  Score=91.77  Aligned_cols=61  Identities=8%  Similarity=0.104  Sum_probs=52.1

Q ss_pred             HHHHHHHh-cccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            6 VQVLCTIH-HQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         6 e~dl~~~F-~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      ++||++.| ++||.|.+|.+. +.+|+++|||||+|.+.++|.+|+ .+||..++||.|.|..+
T Consensus        40 ~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           40 FEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEc
Confidence            35566666 999999998654 567899999999999999999999 58999999999988543

>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=99.42  E-value=9.1e-14  Score=93.19  Aligned_cols=64  Identities=16%  Similarity=0.126  Sum_probs=57.0

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC--CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK--NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~--~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.|| |.++.+ .+.  +|+++|||||+|.+.++|.+||.+++..++|+.|.|..+.
T Consensus        30 ~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~l~V~~a~   96 (100)
T 2j76_E           30 DVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDVAD   96 (100)
T ss_dssp             CCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEECC
T ss_pred             CCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEecc
Confidence            468999999999999 998864 453  8999999999999999999999889999999999987665

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.42  E-value=1.4e-12  Score=87.42  Aligned_cols=74  Identities=18%  Similarity=0.208  Sum_probs=60.2

Q ss_pred             ccEEEEcCCC-------CCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEE
Q 029263          107 TGILRLRGLP-------FSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIE  179 (196)
Q Consensus       107 ~~~l~v~nLp-------~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~  179 (196)
                      ..+|.|.-.+       ..+|+++|+++|++||.+. .|.|+    +.++|||||+|.+.++|..|+.. +..+.|++|+
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~-~v~i~----~~~rGfaFVeF~~~~~A~~Ai~~-~~~~~g~~l~   83 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVL-NLVLS----SKKPGTAVVEFATVKAAELAVQN-EVGLVDNPLK   83 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEE-EEEEE----SSSSSEEEEEESCHHHHHHHHHT-CCBCSSSBCE
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEE-EEEEc----cCCCCEEEEEECCHHHHHHHHHh-cCCCCCCeEE
Confidence            3456665443       5689999999999999776 67777    57899999999999999999986 3446799999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++.+.
T Consensus        84 V~~a~~~   90 (100)
T 2d9o_A           84 ISWLEGQ   90 (100)
T ss_dssp             EECSSCC
T ss_pred             EEEccCC
Confidence            9998653

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.42  E-value=4.5e-13  Score=90.64  Aligned_cols=65  Identities=8%  Similarity=0.035  Sum_probs=58.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c--CCCcccceEEEEeCCHHHHHHHHH-h-cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H--KNNKFTGEAFCVLGYPLQVDFALQ-R-NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~--~~g~~~G~afV~F~~~~~a~~Al~-~-~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+. +  .+|.++|||||+|.+.++|.+||+ + |+..+.++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a~   95 (107)
T 2cph_A           26 QANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   95 (107)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             cCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeCC
Confidence            46899999999999999998654 4  289999999999999999999995 6 8999999999997766

>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=99.41  E-value=5.8e-13  Score=90.14  Aligned_cols=67  Identities=10%  Similarity=0.035  Sum_probs=58.5

Q ss_pred             hHHHHHHHhcccCcceeEEEe-cCC---CcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-HKN---NKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~~~---g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      +++||++.|++||.|.+|.+. +..   ++++|+|||+|.+.++|.+|+ .+||..++||.|.|.......+
T Consensus        28 ~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~~~f   99 (105)
T 3v4m_A           28 IVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSY   99 (105)
T ss_dssp             HHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHH
T ss_pred             HHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEeCHHHH
Confidence            568999999999999999754 433   368999999999999999999 6899999999999988776655

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.41  E-value=2.2e-13  Score=86.62  Aligned_cols=64  Identities=14%  Similarity=0.161  Sum_probs=55.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|++||.|.++.+ .++ +|+++|||||+|.+.++|++|++..+..++|+.|.|..+
T Consensus        11 ~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~a   76 (77)
T 1uaw_A           11 QTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             SCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCCCccCCEEEEEEec
Confidence            4689999999999999999854 454 799999999999999999999975448899999988653

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=2.7e-13  Score=90.99  Aligned_cols=65  Identities=17%  Similarity=0.170  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+. + .+|+++|||||+|.+.++|.+|| .+|+..++++.|.|..+.
T Consensus        23 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   90 (102)
T 1x5s_A           23 DTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   90 (102)
T ss_dssp             TCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            46899999999999999998654 4 48899999999999999999999 689999999999997665

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.41  E-value=2.4e-13  Score=91.51  Aligned_cols=65  Identities=14%  Similarity=0.069  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. +|+++|||||+|.+.++|++||+ +|+..++++.|.|..+.
T Consensus        24 ~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2dnm_A           24 RTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVAR   91 (103)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECC
Confidence            4689999999999999999864 454 69999999999999999999995 89999999999997766

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.41  E-value=2.2e-13  Score=91.73  Aligned_cols=65  Identities=12%  Similarity=0.031  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcc-cCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hcccc-cCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQ-LMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQN-MGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~-~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~-l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+. ||.|.++. +.+.+|+++|||||+|.+.++|.+||+ +++.. ++|+.|.|..+.
T Consensus        20 ~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a~   88 (104)
T 2dhg_A           20 DVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAI   88 (104)
T ss_dssp             TCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBCC
T ss_pred             CCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEcc
Confidence            4689999999999 99999984 556799999999999999999999995 89999 999999986654

>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=99.41  E-value=7.9e-13  Score=88.88  Aligned_cols=64  Identities=11%  Similarity=0.013  Sum_probs=56.7

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+. +|+++|||||+|.+.++|.+||+ ++..++|+.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~l~v~~a~   91 (103)
T 2cqg_A           26 KTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLPN   91 (103)
T ss_dssp             SCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECCC
T ss_pred             cCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeEEEEEecC
Confidence            468999999999999999985 4554 79999999999999999999997 4778999999997766

>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=99.40  E-value=5.2e-13  Score=90.87  Aligned_cols=65  Identities=12%  Similarity=-0.005  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|.++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        37 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  104 (110)
T 1oo0_B           37 EAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  104 (110)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEcc
Confidence            4689999999999999999864 45 489999999999999999999995 89999999999997665

>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=99.40  E-value=5.4e-13  Score=90.83  Aligned_cols=65  Identities=17%  Similarity=0.132  Sum_probs=57.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hc------ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RN------RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~------~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+ .+|.++|||||+|.+.++|.+||+ ++      +..++|+.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~~a~   99 (111)
T 1x4h_A           26 DSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAV   99 (111)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECCC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEEECC
Confidence            4699999999999999999864 45 478999999999999999999995 77      899999999997765

>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=99.40  E-value=4.2e-13  Score=94.18  Aligned_cols=65  Identities=18%  Similarity=0.116  Sum_probs=57.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+ .+|+++|||||+|.+.++|++||+ +++..++|+.|.|..+.
T Consensus        57 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~  124 (129)
T 2kxn_B           57 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSI  124 (129)
T ss_dssp             SCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            4689999999999999999854 45 478999999999999999999995 89999999999996554

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.40  E-value=5.4e-13  Score=88.86  Aligned_cols=65  Identities=18%  Similarity=0.091  Sum_probs=56.9

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC----CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK----NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~----~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+.    +|.++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        16 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (98)
T 2cpf_A           16 STTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   86 (98)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Confidence            4689999999999999999854 343    44899999999999999999996 79999999999997766

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.39  E-value=6.5e-13  Score=94.14  Aligned_cols=65  Identities=14%  Similarity=0.074  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+. +|+++|||||+|.+.++|.+||+ +|+..++++.|.|..+.
T Consensus        53 ~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  120 (139)
T 1u6f_A           53 TVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA  120 (139)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            468999999999999999985 4454 79999999999999999999995 79999999999997766

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=1.8e-13  Score=88.81  Aligned_cols=62  Identities=16%  Similarity=0.118  Sum_probs=54.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVF   64 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~   64 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|.++|||||+|.+.++|.+|++ +|+..+.++.+++.
T Consensus        16 ~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~   80 (85)
T 1x4e_A           16 GTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQS   80 (85)
T ss_dssp             TCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeec
Confidence            4689999999999999999854 45 489999999999999999999995 89999999987763

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.39  E-value=2.6e-13  Score=91.12  Aligned_cols=64  Identities=8%  Similarity=0.074  Sum_probs=57.7

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|++||+ ++..++|+.|.|..+.
T Consensus        20 ~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~v~~a~   84 (102)
T 2xs2_A           20 RMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLKLGPAI   84 (102)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECEEEEEE
T ss_pred             CCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeECCEEEEEEECC
Confidence            468999999999999999984 556799999999999999999999999 9999999999986654

>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=99.39  E-value=4.2e-13  Score=90.66  Aligned_cols=65  Identities=14%  Similarity=0.043  Sum_probs=57.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hccccc---CCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNM---GRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l---~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|+++|||||+|.+.++|.+||+ +++..+   .++.|.|..+.
T Consensus        24 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a~   94 (106)
T 2dgp_A           24 NLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPAD   94 (106)
T ss_dssp             TCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEECC
Confidence            4689999999999999999864 444 79999999999999999999995 899887   88999997766

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.39  E-value=4.5e-13  Score=89.40  Aligned_cols=65  Identities=9%  Similarity=0.066  Sum_probs=57.4

Q ss_pred             CchHHHHHHHhcccCcce-eEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCee----EEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIV-DVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRY----VEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~-~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~----i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|. ++. +.++ +|+++|||||+|.+.++|++||+ +|+..+.++.    |.|..+.
T Consensus        20 ~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~a~   92 (99)
T 2div_A           20 YMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYAT   92 (99)
T ss_dssp             TCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEETT
T ss_pred             CCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEeecC
Confidence            479999999999999999 884 4564 89999999999999999999996 8999999998    8886655

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.39  E-value=6e-13  Score=90.89  Aligned_cols=63  Identities=14%  Similarity=-0.020  Sum_probs=55.6

Q ss_pred             CchHHHHHHHhcccC-cceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLM-DIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g-~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.|| .|..+.+..  +.++|||||+|.+.++|++|| .+|+..++|+.|.|..+.
T Consensus        39 ~~te~dL~~~F~~~G~~v~~v~i~~--~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~  103 (111)
T 2jvr_A           39 GCSWQDLKDLARENSLETTFSSVNT--RDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDD  103 (111)
T ss_dssp             CCCHHHHHHHHHHHTCCCSEEECSS--CSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESC
T ss_pred             CCCHHHHHHHHHHhCCeeEEEEEEc--CCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            468999999999999 888886542  358899999999999999999 589999999999997765

>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=99.39  E-value=4.4e-13  Score=87.38  Aligned_cols=65  Identities=12%  Similarity=0.097  Sum_probs=56.3

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCc-ccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNK-FTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~-~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. ++. ++|||||+|.+.++|.+|++ +|+..++|+.|.|..+.
T Consensus        15 ~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   83 (88)
T 4a8x_A           15 NVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAVL   83 (88)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEECC
Confidence            5689999999999999999853 443 344 89999999999999999996 79999999999997664

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.38  E-value=4e-13  Score=92.57  Aligned_cols=64  Identities=11%  Similarity=0.094  Sum_probs=56.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.++.+. + .+|+++|||||+|.+.++|++||+ +|+..++|+.|.|..+
T Consensus        51 ~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           51 EFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             TCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            46899999999999999998654 5 479999999999999999999995 7999999999988653

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.38  E-value=7e-13  Score=90.66  Aligned_cols=65  Identities=12%  Similarity=0.124  Sum_probs=57.8

Q ss_pred             CchHHHHHHHhcccCcce--------eEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIV--------DVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~--------~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.        .|. +.+ .+|+++|||||+|.+.++|.+||+ +|+..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  101 (113)
T 2cpe_A           26 SVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR  101 (113)
T ss_dssp             TCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSS
T ss_pred             CCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCCCEEEEEECC
Confidence            468999999999999998        574 345 589999999999999999999995 79999999999997766

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.38  E-value=1.2e-12  Score=87.74  Aligned_cols=61  Identities=11%  Similarity=0.139  Sum_probs=52.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||+|.+|.+.   ++++|||||+|.+.++|..||+. ...+.+++|.|..+.
T Consensus        28 ~~te~~L~~~F~~~G~V~~v~i~---~~~rGfaFVeF~~~~~A~~Ai~~-~~~~~g~~l~V~~a~   88 (100)
T 2d9o_A           28 GYSKDVLLRLLQKYGEVLNLVLS---SKKPGTAVVEFATVKAAELAVQN-EVGLVDNPLKISWLE   88 (100)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEEE---SSSSSEEEEEESCHHHHHHHHHT-CCBCSSSBCEEECSS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEc---cCCCCEEEEEECCHHHHHHHHHh-cCCCCCCeEEEEEcc
Confidence            46899999999999999999766   57899999999999999999975 444678888886554

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.38  E-value=1.3e-12  Score=87.30  Aligned_cols=62  Identities=13%  Similarity=-0.036  Sum_probs=53.1

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccc--cCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQN--MGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~--l~~~~i~v~~~~   67 (196)
                      +..|+++|+++|++||.|.+|.+..    ++|||||+|++.++|.+|++ +++..  ++|++|.|..+.
T Consensus        31 ~~~te~~L~~lF~~fG~V~~v~i~~----~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~   95 (100)
T 3r27_A           31 DGVVEADLVEALQEFGPISYVVVMP----KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYST   95 (100)
T ss_dssp             TTCCHHHHHHHHGGGSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECS
T ss_pred             CCCCHHHHHHHHhccCCEEEEEEEc----CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecc
Confidence            3579999999999999999997653    57899999999999999995 67664  789999997665

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.38  E-value=9.5e-14  Score=93.12  Aligned_cols=65  Identities=12%  Similarity=0.058  Sum_probs=57.5

Q ss_pred             CchHHHHHHHhcccCcceeEEEec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+.++.+ .+|+++|||||+|.+.++|.+||++++..+.|+.|.|..+.
T Consensus        28 ~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~   93 (101)
T 1fj7_A           28 NKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   93 (101)
T ss_dssp             TSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEEECCS
T ss_pred             CCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEEEEcC
Confidence            468999999999999998843343 57899999999999999999999999999999999997665

>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=99.38  E-value=9.8e-13  Score=89.79  Aligned_cols=65  Identities=11%  Similarity=-0.023  Sum_probs=56.0

Q ss_pred             CchHHHHH---HHhcccCcceeEEEe-cC----CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLC---TIHHQLMDIVDVLFV-HK----NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~---~~F~~~g~i~~v~~~-~~----~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+   ++|+.||.|.++.+. +.    .++++|||||+|.+.++|++||+ +|+..++|+.|.|..+.
T Consensus        26 ~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~   99 (111)
T 2cpi_A           26 RLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLGT   99 (111)
T ss_dssp             TTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEESCC
T ss_pred             CCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            46899999   999999999998654 33    23677999999999999999995 79999999999997765

>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=99.38  E-value=1.4e-12  Score=88.56  Aligned_cols=64  Identities=13%  Similarity=0.026  Sum_probs=57.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+. .++.++|||||+|.+.++|++|| .+|+..+.++.|.|..+.
T Consensus        33 ~~t~~~l~~~F~~~G~v~~~~i~-~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           33 DIRTKDIEDVFYKYGAIRDIDLK-NRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEC-CSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEE-ECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            46999999999999999998764 35678999999999999999999 689999999999997665

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.37  E-value=6.9e-13  Score=91.81  Aligned_cols=67  Identities=10%  Similarity=-0.115  Sum_probs=55.9

Q ss_pred             CchHHHHHHHhcccCcceeE-EEecC-CCcccceEEEEeCC----HHH----HHHHHH---hcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVHK-NNKFTGEAFCVLGY----PLQ----VDFALQ---RNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~~-~g~~~G~afV~F~~----~~~----a~~Al~---~~~~~l~~~~i~v~~~~~~   69 (196)
                      +.|+++|+++|+.||+|.++ ++.|+ ||.++|||||+|.+    +++    |.+|+.   +++..++|+.|.|......
T Consensus        17 ~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~ln~~g   96 (136)
T 2j8a_A           17 NIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVILNKHS   96 (136)
T ss_dssp             CCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEEECCTT
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEEECccc
Confidence            46899999999999999998 56786 99999999999996    433    788876   4999999999999876543

>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=99.37  E-value=8.8e-13  Score=101.32  Aligned_cols=69  Identities=17%  Similarity=0.179  Sum_probs=61.6

Q ss_pred             CchHHHHHHHhcccC--cceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChHHH
Q 029263            3 LPQVQVLCTIHHQLM--DIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g--~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      ..|+++|+++|+.||  .|.+|. +.|. +|+++|||||+|.+.++|.+||+ +|+..|.++.|.|..+.+...
T Consensus        79 ~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a~~~~~  152 (229)
T 3q2s_C           79 WTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNKQFL  152 (229)
T ss_dssp             TCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEECCHHHH
T ss_pred             CCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEECCCCcc
Confidence            468999999999999  999984 4564 99999999999999999999995 899999999999988876654

>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=99.37  E-value=1.4e-12  Score=89.11  Aligned_cols=61  Identities=15%  Similarity=0.161  Sum_probs=54.7

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ++++|+++|++||.|.+|.+.+.  .++|||||+|.+.++|.+|+ .+|+..++|+.|.|..+.
T Consensus        39 ~e~~l~~~f~~~G~v~~v~i~~~--~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~  100 (112)
T 2dit_A           39 IREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWD  100 (112)
T ss_dssp             HHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECC
T ss_pred             HHHHHHHHHHccCCEeEEEEecC--CCCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeC
Confidence            47899999999999999977654  38999999999999999999 689999999999997765

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.37  E-value=1.9e-13  Score=89.63  Aligned_cols=66  Identities=14%  Similarity=0.184  Sum_probs=56.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..|+++|+++|+.||.|.++.+. +. +|+++|||||+|.+.+ |.+|++ +|+..++|+.|.|..+...
T Consensus        12 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~   80 (90)
T 2ki2_A           12 SATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPK   80 (90)
T ss_dssp             TSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC---
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCC
Confidence            56899999999999999998644 54 7999999999999999 999995 7999999999999887644

>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=99.37  E-value=1.9e-12  Score=88.65  Aligned_cols=65  Identities=9%  Similarity=0.013  Sum_probs=55.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHH-hccccc--------CCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNM--------GRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l--------~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+.+|.++|||||+|.+.++|.+||+ +|+..+        .+++|.|..+.
T Consensus        36 ~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l~v~~a~  110 (114)
T 1x5o_A           36 SMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKFSG  110 (114)
T ss_dssp             TCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCBEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCceeEEccC
Confidence            468999999999999999985 457799999999999999999999995 899988        46677775543

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.36  E-value=1e-12  Score=91.84  Aligned_cols=64  Identities=13%  Similarity=0.093  Sum_probs=55.6

Q ss_pred             chHHHHH----HHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            4 PQVQVLC----TIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         4 ~te~dl~----~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      .|+++|+    ++|++||.|.+|.+. .+|+++|||||+|.+.++|..|| .+|+..+.|++|.|..+..
T Consensus        41 ~~e~~L~~~L~~~F~~~G~I~~v~i~-~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~~  109 (127)
T 2a3j_A           41 VPKEKLQALLYALASSQGDILDIVVD-LSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSET  109 (127)
T ss_dssp             SCHHHHHHHHHHHHHHHSCEEEEEEC-CCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECCC
T ss_pred             CCHHHHHHHHHHHhccCCCeEEEEec-cCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEccC
Confidence            5677765    799999999998654 57899999999999999999999 6899999999999977653

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=1.2e-12  Score=87.75  Aligned_cols=63  Identities=17%  Similarity=0.127  Sum_probs=55.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.| . ++.+.+|+++|||||+|.+.++|++||+ +++..+.++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~g~v-~-~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   89 (101)
T 2fc9_A           26 SATEETLQEVFEKATFI-K-VPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQG   89 (101)
T ss_dssp             TCCHHHHHHHCSSCSEE-E-CCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECS
T ss_pred             CCCHHHHHHHHHhCCEE-E-EEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcC
Confidence            47999999999998877 2 2345789999999999999999999996 89999999999997776

>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=99.36  E-value=5.5e-12  Score=86.46  Aligned_cols=69  Identities=4%  Similarity=-0.017  Sum_probs=60.0

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHHHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      .++||++.|++||.|.+|.+...+  ++|+|||+|.+.++|.+|+ .+||..++||.|.|.......|....
T Consensus        30 l~edl~~~f~kfG~V~~v~i~~~~--~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~v~~~~~~~y~~~f   99 (114)
T 3s6e_A           30 IKDDVIEECNKHGGVIHIYVDKNS--AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHNLF   99 (114)
T ss_dssp             HHHHHHHHHTTTTCCSEEEECTTC--TTCCEEEECSSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHHHC
T ss_pred             HHHHHHHHHhccCCEEEEEEecCC--CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEEcHHHHHHhC
Confidence            467999999999999999765433  5899999999999999999 68999999999999988888776543

>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=99.36  E-value=2.2e-12  Score=93.23  Aligned_cols=65  Identities=12%  Similarity=0.125  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+. +|.++|||||+|.+.++|++||+ +++..++++.|.|..+.
T Consensus        50 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  117 (156)
T 1h2v_Z           50 YTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA  117 (156)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            468999999999999999985 4554 79999999999999999999996 79999999999997765

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=2e-12  Score=85.99  Aligned_cols=61  Identities=15%  Similarity=0.053  Sum_probs=54.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+.    +++|||||+|.+.++|.+|| .+++..++++.|.|..+.
T Consensus        24 ~~t~~~l~~~F~~~G~i~~v~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~   85 (97)
T 1x5p_A           24 DMTPTLLRGAFSPFGNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   85 (97)
T ss_dssp             SCCHHHHHHHHTTTSCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCS
T ss_pred             CCCHHHHHHHHhhCCCEEEEEec----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            36899999999999999998763    67899999999999999999 679999999999997665

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=1.4e-12  Score=89.58  Aligned_cols=64  Identities=16%  Similarity=0.126  Sum_probs=56.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+. + .+|+++|||||+|.+.++|++||+ +++ .+.++.|.|..+.
T Consensus        28 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a~   94 (116)
T 2cqd_A           28 HTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAY   94 (116)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEEST
T ss_pred             CCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEcc
Confidence            46899999999999999998654 4 379999999999999999999996 455 8999999998775

>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=99.35  E-value=1.9e-12  Score=90.16  Aligned_cols=65  Identities=9%  Similarity=0.044  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|.++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        33 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  100 (126)
T 3ex7_B           33 EATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  100 (126)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEec
Confidence            4689999999999999999864 454 8999999999999999999999 589999999999997665

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.35  E-value=1.5e-12  Score=92.09  Aligned_cols=63  Identities=21%  Similarity=0.204  Sum_probs=56.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|+.||.|.++.+ .+ .+|+++|||||+|.+.++|++|| .+++..++|+.|.|..
T Consensus        74 ~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A           74 EVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            4689999999999999999864 45 48999999999999999999999 5899999999999853

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.34  E-value=1.3e-12  Score=86.72  Aligned_cols=62  Identities=15%  Similarity=0.191  Sum_probs=55.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..+   ..+|+++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        27 ~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   89 (96)
T 1fjc_A           27 NITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             SCCHHHHHHHHCSEEEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCHHHHHHHHhhCCcEEEe---CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            46899999999999887766   5688999999999999999999996 89999999999997765

>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=99.34  E-value=2.7e-12  Score=85.24  Aligned_cols=63  Identities=13%  Similarity=0.022  Sum_probs=55.6

Q ss_pred             CchHHHHH----HHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLC----TIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~----~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+    ++|+.||.|.+|.+. +..+  +|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        20 ~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~--rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   88 (96)
T 2dgx_A           20 RLSRKELQQLLQEAFARHGKVKSVELSPHTDY--QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   88 (96)
T ss_dssp             TSCHHHHHHHHHHHHHHHSCEEEEEECSCCST--TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHHHHhccccCcEEEEEEEeCCCC--CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            46899999    999999999999654 5544  8999999999999999995 89999999999997765

>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=99.34  E-value=3.3e-12  Score=88.14  Aligned_cols=67  Identities=10%  Similarity=0.072  Sum_probs=58.0

Q ss_pred             hHHHHHHHhcccCcceeEEEe-cC-----CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-HK-----NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~~-----~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      .++||++.|++||.|.+|.+. +.     +++++|+|||+|.+.++|.+|+ .+||..++||.|.|.......|
T Consensus        38 leedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~~~~~~f  111 (118)
T 3ue2_A           38 LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERF  111 (118)
T ss_dssp             HHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHH
T ss_pred             HHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcChHhc
Confidence            478999999999999998543 32     4678899999999999999999 6899999999999988776655

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.34  E-value=3.1e-12  Score=95.78  Aligned_cols=65  Identities=8%  Similarity=0.041  Sum_probs=58.0

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. ..+.+|.++|||||+|.+.++|.+||+..+..++|+.|.|....
T Consensus       120 ~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~  185 (193)
T 2voo_A          120 DATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKD  185 (193)
T ss_dssp             TCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEETT
T ss_pred             cCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEhH
Confidence            468999999999999999985 45778999999999999999999999877779999999997544

>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=99.33  E-value=3.1e-12  Score=103.43  Aligned_cols=75  Identities=13%  Similarity=0.167  Sum_probs=61.6

Q ss_pred             CCcccEEEEcC--CCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc---CCe-
Q 029263          104 AVHTGILRLRG--LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL---GSR-  176 (196)
Q Consensus       104 ~~~~~~l~v~n--Lp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l---~gr-  176 (196)
                      ...+.+|||+|  |++.+|+++|+++|++||.+. +|.+..     ++|||||+|.+.++|++|+.. ||..+   .|+ 
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~-~v~~~~-----~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~   88 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVD-ALLMPP-----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQK   88 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEE-EEECCT-----TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeE-EEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCccccccCCc
Confidence            34568999999  689999999999999999876 666542     579999999999999999975 99877   345 


Q ss_pred             -EEEEEECC
Q 029263          177 -YIELFPSS  184 (196)
Q Consensus       177 -~i~V~~~~  184 (196)
                       .|.|.++.
T Consensus        89 ~~ly~~~~~   97 (345)
T 3tht_A           89 ITLYLNFVE   97 (345)
T ss_dssp             EECEEEECS
T ss_pred             eEEEEEEee
Confidence             57777663

>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=99.33  E-value=2.5e-12  Score=86.46  Aligned_cols=61  Identities=16%  Similarity=0.054  Sum_probs=52.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hccc--ccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQ--NMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~--~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++||.|.+|.+..    .+|||||+|++.++|..||+ +++.  .+.|+.|.|..+.
T Consensus        27 ~~te~dL~~lF~~fG~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   90 (102)
T 1x4d_A           27 KNLRYQLLQLVEPFGVISNHLILN----KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   90 (102)
T ss_dssp             SSHHHHHHTTTGGGSCEEEEEECS----SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEEc----CCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECC
Confidence            569999999999999999997653    35899999999999999995 5654  5899999997665

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.33  E-value=4.2e-13  Score=94.30  Aligned_cols=64  Identities=14%  Similarity=0.045  Sum_probs=56.5

Q ss_pred             CchHHHHHHHhcccCccee--EE-EecC-CCcccceEEEEeCCHHHHHHHH-Hhccc----ccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVD--VL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQ----NMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~--v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~----~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..  |. +.|+ +|+++|||||+|.+. +|.+|| .+|+.    .++|+.|.|..+.
T Consensus        34 ~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V~~a~  106 (131)
T 2m2b_A           34 HSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINVEFAK  106 (131)
T ss_dssp             TCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCCEECC
T ss_pred             CCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEEEECC
Confidence            4689999999999999966  74 4566 999999999999999 999999 58998    9999999997665

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=9.4e-13  Score=88.80  Aligned_cols=61  Identities=7%  Similarity=0.025  Sum_probs=52.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~   67 (196)
                      ..||+||+++|++||+|.+|.+..    .+|||||+|++.++|++|++ ++  +..+.|++|.|..+.
T Consensus        27 ~vte~dL~~lF~~fG~V~~v~i~~----~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~   90 (105)
T 1sjq_A           27 DVTEGEVISLGLPFGKVTNLLMLK----GKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN   90 (105)
T ss_dssp             TSCHHHHHHHHHHHCCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEc----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcC
Confidence            468999999999999999997663    27999999999999999996 44  478999999996655

>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=99.33  E-value=1.9e-12  Score=93.62  Aligned_cols=65  Identities=14%  Similarity=0.135  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+ .+. +|+++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        81 ~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  148 (158)
T 2kn4_A           81 RTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  148 (158)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEEC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            4689999999999999999864 454 89999999999999999999995 79999999999997766

>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=99.33  E-value=3.7e-12  Score=85.53  Aligned_cols=61  Identities=8%  Similarity=0.030  Sum_probs=52.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-h--cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-R--NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.+|.+..    .+|||||+|.+.++|.+|++ +  ++..+.|+.|.|..+.
T Consensus        26 ~~te~~L~~~F~~fG~v~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   89 (101)
T 2cq1_A           26 EVTETEVIALGLPFGKVTNILMLK----GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   89 (101)
T ss_dssp             TCCHHHHHHTTTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEC----CCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcC
Confidence            568999999999999999997663    27999999999999999995 3  4567999999997766

>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=99.32  E-value=4.5e-12  Score=92.49  Aligned_cols=65  Identities=12%  Similarity=-0.005  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..|.+ .+ .+|.++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        83 ~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  150 (165)
T 1rk8_A           83 EAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  150 (165)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            4689999999999999999854 45 489999999999999999999995 89999999999997765

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.32  E-value=2.3e-12  Score=95.21  Aligned_cols=65  Identities=6%  Similarity=-0.032  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+.+|.++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        99 ~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~  165 (177)
T 2f3j_A           99 GVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  165 (177)
T ss_dssp             CCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEES
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            4689999999999999999854 46789999999999999999999995 89999999999997765

>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=99.32  E-value=1.4e-12  Score=86.68  Aligned_cols=64  Identities=19%  Similarity=0.205  Sum_probs=57.1

Q ss_pred             CchHHHHH----HHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLC----TIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~----~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+    ++|+.||.|.++.+. .+|.++|||||+|.+.++|.+|++ +++..++|+.|.|..+.
T Consensus        19 ~~~~~~l~~~l~~~f~~~G~i~~v~i~-~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (97)
T 1nu4_A           19 KIKKDELKKSLHAIFSRFGQILDILVS-RSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   87 (97)
T ss_dssp             TSCHHHHHHHHHHHHGGGSCEEEEECC-HHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCHHHHHHHHHHHHHhCCCEEEEEEE-cCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEcc
Confidence            46899999    999999999998755 468899999999999999999995 79999999999997765

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=3.5e-12  Score=87.98  Aligned_cols=61  Identities=7%  Similarity=0.025  Sum_probs=52.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~   67 (196)
                      ..||+||+++|++||.|.+|.+..    .+|||||+|++.++|.+|++ ++  +..++|++|.|..+.
T Consensus        42 ~vte~dL~~lF~~fG~V~~v~i~~----~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  105 (119)
T 2ad9_A           42 DVTEGEVISLGLPFGKVTNLLMLK----GKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN  105 (119)
T ss_dssp             TCCHHHHHHHHTTTSCCCEEEEEG----GGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEcc
Confidence            479999999999999999997663    27999999999999999996 45  357999999997766

>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=99.30  E-value=6.2e-12  Score=84.88  Aligned_cols=61  Identities=10%  Similarity=-0.026  Sum_probs=52.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hccc--ccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQ--NMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~--~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.+|.+..    .+|||||+|.+.++|.+|++ +++.  .++|+.|.|..+.
T Consensus        26 ~~te~~L~~~F~~fG~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~   89 (104)
T 1wex_A           26 SVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             SCCHHHHHHHHTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEEC----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcc
Confidence            568999999999999999987653    37899999999999999995 5544  5899999997766

>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=99.30  E-value=3e-12  Score=87.39  Aligned_cols=60  Identities=12%  Similarity=0.049  Sum_probs=52.1

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcC
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~   67 (196)
                      .|++||+++|++||+|.+|.+.    +++|||||+|.+.++|.+|++ ++  +..+.|+.|.|..+.
T Consensus        38 ~te~~L~~lF~~fG~V~~v~i~----~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  100 (112)
T 1x4f_A           38 YSDSAVLKLAEPYGKIKNYILM----RMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE  100 (112)
T ss_dssp             CCSHHHHTTTTTTSCCSEEEEE----TTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCHHHHHHHHHhcCCEEEEEEe----cCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECc
Confidence            6899999999999999999765    357999999999999999995 54  456899999997665

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.30  E-value=6.8e-12  Score=82.22  Aligned_cols=59  Identities=12%  Similarity=0.102  Sum_probs=53.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      +|||||+|.+.++|++|+ .+++..+.++.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~G~i~~v~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   78 (90)
T 2dnq_A           19 EATEQEIRSLFEQYGKVLECDII------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASK   78 (90)
T ss_dssp             SCCHHHHHHHHHTSSCEEEEEEE------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSS
T ss_pred             CCCHHHHHHHHHhCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECC
Confidence            56999999999999999998766      589999999999999999 589999999999997765

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.30  E-value=3.1e-12  Score=90.41  Aligned_cols=65  Identities=14%  Similarity=0.136  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+. +. +|+++|||||+|.+.++|++||+ +++..++|+.|.|..+.
T Consensus        58 ~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  125 (135)
T 2lea_A           58 RTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  125 (135)
T ss_dssp             SCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            46899999999999999998644 43 89999999999999999999994 79999999999997765

>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=99.30  E-value=3e-12  Score=91.17  Aligned_cols=65  Identities=20%  Similarity=0.127  Sum_probs=56.7

Q ss_pred             CchHHHHHHHhcccCcceeE-------EEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-------LFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-------~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..+       +....+|+++|||||+|.+.++|.+||+ +|+..+.|+.|.|..+.
T Consensus        56 ~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~  128 (143)
T 3egn_A           56 HVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFAR  128 (143)
T ss_dssp             TCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            47899999999999999764       2233589999999999999999999995 89999999999997765

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=2.3e-11  Score=83.77  Aligned_cols=84  Identities=15%  Similarity=0.167  Sum_probs=70.5

Q ss_pred             CCCcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCC-HHHHHHHHH-h--CCCccCCeE
Q 029263          103 SAVHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFAN-AEDSKAAMA-K--DRMTLGSRY  177 (196)
Q Consensus       103 ~~~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~-~~~A~~Al~-~--~g~~l~gr~  177 (196)
                      ....+.+|+|.||++. +++++|+++|++||.+. .|.+..+.+     +|||.|.+ +.+|..|+. +  ++..|.|..
T Consensus        14 ~~~~G~il~v~~l~~~~~sredLke~F~~~G~V~-~Vd~~~g~~-----tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~   87 (121)
T 1owx_A           14 EEKIGCLLKFSGDLDDQTCREDLHILFSNHGEIK-WIDFVRGAK-----EGIILFKEKAKEALGKAKDANNGNLQLRNKE   87 (121)
T ss_dssp             SCCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEE-EEECCTTCS-----EEEEEESSCHHHHHHHHHHTTTSCBCTTSSS
T ss_pred             cccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEE-EEEEecCCC-----EEEEEECCChHHHHHHHHHhhcCCcEEeCcE
Confidence            4556789999999999 99999999999999765 677776554     59999999 789988885 4  588999999


Q ss_pred             EEEEECChHHHHHHH
Q 029263          178 IELFPSSHEEMDEAL  192 (196)
Q Consensus       178 i~V~~~~~~~~~~~~  192 (196)
                      +++.+.+.++-.++.
T Consensus        88 ~~~evL~GeeE~~yw  102 (121)
T 1owx_A           88 VTWEVLEGEVEKEAL  102 (121)
T ss_dssp             EEEEECCHHHHHHHH
T ss_pred             EEEEECCCHHHHHHH
Confidence            999999877666554

>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=99.29  E-value=3.5e-12  Score=87.35  Aligned_cols=65  Identities=14%  Similarity=0.079  Sum_probs=55.6

Q ss_pred             CchHHHHHHHhcccCcceeE--EEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV--LFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v--~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++  .+...+|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        36 ~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~  103 (115)
T 2cpx_A           36 RVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK  103 (115)
T ss_dssp             TCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEcc
Confidence            46999999999999999553  1222389999999999999999999995 79999999999997766

>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=99.29  E-value=8.5e-12  Score=84.63  Aligned_cols=61  Identities=11%  Similarity=0.062  Sum_probs=54.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCC-----eeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGR-----RYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~-----~~i~v~~~~~   68 (196)
                      ..|+++|+++|+.||.|.++.+...     |||||+|.+.++|++||+ +|+..+.+     +.|.|..+.+
T Consensus        26 ~~t~~~l~~~F~~~G~i~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~~   92 (108)
T 1x4c_A           26 SGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGP   92 (108)
T ss_dssp             SCCHHHHHHHHGGGSCEEEEEEETT-----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESSC
T ss_pred             CCCHHHHHHHHHhcCCEeEEEEecC-----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCCC
Confidence            5789999999999999999866532     899999999999999995 89999999     9999987763

>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=99.29  E-value=4.8e-12  Score=85.83  Aligned_cols=65  Identities=14%  Similarity=0.110  Sum_probs=56.4

Q ss_pred             CchHHHHHHHhcccCc-ceeEEEe--c-CCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMD-IVDVLFV--H-KNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~-i~~v~~~--~-~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||. |.++.+.  + .+|+++|||||+|.+.++|.+||+ ++  +..++|+.|.|..+.
T Consensus        19 ~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~a~   90 (109)
T 2dis_A           19 MKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE   90 (109)
T ss_dssp             TSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESC
T ss_pred             cCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEEcC
Confidence            4789999999999998 9998654  3 367999999999999999999995 65  588999999997765

>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=99.29  E-value=1e-11  Score=82.66  Aligned_cols=59  Identities=14%  Similarity=0.039  Sum_probs=53.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+      ++|||||+|.+.++|.+|++ +++..++|+.|.|..+.
T Consensus        34 ~~t~~~L~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   93 (97)
T 2xnq_A           34 NVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSS   93 (97)
T ss_dssp             CCCHHHHHHHHGGGSCEEEEEE------CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHhcCCEEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            5799999999999999999876      27899999999999999995 89999999999997654

>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=99.29  E-value=7.1e-12  Score=83.57  Aligned_cols=61  Identities=10%  Similarity=0.007  Sum_probs=54.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+..    ++|||||+|.+.++|.+|+ .+++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~G~i~~v~~~~----~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpj_A           26 DITEEEMRKLFEKYGKAGEVFIHK----DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   87 (99)
T ss_dssp             TCCHHHHHHHTSTTCCCSEEEEET----TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCHHHHHHHHhhcCCeEEEEEec----CCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcC
Confidence            468999999999999999987663    4789999999999999999 679999999999997766

>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=99.29  E-value=6.1e-12  Score=85.85  Aligned_cols=61  Identities=10%  Similarity=-0.061  Sum_probs=54.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+..    ++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        21 ~~te~~L~~~F~~~G~i~~v~i~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   82 (111)
T 1whx_A           21 GTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEE
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEeC----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            468999999999999999987653    6789999999999999999 589999999999997665

>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=99.28  E-value=8.4e-12  Score=82.91  Aligned_cols=61  Identities=15%  Similarity=0.031  Sum_probs=53.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccC--CeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMG--RRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~--~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+...    +|||||+|.+.++|++|++ +|+..+.  ++.|.|..+.
T Consensus        28 ~~t~~~l~~~F~~~G~v~~v~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~   91 (97)
T 1why_A           28 NTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeeEEEEeCC----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECC
Confidence            4689999999999999999876532    7899999999999999995 8999999  9999997765

>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=99.28  E-value=1.1e-11  Score=80.87  Aligned_cols=60  Identities=15%  Similarity=0.040  Sum_probs=54.0

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++| +|.++.+.    +++|||||+|.+.++|.+|++ +|+..++|+.|.|..+.
T Consensus        16 ~~t~~~l~~~F~~~-~v~~~~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   76 (88)
T 1wg1_A           16 DSNCQEVHDLLKDY-DLKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             SCCHHHHHHHTCSS-CCCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHHhhC-CeEEEEEe----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcC
Confidence            57899999999998 99988663    788999999999999999995 89999999999997655

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

Probab=99.27  E-value=4.4e-12  Score=84.91  Aligned_cols=61  Identities=13%  Similarity=0.037  Sum_probs=53.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.    +++|||||+|.+.++|.+|+ .+++..++|+.|.|..+.
T Consensus        38 ~~~~~~l~~~f~~~G~i~~~~~~----~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           38 FATEADLIPLFQNFGFILDFKHY----PEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             TCCHHHHHHHHHTTSCCSEEEEE----TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             ccCHHHHHHHHHhCCCEEEEEEe----cCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            46899999999999999998765    56799999999999999999 579999999998885543

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

Probab=99.27  E-value=1.1e-11  Score=84.25  Aligned_cols=59  Identities=20%  Similarity=0.156  Sum_probs=53.5

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      +|||||+|.+.++|++|++ +++..++|+.|.|..+.
T Consensus        42 ~~t~~~L~~~F~~~G~i~~v~i~------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  101 (108)
T 2jvo_A           42 DVQESELNEIFGPFGPMKEVKIL------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK  101 (108)
T ss_dssp             TCCHHHHHHHHTTTSCCCEEEEE------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            46899999999999999998766      6899999999999999995 79999999999997665

>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=99.27  E-value=1.3e-11  Score=79.83  Aligned_cols=60  Identities=17%  Similarity=0.070  Sum_probs=52.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-h-cccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-R-NRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~-~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.++.+..    ++|||||+|.+.++|.+|++ + ++..++|+.|.|..+
T Consensus        23 ~~t~~~l~~~f~~~G~i~~~~~~~----~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           23 TITETDLRNHFYQFGEIRTITVVQ----RQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             TSCHHHHHHHHHTTSCEEEEEEEG----GGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCCHHHHHHHHHhCCCEeEEEEEC----CCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            468999999999999999987663    47899999999999999996 6 899999999988653

>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=99.26  E-value=3e-12  Score=87.53  Aligned_cols=61  Identities=8%  Similarity=-0.089  Sum_probs=51.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc-----CCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM-----GRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l-----~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||+|.+|.+..    .+|||||+|.+.++|++|+ .+|+..+     .++++.|..+.
T Consensus        38 ~~te~~L~~~F~~fG~v~~v~i~~----~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a~  104 (114)
T 2cq2_A           38 GVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVE  104 (114)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEES
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEecc
Confidence            468999999999999999986542    3789999999999999999 5899877     57777775544

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.26  E-value=2.1e-11  Score=79.14  Aligned_cols=72  Identities=15%  Similarity=0.145  Sum_probs=59.2

Q ss_pred             cccEEEEcCCC----CCCCH----HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeE
Q 029263          106 HTGILRLRGLP----FSAGK----DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRY  177 (196)
Q Consensus       106 ~~~~l~v~nLp----~~~t~----~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~  177 (196)
                      +..+|+|.-+|    .+.-+    .+|.+.|++||.+. .+++..+.       +||+|.+.++|.+|+.+||..++||.
T Consensus         6 pd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi-~vr~~~d~-------~fVtF~d~~sAlaAi~mnG~~v~Gr~   77 (91)
T 2dnr_A            6 SGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVI-LIRFVEDK-------MWVTFLEGSSALNVLSLNGKELLNRT   77 (91)
T ss_dssp             SSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEE-EEEECSSS-------EEEEESSHHHHHHGGGGTTCEETTEE
T ss_pred             CCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeE-EEEEecCC-------EEEEECChHHHHHHHhcCCeEeCCeE
Confidence            34577787766    23333    68999999999655 68887653       89999999999999999999999999


Q ss_pred             EEEEECCh
Q 029263          178 IELFPSSH  185 (196)
Q Consensus       178 i~V~~~~~  185 (196)
                      |+|.++++
T Consensus        78 LkV~lkt~   85 (91)
T 2dnr_A           78 ITIALKSP   85 (91)
T ss_dssp             EEEEECCC
T ss_pred             EEEEeCCC
Confidence            99999975

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.25  E-value=2.4e-11  Score=79.91  Aligned_cols=59  Identities=14%  Similarity=0.043  Sum_probs=53.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      ++||||+|.+.++|.+|+ .+|+..+.++.|.|..+.
T Consensus        21 ~~t~~~l~~~F~~~G~v~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   80 (92)
T 2dgt_A           21 TCTNQELRAKFEEYGPVIECDIV------KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST   80 (92)
T ss_dssp             SCCHHHHHHHHHTTSCCCEEEEC------SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESS
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            46999999999999999998765      349999999999999999 589999999999998776

>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=99.25  E-value=1.4e-11  Score=83.59  Aligned_cols=61  Identities=13%  Similarity=0.158  Sum_probs=54.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+...    +|||||+|.+.++|.+|| .+++..++|+.|.|..+.
T Consensus        36 ~~t~~~l~~~F~~~G~i~~v~i~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   97 (109)
T 1x4g_A           36 GLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   97 (109)
T ss_dssp             CCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecC
Confidence            4689999999999999999876632    789999999999999999 679999999999997665

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.24  E-value=2.1e-11  Score=81.68  Aligned_cols=62  Identities=10%  Similarity=0.025  Sum_probs=53.3

Q ss_pred             CchHHHHHHHhcccCcceeE-EEec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++|+   ++ ++.+ .+|+++|||||+|.+.++|.+||+ +++..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2fc8_A           26 DTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAK   90 (102)
T ss_dssp             TCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEec
Confidence            468999999999863   44 3345 589999999999999999999995 89999999999997766

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.24  E-value=8.8e-12  Score=82.37  Aligned_cols=62  Identities=11%  Similarity=0.084  Sum_probs=53.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|++...+|+   ||||+|.+.++|.+||++++..++|+.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~G~v~~v~~~~~~g~---~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~~a~   80 (94)
T 2e5g_A           19 GVDSAQLSEYFLAFGPVASVVMDKDKGV---FAIVEMGDVGAREAVLSQSQHSLGGHRLRVRPRE   80 (94)
T ss_dssp             TCCHHHHHHHGGGTSCEEEEEECSSSCC---EEEEEESSHHHHHHHHTCSCCEETTEECCCBCSC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEcCCCCc---EEEEEECCHHHHHHHHhcCCeEECCEEEEEEECC
Confidence            4689999999999999999843334555   9999999999999999999999999999996544

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

Probab=99.24  E-value=1.4e-11  Score=81.79  Aligned_cols=59  Identities=14%  Similarity=0.048  Sum_probs=53.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      +|||||+|.+.++|.+||+ +++..+.|+.|.|..+.
T Consensus        22 ~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   81 (96)
T 2kvi_A           22 NVSKEDLFRIFSPYGHIMQINIK------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSS   81 (96)
T ss_dssp             CCCHHHHHHHHTTTCCCCEEEEE------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEE
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcC
Confidence            57999999999999999998763      6899999999999999995 79999999999986654

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=98.89  E-value=6.6e-13  Score=91.26  Aligned_cols=67  Identities=15%  Similarity=0.205  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCccee--------EE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVD--------VL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~--------v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..|+++|+++|+.||.|.+        +. +.+ .+|+++|||||+|.+.++|.+||+ +|+..++++.|.|..+.+.
T Consensus        18 ~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   95 (116)
T 2lcw_A           18 NVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATRR   95 (116)
Confidence            4689999999999999988        64 345 479999999999999999999995 8999999999999766543

>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=99.24  E-value=1.1e-11  Score=84.34  Aligned_cols=58  Identities=12%  Similarity=0.097  Sum_probs=53.6

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      .|+++|+++|+.||.|.++.+      ++|||||+|.+.++|.+|| .+++..++++.|.|..+.
T Consensus        40 ~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   98 (110)
T 1wf1_A           40 VKKSDVETIFSKYGRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAG   98 (110)
T ss_dssp             CCHHHHHHHHGGGSCCSEEEE------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESC
T ss_pred             CCHHHHHHHHHhCCCeEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            789999999999999999876      6799999999999999999 689999999999997765

>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=99.24  E-value=1.5e-11  Score=89.17  Aligned_cols=64  Identities=17%  Similarity=0.136  Sum_probs=54.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCC--eeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~~~~   68 (196)
                      ..|+++|+++|++||+|.+|.+...  .++|||||+|.+.++|++|+ .+||..+.+  +.|.|..+..
T Consensus        57 ~vted~L~~~Fs~fG~V~~V~i~~k--~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~  123 (164)
T 1sjr_A           57 PVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  123 (164)
T ss_dssp             CCCHHHHHHHHHHHSCEEEEEEEES--SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEeC--CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecC
Confidence            4689999999999999999976543  35789999999999999999 589999955  8999977653

>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=99.24  E-value=1.9e-11  Score=82.16  Aligned_cols=59  Identities=15%  Similarity=0.091  Sum_probs=53.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      +|||||+|.+.++|.+||+ +++..+.++.|.|..+.
T Consensus        22 ~~t~~~l~~~F~~~G~i~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   81 (103)
T 2dgu_A           22 TVTEEILEKAFSQFGKLERVKKL------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAK   81 (103)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcC
Confidence            46999999999999999998755      4699999999999999995 79999999999997776

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=1.8e-11  Score=81.31  Aligned_cols=62  Identities=13%  Similarity=0.020  Sum_probs=53.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|. +.+.  +++++|||||+|.+.++|.+|| .+|+..++|+.|.|..+.
T Consensus        30 ~~t~~~l~~~F~~~G~v~-~~~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           30 DARVSDLKRALRELGSVP-LRLT--WQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALAR   92 (97)
T ss_dssp             TCCHHHHHHHHHHTTCCC-SEEE--EETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECC
T ss_pred             cCcHHHHHHHHHhcCCEE-EEEE--cCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            468999999999999986 3322  2478899999999999999999 679999999999997765

>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=99.23  E-value=1.7e-11  Score=84.14  Aligned_cols=60  Identities=10%  Similarity=0.017  Sum_probs=52.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCee-----EEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRY-----VEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~-----i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.++.+...     |||||+|.+.++|++||+ +|+..++++.     |.|....
T Consensus        27 ~~t~~~l~~~F~~~G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~~   92 (115)
T 3beg_B           27 SGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDG   92 (115)
T ss_dssp             SCCTTHHHHHHGGGSCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEECC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEecC-----CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccCC
Confidence            5689999999999999999876532     899999999999999995 8999999987     7776655

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

Probab=99.23  E-value=2.1e-11  Score=79.87  Aligned_cols=59  Identities=15%  Similarity=0.116  Sum_probs=53.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+.      +|||||+|.+.++|++||+ +++..++++.|.|..+.
T Consensus        20 ~~t~~~l~~~F~~~G~v~~~~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   79 (90)
T 2dnp_A           20 ACTSQELRSLFERRGRVIECDVV------KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELST   79 (90)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CCCHHHHHHHHHcCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECC
Confidence            46999999999999999998765      3499999999999999995 89999999999997766

>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=99.22  E-value=1.3e-11  Score=81.31  Aligned_cols=60  Identities=13%  Similarity=-0.022  Sum_probs=51.7

Q ss_pred             CchHHHHHHHhcccCcce-eEEEecCCCcccceEEEEeCCHHHHHHHHH-hcc-cccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIV-DVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNR-QNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~-~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~-~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|+ .+.+.     ++|||||+|.+.++|.+||+ +|+ ..++++.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~G~vv~~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~   81 (93)
T 2cqh_A           19 AVTADDLRQLFGDRKLPLAGQVLL-----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   81 (93)
T ss_dssp             TCCHHHHHHHHHHTTCCCSSCEEE-----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHHcCCceEEEEEc-----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEcc
Confidence            468999999999999944 45542     57899999999999999994 899 89999999997766

>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=99.21  E-value=1.6e-11  Score=88.10  Aligned_cols=62  Identities=16%  Similarity=0.023  Sum_probs=54.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+...   ++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        84 ~~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A           84 NGNKTELERAFGYYGPLRSVWVARN---PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             CCSCHHHHHHHHHHSCEEEEEECSS---SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCCHHHHHHHHHhhCCEEEEEEeeC---CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            4689999999999999999876532   68999999999999999995 89999999999997665

>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=99.21  E-value=3e-11  Score=79.12  Aligned_cols=63  Identities=14%  Similarity=0.080  Sum_probs=49.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..||++|+++|++||.|.++.+..   .++|||||+|.+.++|+++.. ....++++.|.|..+.+.
T Consensus        22 ~~te~~L~~~F~~~G~i~~v~i~~---~srGfaFV~F~~~~~A~~~~~-~~~~~~g~~v~v~~a~~k   84 (89)
T 3d2w_A           22 DMTAEELQQFFCQYGEVVDVFIPK---PFRAFAFVTFADDKVAQSLCG-EDLIIKGISVHISNAEPK   84 (89)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEECCS---SCCSEEEEEESCHHHHHHHTT-CEEEETTEEEEEEECC--
T ss_pred             CCCHHHHHHHHhccCCEEEEEEee---CCCCEEEEEECCHHHHHHHcC-CCcccCCEEEEEEEcCCC
Confidence            469999999999999999987553   278999999999999995432 233456899999776643

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.20  E-value=4.7e-11  Score=83.43  Aligned_cols=62  Identities=18%  Similarity=0.143  Sum_probs=53.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccce-EEEEeCCHHHHHHHH-HhcccccCC--eeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGE-AFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~-afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||+|.+|.+.+.   ++|| |||+|.+.++|.+|+ .+||..+.+  +.|.|..+.
T Consensus        39 ~vte~~L~~lFs~yG~V~~V~i~~~---~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak  104 (130)
T 3zzy_A           39 PVTLDVLHQIFSKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK  104 (130)
T ss_dssp             CCCHHHHHHHHTTSSCEEEEEEEEE---TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECS
T ss_pred             CCCHHHHHHHHhCcCCEEEEEEEcC---CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecC
Confidence            4699999999999999999976542   3577 999999999999999 689999977  788886665

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=1.9e-11  Score=83.66  Aligned_cols=60  Identities=10%  Similarity=-0.038  Sum_probs=46.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-C---CcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-N---NKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVF   64 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~---g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~   64 (196)
                      ..|+++|+++|+.||.|. +. +.+. +   |+++|||||+|.+.++|++||+.. ..+.|+.+.+.
T Consensus        19 ~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~-~~~~G~~~~~~   83 (114)
T 2dnl_A           19 DIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDAC-LEEDGKLYLCV   83 (114)
T ss_dssp             TCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHS-EEETTEEEEEE
T ss_pred             CCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhh-hhcCCcEEEec
Confidence            469999999999999999 54 3443 3   799999999999999999999643 22556655543

>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=99.20  E-value=2.7e-11  Score=78.66  Aligned_cols=59  Identities=8%  Similarity=-0.038  Sum_probs=51.3

Q ss_pred             CchHHHHHHHhccc----C-------cceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQL----M-------DIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~----g-------~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|+.|    |       .|.++.+..    ++|||||+|.+.++|.+|+.+|+..++|+.|.|..
T Consensus        17 ~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~----~kg~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           17 GITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----DKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECS----SSSEEEEEESSHHHHHHHGGGTTCEETTEECEEEC
T ss_pred             CCCHHHHHHHHHHHhhhcccccCCCCcceEEEecC----CCcEEEEEcCCHHHHHHHHhcCCCEECCeEEEEeC
Confidence            46899999999999    7       777776542    37899999999999999998899999999998853

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.19  E-value=5e-11  Score=82.77  Aligned_cols=61  Identities=15%  Similarity=0.139  Sum_probs=52.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccce-EEEEeCCHHHHHHHH-HhcccccCC--eeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGE-AFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~-afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||+|.+|.+.+.    .|| |||+|.+.++|..|+ .+||..+.+  +.|.|..+.
T Consensus        36 ~vt~~~L~~~Fs~yG~V~~v~i~~~----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak  100 (124)
T 2e5i_A           36 PITVDVLYTVCNPVGKVQRIVIFKR----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYAR  100 (124)
T ss_dssp             CCCHHHHHHHHTTTSCEEEEEEEES----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCS
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEec
Confidence            4689999999999999999976543    286 999999999999999 589999976  588886554

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

Probab=99.18  E-value=6.8e-11  Score=78.73  Aligned_cols=59  Identities=14%  Similarity=0.064  Sum_probs=52.3

Q ss_pred             CchHHHHHHHhccc--CcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQL--MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~--g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.|  |.|.++.+.      +|||||+|.+.++|.+||+ +|+..++++.|.|..+.
T Consensus        26 ~~t~~~l~~~F~~~g~g~v~~~~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpd_A           26 STSEEMIEKEFNNIKPGAVERVKKI------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   87 (99)
T ss_dssp             TCCHHHHHHHHHTTSTTCEEEEEEC------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHHHhcCCcceEEEEEe------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            46899999999999  888887643      5799999999999999995 89999999999997665

>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=99.17  E-value=4e-11  Score=100.21  Aligned_cols=66  Identities=15%  Similarity=0.043  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|+++|.++|+.||.|..|.| .+ .+|+++|||||+|.+.++|.+|| .+|+..|+|+.|.|..+..
T Consensus       113 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~  181 (437)
T 3pgw_S          113 DTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERG  181 (437)
T ss_pred             CCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            4689999999999999999854 45 48999999999999999999999 6799999999999976653

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.14  E-value=8e-11  Score=77.09  Aligned_cols=56  Identities=7%  Similarity=-0.022  Sum_probs=48.1

Q ss_pred             chHHH----HHHHhccc-CcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            4 PQVQV----LCTIHHQL-MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~d----l~~~F~~~-g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      .++++    |+++|+.| |+|++|     +|   |+|||+|.+.++|++|+ ++++..+.||+|.|..+.
T Consensus        21 ~~~~~lk~~L~~lF~~yGG~Vl~V-----tg---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~   82 (96)
T 2diu_A           21 KDGKSVSNRLRRLSDNCGGKVLSI-----TG---CSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTP   82 (96)
T ss_dssp             SCHHHHHHHHHHHHHTTTCCEEEC-----CT---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSC
T ss_pred             CCHHHHHHHHHHHHHHcCCeeEEE-----ec---CEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecC
Confidence            45555    66899999 499998     34   99999999999999999 589999999999996554

>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=99.11  E-value=6.8e-11  Score=77.01  Aligned_cols=61  Identities=15%  Similarity=0.069  Sum_probs=50.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+...   ++|||||+|.+.++|++|+.. ...+.++.|.|..+.
T Consensus        16 ~~te~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~~a~   76 (88)
T 1wf0_A           16 DMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCGE-DLIIKGISVHISNAE   76 (88)
T ss_dssp             SSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHHHHcCCeeEEEEecC---CCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEEecC
Confidence            5799999999999999999876532   789999999999999876543 455688898886655

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

Probab=99.08  E-value=2.7e-10  Score=75.31  Aligned_cols=63  Identities=16%  Similarity=-0.036  Sum_probs=53.0

Q ss_pred             CchHHHHHHHhcccCcceeE-EEe-cCCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFV-HKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~-~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|+++|+++|+.||.|.++ .+. ++.   .|.|||+|.+.++|.+||+ +|+..++|+.|.|..+.+
T Consensus        26 ~~t~~~l~~~F~~~G~v~~~~~i~~~~~---~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   91 (96)
T 2e44_A           26 HLQWEVLDSLLVQYGVVESCEQVNTDSE---TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPD   91 (96)
T ss_dssp             SSCHHHHHHHHHHHSCEEEEEEECCSSS---SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCC
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeecCCC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCc
Confidence            46899999999999999998 444 432   2349999999999999995 899999999999977663

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.07  E-value=2.5e-10  Score=87.81  Aligned_cols=60  Identities=17%  Similarity=0.172  Sum_probs=53.3

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc------------CCeeEEEEEcCh
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM------------GRRYVEVFRSKR   68 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l------------~~~~i~v~~~~~   68 (196)
                      ||++|+++|+.||+|.+|.+..    ++|||||+|.+.++|+.|+ .++++.|            .|+.|.|..+..
T Consensus       156 tEe~L~~~F~~fG~I~~v~v~~----~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          156 IESRIRFVFSRLGDIDRIRYVE----SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             HHHHHHHHHHTTSCEEEEEEEG----GGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC-
T ss_pred             cHHHHHHHHHccCCEEEEEEEC----CCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCCCEEEEEEccC
Confidence            7999999999999999997663    5899999999999999999 5899999            899999977663

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.07  E-value=1.7e-10  Score=75.26  Aligned_cols=72  Identities=13%  Similarity=0.162  Sum_probs=59.9

Q ss_pred             cccEEEEcCCCCC-----CCH----HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCe
Q 029263          106 HTGILRLRGLPFS-----AGK----DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSR  176 (196)
Q Consensus       106 ~~~~l~v~nLp~~-----~t~----~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr  176 (196)
                      +..+|+|.-++..     .-+    .+|.+.|.+||.+. .+++..+.       +||+|.+.++|.+|+.+||..++||
T Consensus        14 pD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi-lvr~v~d~-------~fVtF~d~~sAl~AI~ldG~~v~Gr   85 (95)
T 1ufw_A           14 LDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIV-LVRINQGQ-------MLVTFADSHSALSVLDVDGMKVKGR   85 (95)
T ss_dssp             TTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCS-EEEEETTE-------EEEECSCSHHHHHHHHGGGSEETTE
T ss_pred             CCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEE-EEEEecCc-------EEEEEcChHHHHHHHhcCCeeeCCe
Confidence            4568999888743     222    57999999999655 68888763       9999999999999999999999999


Q ss_pred             EEEEEECCh
Q 029263          177 YIELFPSSH  185 (196)
Q Consensus       177 ~i~V~~~~~  185 (196)
                      .|+|.+.++
T Consensus        86 ~L~V~~k~~   94 (95)
T 1ufw_A           86 AVKISGPSS   94 (95)
T ss_dssp             EEEEECCCC
T ss_pred             EEEEeccCC
Confidence            999998764

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=99.01  E-value=9e-10  Score=83.85  Aligned_cols=82  Identities=17%  Similarity=0.206  Sum_probs=66.7

Q ss_pred             cEEEEcCCC-----CCCCHHHHHHHhhcCCCccceEEEEeCC-----CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCe
Q 029263          108 GILRLRGLP-----FSAGKDDIMDFFKDFVLSEDSIHITMNS-----DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSR  176 (196)
Q Consensus       108 ~~l~v~nLp-----~~~t~~~l~~~F~~~g~~~~~v~l~~~~-----~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr  176 (196)
                      ..+.+.|+-     ..-.+++|.+.|++||.+. ++.++.+.     +|.++|++||+|.+.++|.+|+.. ||..++||
T Consensus       125 ~v~~l~n~v~~~e~~~e~~~dl~~e~~~~G~v~-~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr  203 (222)
T 3dxb_A          125 TVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVN-RVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGR  203 (222)
T ss_dssp             SEEEEESSCCGGGCCTTHHHHHHHHHTTTSCEE-EEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             ccchhhcCCCHHHHHHHHHHHHHHHHHccCCeE-EEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCe
Confidence            345555552     3345689999999999876 78886443     558999999999999999999975 99999999


Q ss_pred             EEEEEECChHHHHH
Q 029263          177 YIELFPSSHEEMDE  190 (196)
Q Consensus       177 ~i~V~~~~~~~~~~  190 (196)
                      .|.|.++...+++.
T Consensus       204 ~i~~~~~~~~~f~~  217 (222)
T 3dxb_A          204 KVVAEVYDQERFDN  217 (222)
T ss_dssp             BCEEEECCHHHHHT
T ss_pred             EEEEEEcCHHHhhh
Confidence            99999998877653

>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=98.93  E-value=3.4e-09  Score=80.59  Aligned_cols=69  Identities=9%  Similarity=0.038  Sum_probs=59.5

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-c-----CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-H-----KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEY   71 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~-----~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~   71 (196)
                      ...+++|++.|++||+|.++.+. +     .+|+++|++||+|.+.++|.+|+ .+||..++||.|.+.......+
T Consensus       140 ~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~~~~f  215 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERF  215 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECCHHHH
T ss_pred             HHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcCHHHh
Confidence            34678999999999999998643 2     25589999999999999999999 5899999999999988876655

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.85  E-value=2.2e-09  Score=86.79  Aligned_cols=50  Identities=10%  Similarity=-0.057  Sum_probs=43.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM   56 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l   56 (196)
                      ..||++|+++|++||+|.+|.+..    ++|||||+|++.++|++|| .+||..+
T Consensus        31 ~~te~~L~~~F~~~G~V~~v~~~~----~kgfaFV~f~~~~~A~~Ai~~lnG~~~   81 (345)
T 3tht_A           31 GVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEV   81 (345)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCT----TCSEEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCcc
Confidence            469999999999999999886543    5799999999999999999 5898876

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.84  E-value=8e-09  Score=67.00  Aligned_cols=55  Identities=11%  Similarity=0.085  Sum_probs=49.1

Q ss_pred             HHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            7 QVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|.+.|+.||+|+.+.+...      .+||+|.+.++|.+||++|+..++||.|+|...+
T Consensus        30 ~~L~~~F~~~G~Vi~vr~~~d------~~fVtF~d~~sAlaAi~mnG~~v~Gr~LkV~lkt   84 (91)
T 2dnr_A           30 DELLQQFASFGEVILIRFVED------KMWVTFLEGSSALNVLSLNGKELLNRTITIALKS   84 (91)
T ss_dssp             HHHHHHHHTTCCEEEEEECSS------SEEEEESSHHHHHHGGGGTTCEETTEEEEEEECC
T ss_pred             HHHHHHHHhCCCeEEEEEecC------CEEEEECChHHHHHHHhcCCeEeCCeEEEEEeCC
Confidence            679999999999999976532      3899999999999999999999999999997766

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.78  E-value=3.2e-08  Score=65.85  Aligned_cols=78  Identities=13%  Similarity=0.152  Sum_probs=62.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcC-----CCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHH-HhCCCccCCeEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDF-----VLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM-AKDRMTLGSRYIE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~-----g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al-~~~g~~l~gr~i~  179 (196)
                      ..++|-+.|||+++++..|+.+.+++     |... .|.|..|-.|     |+|+|.+...|-+|. .+||..|.||.|+
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~-KI~L~pDH~G-----Aivef~d~~~AgKasLaL~G~ef~gr~Lr   93 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIR-KILLVSDFNG-----AIIIFRDSKFAAKMLMILNGSQFQGKVIR   93 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCS-EEEEETTTTE-----EEEECSCHHHHHHHHHHHSSEEETTEEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCcccee-EEEEecCCCc-----eEEEEccchhhHHHHhhcCCeeecCeEEE
Confidence            35789999999999999999999999     7443 4666655444     999999999886655 6799999999999


Q ss_pred             EEECChHHHHHH
Q 029263          180 LFPSSHEEMDEA  191 (196)
Q Consensus       180 V~~~~~~~~~~~  191 (196)
                      +  .+..|+...
T Consensus        94 ~--gTv~eL~~~  103 (117)
T 2l9w_A           94 S--GTINDMKRY  103 (117)
T ss_dssp             E--ECHHHHHHH
T ss_pred             e--cCHHHHHhc
Confidence            7  455555544

>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=98.73  E-value=1.7e-08  Score=65.81  Aligned_cols=55  Identities=13%  Similarity=0.012  Sum_probs=48.4

Q ss_pred             HHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            7 QVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|.+.|+.||+|+.+.+....      +||+|.+.++|.+||++|+..++||.|+|...+
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------MLVTFADSHSALSVLDVDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETTE------EEEECSCSHHHHHHHHGGGSEETTEEEEEECCC
T ss_pred             HHHHHHHHHCCCEEEEEEecCc------EEEEEcChHHHHHHHhcCCeeeCCeEEEEeccC
Confidence            5699999999999999765322      999999999999999999999999999997544

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.23  E-value=8.4e-06  Score=55.87  Aligned_cols=62  Identities=10%  Similarity=-0.050  Sum_probs=49.6

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCC-HHHHHHHHH-h--cccccCCeeEEEEEcChH
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGY-PLQVDFALQ-R--NRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~-~~~a~~Al~-~--~~~~l~~~~i~v~~~~~~   69 (196)
                      .|+++|+++|+.||+|..|.+...  ..  +|||.|.+ .++|..|++ +  .+..+.+..+.+....-+
T Consensus        31 ~sredLke~F~~~G~V~~Vd~~~g--~~--tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL~Ge   96 (121)
T 1owx_A           31 TCREDLHILFSNHGEIKWIDFVRG--AK--EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLEGE   96 (121)
T ss_dssp             CCHHHHHHHTCSSCCEEEEECCTT--CS--EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECCHH
T ss_pred             CCHHHHHHHHHhcCCEEEEEEecC--CC--EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEECCCH
Confidence            789999999999999988865422  11  69999999 889999995 4  477888888888776644

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.14  E-value=2.2e-05  Score=51.77  Aligned_cols=72  Identities=17%  Similarity=0.196  Sum_probs=58.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhc---CC--CccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKD---FV--LSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~---~g--~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V  180 (196)
                      ...+|.|.|||+.+.++-|.-+|+.   -|  .+. +|....       +-|+|+|.+.+.|++.|......|+|..|.|
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~-~v~~~~-------~~AvItF~d~~va~rVL~k~~H~L~~~~LsV   78 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVL-SWQRLG-------CGGVLTFREPADAERVLAQADHELHGAQLSL   78 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEE-EEEEET-------TEEEEEESSHHHHHHHHTCSCCBSSSSBCEE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceee-EEEEcC-------CcEEEEEcChHHHHHHhcCCcceecCeEEEE
Confidence            4578999999999999999999987   33  333 444431       4699999999999999988779999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .+..+
T Consensus        79 ~P~~~   83 (104)
T 2dhx_A           79 RPAPP   83 (104)
T ss_dssp             EECCC
T ss_pred             EcCCC
Confidence            88654

>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=98.09  E-value=3.1e-05  Score=50.44  Aligned_cols=53  Identities=21%  Similarity=0.344  Sum_probs=45.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      ...+++ ++|.+..-.||.++|++||-+.  |.++.|.      -|||.|.+++.|..||+.
T Consensus        16 ~HVf~l-~FP~ewKt~DI~~lFs~fggv~--I~WidDT------sAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           16 DHVLHV-TFPKEWKTSDLYQLFSAFGNIQ--ISWIDDT------SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             CSEEEE-ECCTTCCHHHHHHHHTTTCSCC--CEEEETT------EEEEECSCHHHHHHHHHH
T ss_pred             CeEEEE-eCChhhhhHHHHHHhhccCCEE--EEEEcCC------eEEEEecCHHHHHHHHHh
Confidence            345666 9999999999999999999655  8999763      599999999999999873

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=98.07  E-value=7.6e-06  Score=56.38  Aligned_cols=85  Identities=8%  Similarity=0.217  Sum_probs=62.7

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-------------CC-CCceEEEEEeCCHHHHHHHHHhCCCcc
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-------------DG-RPTGEAFVEFANAEDSKAAMAKDRMTL  173 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-------------~g-~~~G~afV~F~~~~~A~~Al~~~g~~l  173 (196)
                      ..|.|-+.|++.+. .+.+.|+.||.+.+.+......             .+ .....-.|+|.++.+|.+||..||..|
T Consensus         8 ~~VtVFGFp~~~~~-~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii   86 (132)
T 3p3d_A            8 LAILVFGYPETMAN-QVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVF   86 (132)
T ss_dssp             CEEEEECCCGGGHH-HHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEE
T ss_pred             eEEEEEecCHHHHH-HHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEe
Confidence            46889999776654 5667899999655433222100             00 123477999999999999999999999


Q ss_pred             CCeEEEEEECChHHHHHHHH
Q 029263          174 GSRYIELFPSSHEEMDEALS  193 (196)
Q Consensus       174 ~gr~i~V~~~~~~~~~~~~~  193 (196)
                      +|..|-|.+.++..++...+
T Consensus        87 ~G~mIGV~Py~~~~ve~l~~  106 (132)
T 3p3d_A           87 NGVLLGVIPYTKDAVERLQK  106 (132)
T ss_dssp             TTEECEEEECCHHHHHHHC-
T ss_pred             CcEEEEEEECCHHHHHHHhc
Confidence            99999999999888777644

>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=98.05  E-value=3.1e-05  Score=52.62  Aligned_cols=81  Identities=16%  Similarity=0.207  Sum_probs=62.1

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccC-CeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLG-SRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~-gr~i~V~~~  183 (196)
                      .....|.|.+.|+.. ...|...|+.||.+. ....   ..+  ...-.|.|.++.+|++||.+||..|+ +-.|-|.+.
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv-~~~~---~~~--~NWihI~Y~s~~~A~rAL~kNG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQYGNIL-KHVM---SNT--GNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTTSCEE-EEEE---CSS--SSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEEC
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhhCcEE-Eecc---CCC--CCeEEEEeCCHHHHHHHHHhCCeEecCCEEEEEEEC
Confidence            346789999999985 677889999999765 2222   222  34899999999999999999999998 588999998


Q ss_pred             ChHHHHHHH
Q 029263          184 SHEEMDEAL  192 (196)
Q Consensus       184 ~~~~~~~~~  192 (196)
                      +.......+
T Consensus        95 ~d~~vi~~~  103 (119)
T 1wwh_A           95 IDKNVMENS  103 (119)
T ss_dssp             CCHHHHC--
T ss_pred             CCHHHHHHh
Confidence            755554443

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=97.94  E-value=3.1e-05  Score=52.61  Aligned_cols=64  Identities=14%  Similarity=0.093  Sum_probs=51.4

Q ss_pred             HHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCC-eeEEEEEcChHHHHH
Q 029263            6 VQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGR-RYVEVFRSKRQEYYK   73 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~-~~i~v~~~~~~~~~~   73 (196)
                      -..|...|+.||+|+++..  .++.  .+-.|.|.++.+|++||.+|+..+++ --|-|.++.......
T Consensus        37 ~~~VL~~F~~~G~Iv~~~~--~~~~--NWihI~Y~s~~~A~rAL~kNG~ii~g~~mIGV~p~~d~~vi~  101 (119)
T 1wwh_A           37 ASYILLQFAQYGNILKHVM--SNTG--NWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCIDKNVME  101 (119)
T ss_dssp             HHHHHHHHHTTSCEEEEEE--CSSS--SEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCCHHHHC
T ss_pred             HHHHHHHHHhhCcEEEecc--CCCC--CeEEEEeCCHHHHHHHHHhCCeEecCCEEEEEEECCCHHHHH
Confidence            4568899999999999864  2333  38999999999999999999999986 557888887555433

>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=97.68  E-value=3.2e-05  Score=50.54  Aligned_cols=52  Identities=23%  Similarity=0.361  Sum_probs=44.5

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      ..++| ++|.+.--.||.++|++||-+.  |.++.|.      -|||.|.+++.|..||+.
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fggv~--I~WidDT------sAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFGNIQ--ISWIDDT------SAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSEEEE--EEEEETT------EEEEEEEEECHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccCCEE--EEEEcCC------eEEEEecCHHHHHHHHHh
Confidence            35556 9999999999999999998554  8888763      499999999999999974

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=97.59  E-value=0.0001  Score=50.77  Aligned_cols=66  Identities=9%  Similarity=0.015  Sum_probs=50.9

Q ss_pred             HHHHHHHhcccCcceeEE-Eec-C-------------CC-cccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChH
Q 029263            6 VQVLCTIHHQLMDIVDVL-FVH-K-------------NN-KFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~-~~~-~-------------~g-~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~   69 (196)
                      ...|.+.|++||.|++.. ..+ .             .+ ....+-.|.|+++.+|.+||.+||+.++|.-|-|.++++.
T Consensus        20 ~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii~G~mIGV~Py~~~   99 (132)
T 3p3d_A           20 ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVFNGVLLGVIPYTKD   99 (132)
T ss_dssp             HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEETTEECEEEECCHH
T ss_pred             HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEeCcEEEEEEECCHH
Confidence            456889999999998732 111 0             00 1235789999999999999999999999998899999866


Q ss_pred             HH
Q 029263           70 EY   71 (196)
Q Consensus        70 ~~   71 (196)
                      .+
T Consensus       100 ~v  101 (132)
T 3p3d_A          100 AV  101 (132)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.50  E-value=0.00045  Score=45.99  Aligned_cols=62  Identities=13%  Similarity=0.130  Sum_probs=50.5

Q ss_pred             CCchHHHHHHHhccc-----CcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQL-----MDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~-----g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +.-++..|+.+.+++     |.++.+++...-    |-|+|+|.+..+|-+|. .++|..+.|+.|.+....
T Consensus        31 DtvndarIr~lve~~~~i~~g~i~KI~L~pDH----~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gTv~   98 (117)
T 2l9w_A           31 DKVSPSLICQFLQEEIHINEKDIRKILLVSDF----NGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGTIN   98 (117)
T ss_dssp             TTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT----TEEEEECSCHHHHHHHHHHHSSEEETTEEEEEECHH
T ss_pred             CCCCHHHHHHHHhhhhccCccceeEEEEecCC----CceEEEEccchhhHHHHhhcCCeeecCeEEEecCHH
Confidence            456788999999999     888888665322    24999999999999987 999999999998885443

>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=97.25  E-value=0.00098  Score=44.02  Aligned_cols=72  Identities=8%  Similarity=0.112  Sum_probs=56.1

Q ss_pred             ccEEEEcCCCCCC-C----HHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 029263          107 TGILRLRGLPFSA-G----KDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIEL  180 (196)
Q Consensus       107 ~~~l~v~nLp~~~-t----~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V  180 (196)
                      ..+|++.|||.++ +    .+.++++|..|+... .....+.-.     =..|.|.++++|.+|-.. |+..++|+.|+|
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~-tF~~lkSFR-----Rirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~   78 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDT-TFQYFKSFK-----RVRINFSNPLSAADARLRLHKTEFLGKEMKL   78 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSC-EEEEETTTT-----EEEEECSSTTHHHHHHHTSTTSEETTEECEE
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCc-ceeecCcce-----EEEEEeCChHHHHHHHHHhccceecCceeEE
Confidence            4689999998754 2    257789999998544 344443222     378999999999999865 999999999999


Q ss_pred             EECC
Q 029263          181 FPSS  184 (196)
Q Consensus       181 ~~~~  184 (196)
                      ..+.
T Consensus        79 YFgq   82 (104)
T 1wey_A           79 YFAQ   82 (104)
T ss_dssp             ECCC
T ss_pred             EecC
Confidence            8875

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.18  E-value=0.0021  Score=42.32  Aligned_cols=59  Identities=5%  Similarity=-0.032  Sum_probs=44.4

Q ss_pred             CchHHHHHHHhcc----cCc-ceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQ----LMD-IVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~----~g~-i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ...++-|.=+|+.    -|. |.++.. .+     +-|+|+|.+.+.|++.|+.....|.+-.+.|++..
T Consensus        19 ~~~~e~L~LYFEn~rrsGGG~V~~v~~-~~-----~~AvItF~d~~va~rVL~k~~H~L~~~~LsV~P~~   82 (104)
T 2dhx_A           19 AVPDELLTLYFENRRRSGGGPVLSWQR-LG-----CGGVLTFREPADAERVLAQADHELHGAQLSLRPAP   82 (104)
T ss_dssp             TSCHHHHHHHHHCTTTTCCCCEEEEEE-ET-----TEEEEEESSHHHHHHHHTCSCCBSSSSBCEEEECC
T ss_pred             CCChhHheEEEeCCCcCCCceeeEEEE-cC-----CcEEEEEcChHHHHHHhcCCcceecCeEEEEEcCC
Confidence            3457788888865    243 344432 22     46999999999999999888888988999998865

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=96.94  E-value=0.0044  Score=40.02  Aligned_cols=65  Identities=17%  Similarity=0.223  Sum_probs=47.7

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC---CCCCceEEEEEeCCHHHHHHHHHh-CCCccC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS---DGRPTGEAFVEFANAEDSKAAMAK-DRMTLG  174 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~---~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~  174 (196)
                      .|.|++||++.|++++.+.+++..... ....+..+   .-..-.-|+|.|.+.+++..-... +|..+-
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~~~d-~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~   71 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMPEHD-YFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFL   71 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEE-EEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcccce-EEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEE
Confidence            688999999999999999999876432 33333332   112345799999999888877765 887663

>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=95.98  E-value=0.018  Score=37.48  Aligned_cols=43  Identities=19%  Similarity=0.268  Sum_probs=33.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR   51 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~   51 (196)
                      .|--.||.++|+.|| -+.|...|.|     -|||.|.+++.|..|+..
T Consensus        26 ewKt~DI~~lFs~fg-gv~I~WidDT-----sAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           26 EWKTSDLYQLFSAFG-NIQISWIDDT-----SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             TCCHHHHHHHHTTTC-SCCCEEEETT-----EEEEECSCHHHHHHHHHH
T ss_pred             hhhhHHHHHHhhccC-CEEEEEEcCC-----eEEEEecCHHHHHHHHHh
Confidence            355679999999988 4455444444     599999999999999964

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.57  E-value=0.0096  Score=49.76  Aligned_cols=63  Identities=13%  Similarity=0.146  Sum_probs=43.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGS  175 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~g  175 (196)
                      .+.|+|. .|...++.+|.++|++||.+. ++.+-.+ .|   -||+|+|.+.+++..++...+....+
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~-~~~~~~~-~g---~~~~vef~~~~~~~~~~~~~~~p~~~  115 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPIN-NHFFYES-FG---LYAVVEFCQKESIGSLQNGTHTPXXX  115 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCC-CEEEECS-SS---EEEEEECC---CCHHHHSSCCCCCCB
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcc-eEEEEcc-CC---eEEEEEeCCHHHHHHHHhccCCCccc
Confidence            4689997 799999999999999999887 5555432 22   59999999999999887665444443

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=95.38  E-value=0.016  Score=37.79  Aligned_cols=63  Identities=14%  Similarity=0.198  Sum_probs=44.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCC------CceEEEEEeCCHHHHHHHHHh-CCCcc
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGR------PTGEAFVEFANAEDSKAAMAK-DRMTL  173 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~------~~G~afV~F~~~~~A~~Al~~-~g~~l  173 (196)
                      +..|.|+.||+..|++++.+.++++-.    +.+...-.|.      .-.-|+|.|.+.++...-... +|..+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~----~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F   78 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPA----HDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIF   78 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSS----EEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCc----cceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            457999999999999998888877432    3332222222      224699999999998887766 87765

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=95.05  E-value=0.021  Score=37.20  Aligned_cols=43  Identities=19%  Similarity=0.265  Sum_probs=33.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR   51 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~   51 (196)
                      .|--.||.++|+.|| -+.|...|.|     -|||.|.+++.|..||..
T Consensus        16 ewKt~Di~~lFs~fg-gv~I~WidDT-----sAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A           16 EWKTSDLYQLFSAFG-NIQISWIDDT-----SAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             TCCHHHHHHHTTTSE-EEEEEEEETT-----EEEEEEEEECHHHHHHHH
T ss_pred             hhhhHHHHHHHhccC-CEEEEEEcCC-----eEEEEecCHHHHHHHHHh
Confidence            355679999999987 4455445544     599999999999999964

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=94.71  E-value=0.017  Score=48.30  Aligned_cols=48  Identities=8%  Similarity=-0.083  Sum_probs=35.4

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhccc
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQ   54 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~   54 (196)
                      .++++|.++|+.||.|.++..+...|   -||.|+|++.+++..++.....
T Consensus        64 ~~~~~l~~y~~~~g~i~~~~~~~~~g---~~~~vef~~~~~~~~~~~~~~~  111 (464)
T 3pq1_A           64 ISENKFLKYLSQFGPINNHFFYESFG---LYAVVEFCQKESIGSLQNGTHT  111 (464)
T ss_dssp             ---CHHHHHHGGGSCCCCEEEECSSS---EEEEEECC---CCHHHHSSCCC
T ss_pred             CCHHHHHHHHHhcCCcceEEEEccCC---eEEEEEeCCHHHHHHHHhccCC
Confidence            46889999999999999998776566   4999999999999988855433

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=93.73  E-value=0.21  Score=42.26  Aligned_cols=54  Identities=20%  Similarity=0.337  Sum_probs=43.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      ....++|+ +|......+|.++|+.||.+.  |+++.+ +     .|||.|.+.+.|..++..
T Consensus       439 R~~vl~v~-f~~~~~~~~i~~~fs~fg~v~--V~widd-t-----~a~V~~~~~~~a~~~l~~  492 (507)
T 3d45_A          439 RDHVLHVT-FPKEWKTSDLYQLFSAFGNIQ--ISWIDD-T-----SAFVSLSQPEQVQIAVNT  492 (507)
T ss_dssp             GGGEEEEE-CCTTCCHHHHHHHGGGGCCCE--EEECSS-S-----EEEEECSCHHHHHHHHHH
T ss_pred             cCcEEEEe-CCCCCCHHHHHHHHHhcCCEE--EEEEcC-C-----eEEEEECCHHHHHHHHHH
Confidence            34566665 999999999999999999654  777744 2     599999999999988864

>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=92.34  E-value=0.3  Score=32.06  Aligned_cols=56  Identities=7%  Similarity=0.052  Sum_probs=45.7

Q ss_pred             HHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            7 QVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +.++++|..|..+..-. +..-.     =.-|.|.+.++|.+|- ++++..+.|..++|+-..
T Consensus        25 ~~~e~Lf~~~~~~~tF~~lkSFR-----Rirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq   82 (104)
T 1wey_A           25 AKFESLFRTYDKDTTFQYFKSFK-----RVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             HHHHHHHHTTCSSCEEEEETTTT-----EEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             HHHHHHHHhhCcCcceeecCcce-----EEEEEeCChHHHHHHHHHhccceecCceeEEEecC
Confidence            67899999988887753 44332     2789999999999997 789999999999997665

>4e8u_A Putative uncharacterized protein T8P19.180; XS domain, RNA binding protein, RNA directed DNA methylation; 2.70A {Arabidopsis thaliana}

Probab=86.06  E-value=3.2  Score=29.72  Aligned_cols=57  Identities=18%  Similarity=0.209  Sum_probs=41.0

Q ss_pred             cEEEEcCCCCC---------CCHHHHHHHh--hcCCCccceEEEEeCCCCCCceEEEEEeCCHH-HHHHHHH
Q 029263          108 GILRLRGLPFS---------AGKDDIMDFF--KDFVLSEDSIHITMNSDGRPTGEAFVEFANAE-DSKAAMA  167 (196)
Q Consensus       108 ~~l~v~nLp~~---------~t~~~l~~~F--~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~-~A~~Al~  167 (196)
                      .++.|.|+|-.         -...+|++.|  ..|....  |+.+..+.| +.|+|+|.|.+.- --..|+.
T Consensus        13 wmgIl~N~~t~~~~dg~~~G~s~~~l~~~~~~~~F~p~k--v~~l~~~~G-h~g~aIv~F~~dw~Gf~~A~~   81 (172)
T 4e8u_A           13 WKGIVVNIPTTKAQDGRSAGESGSKLRDEYILRGFNPTR--VRPLWNYLG-HSGTAIVEFNKDWNGLHNGLL   81 (172)
T ss_dssp             CEEEEECCCCEECTTSCEECCCSHHHHHHHHHTTCCCSE--EEEEECSSB-EEEEEEEECCSSHHHHHHHHH
T ss_pred             CEEEEEeccccccCCCCccCCCHHHHHHHHHhcCCCCce--eEecccCCC-CceeEEEEecCChHHHHHHHH
Confidence            57888899862         2236899977  8888765  777777776 8899999999833 2244443

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=82.38  E-value=2.5  Score=35.65  Aligned_cols=44  Identities=18%  Similarity=0.271  Sum_probs=35.5

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHh
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQR   51 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~   51 (196)
                      ..|...||.+.|+.|| -++|...|.+     .|||.|.+.+.|..++..
T Consensus       449 ~~~~~~~i~~~fs~fg-~v~V~widdt-----~a~V~~~~~~~a~~~l~~  492 (507)
T 3d45_A          449 KEWKTSDLYQLFSAFG-NIQISWIDDT-----SAFVSLSQPEQVQIAVNT  492 (507)
T ss_dssp             TTCCHHHHHHHGGGGC-CCEEEECSSS-----EEEEECSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhcC-CEEEEEEcCC-----eEEEEECCHHHHHHHHHH
Confidence            3567789999999988 4566666655     699999999999999854

---

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	196
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	7e-14
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	0.004
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	7e-14
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	7e-12
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	1e-11
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-11
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	2e-11
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	1e-08
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-08
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	4e-08
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	5e-08
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	7e-08
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	8e-08
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	3e-07
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	6e-07
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-06
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-06
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-06
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	4e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	7e-06
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	7e-06
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	8e-06
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	1e-05
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-05
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	2e-05
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-05
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	2e-05
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-05
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	3e-05
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	4e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	4e-05
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	5e-05
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	5e-05
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	7e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	7e-05
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	1e-04
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	3e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	0.001
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	0.001
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	0.002
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	0.002
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	0.003
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.004

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.0 bits (152), Expect = 7e-14
 Identities = 36/105 (34%), Positives = 57/105 (54%)

Query: 92  PRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGE 151
           P  +     +        + L+GLPF A    ++DFFK   + EDSI+I    +G+ TGE
Sbjct: 3   PSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGE 62

Query: 152 AFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRGR 196
            FVEF N  D KAA+ + +  +G+R+I++ P + + M E +   R
Sbjct: 63  GFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIR 107

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.7 bits (76), Expect = 0.004
 Identities = 15/51 (29%), Positives = 23/51 (45%)

Query: 26  HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIA 76
             N K TGE F           AL R++Q MG R+++V    ++   + I 
Sbjct: 54  GPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKID 104

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.9 bits (152), Expect = 7e-14
 Identities = 34/84 (40%), Positives = 54/84 (64%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G +RLRGLPF   K++I+ FF    +  + + + ++  GR TGEAFV+FA+ E ++ A+ 
Sbjct: 16  GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK 75

Query: 168 KDRMTLGSRYIELFPSSHEEMDEA 191
           K +  +G RYIE+F SS  E+  +
Sbjct: 76  KHKERIGHRYIEIFKSSRAEVRTS 99

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.5 bits (138), Expect = 7e-12
 Identities = 21/87 (24%), Positives = 45/87 (51%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
              +  +PFS  K D++ F +   + E+++H+ ++++G+  G+A V+F N +D++ +   
Sbjct: 10  CAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL 69

Query: 169 DRMTLGSRYIELFPSSHEEMDEALSRG 195
            R  L  R   +   + E+M E     
Sbjct: 70  HRKKLNGREAFVHVVTLEDMREIEKNP 96

>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 = 56.6 bits (136), Expect = 1e-11
 Identities = 24/73 (32%), Positives = 45/73 (61%), Gaps = 1/73 (1%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           I++++ +PF+   D+I+DFF  + +   S+ +  N  G PTGEA V F + +++ AA+  
Sbjct: 11  IIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 70

Query: 169 -DRMTLGSRYIEL 180
            +   +GSR ++L
Sbjct: 71  LNDRPIGSRKVKL 83

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.9 bits (134), Expect = 2e-11
 Identities = 36/79 (45%), Positives = 50/79 (63%), Gaps = 2/79 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           + +RGLP+ A ++DI +FF     +   +HI +  DGR TGEA VEFA  ED+ AAMAKD
Sbjct: 18  VHMRGLPYRATENDIYNFFSPL--NPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 75

Query: 170 RMTLGSRYIELFPSSHEEM 188
           +  +  RY+ELF +S    
Sbjct: 76  KANMQHRYVELFLNSTAGT 94

>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 = 55.4 bits (133), Expect = 2e-11
 Identities = 14/67 (20%), Positives = 29/67 (43%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            GL +   ++ + ++F  F   ++ + +      R  G  FV F +       +A+ R  
Sbjct: 6   GGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHE 65

Query: 173 LGSRYIE 179
           L S+ I+
Sbjct: 66  LDSKTID 72

>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 = 48.1 bits (114), Expect = 1e-08
 Identities = 16/67 (23%), Positives = 27/67 (40%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            GL F    + +   F+ +    D + +   +  R  G  FV +A  E+  AAM      
Sbjct: 12  GGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHK 71

Query: 173 LGSRYIE 179
           +  R +E
Sbjct: 72  VDGRVVE 78

>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 = 47.7 bits (113), Expect = 2e-08
 Identities = 18/67 (26%), Positives = 25/67 (37%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            GL +   K D+ D+F  F    D         GR  G  FV F  +E     M +    
Sbjct: 5   GGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHK 64

Query: 173 LGSRYIE 179
           L  + I+
Sbjct: 65  LNGKVID 71

>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 = 46.5 bits (110), Expect = 4e-08
 Identities = 16/67 (23%), Positives = 23/67 (34%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            GL     ++ I ++F  F   E       N   +  G  F+ F   E  K  M K    
Sbjct: 5   GGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHN 64

Query: 173 LGSRYIE 179
           +G    E
Sbjct: 65  VGLSKCE 71

>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 = 46.9 bits (111), Expect = 5e-08
 Identities = 20/96 (20%), Positives = 30/96 (31%)

Query: 92  PRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGE 151
           P  +  D           +    L       D+ DFF       D   I+  +  R  G 
Sbjct: 3   PVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGI 62

Query: 152 AFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSHEE 187
           A+VEF   +    A+      L    I +  S  E+
Sbjct: 63  AYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQAEK 98

>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 = 46.1 bits (109), Expect = 7e-08
 Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 2/81 (2%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
           L + GLP+   + D+ ++F  F              G   G  FV F   E     M   
Sbjct: 11  LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM-SQ 69

Query: 170 RMTLGSRYIEL-FPSSHEEMD 189
           R  +  R+ +   P+S +  D
Sbjct: 70  RHMIDGRWCDCKLPNSKQSQD 90

>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 = 45.9 bits (108), Expect = 8e-08
 Identities = 12/67 (17%), Positives = 29/67 (43%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            GL  +   +D+  +F+ F   +D++ +   +  R  G  FV F + +  +         
Sbjct: 5   GGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHE 64

Query: 173 LGSRYIE 179
           + ++ +E
Sbjct: 65  INNKMVE 71

>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 = 44.5 bits (105), Expect = 3e-07
 Identities = 19/74 (25%), Positives = 30/74 (40%), Gaps = 3/74 (4%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHIT-MNSDGRPTGEAFVEFANAEDSKAAMAK 168
           + +R +PF A + +I + F  F   +       M   G   G  FV+F   +D+K A   
Sbjct: 11  ILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 70

Query: 169 --DRMTLGSRYIEL 180
                 L  R + L
Sbjct: 71  LCHSTHLYGRRLVL 84

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 6e-07
 Identities = 18/93 (19%), Positives = 40/93 (43%), Gaps = 4/93 (4%)

Query: 87  PHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDG 146
              ++P  +   E +        L + GL F   ++ + ++++ +    D + +   +  
Sbjct: 4   TLETVPLERKKREKEQFRK----LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK 59

Query: 147 RPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIE 179
           R  G  FV F++  +  AAMA    ++  R +E
Sbjct: 60  RSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVE 92

>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 = 43.0 bits (101), Expect = 1e-06
 Identities = 11/75 (14%), Positives = 24/75 (32%), Gaps = 1/75 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  L     +  + + F                  R  G A+V F    D++ A+   
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 62

Query: 169 DRMTLGSRYIELFPS 183
           +   +  + + +  S
Sbjct: 63  NFDVIKGKPVRIMWS 77

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 1e-06
 Identities = 18/87 (20%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKD 169
             L  LP+   ++ I +FF+   +S   +    ++  R  G  + EF + +   +A++ +
Sbjct: 18  AFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLN 77

Query: 170 RMTLGSRYIEL-FPSSHEEMDEALSRG 195
             +LG++ I +      ++ D   S G
Sbjct: 78  EESLGNKRIRVDVADQAQDKDSGPSSG 104

>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 = 41.8 bits (98), Expect = 2e-06
 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 2/74 (2%)

Query: 108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA 167
           G L +  L F     DI + F +F  +     +  +  GR  G A V F    D+  AM 
Sbjct: 1   GKLLVSNLDFGVSDADIQELFAEFG-TLKKAAVHYDRSGRSLGTADVHFERKADALKAMK 59

Query: 168 K-DRMTLGSRYIEL 180
           + + + L  R + +
Sbjct: 60  QYNGVPLDGRPMNI 73

>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 = 41.6 bits (97), Expect = 4e-06
 Identities = 20/99 (20%), Positives = 38/99 (38%), Gaps = 2/99 (2%)

Query: 97  HDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEF 156
           H   KD+      + + GLP+      +  +F+ F   E+++ IT    G+  G  FV  
Sbjct: 2   HGSQKDTTFTK--IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTM 59

Query: 157 ANAEDSKAAMAKDRMTLGSRYIELFPSSHEEMDEALSRG 195
           A+   ++ A       +  R   +  +       +L  G
Sbjct: 60  ADRAAAERACKDPNPIIDGRKANVNLAYLGAKPRSLQTG 98

>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 = 40.7 bits (95), Expect = 7e-06
 Identities = 13/56 (23%), Positives = 23/56 (41%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
             LP +   D +   F  +        +     GRP G AFV +   E+++ A++ 
Sbjct: 12  TNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 67

>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 = 40.4 bits (94), Expect = 7e-06
 Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  LP      ++   F+          +     G   G AFV+F +  DS+ A+   
Sbjct: 5   LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 64

Query: 169 DRMTLGSRYIEL 180
           + +T+ ++ +++
Sbjct: 65  NGITVRNKRLKV 76

>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 = 40.8 bits (95), Expect = 8e-06
 Identities = 20/93 (21%), Positives = 35/93 (37%), Gaps = 5/93 (5%)

Query: 88  HRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGR 147
            +SI  A S  EG + A     L +  LP   G  D++  F  F     +          
Sbjct: 3   QQSIGAAGSQKEGPEGAN----LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL 58

Query: 148 PTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE 179
                FV + N   ++AA+   +   +G + ++
Sbjct: 59  SKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLK 91

>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 = 40.1 bits (93), Expect = 1e-05
 Identities = 13/67 (19%), Positives = 26/67 (38%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
            G+     +  + D+F+ +   E    +T    G+  G AFV F + +     + +   T
Sbjct: 8   GGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT 67

Query: 173 LGSRYIE 179
           +     E
Sbjct: 68  VNGHNCE 74

>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 = 40.3 bits (94), Expect = 1e-05
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  L F   ++ I + F      +  I           G  FVE+ +  D++ AM   
Sbjct: 10  LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 69

Query: 169 DRMTLGSRYIEL 180
           +   L  R I  
Sbjct: 70  NGTRLDDRIIRT 81

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (92), Expect = 2e-05
 Identities = 11/59 (18%), Positives = 23/59 (38%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           L + GLP +  + ++   F  +     S  +     G   G  F+ F    +++ A+  
Sbjct: 9   LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 67

>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 = 40.0 bits (93), Expect = 2e-05
 Identities = 15/89 (16%), Positives = 33/89 (37%), Gaps = 4/89 (4%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           IL +R LP+    +++ D F  +                  G A+V + +  D+K A   
Sbjct: 9   ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT---PETRGTAYVVYEDIFDAKNACDH 65

Query: 169 -DRMTLGSRYIELFPSSHEEMDEALSRGR 196
                + +RY+ +   +     + +   +
Sbjct: 66  LSGFNVCNRYLVVLYYNANRAFQKMDTKK 94

>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 = 39.3 bits (91), Expect = 2e-05
 Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 2/70 (2%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHI-TMNSDGRPTGEAFVEFANAEDSKAAM-AKDR 170
             L     +  + D F  F +   +  I      G   G AF+ FA+ + S AA+ A + 
Sbjct: 4   GNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNG 63

Query: 171 MTLGSRYIEL 180
             L +R I +
Sbjct: 64  QYLCNRPITV 73

>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 = 39.3 bits (91), Expect = 2e-05
 Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L + GL     + D+ + F  +    D   +      R  G AFV F N +D+K A  + 
Sbjct: 12  LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 71

Query: 169 DRMTLGSRYIE 179
           + M L  R I 
Sbjct: 72  NGMELDGRRIR 82

>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 = 38.9 bits (90), Expect = 3e-05
 Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           +R+  L     + D+ + F+ F            + G+  G AF+ F   ED+  A+A  
Sbjct: 11  IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV 70

Query: 169 DRMTLGSRYIEL 180
                    + +
Sbjct: 71  SGFGYDHLILNV 82

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (90), Expect = 4e-05
 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRM 171
            GLP     D + +    F   +    +  ++ G   G AF E+ +   +  A+A  + M
Sbjct: 7   GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 66

Query: 172 TLGSRYIE 179
            LG + + 
Sbjct: 67  QLGDKKLL 74

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 4e-05
 Identities = 13/72 (18%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  LP +  +++    F      E    +     G+  G  FV + + +D++ A+   
Sbjct: 5   LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64

Query: 169 DRMTLGSRYIEL 180
           + + L ++ I++
Sbjct: 65  NGLRLQTKTIKV 76

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.2 bits (88), Expect = 5e-05
 Identities = 13/67 (19%), Positives = 22/67 (32%), Gaps = 1/67 (1%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMT 172
           +G P  A  DDI ++ +D     +             G  FV F + E +K  +      
Sbjct: 12  KGFPTDATLDDIKEWLEDKGQVLNIQMRRTL-HKAFKGSIFVVFDSIESAKKFVETPGQK 70

Query: 173 LGSRYIE 179
                + 
Sbjct: 71  YKETDLL 77

>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 = 38.5 bits (89), Expect = 5e-05
 Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 1/72 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           + + GL     +  + + F       ++        G+  G  FVEF + ED+  A+   
Sbjct: 12  VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 71

Query: 169 DRMTLGSRYIEL 180
           D + L  + I +
Sbjct: 72  DMIKLYGKPIRV 83

>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 = 38.2 bits (88), Expect = 7e-05
 Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM 166
           +G L +R L +++ ++D+   F  +    +  +   +   +P G AFV F   E +  A 
Sbjct: 8   SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAY 67

Query: 167 AK-DRMTLGSRYIELFPS 183
           A+ D      R + + PS
Sbjct: 68  AEVDGQVFQGRMLHVLPS 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 = 39.6 bits (91), Expect = 7e-05
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRM 171
            GL F    + +   F+ +    D + +   +  R  G  FV +A  E+  AAM     
Sbjct: 12  GGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPH 70

>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 = 36.8 bits (85), Expect = 1e-04
 Identities = 9/65 (13%), Positives = 23/65 (35%), Gaps = 7/65 (10%)

Query: 114 GLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTL 173
           G P ++    I+  F  +       +I  +          + + +   ++ A++KD    
Sbjct: 11  GFPQAS-ASYILLQFAQY------GNILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIF 63

Query: 174 GSRYI 178
           G   +
Sbjct: 64  GESIM 68

>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 = 36.2 bits (83), Expect = 3e-04
 Identities = 12/72 (16%), Positives = 25/72 (34%), Gaps = 4/72 (5%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHI---TMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           + L FS  ++ +   F      +                 G  FVE+   E ++ A+ + 
Sbjct: 4   KNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQL 63

Query: 169 DRMTLGSRYIEL 180
              T+    +E+
Sbjct: 64  QGHTVDGHKLEV 75

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 0.001
 Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 1/73 (1%)

Query: 109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           +L + GL        +   F  F    D          +  G AFVEF  AED+ AA+  
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66

Query: 169 -DRMTLGSRYIEL 180
            +   L  R I +
Sbjct: 67  MNESELFGRTIRV 79

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 34.6 bits (79), Expect = 0.001
 Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 6/72 (8%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAM-AK 168
           L  + L F+  +D++ + F+D +         ++ DG+  G A++EF +  D++  +  K
Sbjct: 19  LLAKNLSFNITEDELKEVFEDAL-----EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEK 73

Query: 169 DRMTLGSRYIEL 180
               +  R + L
Sbjct: 74  QGAEIDGRSVSL 85

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 0.002
 Identities = 13/76 (17%), Positives = 30/76 (39%), Gaps = 5/76 (6%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHI--TMNSDGRPTGEAFVEFANAEDSKAA-- 165
           L + G+P    +++I++           + +  +     +  G AFVE+ +   +  A  
Sbjct: 4   LFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARR 63

Query: 166 -MAKDRMTLGSRYIEL 180
            +   R+ L    I +
Sbjct: 64  KLMPGRIQLWGHQIAV 79

>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 = 33.9 bits (77), Expect = 0.002
 Identities = 19/71 (26%), Positives = 26/71 (36%), Gaps = 3/71 (4%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +  +PF     D+   F  F    D   I      +  G  FV F N+ D+  A  K 
Sbjct: 14  LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFG--FVTFENSADADRAREKL 71

Query: 169 DRMTLGSRYIE 179
               +  R IE
Sbjct: 72  HGTVVEGRKIE 82

>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 = 33.2 bits (75), Expect = 0.003
 Identities = 12/71 (16%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK- 168
           L +   P S  + +I D  +D  +   SI +           A+++  + ED++  + K 
Sbjct: 4   LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 63

Query: 169 DRMTLGSRYIE 179
           + + +    + 
Sbjct: 64  NGLKIEGYTLV 74

>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 = 32.4 bits (73), Expect = 0.004
 Identities = 10/56 (17%), Positives = 22/56 (39%)

Query: 113 RGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK 168
           RGL       D++   + +     +  I   +  +  G  FV+F +   ++ A+  
Sbjct: 4   RGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTA 59

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	196
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.97
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.9
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.9
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.88
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.88
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.87
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.87
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.87
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.87
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.86
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.86
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.86
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.86
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.86
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.86
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.86
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.86
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.86
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.85
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.85
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.85
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.85
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.85
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.85
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.85
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.85
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.85
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.85
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.85
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.84
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.84
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.84
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.84
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.84
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.84
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.84
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.83
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.83
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.83
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.83
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.83
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.83
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.83
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.82
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.82
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.81
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.81
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.81
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.8
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.8
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.78
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.77
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.77
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.77
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.77
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.76
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.76
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.76
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.76
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.75
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.75
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.75
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.75
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.75
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.75
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.74
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.73
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.73
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.73
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.72
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.71
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.71
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.7
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.7
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.7
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.69
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.64
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.63
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.61
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.61
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.61
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	99.61
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.61
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.6
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.6
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.6
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.6
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.59
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.58
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.58
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.58
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.58
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.58
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.57
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.57
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.57
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.57
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.57
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.57
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.56
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.56
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.55
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.55
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.55
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.55
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.55
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.55
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.54
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.54
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.54
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.54
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.54
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.54
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.54
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.54
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.52
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.52
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.51
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.51
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.5
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.49
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.49
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.49
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.49
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.49
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	99.49
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.48
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.48
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.48
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.48
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.47
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.46
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.46
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.46
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.4
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.4
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.38
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.38
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.37
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.37
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.36
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.35
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.35
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.35
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.34
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.34
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.34
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.32
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.32
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.32
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.31
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.31
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.29
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.28
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.28
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.26
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.24
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.24
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.24
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.19
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.19
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.18
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.18
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.17
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.16
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.15
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.12
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.04
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.96
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.92
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.9
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.29
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	97.21
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.11
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.88
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	93.8

>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=99.97  E-value=6.9e-31  Score=194.17  Aligned_cols=158  Identities=17%  Similarity=0.242  Sum_probs=132.5

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhhccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIANEVS   80 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~~~~   80 (196)
                      ..|+++|+++|+.||.|.++. +.+ .+|.++|+|||+|.+.++|.+|+..++..++.+.+.+........         
T Consensus        17 ~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~~~~~---------   87 (183)
T d1u1qa_          17 ETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSRED---------   87 (183)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCCTTG---------
T ss_pred             CCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhhhccc---------
Confidence            468999999999999999985 455 489999999999999999999999998889888887765542210         


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCH
Q 029263           81 DVRGGSPHRSIPRAKSHDEGKDSAVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANA  159 (196)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~  159 (196)
                                       ...........+|||+|||+.+|+++|+++|+.||.+. .+.++.+. +|.++|+|||+|.+.
T Consensus        88 -----------------~~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~-~~~i~~~~~~~~~~g~~fV~f~~~  149 (183)
T d1u1qa_          88 -----------------SQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFDDH  149 (183)
T ss_dssp             -----------------GGSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESCH
T ss_pred             -----------------ccccccccccceeEEccCCCcCCHHHHhhhhccCCcee-eeeeecccccCccceeEEEEECCH
Confidence                             00011123457899999999999999999999999776 78888766 799999999999999


Q ss_pred             HHHHHHHHhCCCccCCeEEEEEECChHH
Q 029263          160 EDSKAAMAKDRMTLGSRYIELFPSSHEE  187 (196)
Q Consensus       160 ~~A~~Al~~~g~~l~gr~i~V~~~~~~~  187 (196)
                      ++|.+|+.+++..++|+.|+|.+|.+++
T Consensus       150 e~A~~Al~~~~~~~~G~~i~V~~A~~k~  177 (183)
T d1u1qa_         150 DSVDKIVIQKYHTVNGHNCEVRKALSKQ  177 (183)
T ss_dssp             HHHHHHHTSSCEEETTEEEEEEECCCHH
T ss_pred             HHHHHHHHhCCCeECCEEEEEEecCCcc
Confidence            9999999888899999999999986653

>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=99.90  E-value=6.8e-24  Score=144.47  Aligned_cols=88  Identities=39%  Similarity=0.691  Sum_probs=81.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...+|||+|||+++|+++|+++|+.||.+...+.+..+.+|.++|+|||+|.+.++|++|+.+|+..|+||.|+|.++++
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~~   96 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITK   96 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEECH
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcCh
Confidence            46799999999999999999999999987766777888899999999999999999999998899999999999999999


Q ss_pred             HHHHHHHH
Q 029263          186 EEMDEALS  193 (196)
Q Consensus       186 ~~~~~~~~  193 (196)
                      +++.+++.
T Consensus        97 ~~~~~~~~  104 (112)
T d1wela1          97 KGMLEKID  104 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99877753

>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=99.90  E-value=2.1e-23  Score=140.00  Aligned_cols=89  Identities=24%  Similarity=0.446  Sum_probs=82.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ...||||+|||+++|+++|+++|+.||.+...+.++.+.+|.++|+|||+|.+.++|++||.+|+..|+||.|.|.++++
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~~~~   86 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTL   86 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEECH
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEECCH
Confidence            45789999999999999999999999987756788888899999999999999999999998899999999999999999


Q ss_pred             HHHHHHHHc
Q 029263          186 EEMDEALSR  194 (196)
Q Consensus       186 ~~~~~~~~~  194 (196)
                      .++...+.+
T Consensus        87 ~~~~~~~~~   95 (103)
T d2cpya1          87 EDMREIEKN   95 (103)
T ss_dssp             HHHHHHHHS
T ss_pred             HHhhhhccC
Confidence            999888754

>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=99.88  E-value=2.1e-23  Score=140.15  Aligned_cols=86  Identities=40%  Similarity=0.770  Sum_probs=77.6

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..+.+|||+|||+++|++||+++|+.+|.+...+.+..+.++.++|+|||+|.++++|++|+.+|+..|+||.|+|.+++
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECC
Confidence            34568999999999999999999999997765577777789999999999999999999999889999999999999999


Q ss_pred             hHHHHH
Q 029263          185 HEEMDE  190 (196)
Q Consensus       185 ~~~~~~  190 (196)
                      +.++..
T Consensus        93 ~~~~~~   98 (104)
T d1wg5a_          93 RAEVRT   98 (104)
T ss_dssp             TTTSCC
T ss_pred             HHHhcc
Confidence            887643

>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=99.88  E-value=8.5e-23  Score=136.70  Aligned_cols=81  Identities=44%  Similarity=0.708  Sum_probs=74.7

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..+.+|||+|||+++|++||+++|+.|+++  .|.++.+.+|.++|||||+|.+.++|++|+.+|+..|+||.|+|.+++
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~~--~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM--RVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS--EEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCcc--eeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            356799999999999999999999999865  488999999999999999999999999999889999999999999998


Q ss_pred             hHH
Q 029263          185 HEE  187 (196)
Q Consensus       185 ~~~  187 (196)
                      +.+
T Consensus        91 ~~~   93 (102)
T d1weza_          91 TAG   93 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>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=99.87  E-value=3.3e-22  Score=129.06  Aligned_cols=78  Identities=21%  Similarity=0.311  Sum_probs=72.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. .+.|+.+. +|.++|||||+|.++++|.+|+.+++..|+||.|+|..|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~-~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLT-DCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhcccc-ceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            457899999999999999999999999776 78998887 7999999999999999999999999999999999998874

>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=99.87  E-value=2.2e-22  Score=128.16  Aligned_cols=75  Identities=24%  Similarity=0.389  Sum_probs=71.3

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +|||+|||+++|+++|+++|++||.+. ++.++.+++|+++|||||+|.++++|.+|+.. ||..++||+|+|.+++
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~-~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLK-KAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEE-EEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCe-EEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            699999999999999999999999876 89999999999999999999999999999975 9999999999999985

>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=99.87  E-value=5.7e-22  Score=128.59  Aligned_cols=77  Identities=31%  Similarity=0.643  Sum_probs=72.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..+|||+|||+++|++||+++|+.||.+.+.+.+..+++|.++|+|||+|.+.++|++|+.. |+..|+||+|+|+++
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            45799999999999999999999999877678888899999999999999999999999975 999999999999985

>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=99.87  E-value=2.3e-22  Score=134.18  Aligned_cols=80  Identities=21%  Similarity=0.216  Sum_probs=73.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. .|+|+.+. +|+++|||||+|.+.++|.+|+.+||..|+|+.|.|.++.
T Consensus        17 ~~~tifV~nL~~~~te~~l~~~F~~~G~V~-~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a~   95 (101)
T d2cq4a1          17 DARTVFCMQLAARIRPRDLEDFFSAVGKVR-DVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQ   95 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEE-EEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHcCCCeEE-EEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
Confidence            347899999999999999999999999876 79999876 7999999999999999999999889999999999999985


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      ++
T Consensus        96 ~~   97 (101)
T d2cq4a1          96 AE   97 (101)
T ss_dssp             HH
T ss_pred             CC
Confidence            43

>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=99.86  E-value=5.4e-22  Score=129.20  Aligned_cols=79  Identities=22%  Similarity=0.254  Sum_probs=72.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ++.+|||+|||+++|+++|+++|+.||.+. +|+++.++ +|.++|||||+|.+.++|++|+.. ||..|+|+.|+|.++
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~-~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIK-NIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcc-cccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            467999999999999999999999999776 79998875 899999999999999999999975 999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        85 ~~   86 (88)
T d1rk8a_          85 FV   86 (88)
T ss_dssp             EE
T ss_pred             cC
Confidence            64

>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=99.86  E-value=7.1e-22  Score=126.39  Aligned_cols=76  Identities=17%  Similarity=0.193  Sum_probs=70.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .|||+|||+.+|+++|+++|+.||.+. +|+|+.++ +|.++|||||+|.++++|..|+.. ||..++||+|+|.++.+
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~-~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~~   79 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPIL-SIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   79 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEe-EEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            599999999999999999999999776 79999876 799999999999999999999965 99999999999999854

>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=99.86  E-value=1.8e-22  Score=128.22  Aligned_cols=74  Identities=19%  Similarity=0.354  Sum_probs=69.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. .+.+++++ +|+++|||||+|.++++|.+|+.+|+..|+||.|+|..|
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVK-ECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCC-CEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcc-eeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            699999999999999999999999765 78998887 799999999999999999999998999999999999876

>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=99.86  E-value=4.3e-22  Score=127.99  Aligned_cols=78  Identities=19%  Similarity=0.285  Sum_probs=71.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +.+|||+|||+++|+++|+++|++||.+. .+++++++ +|.++|||||+|.++++|++|+.. ||..++|+.|+|.++.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~-~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPIN-TCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcc-eeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            35799999999999999999999999876 78888765 899999999999999999999975 9999999999999987


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      |
T Consensus        81 p   81 (82)
T d1b7fa1          81 P   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.86  E-value=8.8e-22  Score=128.60  Aligned_cols=79  Identities=22%  Similarity=0.405  Sum_probs=71.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      .+.+|||+|||+++|+++|+++|+.||.+. .|.|+.|. +|.++|||||+|.++++|.+||.. +..|+||.|.|.++.
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~-~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVL-MVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDCKLPN   84 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEE-EEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS-CEEETTEEEEEECCC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccc-eeeeccCCCCcccCCEEEEEECCHHHHHHHHhc-CCccCCEEeEEEeCC
Confidence            456899999999999999999999999776 89999886 799999999999999999999974 458999999999997


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      ++
T Consensus        85 ~k   86 (90)
T d2cqga1          85 SK   86 (90)
T ss_dssp             TT
T ss_pred             CC
Confidence            64

>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=99.86  E-value=9e-22  Score=129.44  Aligned_cols=80  Identities=21%  Similarity=0.290  Sum_probs=73.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|++||.+. +|+++.+. +|.++|||||+|.+.++|++|+.. ||..|+|+.|+|.+|
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~-~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A   86 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVV-NTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   86 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCcc-ccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            356899999999999999999999999776 78888876 899999999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      +++
T Consensus        87 ~~~   89 (93)
T d1x5ua1          87 SAH   89 (93)
T ss_dssp             TTT
T ss_pred             CCC
Confidence            765

>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=99.86  E-value=5.5e-22  Score=132.74  Aligned_cols=81  Identities=20%  Similarity=0.338  Sum_probs=74.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..++|||+|||+++|+++|+++|++||.+. .+.|+.+. ++.++|||||+|.+.++|.+|+.+++..|+|+.|.|..+.
T Consensus        19 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          19 QFRKLFIGGLSFETTEESLRNYYEQWGKLT-DCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCS-EEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhhCccc-ceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEECc
Confidence            347899999999999999999999999776 78998876 7889999999999999999999889999999999999987


Q ss_pred             hHH
Q 029263          185 HEE  187 (196)
Q Consensus       185 ~~~  187 (196)
                      +.+
T Consensus        98 ~ke  100 (103)
T d1x4ba1          98 ARE  100 (103)
T ss_dssp             SCC
T ss_pred             ccC
Confidence            643

>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=99.86  E-value=1.8e-21  Score=125.31  Aligned_cols=74  Identities=27%  Similarity=0.417  Sum_probs=68.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIEL  180 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V  180 (196)
                      .+.+|||+|||+.+|+++|+++|++||.+. +|.++.++ +|.++|||||+|.+.++|.+|+. +||..|+||.|+|
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~-~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIA-DVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEE-EEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCc-cccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            457899999999999999999999999776 78988876 79999999999999999999996 5999999999987

>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=99.86  E-value=1.7e-21  Score=124.28  Aligned_cols=75  Identities=19%  Similarity=0.329  Sum_probs=69.6

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ++|||+|||+++|+++|+++|+.||.+. .+.++.++ ++.++|+|||+|.++++|.+|+.+||..|+||.|+|..|
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~-~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIE-VIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhcccc-ccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            6899999999999999999999999876 67777766 889999999999999999999988999999999999876

>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=99.85  E-value=8.2e-22  Score=128.63  Aligned_cols=80  Identities=26%  Similarity=0.289  Sum_probs=73.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. +|.++.++ +|.++|||||+|.+.++|++|+.. ||..++|++|+|.++
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDIT-DIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCC-CEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEE-ecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            457899999999999999999999999766 78998876 799999999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        83 ~p~   85 (89)
T d2cqba1          83 KPM   85 (89)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            764

>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=99.85  E-value=4.4e-22  Score=125.81  Aligned_cols=74  Identities=23%  Similarity=0.423  Sum_probs=68.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. ++.++.++ +|+++|||||+|.++++|++|+.+++..|+|+.|+|..|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~-~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVV-DCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhcccc-ccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeEC
Confidence            489999999999999999999999876 78888876 799999999999999999999999999999999999654

>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=99.85  E-value=8.6e-22  Score=126.88  Aligned_cols=77  Identities=22%  Similarity=0.276  Sum_probs=69.7

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      |||+|||+++|+++|+++|++||.+...++++++. +|+++|||||+|.+.++|.+|+.. ||..++||+|+|.++.++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k   79 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKK   79 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCC
Confidence            79999999999999999999999765456777765 799999999999999999999975 999999999999999754

>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=99.85  E-value=2e-21  Score=127.02  Aligned_cols=80  Identities=19%  Similarity=0.321  Sum_probs=73.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. +|.++.+. +|.++|||||+|.+.++|.+|+.. ||..++|+.|.|.++
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~-~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~a   85 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSIS-RIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   85 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEE-EEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccc-cccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEee
Confidence            456899999999999999999999999776 79998876 799999999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        86 kp~   88 (90)
T d2cq0a1          86 KPS   88 (90)
T ss_dssp             SCC
T ss_pred             eCC
Confidence            753

>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=99.85  E-value=2.2e-21  Score=129.00  Aligned_cols=80  Identities=26%  Similarity=0.497  Sum_probs=73.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+.+|+++|+++|+.||.+. .|.++.+. +|.++|||||+|.+.++|.+||.. |+..|+||.|+|.++
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~-~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLS-ELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEE-EEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCce-eeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            346799999999999999999999999776 78888876 899999999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        86 ~~~   88 (99)
T d1whwa_          86 TIK   88 (99)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            764

>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=99.85  E-value=3.2e-21  Score=123.82  Aligned_cols=77  Identities=18%  Similarity=0.318  Sum_probs=71.0

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .+|||+|||+++|+++|+++|++||.+. .|+++.+. +|.++|||||+|.++++|+.|+.. ||..++|+.|+|.+|.|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~-~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIE-SCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcc-cccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            3699999999999999999999999776 78888775 789999999999999999999975 99999999999999875

>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=99.85  E-value=3.9e-21  Score=128.48  Aligned_cols=80  Identities=18%  Similarity=0.288  Sum_probs=72.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ++.+|||+|||+++|+++|+++|+.||.+. ++.++.+. +|.++|||||+|.++++|..|+. +||..|+|+.|+|.++
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a   95 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVV-SAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK   95 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCS-EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccc-ccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            456799999999999999999999999765 68887765 89999999999999999999996 5999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .++
T Consensus        96 ~~k   98 (102)
T d2cpza1          96 RSK   98 (102)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            764

>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=99.85  E-value=1.5e-21  Score=125.14  Aligned_cols=78  Identities=17%  Similarity=0.210  Sum_probs=63.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      .+|||+|||+++|+++|+++|+.||.+...+.+..+.+|.++|||||+|.+.++|.+|+.. ||..++|++|.|.++.|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            4899999999999999999999999776333444555899999999999999999999975 99999999999999975

>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=99.85  E-value=2.9e-21  Score=124.86  Aligned_cols=76  Identities=18%  Similarity=0.241  Sum_probs=71.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      .++|||+|||+++|+++|+++|+.||.+. .|.|..+.+|.++|||||+|.++++|.+||.+++..++|+.|.|.+.
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~-~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVL-NIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFK   81 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEE-EEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccc-cceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEc
Confidence            46899999999999999999999999776 79999999999999999999999999999988999999999999875

>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=99.85  E-value=3.7e-21  Score=126.44  Aligned_cols=78  Identities=21%  Similarity=0.279  Sum_probs=72.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+|||+++|+++|+++|++||.+. +|.++.+. +|.++|||||+|.+.++|..|+.. ||..|+|++|+|.++
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~-~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIK-KIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcc-eeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            457999999999999999999999999776 89998876 899999999999999999999975 999999999999997


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        85 ~   85 (93)
T d1h2vz_          85 A   85 (93)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.85  E-value=2.6e-22  Score=131.52  Aligned_cols=80  Identities=14%  Similarity=0.129  Sum_probs=72.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. ++.++.+.+|+++|||||+|.+.++|.+||.+||..|+|+.|+|.++.
T Consensus        11 ~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~-~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          11 TTPFNLFIGNLNPNKSVAELKVAISELFAKN-DLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHH-TCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             CCCcEEEEeCccCcchHHHHHHHHhcCCcEE-EeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEecC
Confidence            3457899999999999999999999999665 677777779999999999999999999999889999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        90 ~   90 (91)
T d1fjeb1          90 G   90 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.84  E-value=5.6e-22  Score=125.15  Aligned_cols=74  Identities=24%  Similarity=0.376  Sum_probs=68.7

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|++||.+. .|+|+.++ +|+++|||||+|.+.++|++||..++..|+|+.|+|..|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~-~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVE-SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEE-EEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcc-cccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEEC
Confidence            589999999999999999999999776 78998886 899999999999999999999988888999999999865

>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=99.84  E-value=1e-21  Score=127.28  Aligned_cols=79  Identities=22%  Similarity=0.271  Sum_probs=68.4

Q ss_pred             cccEEEEcCCCCCCC-HHHHHHHhhcCCCccceEEEEeC--CCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAG-KDDIMDFFKDFVLSEDSIHITMN--SDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t-~~~l~~~F~~~g~~~~~v~l~~~--~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~  182 (196)
                      +.++|||+|||+++| +++|+++|++||.+. +|.++.+  .+|.++|||||+|.+.++|.+|+.+|+..|+||.|+|.+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~-~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~~   81 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIE-KINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSL   81 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEE-EEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhcc-ceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEE
Confidence            457999999999976 566999999999776 7888654  389999999999999999999998899999999999999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        82 a~~   84 (86)
T d2ghpa3          82 ADK   84 (86)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            975

>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=99.84  E-value=1.9e-21  Score=125.71  Aligned_cols=76  Identities=24%  Similarity=0.391  Sum_probs=71.6

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      +|||+|||+.+|+++|+++|+.||.+. .|+|++++ +|.++|||||+|.++++|..|+.. ||..|+|++|.|.++++
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G~v~-~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~   80 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFGPLK-AFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV   80 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSSCEE-EEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCccc-eEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            699999999999999999999999876 79999886 799999999999999999999985 99999999999999975

>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=99.84  E-value=2.5e-21  Score=122.26  Aligned_cols=74  Identities=15%  Similarity=0.296  Sum_probs=67.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      +|||+|||+++|+++|+++|+.||.+. .+.++.++ +|.++|+|||+|.+.++|.+|+.+||..|+||+|+|..|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~-~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVD-DAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCS-EECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcc-eeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEEC
Confidence            489999999999999999999999776 67776665 789999999999999999999988999999999999875

>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=99.84  E-value=1.2e-20  Score=123.93  Aligned_cols=80  Identities=25%  Similarity=0.388  Sum_probs=72.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|+.||.+. .|.++.+..+ ++|||||+|.++++|.+|+.. |+..|+|+.|.|.++
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~-~v~~~~~~~~-~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A   86 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKIL-DVEIIFNERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA   86 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEE-EEEEECCTTT-TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceee-eccccccccC-CcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            3457899999999999999999999999776 7888887655 799999999999999999965 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        87 ~~r   89 (93)
T d2cq3a1          87 TAR   89 (93)
T ss_dssp             CSS
T ss_pred             CcC
Confidence            764

>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=99.84  E-value=8.6e-21  Score=122.63  Aligned_cols=77  Identities=19%  Similarity=0.333  Sum_probs=69.8

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCC--eEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS--RYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~  181 (196)
                      .+..|||+|||+++|+++|+++|++||.+. .+++++++ +|.++|||||+|.+.++|.+|+.. ||..+.|  ++|+|.
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~-~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~   83 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIV-QKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVR   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEe-eeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEE
Confidence            345799999999999999999999999776 79998876 899999999999999999999975 9999876  999999


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      +|
T Consensus        84 ~A   85 (85)
T d1b7fa2          84 LA   85 (85)
T ss_dssp             EC
T ss_pred             EC
Confidence            86

>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=99.84  E-value=2.9e-21  Score=126.21  Aligned_cols=79  Identities=23%  Similarity=0.408  Sum_probs=70.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-CCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-SDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|++||.+. .+.++.+ .+|.++|||||+|.++++|+.|+.. ||..|+|+.|+|.++
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~-~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a   82 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQIS-EVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   82 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCC-EEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhcccccc-ceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            457899999999999999999999999776 6777655 4899999999999999999999965 999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        83 ~~   84 (90)
T d1x5sa1          83 GK   84 (90)
T ss_dssp             EC
T ss_pred             CC
Confidence            54

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=4.7e-21  Score=128.54  Aligned_cols=81  Identities=19%  Similarity=0.391  Sum_probs=73.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. +|.++.+. +|.++|||||+|.+.++|..|+.. |+..|+|+.|.|.++
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~-~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a   85 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVV-SFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCS-EEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhcccccc-ccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            346899999999999999999999999776 79888776 799999999999999999999975 999999999999998


Q ss_pred             ChHH
Q 029263          184 SHEE  187 (196)
Q Consensus       184 ~~~~  187 (196)
                      .+..
T Consensus        86 ~~~~   89 (104)
T d1p1ta_          86 ASEK   89 (104)
T ss_dssp             TCTT
T ss_pred             CCCC
Confidence            7543

>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=99.83  E-value=5.3e-21  Score=125.94  Aligned_cols=80  Identities=25%  Similarity=0.398  Sum_probs=72.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHH-h-CCCccCCeEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMA-K-DRMTLGSRYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~-~-~g~~l~gr~i~V~  181 (196)
                      .+.+|||+|||+++|+++|+++|++||.+. +|+|+.+.  +|.++|||||+|.+.++|.+|+. + |+..|+||+|.|.
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~-~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELK-TVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCce-EEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            456899999999999999999999999776 78887764  79999999999999999999996 5 8999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      +|..+
T Consensus        86 ~A~~~   90 (94)
T d2cpha1          86 WADSE   90 (94)
T ss_dssp             ECCCC
T ss_pred             EcCCC
Confidence            99764

>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=99.83  E-value=9.3e-21  Score=122.45  Aligned_cols=77  Identities=16%  Similarity=0.279  Sum_probs=69.5

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCC--eEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS--RYIELF  181 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~  181 (196)
                      .+.+|||+|||+.+|+++|+++|++||.+. .++++.++ +|.++|||||+|.++++|.+|+.. ||..+.|  ++|+|.
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~-~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~   83 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRII-TSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVK   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcc-ccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEE
Confidence            346799999999999999999999999776 79998876 799999999999999999999975 9999987  569998


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      +|
T Consensus        84 ~A   85 (85)
T d1fxla2          84 FA   85 (85)
T ss_dssp             EC
T ss_pred             eC
Confidence            75

>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=99.83  E-value=7.5e-21  Score=127.53  Aligned_cols=79  Identities=19%  Similarity=0.379  Sum_probs=70.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~  183 (196)
                      ...+|||+|||+++|+++|+++|+.||++.  +.++.+.  +|.++|||||+|.+.++|++|+.+|+..|+||.|+|.++
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g~~~--~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a   91 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLNISA--VRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSCEEE--EECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcccc--ceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            357899999999999999999999999654  6666554  789999999999999999999888999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        92 ~~~   94 (104)
T d1wi8a_          92 DQA   94 (104)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            754

>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=99.83  E-value=1.4e-20  Score=125.91  Aligned_cols=79  Identities=16%  Similarity=0.273  Sum_probs=70.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      ..+|||+|||+++|+++|+++|+.||.+. +|.++.++ +|.++|||||+|.+.++|++|+...+..|+||.|.|.++..
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIE-EAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAYL   88 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEE-EEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEESTT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhccccc-ceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcCC
Confidence            35799999999999999999999999776 79998876 79999999999999999999998733479999999999865


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        89 ~   89 (103)
T d2cqda1          89 G   89 (103)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.83  E-value=1.3e-20  Score=118.90  Aligned_cols=74  Identities=19%  Similarity=0.225  Sum_probs=68.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      +|||+|||+++|+++|+++|+.||.+. .|+++.++.+ .+|+|||+|.++++|.+|+.+|+..|+|++|.|..++
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~-~v~~~~~~~~-~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~~T   75 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPII-HVDVADSLKK-NFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLT   75 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEE-EEEEEECTTS-SSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceE-EEEEEeeccc-cceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEECC
Confidence            799999999999999999999999876 7999888765 4589999999999999999889999999999998764

>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=99.83  E-value=1.9e-20  Score=122.25  Aligned_cols=79  Identities=16%  Similarity=0.189  Sum_probs=70.9

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. .|.++.+..+ .+|||||+|.+.++|.+|+.. ||..|+|+.|+|.++.
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~~-~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCK-SCKMITEHTS-NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEE-EEEEECCCCS-SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCce-eeeeecccCc-cceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            457899999999999999999999999776 7888887644 489999999999999999975 9999999999999997


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      +.
T Consensus        85 ~~   86 (90)
T d2cqia1          85 TP   86 (90)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>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=99.82  E-value=4.4e-20  Score=129.99  Aligned_cols=79  Identities=15%  Similarity=0.282  Sum_probs=72.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. +|.++.+. +|.++|||||+|.+.++|.+|+. +||..|+||.|+|.++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~-~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIE-SVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEE-EEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccc-ccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            346899999999999999999999999776 78888776 79999999999999999999997 5999999999999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      ..
T Consensus       120 ~~  121 (139)
T d1u6fa1         120 AS  121 (139)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=1.8e-20  Score=121.11  Aligned_cols=75  Identities=21%  Similarity=0.317  Sum_probs=67.2

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCC----CCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSD----GRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~----g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      |||+|||+++|+++|+++|++||.+. ++.++.++.    +.++|||||+|.++++|.+|+.. ||..|+|+.|+|.++.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~-~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIK-SCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCcc-ccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            79999999999999999999999776 788877652    24789999999999999999975 9999999999999985


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      +
T Consensus        80 ~   80 (85)
T d2cpfa1          80 R   80 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.82  E-value=1.3e-20  Score=122.83  Aligned_cols=77  Identities=22%  Similarity=0.294  Sum_probs=69.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      .+|||+|||+++|+++|+++|+.||.+. .+.++.+.. .++|||||+|.+.++|.+|+.. ||..|+|+.|.|.++.+.
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~-~~~i~~~~~-~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSAFGNIL-SCKVVCDEN-GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHTTSCEE-EEEECCBTT-BCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCce-EEEEEeecC-CCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            4799999999999999999999999776 788887764 4789999999999999999965 999999999999999764

>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=99.81  E-value=2.7e-20  Score=124.13  Aligned_cols=79  Identities=19%  Similarity=0.278  Sum_probs=71.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+++|+++|+++|+.||.+. .+.+..+.++.++|||||+|.+.++|.+|+.. ||..|.||++.|.++.
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVI-STRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEE-EEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccccc-ceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            346899999999999999999999999775 78888888999999999999999999999975 9999999999887765


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      |
T Consensus        96 P   96 (101)
T d1x5oa1          96 P   96 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.81  E-value=1.1e-19  Score=123.63  Aligned_cols=78  Identities=21%  Similarity=0.380  Sum_probs=70.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      .+++|||+|||+++|+++|+++|+.||.+. +|++..  ++.++|||||+|.+.++|..|+. +||..|+|+.|+|.++.
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~-~i~~~~--~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   82 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIR-QIRVGN--TPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYN   82 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEE-EEEEEC--STTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeE-eecccc--cCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            467999999999999999999999999876 677764  46789999999999999999996 59999999999999987


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      ..
T Consensus        83 ~~   84 (114)
T d2f9da1          83 AN   84 (114)
T ss_dssp             HH
T ss_pred             CC
Confidence            54

>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=99.81  E-value=5.2e-20  Score=121.97  Aligned_cols=81  Identities=15%  Similarity=0.315  Sum_probs=70.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-C------CCccCCe
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-D------RMTLGSR  176 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~------g~~l~gr  176 (196)
                      .++++|||+|||+++|+++|+++|++||.+. .+.+..+. ++.++|||||+|.+.++|.+|+.. |      |..++||
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~-~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr   84 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLK-YVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   84 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEE-EEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccce-eeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCE
Confidence            3567899999999999999999999999765 57776655 788999999999999999999974 4      6789999


Q ss_pred             EEEEEECChH
Q 029263          177 YIELFPSSHE  186 (196)
Q Consensus       177 ~i~V~~~~~~  186 (196)
                      .|.|.++.++
T Consensus        85 ~l~v~~a~~k   94 (98)
T d1x4ha1          85 QLKVDLAVTR   94 (98)
T ss_dssp             EEEEECCCCC
T ss_pred             EEEEEECCCC
Confidence            9999998653

>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=99.80  E-value=8.5e-20  Score=121.60  Aligned_cols=81  Identities=26%  Similarity=0.427  Sum_probs=70.4

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCcc-------ceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSE-------DSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS  175 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~-------~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g  175 (196)
                      ....+|||+|||+.+|+++|+++|+.||.+.       ..+.+..+. +|.++|||||+|.++++|.+|+.. ||..|+|
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   85 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   85 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECC
Confidence            3467999999999999999999999999542       235555554 789999999999999999999975 9999999


Q ss_pred             eEEEEEECCh
Q 029263          176 RYIELFPSSH  185 (196)
Q Consensus       176 r~i~V~~~~~  185 (196)
                      |.|+|.++.+
T Consensus        86 r~i~V~~a~~   95 (101)
T d2cpea1          86 SKLKVSLARK   95 (101)
T ss_dssp             EECEEECSSC
T ss_pred             EEEEEEEcCC
Confidence            9999999865

>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=99.80  E-value=3e-20  Score=124.04  Aligned_cols=80  Identities=21%  Similarity=0.319  Sum_probs=71.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeC-CCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMN-SDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~-~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      ++.+|||+|||+++|+++|+++|+.||.+. .+.+..+ .+|.++|||||+|.+.++|.+|+.. ||..|+|++|+|.++
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~-~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   95 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKK-GPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG   95 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSS-SSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccee-eEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            457899999999999999999999999665 4555554 4899999999999999999999975 999999999999999


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .+.
T Consensus        96 k~k   98 (102)
T d2cpxa1          96 KNK   98 (102)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            764

>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=99.78  E-value=2.4e-19  Score=115.95  Aligned_cols=78  Identities=24%  Similarity=0.279  Sum_probs=67.6

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEE
Q 029263          104 AVHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFP  182 (196)
Q Consensus       104 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~  182 (196)
                      +...++|||+|||+++|+++|+++|+.||.+. .+.+     +.++|||||+|.+.++|.+|+.. ||..|+|+.|.|.+
T Consensus         5 ~~~~k~l~V~nLp~~~te~~l~~~F~~~g~i~-~~~~-----~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~   78 (86)
T d2cpda1           5 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGA-VERV-----KKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL   78 (86)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTSTTC-EEEE-----EECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             ccCCCEEEEcCCCCCCCHHHHHHhhcccceee-eEEE-----ccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            34567999999999999999999999999765 4444     34678999999999999999975 99999999999999


Q ss_pred             CChHH
Q 029263          183 SSHEE  187 (196)
Q Consensus       183 ~~~~~  187 (196)
                      +.|.+
T Consensus        79 akP~~   83 (86)
T d2cpda1          79 AKPVD   83 (86)
T ss_dssp             CCCCC
T ss_pred             ccCCC
Confidence            97653

>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=99.77  E-value=1.2e-18  Score=114.74  Aligned_cols=77  Identities=19%  Similarity=0.231  Sum_probs=67.1

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      .+.+|||+|||+++|+++|+++|+.||.+. .+.+.  .++.++|||||+|.+.++|+.|+.. |+..|+|+.|+|.++.
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~-~~~~~--~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIR-DIDLK--NRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEC--CSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceE-EEEec--ccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            456899999999999999999999999765 45544  3456789999999999999999975 9999999999999986


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        90 ~   90 (95)
T d1x4aa1          90 S   90 (95)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.77  E-value=7.2e-19  Score=116.00  Aligned_cols=77  Identities=21%  Similarity=0.446  Sum_probs=67.5

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEEC
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPS  183 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~  183 (196)
                      ....+|||+|||+++|+++|+++|++||.+. .+.    .+|.++|||||+|.+.++|.+|+. +|+..|+||+|.|.++
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~-~~~----~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a   88 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIR-LVS----QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEEC-CEE----ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccce-eee----ecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            3568999999999999999999999999643 232    367899999999999999999996 5999999999999998


Q ss_pred             ChH
Q 029263          184 SHE  186 (196)
Q Consensus       184 ~~~  186 (196)
                      .++
T Consensus        89 ~~k   91 (96)
T d1fjca_          89 GEK   91 (96)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            764

>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=99.77  E-value=6.2e-19  Score=116.26  Aligned_cols=73  Identities=15%  Similarity=0.220  Sum_probs=66.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      ..+|||+|||+.+|+++|+++|++||.+. +|+++.+     +|||||+|.+.++|.+|+.. ||..|+|+.|+|.++.+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~-~v~i~~~-----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~   91 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIM-EIRVFPE-----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   91 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEE-EEEEETT-----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCce-EEEEEec-----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            46899999999999999999999999876 7888854     78999999999999999965 99999999999999864

>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=99.77  E-value=3.3e-19  Score=116.00  Aligned_cols=74  Identities=16%  Similarity=0.331  Sum_probs=65.1

Q ss_pred             ccEEEEcCCCCCCCHHHH---HHHhhcCCCccceEEEEeCC-C---CCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEE
Q 029263          107 TGILRLRGLPFSAGKDDI---MDFFKDFVLSEDSIHITMNS-D---GRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYI  178 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l---~~~F~~~g~~~~~v~l~~~~-~---g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i  178 (196)
                      .++|||+|||+++|+++|   .++|++||.+. .|.++.++ +   +.+.|||||+|.++++|.+|+. +||..|+||+|
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~-~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIH-KVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEE-EEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCce-EEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            457999999999999999   67899999887 78888776 3   3356999999999999999996 59999999999


Q ss_pred             EEE
Q 029263          179 ELF  181 (196)
Q Consensus       179 ~V~  181 (196)
                      +|+
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            985

>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=99.76  E-value=1.4e-19  Score=113.15  Aligned_cols=69  Identities=16%  Similarity=0.310  Sum_probs=62.7

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      |||+|||+++|+++|+++|++||.+. .+.+..++ ++.++|+|||+|.++++|.+|+.. ||..++||.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~-~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIV-STKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEE-EEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccc-ccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            79999999999999999999999776 67777665 899999999999999999999975 99999998763

>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=99.76  E-value=1.7e-18  Score=111.88  Aligned_cols=73  Identities=16%  Similarity=0.296  Sum_probs=66.2

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      .+|||+|||+++++++|+++|++||.+. .|.+..     .+|||||+|.+.++|.+|+.. ||..|+|+.|+|.+|.+.
T Consensus         9 ~~l~V~nLp~~~~~~~l~~~F~~~G~i~-~i~~~~-----~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~   82 (86)
T d2cpja1           9 SRLFVGNLPPDITEEEMRKLFEKYGKAG-EVFIHK-----DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHS   82 (86)
T ss_dssp             TEEEEESCCTTCCHHHHHHHTSTTCCCS-EEEEET-----TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCce-Eeeeec-----ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCc
Confidence            4799999999999999999999999776 788774     368999999999999999975 999999999999999753

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=1.6e-18  Score=109.11  Aligned_cols=70  Identities=24%  Similarity=0.445  Sum_probs=62.0

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECChH
Q 029263          110 LRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSHE  186 (196)
Q Consensus       110 l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~~  186 (196)
                      |||+|||+++|+++|+++|++||+..  +.+     ++++|+|||+|.+.++|.+|+.. ||..++|++|.|.++...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g~~~--~~~-----~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYELKY--CFV-----DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSCEEE--EEE-----ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhcccccc--eee-----cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999533  332     46789999999999999999965 999999999999999754

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=2e-18  Score=111.97  Aligned_cols=76  Identities=14%  Similarity=0.164  Sum_probs=64.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc-CCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL-GSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l-~gr~i~V~~~  183 (196)
                      ++.+|||+|||+++|+++|+++|++||.+. .+.+..   +.++|+|||+|.+.++|.+|+.. ||..| +|++|+|+++
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~-~~~~~~---~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~s   84 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVV-KGFKFF---QKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS   84 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCE-EEEEEC---SSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEE-EEEEee---ecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeC
Confidence            457899999999999999999999999665 344432   34678999999999999999964 99888 5899999998


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      +.
T Consensus        85 k~   86 (88)
T d2adca2          85 KS   86 (88)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>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=99.75  E-value=7.8e-19  Score=115.81  Aligned_cols=79  Identities=19%  Similarity=0.210  Sum_probs=68.2

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CCCCceEEEEEeCCHHHHHHHHHh-C--CCccCCeEEEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DGRPTGEAFVEFANAEDSKAAMAK-D--RMTLGSRYIELFP  182 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g~~~G~afV~F~~~~~A~~Al~~-~--g~~l~gr~i~V~~  182 (196)
                      .+|||+|||.++|+++|+++|+.||.....|.++.+.  +|+++|||||+|.+.++|..|+.. +  +..++|++|.|.+
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            4699999999999999999999999532378888764  688999999999999999999964 4  5677899999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      |.+.
T Consensus        82 A~p~   85 (96)
T d2disa1          82 AEPE   85 (96)
T ss_dssp             SCSS
T ss_pred             cCCC
Confidence            9764

>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=99.75  E-value=1.4e-18  Score=112.81  Aligned_cols=73  Identities=18%  Similarity=0.329  Sum_probs=63.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      ..+|||+|||+++|++||+++|++||+..  +.+     +.++|||||+|.+.++|.+|+.. |+..|+|+.|.|.++..
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G~~~--~~~-----~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~   77 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYDLKY--CYV-----DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSCCCC--EEE-----EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcCcee--eee-----eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            46799999999999999999999999543  433     35789999999999999999965 99999999999999864


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      .
T Consensus        78 ~   78 (88)
T d1wg1a_          78 D   78 (88)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.75  E-value=6.7e-19  Score=112.28  Aligned_cols=72  Identities=21%  Similarity=0.247  Sum_probs=62.6

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCC-ccCCeEEEEEECChH
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRM-TLGSRYIELFPSSHE  186 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~-~l~gr~i~V~~~~~~  186 (196)
                      +|||+|||+++|+++|+++|++||.+. .+.+.     .++|||||+|.++++|.+|+.. ||. .++|++|.|.++.++
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G~i~-~~~~~-----~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k   76 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRKLPL-AGQVL-----LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSK   76 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCC-SSCEE-----EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCcEE-EeEEe-----cccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCc
Confidence            699999999999999999999999765 34443     2578999999999999999965 986 599999999999764

>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=99.75  E-value=2.3e-18  Score=113.89  Aligned_cols=72  Identities=18%  Similarity=0.314  Sum_probs=63.8

Q ss_pred             cccEEEEcCCC-CCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          106 HTGILRLRGLP-FSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp-~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .+.+|||+||| ..+++++|+++|++||.+. .|.+       ++|||||+|.+.++|.+|+.. ||..|.|+.|+|.++
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~-~~~i-------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a   85 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIV-GCSV-------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLA   85 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEE-EEEE-------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEET
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEE-EEEE-------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            44679999996 5789999999999999776 6766       468999999999999999975 999999999999999


Q ss_pred             Ch
Q 029263          184 SH  185 (196)
Q Consensus       184 ~~  185 (196)
                      .+
T Consensus        86 ~~   87 (98)
T d1wf2a_          86 AE   87 (98)
T ss_dssp             TS
T ss_pred             CC
Confidence            65

>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=99.75  E-value=1.6e-18  Score=110.22  Aligned_cols=73  Identities=16%  Similarity=0.201  Sum_probs=65.0

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      .+.+|||+|||  +|+++|+++|++||.+. .|.+.     +++|+|||+|.+.++|..|+.. ||..++|++|+|.++.
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~-~v~~~-----~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNII-DLSMD-----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   75 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCS-CEEEE-----TTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccc-eeeec-----cCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            56799999986  89999999999999776 67776     3567999999999999999965 9999999999999997


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      ++
T Consensus        76 ~~   77 (79)
T d2bz2a1          76 KQ   77 (79)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>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=99.75  E-value=6.4e-19  Score=114.39  Aligned_cols=75  Identities=12%  Similarity=0.168  Sum_probs=65.3

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      .+.+|||+|||+++|+++|+++|++||.+. .|++.    +.++|||||+|.+.++|++|+. ++..|+|+.|.|.++.+
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~-~v~~~----~~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~a~~   77 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVM-DVFIP----KPFRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISNAEP   77 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCC-EEECC----SSCCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCce-EEEEe----eccCceEEEEECCHHHHHHHHh-CCCEECCEEeEEEeCCC
Confidence            457899999999999999999999999665 56554    3567899999999999999986 78899999999999865


Q ss_pred             H
Q 029263          186 E  186 (196)
Q Consensus       186 ~  186 (196)
                      +
T Consensus        78 k   78 (88)
T d1wf0a_          78 K   78 (88)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=1.4e-18  Score=117.46  Aligned_cols=74  Identities=15%  Similarity=0.134  Sum_probs=65.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      .+.+|||+|||+.+|+++|+++|+.||.+. .|.|.     .++|||||+|.+.++|.+|+.. ||..|.|++|.|.++.
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~-~v~l~-----~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~   82 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLG-RVLLP-----EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEE-EEECC-----SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCcc-EEEee-----ccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECC
Confidence            456899999999999999999999999765 56653     4678999999999999999975 9999999999999874


Q ss_pred             h
Q 029263          185 H  185 (196)
Q Consensus       185 ~  185 (196)
                      .
T Consensus        83 ~   83 (111)
T d1whxa_          83 I   83 (111)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.73  E-value=1.1e-18  Score=114.02  Aligned_cols=77  Identities=16%  Similarity=0.248  Sum_probs=66.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHH----HhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEE
Q 029263          107 TGILRLRGLPFSAGKDDIMD----FFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELF  181 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~----~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~  181 (196)
                      +.+|||+|||+.+|++||++    +|++||.+. +|.+.  .++.++|||||+|.+.++|.+|+.. ||..++|++|+|.
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~-~i~~~--~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~   79 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQIL-DILVS--RSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   79 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEE-EEECC--HHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccccccc-ceEEe--eeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            57899999999999999864    689999765 55543  3677899999999999999999975 9999999999999


Q ss_pred             ECChH
Q 029263          182 PSSHE  186 (196)
Q Consensus       182 ~~~~~  186 (196)
                      ++.++
T Consensus        80 ~ak~~   84 (91)
T d1nu4a_          80 YAKTD   84 (91)
T ss_dssp             ECSSC
T ss_pred             EeCCC
Confidence            99764

>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=99.73  E-value=8.4e-18  Score=107.82  Aligned_cols=74  Identities=22%  Similarity=0.259  Sum_probs=65.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc-CCeEEEEEEC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL-GSRYIELFPS  183 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l-~gr~i~V~~~  183 (196)
                      ++.+|||+|||+.+|+++|+++|+.||.+. .|+++.+    .+|+|||+|.+.++|.+|+.. ||..| +|++|+|.+|
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~G~i~-~v~~~~~----~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~a   81 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQFPGFK-EVRLVPN----RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFA   81 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTSTTEE-EEEECTT----TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccCccEE-Eeeeecc----cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEe
Confidence            457999999999999999999999999765 6887654    467999999999999999975 99888 5799999998


Q ss_pred             C
Q 029263          184 S  184 (196)
Q Consensus       184 ~  184 (196)
                      .
T Consensus        82 k   82 (83)
T d2b0ga1          82 K   82 (83)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=99.73  E-value=9.5e-18  Score=108.76  Aligned_cols=77  Identities=21%  Similarity=0.245  Sum_probs=67.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh---CCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK---DRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~---~g~~l~gr~i~V~  181 (196)
                      .++.+|||+|||+++|+++|+++|++||.+. .+.+..     ++|+|||+|.+.++|.+|+..   ++..++|++|+|.
T Consensus         6 ~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~-~v~~~~-----~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~   79 (88)
T d2cq1a1           6 APSRVLHIRKLPGEVTETEVIALGLPFGKVT-NILMLK-----GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQ   79 (88)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEE-EEEEET-----TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcccccc-cccccc-----cceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEE
Confidence            4568999999999999999999999999776 677663     457999999999999999963   6889999999999


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      +++.++
T Consensus        80 ~sk~~~   85 (88)
T d2cq1a1          80 YSNHKE   85 (88)
T ss_dssp             ECSCSS
T ss_pred             ECCCCC
Confidence            997643

>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=99.72  E-value=4.7e-18  Score=114.50  Aligned_cols=73  Identities=18%  Similarity=0.267  Sum_probs=65.4

Q ss_pred             ccEEEEcCCCC-CCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          107 TGILRLRGLPF-SAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       107 ~~~l~v~nLp~-~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      +.+|||+|||+ .+|+++|+++|+.||.+. .|.++.+.    +|+|||+|.+.++|.+|+.. ||..|.|+.|+|.++.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~-~v~i~~~~----kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQ-RVKILFNK----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEE-EEEECCTT----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccc-eEEEEecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            35899999965 599999999999999887 78888763    67999999999999999975 9999999999999985

>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=99.71  E-value=9.3e-18  Score=112.92  Aligned_cols=77  Identities=13%  Similarity=0.102  Sum_probs=67.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc--CCeEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL--GSRYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l--~gr~i~V~~  182 (196)
                      ...+|||+|||+.+|+++|+++|++||.+. .|.+..+   +++|+|||+|.++++|+.|+.. ||..|  +|+.|+|.+
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~-~~~i~~~---~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~   81 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVL-KIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDF   81 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEE-EEEEEEE---TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEE
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEE-EEEEEee---CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEe
Confidence            457899999999999999999999999876 6777765   3589999999999999999965 99887  689999999


Q ss_pred             CChH
Q 029263          183 SSHE  186 (196)
Q Consensus       183 ~~~~  186 (196)
                      +.+.
T Consensus        82 s~~~   85 (108)
T d2adba1          82 SKLT   85 (108)
T ss_dssp             CSSC
T ss_pred             cCCc
Confidence            8654

>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=99.71  E-value=1.8e-18  Score=112.01  Aligned_cols=69  Identities=23%  Similarity=0.187  Sum_probs=61.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-hCCCccCCeEEEEEECC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-KDRMTLGSRYIELFPSS  184 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~~g~~l~gr~i~V~~~~  184 (196)
                      +|||+|||+++|+++|+++|++||.+. .+.+..      .|||||+|.+.++|++||. +||..|+|+.|.|.++.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~-~~~i~~------~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~   71 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVC-YADVYR------DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   71 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEE-EEEECT------TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhcccc-cccccc------cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEe
Confidence            699999999999999999999999775 677653      3799999999999999996 59999999998887764

>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=99.70  E-value=2.3e-17  Score=109.24  Aligned_cols=75  Identities=17%  Similarity=0.270  Sum_probs=65.6

Q ss_pred             CcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH---hCCCccCCeEEEE
Q 029263          105 VHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA---KDRMTLGSRYIEL  180 (196)
Q Consensus       105 ~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~---~~g~~l~gr~i~V  180 (196)
                      ..+.+|||+|||++ +|+++|.++|++||.+. .|.+..     ++|+|||+|.+.++|.+|+.   .++..++|++|.|
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~-~v~~~~-----~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V   89 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIK-NYILMR-----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKV   89 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCS-EEEEET-----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhcccccee-EEEEee-----cCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEE
Confidence            35678999999985 89999999999999776 677763     46899999999999999995   4899999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .++.+
T Consensus        90 ~~s~~   94 (99)
T d1x4fa1          90 DLSEK   94 (99)
T ss_dssp             EEECS
T ss_pred             EEcCC
Confidence            99864

>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=99.70  E-value=1.6e-17  Score=109.82  Aligned_cols=72  Identities=22%  Similarity=0.181  Sum_probs=64.2

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~  184 (196)
                      ...+|||+|||+.+++++|+++|+.||.+. .+.+.      ++|||||+|.+.++|++|+.. ||..|.|+.|.|.++.
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~-~~~i~------~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVC-YADVQ------KDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEE-EEEEE------TTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhcccc-ccccc------ccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            456899999999999999999999999775 67765      357999999999999999965 9999999999998874

>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=99.70  E-value=8.3e-17  Score=107.43  Aligned_cols=77  Identities=17%  Similarity=0.197  Sum_probs=66.8

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh---CCCccCCeEEEEE
Q 029263          105 VHTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK---DRMTLGSRYIELF  181 (196)
Q Consensus       105 ~~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~---~g~~l~gr~i~V~  181 (196)
                      ..+.+|||+|||+.+|+++|.++|++||.+. .+.+.     +.+|+|||+|.+.++|++|+..   ++..++|++|+|.
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~-~~~~~-----~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~   86 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFGTIC-YVMMM-----PFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFN   86 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEE-EEEEE-----TTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcccce-EEEEE-----ecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEE
Confidence            3567999999999999999999999999776 67765     3568999999999999999953   6778999999999


Q ss_pred             ECChHH
Q 029263          182 PSSHEE  187 (196)
Q Consensus       182 ~~~~~~  187 (196)
                      +++..+
T Consensus        87 ~s~~~~   92 (104)
T d1wexa_          87 YSTSKR   92 (104)
T ss_dssp             ECSSSS
T ss_pred             EcCCCc
Confidence            997654

>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=99.70  E-value=2e-19  Score=117.33  Aligned_cols=75  Identities=20%  Similarity=0.334  Sum_probs=64.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEE------EeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEE
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHI------TMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELF  181 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l------~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~  181 (196)
                      ++|||+|||+++|+++|+++|+.||.+. .+.+      ....++.++|||||+|.++++|++|+.+||..+.||.|+|.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~-~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLG-GLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTT-TSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEE-EEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            5899999999999999999999998544 2322      23347889999999999999999999889999999999996


Q ss_pred             EC
Q 029263          182 PS  183 (196)
Q Consensus       182 ~~  183 (196)
                      .+
T Consensus        81 r~   82 (90)
T d1u2fa_          81 RP   82 (90)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>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=99.69  E-value=9.7e-17  Score=105.77  Aligned_cols=74  Identities=20%  Similarity=0.234  Sum_probs=64.7

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCC--eEEEEEE
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGS--RYIELFP  182 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~g--r~i~V~~  182 (196)
                      ++.+|||+|||+++|+++|+++|++||.+. .+.+.+     .+|+|||+|.+.++|+.|+.. |+..|+|  ++|+|.+
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~-~~~~~~-----~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~   89 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIR-TIDHVK-----GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDF   89 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEE-EEEECS-----SSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccc-eEeeec-----cccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEe
Confidence            457899999999999999999999999775 677663     367999999999999999975 9999976  5899999


Q ss_pred             CCh
Q 029263          183 SSH  185 (196)
Q Consensus       183 ~~~  185 (196)
                      +.+
T Consensus        90 ak~   92 (97)
T d1whya_          90 AKS   92 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            864

>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=99.64  E-value=2.3e-16  Score=102.23  Aligned_cols=75  Identities=16%  Similarity=0.218  Sum_probs=65.1

Q ss_pred             CcccEEEEcCCCCC-CCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHH-h--CCCccCCeEEEE
Q 029263          105 VHTGILRLRGLPFS-AGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMA-K--DRMTLGSRYIEL  180 (196)
Q Consensus       105 ~~~~~l~v~nLp~~-~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~-~--~g~~l~gr~i~V  180 (196)
                      ..+++|||+|||.. +|++||.++|++||.+. +|.+..+     +++|||+|.+.++|..|+. +  ++..++||+|.|
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~-~i~i~~~-----k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V   79 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVIS-NHLILNK-----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRV   79 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEE-EEEECSS-----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeE-EEEeecc-----ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEE
Confidence            35679999999986 88999999999999876 7777643     4689999999999999996 2  788999999999


Q ss_pred             EECCh
Q 029263          181 FPSSH  185 (196)
Q Consensus       181 ~~~~~  185 (196)
                      .+++.
T Consensus        80 ~~s~~   84 (89)
T d1x4da1          80 HLSQK   84 (89)
T ss_dssp             EEECC
T ss_pred             EECCC
Confidence            99864

>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=99.63  E-value=4.1e-16  Score=99.99  Aligned_cols=64  Identities=19%  Similarity=0.185  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      .+|++||+++|+.||.|.++. +.|. +|+++|||||+|.+.++|++||+.++..+.|+.|.|..+
T Consensus        17 ~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A   82 (84)
T d1l3ka1          17 ETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRA   82 (84)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEEC
T ss_pred             CCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEee
Confidence            579999999999999999984 5665 799999999999999999999999999999999999664

>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=99.63  E-value=1.2e-16  Score=100.86  Aligned_cols=64  Identities=14%  Similarity=0.169  Sum_probs=57.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.++. +.|+ +|+++|||||+|.+.++|++||++++..++|+.|.|..+
T Consensus        11 ~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_          11 QTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             SCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             cCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            468999999999999999985 4565 799999999999999999999999999999999998654

>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=99.61  E-value=2.8e-16  Score=98.64  Aligned_cols=63  Identities=13%  Similarity=0.208  Sum_probs=56.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..||++|+++|++||.|.++.+ .+ .+|+++|||||+|.++++|++||++++..++|+.|.|.+
T Consensus        10 ~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_          10 DTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKR   74 (75)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECC
T ss_pred             cCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeE
Confidence            5799999999999999999854 45 479999999999999999999999999999999998853

>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=99.61  E-value=8e-16  Score=97.71  Aligned_cols=76  Identities=12%  Similarity=0.163  Sum_probs=63.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCe-EEEEEECCh
Q 029263          107 TGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSR-YIELFPSSH  185 (196)
Q Consensus       107 ~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr-~i~V~~~~~  185 (196)
                      ...|+|.|+|++++++.| ++|++||.+. ++++     ++++|||||+|.++++|++||++||..|+|+ .|.|.++..
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~-~~~~-----~~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNIL-KHVM-----SNTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEE-EEEE-----CSSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhh-eEEe-----cCCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEeCCC
Confidence            457999999999986544 6899999765 5654     3567899999999999999998899999998 568999988


Q ss_pred             HHHH
Q 029263          186 EEMD  189 (196)
Q Consensus       186 ~~~~  189 (196)
                      +++.
T Consensus        77 k~~~   80 (81)
T d1wwha1          77 KNVM   80 (81)
T ss_dssp             HHHH
T ss_pred             hhhc
Confidence            7653

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=9.3e-16  Score=97.37  Aligned_cols=65  Identities=15%  Similarity=0.114  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||++|+++|+.||+|.++. +.|+ +|+++|||||+|.++++|.+|| .+++..++|++|.|..+.
T Consensus        11 ~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1          11 DVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            579999999999999999985 4554 7999999999999999999999 579999999999997764

>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=99.61  E-value=4.6e-17  Score=108.57  Aligned_cols=74  Identities=14%  Similarity=0.135  Sum_probs=69.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEEC
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPS  183 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~  183 (196)
                      .++|++++..+++++|+++|++||.+. +|.|+++.+|.++|+|||+|.+.++|.+|+.. ||+.++||+|.|.++
T Consensus        29 ~~~v~~~~~~~~ed~l~e~f~k~G~I~-~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          29 DVEMQEHYDEFFEEVFTEMEEKYGEVE-EMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCEE-EEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             hHHhhhhhhhhhHHHHHHHhccCCCEE-EEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            478899999999999999999999876 89999888999999999999999999999975 999999999999875

>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=99.61  E-value=6.2e-16  Score=97.74  Aligned_cols=65  Identities=9%  Similarity=-0.015  Sum_probs=58.7

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++||.|.++.+ .+.+|+++|||||+|.+.++|.+|+ .+|+..++|++|.|..++
T Consensus        11 ~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_          11 GVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            4789999999999999999854 5789999999999999999999999 479999999999996653

>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=99.60  E-value=5.3e-16  Score=102.83  Aligned_cols=65  Identities=15%  Similarity=0.073  Sum_probs=59.1

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+ .+. +|+++|||||+|.+.++|.+||++|+..++|+.|.|..+.
T Consensus        29 ~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a~   95 (101)
T d2cq4a1          29 RIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQ   95 (101)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHH
T ss_pred             CCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
Confidence            4799999999999999999864 454 7999999999999999999999999999999999997764

>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=99.60  E-value=8.8e-16  Score=103.70  Aligned_cols=75  Identities=23%  Similarity=0.278  Sum_probs=65.9

Q ss_pred             CchHHHHHHHhcccCcceeE-E-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHHhh
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-L-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAIAN   77 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~~~   77 (196)
                      ..|++||++||+.||.+.++ . ..+.+|.++|+|||+|.+.++|++||++|+..|++|.|.|+++.+.++...+..
T Consensus        29 ~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~~~~~~~~~~~  105 (112)
T d1wela1          29 EAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDM  105 (112)
T ss_dssp             TCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEECHHHHHHHHHH
T ss_pred             cCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcChHHHHHHHHH
Confidence            46899999999999888763 3 456799999999999999999999999999999999999999998887665543

>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=99.60  E-value=1.3e-15  Score=95.42  Aligned_cols=63  Identities=11%  Similarity=-0.071  Sum_probs=55.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|+.||.|.++.+. +++ ..+|+|||+|.++++|.+||++++..++|+.|.|...
T Consensus        11 ~~t~~~l~~~F~~~G~I~~v~~~~~~~-~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2          11 SYNQNKVYKYFKHCGPIIHVDVADSLK-KNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTT-SSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEEC
T ss_pred             CCCHHHHHHHHhcCCceEEEEEEeecc-ccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEEC
Confidence            46899999999999999998654 554 4568999999999999999999999999999999764

>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=99.60  E-value=1.6e-15  Score=100.86  Aligned_cols=73  Identities=11%  Similarity=-0.016  Sum_probs=63.7

Q ss_pred             CchHHHHHHHhcccCccee-EEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHHHHHHH
Q 029263            3 LPQVQVLCTIHHQLMDIVD-VLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQEYYKAI   75 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~~~~~~   75 (196)
                      ..|++||+++|+.||.|.. +.+ .+.+|+++|+|||+|.+.++|++||++|+..|+|+.|.|.++...+.....
T Consensus        19 ~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~~~~~~~~~~~   93 (103)
T d2cpya1          19 SITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIE   93 (103)
T ss_dssp             TSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEECHHHHHHHH
T ss_pred             CCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEECCHHHhhhhc
Confidence            3689999999999998876 444 457999999999999999999999999999999999999998877665544

>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=99.59  E-value=8.8e-16  Score=102.09  Aligned_cols=65  Identities=18%  Similarity=0.182  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++||+|.++.+ .|. ++.++|||||+|.+.++|.+||++++..|+|+.|.|..+.
T Consensus        31 ~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          31 ETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             CCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             cCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEECc
Confidence            5799999999999999999854 454 7899999999999999999999999999999999997765

>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=99.58  E-value=2.1e-15  Score=97.78  Aligned_cols=64  Identities=11%  Similarity=0.018  Sum_probs=56.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.|+ +|+++|||||+|.++++|++||+. ...++|+.|.|..+.
T Consensus        19 ~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~-~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1          19 KTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDCKLPN   84 (90)
T ss_dssp             SCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS-CEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc-CCccCCEEeEEEeCC
Confidence            579999999999999999984 5565 799999999999999999999973 457899999997665

>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=99.58  E-value=2.3e-15  Score=96.57  Aligned_cols=64  Identities=8%  Similarity=0.064  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ..|++||+++|+.||.|.++.+ .+.+|+++|||||+|.++++|++||++++..+.|+.|.|...
T Consensus        17 ~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2          17 DATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFK   81 (85)
T ss_dssp             TCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEG
T ss_pred             CCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEc
Confidence            4789999999999999999854 567999999999999999999999999999999999998653

>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=99.58  E-value=2.8e-15  Score=94.86  Aligned_cols=64  Identities=17%  Similarity=0.096  Sum_probs=57.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      ..|+++|+++|++||.|..+. +.+ .++.++|||||+|.++++|.+|+++++..|+|+.|.|..+
T Consensus        13 ~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2          13 DTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             TCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             cCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            479999999999999999874 444 4889999999999999999999999999999999999654

>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=99.58  E-value=3.7e-16  Score=97.96  Aligned_cols=63  Identities=13%  Similarity=0.125  Sum_probs=56.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..|+++|+++|++||.|.++.+ .++ +|+++|||||+|.+.++|++||+.++..++|+.|.|..
T Consensus        10 ~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~   74 (75)
T d1x0fa1          10 DTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             SCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEEC
T ss_pred             CCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEE
Confidence            4799999999999999999854 454 89999999999999999999998888899999988854

>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=99.58  E-value=3.3e-15  Score=95.45  Aligned_cols=61  Identities=18%  Similarity=0.159  Sum_probs=55.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEV   63 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v   63 (196)
                      ..|+++|+++|+.||.|.++. +.++ +|+++|||||+|.+.++|.+|| .+|+..++|+.|.|
T Consensus        20 ~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          20 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            579999999999999999985 4554 7999999999999999999999 58999999999886

>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=99.57  E-value=1.2e-15  Score=101.51  Aligned_cols=75  Identities=8%  Similarity=0.093  Sum_probs=64.0

Q ss_pred             cccEEEEcCCCCCC-CH----HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 029263          106 HTGILRLRGLPFSA-GK----DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIE  179 (196)
Q Consensus       106 ~~~~l~v~nLp~~~-t~----~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~  179 (196)
                      .+..|||+||+.++ ++    ++|+++|+.||.+. ++.+.     +++|+|||+|.+.++|.+|+.. ||..|+|++|+
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~-~~~~~-----k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~   77 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDT-TFQYF-----KSFKRVRINFSNPLSAADARLRLHKTEFLGKEMK   77 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSC-EEEEE-----TTTTEEEEECSSTTHHHHHHHTSTTSEETTEECE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccce-EEEEe-----cCCCEEEEEECCHHHHHHHHHHhcccccCCCEeE
Confidence            34689999999886 33    56999999999776 67776     3577999999999999999976 99999999999


Q ss_pred             EEECChH
Q 029263          180 LFPSSHE  186 (196)
Q Consensus       180 V~~~~~~  186 (196)
                      |.++.+.
T Consensus        78 v~~a~~~   84 (104)
T d1weya_          78 LYFAQTL   84 (104)
T ss_dssp             EECCCCS
T ss_pred             EeecccC
Confidence            9998643

>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=99.57  E-value=4.2e-15  Score=95.97  Aligned_cols=65  Identities=12%  Similarity=-0.041  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||+|.++. +.| .+|+++|||||+|.+.++|++|+ .+|+..++|+.|.|..+.
T Consensus        18 ~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~   85 (88)
T d1rk8a_          18 EAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF   85 (88)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEec
Confidence            479999999999999999984 455 48999999999999999999999 589999999999996654

>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=99.57  E-value=1.8e-15  Score=100.85  Aligned_cols=68  Identities=25%  Similarity=0.385  Sum_probs=60.0

Q ss_pred             CchHHHHHHHhcccCcceeE-EE-ecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcChHH
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LF-VHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSKRQE   70 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~-~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~~~~   70 (196)
                      ..|++||++||+.|+.|..+ ++ .+.+++++|+|||+|.++++|++||++|+..|++|.|.|.++.+.+
T Consensus        26 ~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~~~~   95 (104)
T d1wg5a_          26 GCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAE   95 (104)
T ss_dssp             TCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEECTTT
T ss_pred             CCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECCHHH
Confidence            46899999999998888774 43 4679999999999999999999999999999999999999888554

>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=99.57  E-value=2.3e-15  Score=95.94  Aligned_cols=65  Identities=14%  Similarity=0.067  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.++. +.+ .+|+++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        13 ~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1          13 DMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            579999999999999999985 344 58999999999999999999999 589999999999997765

>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=99.57  E-value=4.6e-15  Score=94.47  Aligned_cols=65  Identities=11%  Similarity=0.077  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|++||+++|+.||.|.++. +.+ .+|+++|||||+|.+.++|++|+ .+|+..++|+.|.|..+.
T Consensus        13 ~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1          13 NMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            579999999999999999985 445 48899999999999999999999 589999999999997654

>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=99.57  E-value=2e-15  Score=94.51  Aligned_cols=63  Identities=14%  Similarity=0.171  Sum_probs=56.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~   65 (196)
                      ..||+||+++|+.||.|..+. +.+ .+|.++|||||+|.+.++|++||++|+..++|+.|.|..
T Consensus        10 ~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~   74 (75)
T d2msta_          10 NTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             SCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEE
T ss_pred             CCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEE
Confidence            579999999999999999974 344 478999999999999999999999999999999999965

>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=99.56  E-value=4.3e-15  Score=108.31  Aligned_cols=80  Identities=20%  Similarity=0.304  Sum_probs=71.6

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC-CCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECC
Q 029263          106 HTGILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS-DGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSS  184 (196)
Q Consensus       106 ~~~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~-~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~  184 (196)
                      ..++|||+|||+++|+++|+++|+.||.+. ++.++.+. +|.++|+|||+|.+.++|.+|+..++..++++.+.+....
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~-~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~   83 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLT-DCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEE-EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEE-EEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhh
Confidence            347999999999999999999999999876 78888776 8999999999999999999999998888999999887764


Q ss_pred             hH
Q 029263          185 HE  186 (196)
Q Consensus       185 ~~  186 (196)
                      ..
T Consensus        84 ~~   85 (183)
T d1u1qa_          84 SR   85 (183)
T ss_dssp             CT
T ss_pred             hc
Confidence            43

>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=2.2e-15  Score=99.99  Aligned_cols=64  Identities=22%  Similarity=0.311  Sum_probs=57.8

Q ss_pred             CchHHHHHHHhcccCcceeE-EEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-LFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||+++|+.| +|++| ++.+.+|.++|||||+|.++++|++||++|+..|++|.|.|..+.
T Consensus        26 ~~te~dl~~~F~~~-~~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          26 RATENDIYNFFSPL-NPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             TCCHHHHHHSSCSC-CCSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             cCCHHHHHHHHhcc-CcceeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            47999999999996 47776 466889999999999999999999999999999999999998776

>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=99.55  E-value=2.9e-15  Score=97.73  Aligned_cols=65  Identities=12%  Similarity=0.123  Sum_probs=58.6

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++||.|.++.+ .+ .+|.++|||||+|.+.++|++|| .+|+..++|+.|.|..+.
T Consensus        20 ~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~   87 (93)
T d1x5ua1          20 KVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   87 (93)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             cCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            4689999999999999999854 45 48999999999999999999999 579999999999998776

>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=99.55  E-value=3.3e-15  Score=96.10  Aligned_cols=62  Identities=21%  Similarity=0.170  Sum_probs=53.4

Q ss_pred             HHHHHHHhcccCcceeEEE-e-c-CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            6 VQVLCTIHHQLMDIVDVLF-V-H-KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         6 e~dl~~~F~~~g~i~~v~~-~-~-~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      |++|+++|++||.|.++.+ . + .+|+++|||||+|.+.++|.+||++|+..++|+.|.|..+.
T Consensus        19 ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~~a~   83 (86)
T d2ghpa3          19 ENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLAD   83 (86)
T ss_dssp             HHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEEcC
Confidence            5669999999999999864 3 2 48999999999999999999999999999999999998765

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=3.7e-15  Score=96.47  Aligned_cols=65  Identities=22%  Similarity=0.203  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||+|.++.+ .|+ +|.++|||||+|.+.++|++|| .+|+..++|+.|.|..+.
T Consensus        16 ~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~   83 (89)
T d2cqba1          16 EVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   83 (89)
T ss_dssp             SCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            5799999999999999999864 454 7999999999999999999999 579999999999997665

>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=99.55  E-value=5e-15  Score=97.73  Aligned_cols=65  Identities=17%  Similarity=0.205  Sum_probs=58.8

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.++.+ .| .+|+++|||||+|.+.++|++|| .+|+..++++.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~   86 (99)
T d1whwa_          19 TSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             cCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            5799999999999999999864 45 48999999999999999999999 479999999999998776

>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=99.55  E-value=6.2e-16  Score=100.61  Aligned_cols=65  Identities=11%  Similarity=0.014  Sum_probs=58.7

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|++||++|+..++|+.|.|..+.
T Consensus        24 ~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          24 NKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             TSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             cchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEecC
Confidence            579999999999999998874 34568999999999999999999999999999999999997654

>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=99.55  E-value=6.3e-15  Score=98.07  Aligned_cols=67  Identities=16%  Similarity=0.152  Sum_probs=59.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcChH
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSKRQ   69 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~~~   69 (196)
                      ..|+++|+++|+.||+|.+|. +.+ .+|+++|||||+|.+.++|.+||+ +++..++|+.|.|..+...
T Consensus        19 ~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~~   88 (104)
T d1p1ta_          19 EATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE   88 (104)
T ss_dssp             TSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCT
T ss_pred             cCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            468999999999999999985 445 489999999999999999999995 6999999999999876543

>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=99.54  E-value=4.4e-15  Score=96.09  Aligned_cols=65  Identities=20%  Similarity=0.124  Sum_probs=57.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+....+.++|||||+|.+.++|++|| ++|+..++|+.|.|..+.
T Consensus        19 ~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~   84 (89)
T d1cvja2          19 SIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   84 (89)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECC
T ss_pred             CCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            57999999999999999998665445568999999999999999999 579999999999997765

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=4e-15  Score=95.45  Aligned_cols=65  Identities=15%  Similarity=0.103  Sum_probs=58.5

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..||++|+++|+.||+|.++.+ .|+ +|.++|||||+|.++++|..|++ +|+..++|+.|.|..+.
T Consensus        12 ~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_          12 YLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             SCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            5789999999999999999854 454 79999999999999999999995 79999999999997765

>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=99.54  E-value=6.9e-15  Score=95.35  Aligned_cols=65  Identities=14%  Similarity=0.040  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.|. +|.++|||||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        19 ~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1          19 DTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             TCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            578999999999999999984 4554 79999999999999999999995 79999999999997665

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=2.7e-15  Score=95.79  Aligned_cols=65  Identities=17%  Similarity=0.067  Sum_probs=57.3

Q ss_pred             CchHHHHHHHhcccCcceeE-E-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDV-L-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v-~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++||.|.++ . +.+ .+|+++|||||+|.+.++|.+|| .+++..++|++|.|..+.
T Consensus         9 ~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~   77 (83)
T d1x5ta1           9 EIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             TCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             cCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEec
Confidence            57899999999999999875 3 344 47999999999999999999999 589999999999997765

>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=99.54  E-value=7.7e-15  Score=94.28  Aligned_cols=63  Identities=19%  Similarity=0.169  Sum_probs=56.4

Q ss_pred             CchHHHHHHHhcccCccee-E-EEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVD-V-LFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~-v-~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~   65 (196)
                      .+|++||+++|+.|+.+.+ + +..+.+|+++|+|||+|.++++|++|| ++|+..+++|+|.|..
T Consensus        20 ~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l   85 (86)
T d2cqpa1          20 TVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   85 (86)
T ss_dssp             TCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEE
Confidence            5799999999999998876 3 455789999999999999999999999 5799999999999864

>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=99.54  E-value=6.9e-15  Score=97.56  Aligned_cols=65  Identities=17%  Similarity=0.180  Sum_probs=58.4

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.++. +.+ .+|.++|||||+|.+.++|..|| ++|+..++|+.|.|..+.
T Consensus        29 ~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~   96 (102)
T d2cpza1          29 EFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR   96 (102)
T ss_dssp             SCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            579999999999999999984 455 58999999999999999999999 689999999999997655

>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=99.54  E-value=1.1e-14  Score=94.89  Aligned_cols=65  Identities=12%  Similarity=0.125  Sum_probs=57.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.++ +|.++|||||+|.+.++|..||+ +|+..++|++|.|..+.
T Consensus        18 ~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~   85 (93)
T d1h2vz_          18 YTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA   85 (93)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             CCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            579999999999999999985 4554 89999999999999999999995 79999999999996543

>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=99.54  E-value=5.3e-15  Score=98.31  Aligned_cols=65  Identities=14%  Similarity=0.099  Sum_probs=57.1

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ecC-CCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VHK-NNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~~-~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.+|.+ .+. +|+++|||||+|.+.++|.+||+.++..++|+.|.|..+.
T Consensus        21 ~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a~   87 (103)
T d2cqda1          21 HTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAY   87 (103)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEEST
T ss_pred             cCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcC
Confidence            5799999999999999999865 454 7999999999999999999999765567999999997665

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.52  E-value=2.1e-14  Score=92.05  Aligned_cols=63  Identities=17%  Similarity=0.006  Sum_probs=54.9

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCC--eeEEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFR   65 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~   65 (196)
                      .+|+++|+++|+.||.|.++. +.+ .+|+++|||||+|.+.++|.+|| .+|+..+.+  ++|.|..
T Consensus        17 ~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2          17 TITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             TCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            579999999999999999984 455 48999999999999999999999 579988865  7888854

>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=99.52  E-value=2.3e-14  Score=93.37  Aligned_cols=65  Identities=18%  Similarity=0.143  Sum_probs=57.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|.+....+.++|||||+|.++++|.+|| .+|+..++|+.|.|..+.
T Consensus        22 ~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~   87 (93)
T d2cq3a1          22 RFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   87 (93)
T ss_dssp             TCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            47899999999999999998655444457999999999999999999 589999999999997766

>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=99.51  E-value=2.3e-14  Score=91.81  Aligned_cols=62  Identities=16%  Similarity=0.118  Sum_probs=54.1

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-CCcccceEEEEeCCHHHHHHHH-HhcccccCC--eeEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVF   64 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~   64 (196)
                      .+|+++|+++|++||+|.++. +.|+ +|.++|||||+|.+.++|.+|+ .+|+..+.|  ++|.|.
T Consensus        17 ~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~   83 (85)
T d1fxla2          17 TMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVK   83 (85)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEE
Confidence            579999999999999999984 4554 7999999999999999999999 589999986  457764

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.51  E-value=1.2e-14  Score=92.29  Aligned_cols=65  Identities=6%  Similarity=-0.040  Sum_probs=52.7

Q ss_pred             CchHHHHHHHhcccCcceeEE-Ee-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|..+. +. +.+|+++|||||+|.+.++|++|| .+|+..++|+.|.|..+.
T Consensus        12 ~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1          12 SYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             TCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            579999999999999998764 33 458999999999999999999999 589999999999997664

>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=99.50  E-value=1.9e-14  Score=93.99  Aligned_cols=66  Identities=8%  Similarity=0.016  Sum_probs=57.9

Q ss_pred             CCchHHHHHHHhcccCcceeEEE-ec--CCCcccceEEEEeCCHHHHHHHHH-h-cccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLF-VH--KNNKFTGEAFCVLGYPLQVDFALQ-R-NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~-~~--~~g~~~G~afV~F~~~~~a~~Al~-~-~~~~l~~~~i~v~~~~   67 (196)
                      ...|+++|+++|+.||.|.++.+ .+  .+|.++|||||+|.+.++|.+||+ + |+..+.|+.|.|..+.
T Consensus        18 ~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A~   88 (94)
T d2cpha1          18 FQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   88 (94)
T ss_dssp             TTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             CCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEcC
Confidence            35799999999999999999854 34  479999999999999999999995 5 7889999999997765

>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=99.49  E-value=2.3e-14  Score=91.80  Aligned_cols=65  Identities=20%  Similarity=0.093  Sum_probs=55.5

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecC-C---CcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHK-N---NKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~-~---g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++. +.+. +   ++++|||||+|.+.++|.+|+ .+|+..++|+.|.|..+.
T Consensus         9 ~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           9 STTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            579999999999999999974 3443 2   357999999999999999999 579999999999997654

>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=99.49  E-value=2.2e-14  Score=100.29  Aligned_cols=65  Identities=14%  Similarity=0.066  Sum_probs=58.3

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.+|. +.+ .+|+++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        53 ~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~  120 (139)
T d1u6fa1          53 TVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA  120 (139)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESS
T ss_pred             CCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            479999999999999999984 455 489999999999999999999995 79999999999997765

>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=99.49  E-value=2.1e-14  Score=93.00  Aligned_cols=65  Identities=15%  Similarity=0.145  Sum_probs=58.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-Ee-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|.++. +. +.+|.++|||||+|.++++|++|| .+++..++|+.|.|..+.
T Consensus        16 ~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~   83 (90)
T d1x5sa1          16 DTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   83 (90)
T ss_dssp             TCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             cCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            579999999999999999984 33 458999999999999999999999 689999999999997765

>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=99.49  E-value=2.3e-14  Score=94.75  Aligned_cols=69  Identities=16%  Similarity=0.257  Sum_probs=55.7

Q ss_pred             cccEEEEcC--CCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCcc-C--CeEEE
Q 029263          106 HTGILRLRG--LPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTL-G--SRYIE  179 (196)
Q Consensus       106 ~~~~l~v~n--Lp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l-~--gr~i~  179 (196)
                      ++.+|+|.|  ||+.+|+++|+++|++||.+. .|.+..     .+|||||+|.+.++|.+|+.. ||..+ .  +..+.
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~-~i~~~~-----~k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~   90 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVD-ALLMPP-----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKIT   90 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEE-EEECCT-----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEE
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhhCccc-EEeecc-----CccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEE
Confidence            456788855  999999999999999999876 566553     367999999999999999965 99877 3  34444


Q ss_pred             E
Q 029263          180 L  180 (196)
Q Consensus       180 V  180 (196)
                      +
T Consensus        91 ~   91 (101)
T d2cq2a1          91 L   91 (101)
T ss_dssp             C
T ss_pred             E
Confidence            4

>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=99.49  E-value=1.9e-14  Score=95.72  Aligned_cols=84  Identities=25%  Similarity=0.304  Sum_probs=69.5

Q ss_pred             cccEEEEcCC--CCCC--------CHHHHHHHhhcCCCccceEEEEeCCCC---CCceEEEEEeCCHHHHHHHHHh-CCC
Q 029263          106 HTGILRLRGL--PFSA--------GKDDIMDFFKDFVLSEDSIHITMNSDG---RPTGEAFVEFANAEDSKAAMAK-DRM  171 (196)
Q Consensus       106 ~~~~l~v~nL--p~~~--------t~~~l~~~F~~~g~~~~~v~l~~~~~g---~~~G~afV~F~~~~~A~~Al~~-~g~  171 (196)
                      ++++|.|+||  |...        ..+||++.|++||.+. +|.++++..+   ...|++||+|.+.++|.+|+.. ||.
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~-~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr   81 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVK-SIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   81 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEE-EEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSC
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceE-EEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCC
Confidence            4679999999  4332        3468999999999877 7888776533   3569999999999999999975 999


Q ss_pred             ccCCeEEEEEECChHHHHH
Q 029263          172 TLGSRYIELFPSSHEEMDE  190 (196)
Q Consensus       172 ~l~gr~i~V~~~~~~~~~~  190 (196)
                      .++||.|.|.+.++..+.+
T Consensus        82 ~f~gR~v~v~f~~~~~y~~  100 (104)
T d1o0pa_          82 KFANRVVVTKYCDPDSYHR  100 (104)
T ss_dssp             CSSSSCCEEEEECHHHHHH
T ss_pred             EECCeEEEEEEcCHHHhhh
Confidence            9999999999999876654

>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=99.49  E-value=2e-14  Score=95.57  Aligned_cols=62  Identities=6%  Similarity=0.100  Sum_probs=56.2

Q ss_pred             chHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEE
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFR   65 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~   65 (196)
                      .+|++|+++|++||.|.+|.+. +.+|+++|+|||+|.+.++|.+|+ .+||..++|+.|.|..
T Consensus        39 ~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~  102 (104)
T d1jmta_          39 FFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAEL  102 (104)
T ss_dssp             HHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEE
T ss_pred             hhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEE
Confidence            4688999999999999998655 569999999999999999999999 6899999999998854

>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=99.48  E-value=6.9e-14  Score=94.33  Aligned_cols=77  Identities=14%  Similarity=0.056  Sum_probs=59.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCH-HHHHHHHHh-CCCccCCeEEE--EEEC
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANA-EDSKAAMAK-DRMTLGSRYIE--LFPS  183 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~-~~A~~Al~~-~g~~l~gr~i~--V~~~  183 (196)
                      ..+||+|||+++|+++|+++|++||.+. +|.++.     .+|+|||.|.++ ++|..|+.. |+..+.++.+.  +.+.
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~-~v~i~~-----~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~   85 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIK-WIDFVR-----GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   85 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEE-EEECCT-----TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChh-eEEEec-----CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeec
Confidence            4569999999999999999999999876 788873     478999999995 678888865 87766555444  4555


Q ss_pred             ChHHHHH
Q 029263          184 SHEEMDE  190 (196)
Q Consensus       184 ~~~~~~~  190 (196)
                      ..++..+
T Consensus        86 ~~~~e~~   92 (113)
T d1owxa_          86 EGEVEKE   92 (113)
T ss_dssp             CHHHHHH
T ss_pred             cchhhHH
Confidence            4444433

>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=99.48  E-value=9.1e-14  Score=91.50  Aligned_cols=77  Identities=18%  Similarity=0.261  Sum_probs=63.8

Q ss_pred             CcccEEEEcCC--CCCC---------CHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCc
Q 029263          105 VHTGILRLRGL--PFSA---------GKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMT  172 (196)
Q Consensus       105 ~~~~~l~v~nL--p~~~---------t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~  172 (196)
                      ..+++|+|+||  |.+.         .++||++.|++||.+. .|.+..   +.++|+|||+|.+.++|.+|+.. ||..
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~-~v~~~~---~~~~G~~fV~f~~~e~A~~A~~~lng~~   81 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIR-KLLLFD---RHPDGVASVSFRDPEEADYCIQTLDGRW   81 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCS-EEEEET---TCTTCEEEEECSCHHHHHHHHHHSTTCE
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEE-EEeccC---CCCccEEEEEECCHHHHHHHHHHhCCcE
Confidence            35689999999  5442         2368999999999776 677654   35679999999999999999975 9999


Q ss_pred             cCCeEEEEEECCh
Q 029263          173 LGSRYIELFPSSH  185 (196)
Q Consensus       173 l~gr~i~V~~~~~  185 (196)
                      ++||+|+|.+..+
T Consensus        82 ~~gr~i~v~~~~g   94 (99)
T d2dita1          82 FGGRQITAQAWDG   94 (99)
T ss_dssp             ETTEECEEEECCS
T ss_pred             ECCEEEEEEEeCC
Confidence            9999999998754

>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=99.48  E-value=7e-14  Score=94.38  Aligned_cols=65  Identities=15%  Similarity=0.125  Sum_probs=58.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      ..|+++|+++|+.||.|.+|.+. .++.++|||||+|.+.++|..|| .+|+..++|+.|.|..+..
T Consensus        18 ~~te~~l~~~F~~~G~v~~i~~~-~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1          18 KITAEEMYDIFGKYGPIRQIRVG-NTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEE-CSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCCHHHHHHHHhhcCCeEeeccc-ccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            57899999999999999998765 36778999999999999999999 5899999999999977653

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.5e-14  Score=95.78  Aligned_cols=64  Identities=8%  Similarity=0.013  Sum_probs=56.7

Q ss_pred             CchHHHHHHHhcccCcceeEE-EecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      .+|+++|+++|+.||.|.++. +.+.+|+++|||||+|.+.++|.+|| ++||..+.|+++.|.++
T Consensus        29 ~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          29 SMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             TCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            579999999999999998874 55679999999999999999999999 58999999998777443

>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=99.47  E-value=7.4e-14  Score=90.35  Aligned_cols=65  Identities=11%  Similarity=0.002  Sum_probs=56.1

Q ss_pred             CCchHHHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ...|+++|+++|+.||.|.++.+. +.. ..+|||||+|.+.++|.+|+ .+++..+.|+.|.|..+.
T Consensus        18 ~~~te~~l~~~F~~~G~i~~v~i~~d~~-~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1          18 RDVTEVLILQLFSQIGPCKSCKMITEHT-SNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             TTCCHHHHHHHHHHHSCEEEEEEECCCC-SSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCCHHHHHHHHHhcCCceeeeeecccC-ccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            357999999999999999998644 543 35899999999999999999 579999999999997665

>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=99.46  E-value=4.1e-14  Score=89.37  Aligned_cols=61  Identities=15%  Similarity=0.089  Sum_probs=54.6

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcCh
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKR   68 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~   68 (196)
                      .|+++|+++|++||.|.++.+.    +++|||||+|.+.++|..|+ ++|+..++|+.|.|..+.+
T Consensus        15 ~te~~L~~~F~~~G~I~~v~~~----~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   76 (79)
T d2bz2a1          15 MTPTLLRGAFSPFGNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   76 (79)
T ss_dssp             CCHHHHHHHHSTTCCCSCEEEE----TTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCS
T ss_pred             CCHHHHHHHHhccCccceeeec----cCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            6899999999999999998765    34679999999999999999 6899999999999977763

>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=99.46  E-value=3.2e-14  Score=88.22  Aligned_cols=59  Identities=17%  Similarity=0.159  Sum_probs=52.6

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYV   61 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i   61 (196)
                      ..|+++|+++|++||.|..+. +.+ .+|.++|+|||+|.+.++|++|+ .+|+..+.|+.+
T Consensus         9 ~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~   70 (72)
T d1x4ea1           9 GTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMA   70 (72)
T ss_dssp             TCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESC
T ss_pred             cCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEC
Confidence            579999999999999999874 444 48999999999999999999999 689999998865

>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=99.46  E-value=7.4e-14  Score=92.75  Aligned_cols=64  Identities=14%  Similarity=0.092  Sum_probs=55.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec--CCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH--KNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~--~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      .+|++||+++|+.|| |+++. +.+  .+|+++|||||+|.+.++|++|+++|+..++++.|.|..+.
T Consensus        26 ~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a~   92 (104)
T d1wi8a_          26 DVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             SCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECC
T ss_pred             cCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            579999999999986 77764 333  47899999999999999999999999999999999997765

>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=99.40  E-value=2.1e-13  Score=88.02  Aligned_cols=62  Identities=10%  Similarity=-0.068  Sum_probs=51.9

Q ss_pred             CchHHHH---HHHhcccCcceeEEE-ecC-CC---cccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEE
Q 029263            3 LPQVQVL---CTIHHQLMDIVDVLF-VHK-NN---KFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVF   64 (196)
Q Consensus         3 ~~te~dl---~~~F~~~g~i~~v~~-~~~-~g---~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~   64 (196)
                      ..|++||   +++|++||.|.+|.+ .++ ++   .++|||||+|.+.++|.+|| .+|+..++|++|++.
T Consensus        19 ~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          19 RLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             TTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             ccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            4578899   778999999999854 343 33   34599999999999999999 589999999999874

>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=99.40  E-value=2.4e-13  Score=89.26  Aligned_cols=59  Identities=12%  Similarity=0.088  Sum_probs=52.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..+++||+++|++||.|.++.+      ++|||||+|.+.++|.+|| .+|+..+.|+.|.|..+.
T Consensus        27 ~~~~~~L~~~F~~~G~i~~~~i------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          27 VVKKSDVEAIFSKYGKIVGCSV------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             TCCHHHHHHSSTTSSCEEEEEE------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             cCCHHHHHHHHhhcCCEEEEEE------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            3567899999999999999876      4689999999999999999 479999999999997765

>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=99.38  E-value=4.2e-13  Score=87.94  Aligned_cols=65  Identities=17%  Similarity=0.132  Sum_probs=55.1

Q ss_pred             CchHHHHHHHhcccCcceeEEE-ec-CCCcccceEEEEeCCHHHHHHHHH-hc------ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLF-VH-KNNKFTGEAFCVLGYPLQVDFALQ-RN------RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~-~~-~~g~~~G~afV~F~~~~~a~~Al~-~~------~~~l~~~~i~v~~~~   67 (196)
                      .+|+++|+++|++||.|.++.+ .+ .+++++|||||+|.+.++|.+||+ ++      +..+.|+.|.|..+.
T Consensus        19 ~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~~a~   92 (98)
T d1x4ha1          19 DSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAV   92 (98)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECCC
T ss_pred             cCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEEECC
Confidence            5799999999999999998753 34 488899999999999999999996 43      567889999997654

>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=99.38  E-value=3.9e-13  Score=89.85  Aligned_cols=63  Identities=17%  Similarity=0.146  Sum_probs=54.6

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +..|+++|+++|+.||.|.+|.+...   .+|||||+|.+.++|.+|| .+++..+.|+.|.|..+.
T Consensus        13 ~~~te~~L~~~F~~fG~I~~v~i~~~---~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1          13 ERVTPQSLFILFGVYGDVQRVKILFN---KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             TTCCHHHHHHHHHHHTCEEEEEECCT---TSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             ccCCHHHHHHHHhhccccceEEEEec---ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            35689999999999999999965532   3689999999999999999 579999999999997654

>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=99.37  E-value=5.4e-13  Score=87.20  Aligned_cols=61  Identities=13%  Similarity=0.130  Sum_probs=54.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.+|.+..    .+|||||+|.+.++|.+|| .+++..++|+.|.|..+.
T Consensus        29 ~~te~~L~~~F~~fG~i~~v~i~~----~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak   90 (96)
T d1x4ga1          29 GLTDQLMRQTFSPFGQIMEIRVFP----EKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   90 (96)
T ss_dssp             CCCHHHHHHHHHHHSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHHHhCCceEEEEEe----cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            478999999999999999997653    3789999999999999999 589999999999996554

>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=99.37  E-value=8.7e-13  Score=86.04  Aligned_cols=64  Identities=13%  Similarity=0.026  Sum_probs=55.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|..+.+. .++.++|||||+|.+.++|..|| .+|+..+.++.|.|..+.
T Consensus        25 ~~t~~~l~~~F~~~G~v~~~~~~-~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          25 DIRTKDIEDVFYKYGAIRDIDLK-NRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             TCCHHHHHHHHGGGSCEEEEEEC-CSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCHHHHHHHHhcCCceEEEEec-ccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            47899999999999999887654 34567899999999999999999 589999999999996654

>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=99.36  E-value=5.7e-13  Score=87.80  Aligned_cols=65  Identities=12%  Similarity=0.124  Sum_probs=55.3

Q ss_pred             CchHHHHHHHhcccCccee--------EE-Eec-CCCcccceEEEEeCCHHHHHHHHH-hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVD--------VL-FVH-KNNKFTGEAFCVLGYPLQVDFALQ-RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~--------v~-~~~-~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..        +. ..+ .+|+++|||||+|.+.++|.+||+ +|+..++|+.|.|..+.
T Consensus        19 ~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~a~   94 (101)
T d2cpea1          19 SVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR   94 (101)
T ss_dssp             TCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSS
T ss_pred             cCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            5799999999999998742        22 233 379999999999999999999994 79999999999997765

>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=99.35  E-value=6.9e-13  Score=86.70  Aligned_cols=62  Identities=15%  Similarity=0.180  Sum_probs=54.8

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|..+.   .+|+++|||||+|.+.++|.+|+ .+|+..++|+.|.|..+.
T Consensus        27 ~~te~~l~~~F~~~g~v~~~~---~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~   89 (96)
T d1fjca_          27 NITEDELKEVFEDALEIRLVS---QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             SCCHHHHHHHHCSEEEECCEE---ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCHHHHHHHHHhcccceeee---ecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            469999999999988776543   47889999999999999999999 589999999999997765

>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=99.35  E-value=1.5e-12  Score=83.64  Aligned_cols=63  Identities=16%  Similarity=0.034  Sum_probs=53.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc-CCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM-GRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l-~~~~i~v~~~~   67 (196)
                      .+|+++|+++|++||.|+++.+..  ++++|+|||+|.+.++|.+|+ .+++..+ +|+.|.|..+.
T Consensus        21 ~~te~~l~~~F~~~G~v~~~~~~~--~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2          21 SVSEEDLKVLFSSNGGVVKGFKFF--QKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             TCCHHHHHHHHHTTSCCEEEEEEC--SSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCCHHHHHHHhhccCCEEEEEEee--ecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            579999999999999998876543  345789999999999999999 6898887 58999997654

>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=99.35  E-value=9.8e-13  Score=84.19  Aligned_cols=61  Identities=10%  Similarity=0.007  Sum_probs=54.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|.++.+..    ++|||||+|.+.++|++|+ .+|+..++|+.|.|..+.
T Consensus        19 ~~~~~~l~~~F~~~G~i~~i~~~~----~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~   80 (86)
T d2cpja1          19 DITEEEMRKLFEKYGKAGEVFIHK----DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   80 (86)
T ss_dssp             TCCHHHHHHHTSTTCCCSEEEEET----TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCHHHHHHHHHHhCCceEeeeec----ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            468999999999999999987652    4689999999999999999 579999999999997665

>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=99.34  E-value=9.5e-13  Score=88.19  Aligned_cols=61  Identities=10%  Similarity=-0.056  Sum_probs=53.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..|.+.    .++|||||+|.+.++|.+|| .+|+..+.++.|.|..+.
T Consensus        21 ~~t~~~L~~~F~~fG~I~~v~l~----~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~   82 (111)
T d1whxa_          21 GTLAAEIQETFSRFGSLGRVLLP----EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECC----SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEE
T ss_pred             CCCHHHHHhhhhccCCccEEEee----ccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECC
Confidence            46899999999999999998764    35789999999999999999 589999999999996654

>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=99.34  E-value=1.9e-13  Score=90.31  Aligned_cols=65  Identities=12%  Similarity=0.032  Sum_probs=57.2

Q ss_pred             CchHHHHHHHhcccCcceeEE-Eec-CCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-FVH-KNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-~~~-~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|+.||.|..+. +.+ .+|+++|||||+|.+.++|..|| .+|+..++|+.|.|..+.
T Consensus        29 ~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          29 RVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             TCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            468999999999999999863 333 58999999999999999999999 579999999999997665

>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=99.34  E-value=3.9e-13  Score=86.52  Aligned_cols=61  Identities=15%  Similarity=0.073  Sum_probs=53.4

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||+++|++||.|.+|.+.   +.++|||||+|.+.++|++||. ++..++|+.|.|..+.
T Consensus        16 ~~te~~L~~~F~~~G~v~~v~~~---~~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_          16 DMTEDELREFFSQYGDVMDVFIP---KPFRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISNAE   76 (88)
T ss_dssp             SSCHHHHHHHSTTTSCCCEEECC---SSCCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEECCC
T ss_pred             CCCHHHHHHHHHHcCCceEEEEe---eccCceEEEEECCHHHHHHHHh-CCCEECCEEeEEEeCC
Confidence            57999999999999999998643   3567899999999999999996 7788999999997665

>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=99.32  E-value=1.3e-12  Score=83.52  Aligned_cols=61  Identities=13%  Similarity=0.017  Sum_probs=52.9

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||.|..+.+    ++++|||||+|.+.++|..|| .+|+..++|+.|.|..+.
T Consensus        19 ~~te~~l~~~F~~~g~i~~~~~----~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1          19 STSEEMIEKEFNNIKPGAVERV----KKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             TCCHHHHHHHHHTTSTTCEEEE----EECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCCHHHHHHhhcccceeeeEEE----ccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            5799999999999988876554    346789999999999999999 589999999999996654

>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=99.32  E-value=2.3e-12  Score=81.40  Aligned_cols=62  Identities=13%  Similarity=0.063  Sum_probs=51.6

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCee-EEEEEcChHH
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRY-VEVFRSKRQE   70 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~-i~v~~~~~~~   70 (196)
                      .|+ ++.++|++||+|+++.+.    +++|||||+|.++++|++||++|+..++|+. |.|.++....
T Consensus        16 ~~~-~il~~F~~~G~I~~~~~~----~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~~~~k~   78 (81)
T d1wwha1          16 SAS-YILLQFAQYGNILKHVMS----NTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCIDKN   78 (81)
T ss_dssp             GHH-HHHHHHHTTSCEEEEEEC----SSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCCHH
T ss_pred             HHH-HHHHHHHhhhhhheEEec----CCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEeCCChh
Confidence            354 555689999999998643    4568999999999999999999999999985 5798887654

>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=99.32  E-value=1.8e-12  Score=80.76  Aligned_cols=60  Identities=17%  Similarity=0.136  Sum_probs=51.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|++|| +..+.    .++++|+|||+|.+.++|.+|+ ++|+..+.|++|.|..+.
T Consensus         9 ~~t~~~l~~~F~~~g-~~~~~----~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~   69 (75)
T d1wi6a1           9 DVTNQEVHDLLSDYE-LKYCF----VDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQP   69 (75)
T ss_dssp             TCCHHHHHHHTTTSC-EEEEE----EETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             cCCHHHHHHHHhccc-cccee----ecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeC
Confidence            579999999999987 43333    2457899999999999999999 689999999999997765

>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=99.31  E-value=9e-13  Score=83.21  Aligned_cols=62  Identities=13%  Similarity=-0.069  Sum_probs=52.4

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccc-ccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQ-NMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~-~l~~~~i~v~~~~   67 (196)
                      ...|++||+++|++||.|.++.+.    +++|||||+|.+.++|.+|| .+|+. .++|++|.|..+.
T Consensus        11 ~~~te~~L~~~F~~~G~i~~~~~~----~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~   74 (80)
T d2cqha1          11 PAVTADDLRQLFGDRKLPLAGQVL----LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   74 (80)
T ss_dssp             TTCCHHHHHHHHHHTTCCCSSCEE----EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CCCCHHHHHHHHHHhCcEEEeEEe----cccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcC
Confidence            357999999999999998875433    35689999999999999999 57886 5999999997765

>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=99.31  E-value=2.6e-12  Score=85.65  Aligned_cols=63  Identities=17%  Similarity=0.161  Sum_probs=52.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc--CCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM--GRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l--~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.++.+...  +++|+|||+|.++++|..|| .+|+..+  +++.|.|..+.
T Consensus        18 ~vte~~L~~~F~~~G~i~~~~i~~~--~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1          18 PVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEE--TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             CCCHHHHHHHHccCCcEEEEEEEee--CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            4699999999999999999865422  35799999999999999999 6899887  46778886655

>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=99.29  E-value=1.1e-12  Score=84.15  Aligned_cols=59  Identities=10%  Similarity=-0.023  Sum_probs=51.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      ..|++||+++|+.||.|.++.+..     .|||||+|.+.++|++|| .+|+..+.|+.|.|...
T Consensus        11 ~~~~~~l~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~   70 (87)
T d3begb1          11 SGSWQDLKDHMREAGDVCYADVYR-----DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   70 (87)
T ss_dssp             SCCTTHHHHHHGGGSCEEEEEECT-----TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             cCCHHHHHHHHhhhcccccccccc-----cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEE
Confidence            578999999999999999986542     379999999999999999 68999999998877443

>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=99.28  E-value=4e-12  Score=81.63  Aligned_cols=61  Identities=11%  Similarity=0.015  Sum_probs=51.2

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..+|++||+++|++|| +..+.+    ++++|||||+|.+.++|++|| ++|+..++|+.|.|..+.
T Consensus        15 ~~~t~~~l~~lF~~~G-~~~~~~----~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~   76 (88)
T d1wg1a_          15 QDSNCQEVHDLLKDYD-LKYCYV----DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             SSCCHHHHHHHTCSSC-CCCEEE----EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CccChHHHHHHHHhcC-ceeeee----eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            3579999999999988 333322    457899999999999999999 689999999999997654

>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=99.28  E-value=3e-12  Score=84.03  Aligned_cols=61  Identities=11%  Similarity=0.060  Sum_probs=53.1

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH---hcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ---RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~---~~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|.++|+.||.|.++.+..    ++|+|||+|.+.++|.+|++   .++..++|+.|.|..+.
T Consensus        30 ~~te~~l~~~F~~fG~V~~v~~~~----~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~   93 (99)
T d1x4fa1          30 GYSDSAVLKLAEPYGKIKNYILMR----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE   93 (99)
T ss_dssp             SCCSHHHHTTTTTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             ccCHHHHHhhhccccceeEEEEee----cCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcC
Confidence            468999999999999999997652    46899999999999999985   57778999999997664

>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=99.26  E-value=3.1e-12  Score=83.50  Aligned_cols=65  Identities=14%  Similarity=0.113  Sum_probs=53.7

Q ss_pred             CchHHHHHHHhcccCc-ceeEEEe-c--CCCcccceEEEEeCCHHHHHHHHH-hc--ccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMD-IVDVLFV-H--KNNKFTGEAFCVLGYPLQVDFALQ-RN--RQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~-i~~v~~~-~--~~g~~~G~afV~F~~~~~a~~Al~-~~--~~~l~~~~i~v~~~~   67 (196)
                      .+|+++|+++|+.||. |.++.+. +  .+|+++|||||+|.+.++|.+|++ ++  +..++++.|.|..+.
T Consensus        12 ~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A~   83 (96)
T d2disa1          12 MKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE   83 (96)
T ss_dssp             TSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESC
T ss_pred             cCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEcC
Confidence            5799999999999996 7777644 4  368999999999999999999995 44  445689999997765

>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=99.24  E-value=5.5e-12  Score=82.60  Aligned_cols=60  Identities=12%  Similarity=-0.030  Sum_probs=52.6

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+++|+.||+|.++.+.     ++|||||+|.+.++|++|| ++|+..+.++.|.|....
T Consensus        26 ~~~~~~L~~~F~~~G~v~~~~i~-----~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          26 SGSWQDLKDHMREAGDVCYADVQ-----KDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             SCCHHHHHHHHTTSSCEEEEEEE-----TTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             CCCHHHHHHHHHhhccccccccc-----ccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            57899999999999999998764     3589999999999999999 589999999998886543

>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=99.24  E-value=1.4e-11  Score=78.13  Aligned_cols=63  Identities=17%  Similarity=0.137  Sum_probs=52.2

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-hccccc-CCeeEEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-RNRQNM-GRRYVEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~l-~~~~i~v~~~~   67 (196)
                      ...|+++|.++|+.||+|.++.+...   .+|||||+|.+.++|..|++ +++..+ +++.|.|..+.
T Consensus        18 ~~~t~~~l~~~f~~~G~i~~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1          18 EETNEMMLSMLFNQFPGFKEVRLVPN---RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             TTCCHHHHHHHHTTSTTEEEEEECTT---TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCCCHHHHHhhhccCccEEEeeeecc---cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            35799999999999999999866532   36899999999999999995 788877 56888886543

>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=99.24  E-value=3.7e-12  Score=82.29  Aligned_cols=64  Identities=19%  Similarity=0.198  Sum_probs=54.2

Q ss_pred             CchHHHHH----HHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            3 LPQVQVLC----TIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~----~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ..|++||+    ++|+.||+|.+|.+. .++.++|||||+|.+.++|.+|+ .+|+..++|+.|.|..+.
T Consensus        14 ~~t~~dl~~~l~~~f~~~G~i~~i~~~-~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak   82 (91)
T d1nu4a_          14 KIKKDELKKSLHAIFSRFGQILDILVS-RSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   82 (91)
T ss_dssp             TSCHHHHHHHHHHHHGGGSCEEEEECC-HHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCHHHHHHHHHHHhcccccccceEEe-eeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            35777876    468999999987643 46788999999999999999999 579999999999997765

>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=99.19  E-value=2.6e-13  Score=87.73  Aligned_cols=62  Identities=8%  Similarity=-0.029  Sum_probs=53.8

Q ss_pred             CchHHHHHHHhcccCcceeEE-------EecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEE
Q 029263            3 LPQVQVLCTIHHQLMDIVDVL-------FVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVF   64 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~-------~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~   64 (196)
                      ..||+||+++|+.||.+.++.       ....+++++|||||+|.+.++|++|+++|+..+.|+.|.|.
T Consensus        12 ~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_          12 GITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             TCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             ccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            578999999999998886532       22347789999999999999999999999999999999984

>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=99.19  E-value=2.5e-11  Score=77.75  Aligned_cols=61  Identities=8%  Similarity=0.030  Sum_probs=52.2

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-h--cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-R--NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~~~~l~~~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|.++.+..    ++|+|||+|.+.++|+.|++ +  ++..++|++|.|..+.
T Consensus        19 ~~t~~~L~~~f~~~G~i~~v~~~~----~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk   82 (88)
T d2cq1a1          19 EVTETEVIALGLPFGKVTNILMLK----GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   82 (88)
T ss_dssp             TCCHHHHHHTTTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             CCCHHHHHHHHhcccccccccccc----cceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECC
Confidence            478999999999999999987653    45799999999999999995 3  5678999999997665

>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=99.18  E-value=4.2e-11  Score=79.09  Aligned_cols=61  Identities=10%  Similarity=-0.037  Sum_probs=52.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH-h--cccccCCeeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ-R--NRQNMGRRYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~~~~l~~~~i~v~~~~   67 (196)
                      ..||+||.++|+.||.|.++.+.    +.+|+|||+|.+.++|+.||+ +  ++..++++.|.|..+.
T Consensus        26 ~~te~~l~~~F~~fG~I~~~~~~----~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~   89 (104)
T d1wexa_          26 SVVEADLVEALEKFGTICYVMMM----PFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             SCCHHHHHHHHTTTSCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             CCCHHHHHHhhhhcccceEEEEE----ecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcC
Confidence            57999999999999999998765    356899999999999999995 3  4557889999997765

>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=99.18  E-value=6e-11  Score=78.35  Aligned_cols=59  Identities=7%  Similarity=0.037  Sum_probs=52.1

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      ++++|+++|+.||.|+++.+.    +++|+|||+|.+.++|.+|+ .+|+..++|+.|.|..+.
T Consensus        23 ~k~~l~~lF~~~G~i~~~~~~----k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~   82 (104)
T d1weya_          23 TRAKFESLFRTYDKDTTFQYF----KSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             HHHHHHHHHHTTCSSCEEEEE----TTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             HHHHHHHHhcccccceEEEEe----cCCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeecc
Confidence            457899999999999998655    35679999999999999999 589999999999997664

>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=99.17  E-value=2.6e-11  Score=77.91  Aligned_cols=60  Identities=17%  Similarity=0.071  Sum_probs=51.2

Q ss_pred             chHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHH---hcccccCCeeEEEEEcC
Q 029263            4 PQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQ---RNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         4 ~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~---~~~~~l~~~~i~v~~~~   67 (196)
                      .|++||.++|++||+|.++.+..    .+++|||+|++.++|..|++   .++..++|++|.|..+.
T Consensus        21 ~t~~eL~~lF~~fG~I~~i~i~~----~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~   83 (89)
T d1x4da1          21 NLRYQLLQLVEPFGVISNHLILN----KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   83 (89)
T ss_dssp             SHHHHHHTTTGGGSCEEEEEECS----SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             CCHHHHHHHHHhhCCeEEEEeec----cceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECC
Confidence            58999999999999999997653    34699999999999999995   35668999999997654

>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=99.16  E-value=6.4e-11  Score=78.22  Aligned_cols=68  Identities=10%  Similarity=0.018  Sum_probs=56.8

Q ss_pred             hHHHHHHHhcccCcceeEEEe-cC---CCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcChHHHH
Q 029263            5 QVQVLCTIHHQLMDIVDVLFV-HK---NNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSKRQEYY   72 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~-~~---~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~~~~~~   72 (196)
                      ..+||++.|++||.|.+|.+. +.   .....|++||+|.+.++|.+|+ .++|..++||.|.+.......+.
T Consensus        27 i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~~y~   99 (104)
T d1o0pa_          27 IVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYH   99 (104)
T ss_dssp             HHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHHHHH
T ss_pred             HHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEEcCHHHhh
Confidence            357899999999999998754 32   2345699999999999999999 68999999999999887766553

>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=99.15  E-value=6.3e-11  Score=77.54  Aligned_cols=60  Identities=15%  Similarity=0.161  Sum_probs=52.3

Q ss_pred             hHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEc
Q 029263            5 QVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         5 te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~   66 (196)
                      .++||++.|++||.|.+|.+...  +++|+|||+|.+.++|.+|+ .+|+..++||.|.|...
T Consensus        32 i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v~~~   92 (99)
T d2dita1          32 IREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAW   92 (99)
T ss_dssp             HHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             HHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEECCEEEEEEEe
Confidence            35799999999999999876543  46799999999999999999 68999999999999654

>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=99.12  E-value=8.6e-11  Score=76.59  Aligned_cols=61  Identities=15%  Similarity=0.014  Sum_probs=51.3

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-HhcccccCC--eeEEEEEcC
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGR--RYVEVFRSK   67 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~--~~i~v~~~~   67 (196)
                      ..|+++|+++|++||.|..+.+..    ++|||||+|.+.++|.+|+ .+|+..+++  +.|.|..+.
T Consensus        28 ~~t~~~l~~~f~~~G~i~~~~~~~----~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          28 NTSLAALAREFDRFGSIRTIDHVK----GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEECS----SSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCCHHHHHHHHHhhcccceEeeec----cccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            578999999999999999987652    4679999999999999999 579998876  467886554

>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=99.04  E-value=1.2e-10  Score=76.53  Aligned_cols=50  Identities=10%  Similarity=-0.057  Sum_probs=43.7

Q ss_pred             CchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHH-Hhccccc
Q 029263            3 LPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNM   56 (196)
Q Consensus         3 ~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l   56 (196)
                      ..|+++|+++|++||.|.++.+..    .+|||||+|.+.++|.+|+ .+||..+
T Consensus        31 ~vte~~L~~~F~~~G~i~~i~~~~----~k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          31 GVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             TCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCHHHHHHHHHhhCcccEEeecc----CccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            569999999999999999986553    3579999999999999999 6888876

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=2.8e-10  Score=76.16  Aligned_cols=62  Identities=15%  Similarity=-0.019  Sum_probs=47.7

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCH-HHHHHHH-HhcccccCCee--EEEEEcC
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYP-LQVDFAL-QRNRQNMGRRY--VEVFRSK   67 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~-~~a~~Al-~~~~~~l~~~~--i~v~~~~   67 (196)
                      ...|+++|+++|+.||.|.+|.+..    .+|||||.|.++ ++|..|+ .+++..+.++.  +.+....
T Consensus        21 ~~~tee~Lk~~F~~fG~V~~v~i~~----~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~~   86 (113)
T d1owxa_          21 DQTCREDLHILFSNHGEIKWIDFVR----GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLE   86 (113)
T ss_dssp             SSCCHHHHHHHTCSSCCEEEEECCT----TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECC
T ss_pred             CCCCHHHHHHHHHhcCChheEEEec----CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeecc
Confidence            3579999999999999999997663    468999999995 6788888 57777665444  4444443

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=1.4e-05  Score=49.57  Aligned_cols=56  Identities=16%  Similarity=0.299  Sum_probs=48.0

Q ss_pred             HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHhCCCccCCeEEEEEECCh
Q 029263          122 DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAKDRMTLGSRYIELFPSSH  185 (196)
Q Consensus       122 ~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~~g~~l~gr~i~V~~~~~  185 (196)
                      .+|.+-|..||.+. -|+++.+       ...|+|.+-.+|-+|+.++|..+.|+.|.|+..++
T Consensus        39 ~~Llq~l~~~GeVi-LvRFv~d-------~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~~~   94 (95)
T d1ufwa_          39 TELMQTLGSYGTIV-LVRINQG-------QMLVTFADSHSALSVLDVDGMKVKGRAVKISGPSS   94 (95)
T ss_dssp             HHHHHHHHHHSCCS-EEEEETT-------EEEEECSCSHHHHHHHHGGGSEETTEEEEEECCCC
T ss_pred             HHHHHHHhhCCeEE-EEEEeCC-------eEEEEECCcHHHHHHhccCCeEEcceEEEEecCCC
Confidence            47788899999654 5777754       69999999999999999999999999999997653

>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=97.90  E-value=2.8e-05  Score=45.85  Aligned_cols=61  Identities=20%  Similarity=0.271  Sum_probs=49.9

Q ss_pred             HHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEEECCh
Q 029263          122 DDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK-DRMTLGSRYIELFPSSH  185 (196)
Q Consensus       122 ~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~-~g~~l~gr~i~V~~~~~  185 (196)
                      +-|.+.|..++.+. ++.+....+|..  .|-|...+..+|..|++. |...||+++|.|++++.
T Consensus        11 q~L~~~f~~h~~V~-sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1          11 QLLQEAFARHGKVK-SVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLATG   72 (73)
T ss_dssp             HHHHHHHHHHSCEE-EEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             HHHHHHHHhheeEE-EEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEecC
Confidence            44557788888765 677766556655  799999999999999965 99999999999999863

>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=97.29  E-value=0.00055  Score=40.17  Aligned_cols=59  Identities=15%  Similarity=0.128  Sum_probs=48.7

Q ss_pred             HHHHHHhcccCcceeEEEe-cCCCcccceEEEEeCCHHHHHHHH-HhcccccCCeeEEEEEcC
Q 029263            7 QVLCTIHHQLMDIVDVLFV-HKNNKFTGEAFCVLGYPLQVDFAL-QRNRQNMGRRYVEVFRSK   67 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~~~-~~~g~~~G~afV~F~~~~~a~~Al-~~~~~~l~~~~i~v~~~~   67 (196)
                      +-|.+.|++++.|.++.+. ..+|..  .|-|...+.++|..|+ .++..++|++.|.|..++
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHhheeEEEEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            3466788899999998654 345544  6999999999999999 689999999999997765

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.21  E-value=0.0012  Score=41.35  Aligned_cols=53  Identities=19%  Similarity=0.243  Sum_probs=45.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCCCCCCceEEEEEeCCHHHHHHHHHh
Q 029263          108 GILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNSDGRPTGEAFVEFANAEDSKAAMAK  168 (196)
Q Consensus       108 ~~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~~g~~~G~afV~F~~~~~A~~Al~~  168 (196)
                      .-||.-..|......||.++|++||-+.  |.++.+ +     -|||...+.++|+.++..
T Consensus        16 dHVf~~tFP~~Wk~~dI~~lFSpfG~V~--VswIdd-T-----Sa~V~L~~~e~~~~v~~~   68 (100)
T d1whva_          16 DHVLHVTFPKEWKTSDLYQLFSAFGNIQ--ISWIDD-T-----SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             CSEEEEECCTTCCHHHHHHHHTTTCSCC--CEEEET-T-----EEEEECSCHHHHHHHHHH
T ss_pred             ceeEEEeCCcccchhHHHHHhcCCCceE--EEEecC-c-----eEEEEecCHHHHHHHHHH
Confidence            4699999999999999999999999765  778854 3     499999999999888854

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.11  E-value=0.00063  Score=41.98  Aligned_cols=54  Identities=15%  Similarity=0.065  Sum_probs=47.1

Q ss_pred             HHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhcccccCCeeEEEEEc
Q 029263            7 QVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRNRQNMGRRYVEVFRS   66 (196)
Q Consensus         7 ~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~l~~~~i~v~~~   66 (196)
                      .+|.+-|+.||+|+-|++..      +...|.|.+-+.|-+|+.+++..++|+.|.|...
T Consensus        39 ~~Llq~l~~~GeViLvRFv~------d~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQ------GQMLVTFADSHSALSVLDVDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEET------TEEEEECSCSHHHHHHHHGGGSEETTEEEEEECC
T ss_pred             HHHHHHHhhCCeEEEEEEeC------CeEEEEECCcHHHHHHhccCCeEEcceEEEEecC
Confidence            46788899999988887764      3699999999999999999999999999998654

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.88  E-value=0.0025  Score=39.55  Aligned_cols=64  Identities=17%  Similarity=0.230  Sum_probs=48.4

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCCCccceEEEEeCC--CC-CCceEEEEEeCCHHHHHHHHHh-CCCcc
Q 029263          109 ILRLRGLPFSAGKDDIMDFFKDFVLSEDSIHITMNS--DG-RPTGEAFVEFANAEDSKAAMAK-DRMTL  173 (196)
Q Consensus       109 ~l~v~nLp~~~t~~~l~~~F~~~g~~~~~v~l~~~~--~g-~~~G~afV~F~~~~~A~~Al~~-~g~~l  173 (196)
                      .|.|+.||++.|++++.+.+++.+..+ .......+  .+ ..-.-|+|.|.+.++...-... +|..+
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~~~d-~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F   70 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMPEHD-YFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEE-EEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcCceE-EEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            689999999999999999999877543 44444333  12 2235799999999998777765 88766

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.80  E-value=0.084  Score=32.70  Aligned_cols=45  Identities=20%  Similarity=0.208  Sum_probs=35.3

Q ss_pred             CCchHHHHHHHhcccCcceeEEEecCCCcccceEEEEeCCHHHHHHHHHhc
Q 029263            2 ELPQVQVLCTIHHQLMDIVDVLFVHKNNKFTGEAFCVLGYPLQVDFALQRN   52 (196)
Q Consensus         2 ~~~te~dl~~~F~~~g~i~~v~~~~~~g~~~G~afV~F~~~~~a~~Al~~~   52 (196)
                      +.|..-||.++|++||.|.=..| |.+     -|||...+.++|+.+++..
T Consensus        25 ~~Wk~~dI~~lFSpfG~V~VswI-ddT-----Sa~V~L~~~e~~~~v~~~~   69 (100)
T d1whva_          25 KEWKTSDLYQLFSAFGNIQISWI-DDT-----SAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             TTCCHHHHHHHHTTTCSCCCEEE-ETT-----EEEEECSCHHHHHHHHHHH
T ss_pred             cccchhHHHHHhcCCCceEEEEe-cCc-----eEEEEecCHHHHHHHHHHh
Confidence            45778899999999877654444 444     5999999999999998653