Citrus Sinensis ID: 015730

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-
Protein Sequence
MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRAK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccHHHHHHHcccccccEEHHHHHcHHHHHHHcccHHHHHHHHHHcccEEEcccccEEEcccccccccHHHccccEEEEEcccccccHHHHHHHHHHcccEEEEEEEcccccccccccccccccccccccccccEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHcccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccccccccHHcccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccEEHHEEEEHHHHHHHHHHHHHHHHHHHcccEEEEcccccEEEEccccccccHHcccccEEEEEcccccccHHHHHHHHHccccEEEEEEEccccccccccHHHHHccccccHHcccEEEEEEEccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
maqqsqvetldlsssndqsqsspssssdpslsrnssfsrlnakapefvptrnpqstqskpqvqvqvqqppqrvmmppppppaaamvhphpppphppsphhvypphgtgafhvipvhhqmhhqhhvpvqnyhhqqhqqhqhhrnhnhhhhrhqnhhhnnnnshhqnnqyedqqegevpgvkdkkekkdhqhgglndeSIQKVLNQVEYYFSDLNLATTDHLIRFILkdpegyvpistvASFKKIKAIISSHSHLASVLRKSSKlvvsedgkkikrqnpltesdlEELQSRIVVaenlpedhchqNLMKIFSAVGSvktirtclpqtsgggassgsrsaksegmlFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRAK
Flexible Loop (DISEMBL)
MAQQSQVETldlsssndqsqsspssssdpslsrNSSFSRLNAKAPEFVPtrnpqstqskpqvQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKKdhqhgglndesiQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHshlasvlrkssklvvsedgkkikrqnpltesdleeLQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTClpqtsgggassgsrsAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSfladcrak
Low Complexity Region (SEG)
MAQQSQVETLDLsssndqsqsspssssdpslsrnssfsrlNAKAPEFVPTRNPQSTQSKpqvqvqvqqppqrvmmppppppaaamvhphpppphppsphhvypphGTGAFhvipvhhqmhhqhhvpvqnyhhqqhqqhqhhrnhnhhhhrhqnhhhnnnnshhqnnqYEDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLAsvlrkssklvvsEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTsgggassgsrsaksegMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRAK
Disordered region (IsUnstruct)
*********************************************************************************************************GTGAFHVIPVHHQMHHQHHV************************************************************************IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVL*******************************RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL********************LFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLAD****
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLP**************KSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSA******************DC***
Disordered Region (DISEMBL)
*************************************SRLNAKAPEFV**********************QRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPV******************************NNNSHHQN***************************LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSH**********************KRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLP****************EGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRAK
Disordered Region (DISPRO)
***********************************************************************RVMMPPPPPPAAAMVH*********S*HHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQ****************************************************GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRT*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRAK
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	401	2.2.26 [Sep-21-2011]
Q28G87	593	La-related protein 7 OS=X	no	no	0.416	0.281	0.296	4e-14
Q7ZWE3	555	La-related protein 7 OS=D	yes	no	0.423	0.306	0.289	1e-13
Q5XI01	571	La-related protein 7 OS=R	yes	no	0.374	0.262	0.303	1e-13
Q05CL8	570	La-related protein 7 OS=M	yes	no	0.374	0.263	0.303	2e-13
Q4R627	581	La-related protein 7 OS=M	N/A	no	0.374	0.258	0.303	4e-13
Q4G0J3	582	La-related protein 7 OS=H	yes	no	0.374	0.257	0.303	6e-13
Q9BRS8	491	La-related protein 6 OS=H	no	no	0.468	0.382	0.270	7e-13
Q8BN59	492	La-related protein 6 OS=M	no	no	0.416	0.339	0.267	3e-12
P33399	275	La protein homolog OS=Sac	yes	no	0.296	0.432	0.323	1e-09
P40796	390	La protein homolog OS=Dro	no	no	0.264	0.271	0.318	2e-08

>sp|Q28G87|LARP7_XENTR La-related protein 7 OS=Xenopus tropicalis GN=larp7 PE=2 SV=1

 Score = 79.3 bits (194), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 56/189 (29%), Positives = 95/189 (50%), Gaps = 22/189 (11%)

Query: 180 KDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVAS 239
           KD+++KK  +   L    +  +  QV+++F D+NL     L   I K  +GY+ IS +AS
Sbjct: 23  KDREKKKRSRVKQL----LADIAKQVDFWFGDVNLHKDRFLREQIEKTRDGYIDISLLAS 78

Query: 240 FKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPED 299
           F K+K I +    +A  ++ SS + ++  G KI+R+ PL E   +++ SR V  E LP++
Sbjct: 79  FNKMKKITTDSKLIARAVKNSSVVEINLSGTKIRRRFPLGEKP-QDVDSRTVYVELLPKN 137

Query: 300 HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVEL 359
             H  + ++F   G V  +   +P+    G   G                AF+E+E+ E 
Sbjct: 138 VTHSWIERVFGKYGMV--VYVSIPRYKSTGDPKG---------------FAFIEFETQEQ 180

Query: 360 AEKAVSHLH 368
           A KA+  L+
Sbjct: 181 AAKAIEVLN 189

Xenopus tropicalis (taxid: 8364)

>sp|Q7ZWE3|LARP7_DANRE La-related protein 7 OS=Danio rerio GN=larp7 PE=2 SV=1

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 55/190 (28%), Positives = 98/190 (51%), Gaps = 20/190 (10%)

Query: 181 DKKEKKDHQHGGLN--DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVA 238
           D  EKKD++    +   + +  V  QVE++F D+NL     +   I +  +GY+ I+ + 
Sbjct: 24  DLSEKKDNEKKKRSRVKQLLSDVKKQVEFWFGDVNLHKDRFMKSIIEQSRDGYIDIAVLT 83

Query: 239 SFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPE 298
           +F ++K + +    +A  L+ S+ + V+++G +I+R+ PL E+  +++ SR V  E LP+
Sbjct: 84  TFNRMKNLTADVKLIARALKNSTIVEVNDEGTRIRRKEPLGETP-KDVDSRTVYVELLPK 142

Query: 299 DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVE 358
              H  L ++FS  G V  +   +P+      S G                AFVE+E+ E
Sbjct: 143 TVTHIWLERVFSKCGHV--VYISIPRYKSTRHSKG---------------FAFVEFETQE 185

Query: 359 LAEKAVSHLH 368
            A+KAV  L+
Sbjct: 186 QAQKAVEMLN 195

Danio rerio (taxid: 7955)

>sp|Q5XI01|LARP7_RAT La-related protein 7 OS=Rattus norvegicus GN=Larp7 PE=1 SV=2

 Score = 77.8 bits (190), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/168 (30%), Positives = 82/168 (48%), Gaps = 18/168 (10%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QV+++F D NL     L   I K  +GYV IS + SF K+K + +    +A  L+ S
Sbjct: 33  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIARALKSS 92

Query: 261 SKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRT 320
           S + +  +G +I+R+ PL E   +E + R V  E LP++  H  + ++F   G+V  +  
Sbjct: 93  SVVELDLEGTRIRRKKPLGERPKDE-EERTVYVELLPKNVTHSWIERVFGKCGNV--VYI 149

Query: 321 CLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
            +P     G   G                AFVE+E+ E A KA+  L+
Sbjct: 150 SIPHYKSTGDPKG---------------FAFVEFETKEQAAKAIEFLN 182

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Rattus norvegicus (taxid: 10116)

>sp|Q05CL8|LARP7_MOUSE La-related protein 7 OS=Mus musculus GN=Larp7 PE=1 SV=2

 Score = 77.4 bits (189), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 51/168 (30%), Positives = 82/168 (48%), Gaps = 18/168 (10%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QV+++F D NL     L   I K  +GYV IS + SF K+K + +    +A  L+ S
Sbjct: 32  IAKQVDFWFGDANLHKDKFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIARALKSS 91

Query: 261 SKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRT 320
           S + +  +G +I+R+ PL E   +E + R V  E LP++  H  + ++F   G+V  +  
Sbjct: 92  SVVELDLEGTRIRRKKPLGERPKDE-EERTVYVELLPKNVTHSWIERVFGKCGNV--VYI 148

Query: 321 CLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
            +P     G   G                AFVE+E+ E A KA+  L+
Sbjct: 149 SIPHYKSTGDPKG---------------FAFVEFETKEQAAKAIEFLN 181

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Mus musculus (taxid: 10090)

>sp|Q4R627|LARP7_MACFA La-related protein 7 OS=Macaca fascicularis GN=LARP7 PE=2 SV=1

 Score = 76.3 bits (186), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 51/168 (30%), Positives = 81/168 (48%), Gaps = 18/168 (10%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QV+++F D NL     L   I K  +GYV IS + SF K+K + +    +A  LR S
Sbjct: 38  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIARALRSS 97

Query: 261 SKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRT 320
           + + +  +G +I+R+ PL E   +E   R V  E LP++  H  + ++F   G+V  +  
Sbjct: 98  AVVELDLEGTRIRRKKPLGERPKDE-DERTVYVELLPKNVNHSWIERVFGKCGNV--VYI 154

Query: 321 CLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
            +P     G   G                AFVE+E+ E A KA+  L+
Sbjct: 155 SIPHYKSTGDPKG---------------FAFVEFETKEQAAKAIEFLN 187

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Macaca fascicularis (taxid: 9541)

>sp|Q4G0J3|LARP7_HUMAN La-related protein 7 OS=Homo sapiens GN=LARP7 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 51/168 (30%), Positives = 81/168 (48%), Gaps = 18/168 (10%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QV+++F D NL     L   I K  +GYV IS + SF K+K + +    +A  LR S
Sbjct: 38  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIARALRSS 97

Query: 261 SKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRT 320
           + + +  +G +I+R+ PL E   +E   R V  E LP++  H  + ++F   G+V  +  
Sbjct: 98  AVVELDLEGTRIRRKKPLGERPKDE-DERTVYVELLPKNVNHSWIERVFGKCGNV--VYI 154

Query: 321 CLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
            +P     G   G                AFVE+E+ E A KA+  L+
Sbjct: 155 SIPHYKSTGDPKG---------------FAFVEFETKEQAAKAIEFLN 187

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Homo sapiens (taxid: 9606)

>sp|Q9BRS8|LARP6_HUMAN La-related protein 6 OS=Homo sapiens GN=LARP6 PE=1 SV=1

 Score = 75.5 bits (184), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 57/211 (27%), Positives = 103/211 (48%), Gaps = 23/211 (10%)

Query: 178 GVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTV 237
           G ++++E  + +    ++E I+K+++Q+E+YFSD NL     L++ + ++  GYV +  +
Sbjct: 73  GGENEREDLEQEWKPPDEELIKKLVDQIEFYFSDENLEKDAFLLKHVRRNKLGYVSVKLL 132

Query: 238 ASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENL- 296
            SFKK+K +       A  L+ S  L ++ED +K++R  P+     E L S++++  +L 
Sbjct: 133 TSFKKVKHLTRDWRTTAHALKYSVVLELNEDHRKVRRTTPVPLFPNENLPSKMLLVYDLY 192

Query: 297 ----------------PEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSE 340
                            ++   ++L+K+F   G + ++R   P   G       R   S 
Sbjct: 193 LSPKLWALATPQKNGRVQEKVMEHLLKLFGTFGVISSVRILKP---GRELPPDIRRISSR 249

Query: 341 GMLFSNKLHAFVEYESVELAEKAVSHLHFMI 371
                 +  A VE+E VE A KA  H  FMI
Sbjct: 250 YSQVGTQECAIVEFEEVEAAIKA--H-EFMI 277

Regulates the coordinated translation of type I collagen alpha-1 and alpha-2 mRNAs, CO1A1 and CO1A2. Stabilizes mRNAs through high-affinity binding of a stem-loop structure in their 5' UTR. This regulation requires VIM and MYH10 filaments, and the helicase DHX9.

Homo sapiens (taxid: 9606)

>sp|Q8BN59|LARP6_MOUSE La-related protein 6 OS=Mus musculus GN=Larp6 PE=1 SV=1

 Score = 73.2 bits (178), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 50/187 (26%), Positives = 91/187 (48%), Gaps = 20/187 (10%)

Query: 194 NDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL 253
           ++E I+K+++Q+E+YFSD NL     L++ + ++  GYV +  + SFKK+K +       
Sbjct: 89  DEELIRKLVDQIEFYFSDENLEKDAFLLKHVRRNKLGYVSVKLLTSFKKVKHLTRDWRTT 148

Query: 254 ASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENL----------------- 296
           A  L+ S  L ++ED +K++R  P+     E L S++++  +L                 
Sbjct: 149 AHALKYSVTLELNEDHRKVRRTTPVPLFPNENLPSKMLLVYDLHLSPKLWALATPQKNGR 208

Query: 297 PEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYES 356
            ++   ++L+K+F   G + ++R   P   G       R   S       +  A VE+E 
Sbjct: 209 VQEKVMEHLLKLFGTFGVISSVRILKP---GRELPPDIRRISSRYSQVGTQECAIVEFEE 265

Query: 357 VELAEKA 363
           V+ A KA
Sbjct: 266 VDAAIKA 272

Regulates the coordinated translation of type I collagen alpha-1 and alpha-2 mRNAs, CO1A1 and CO1A2. Stabilizes mRNAs through high-affinity binding of a stem-loop structure in their 5' UTR. This regulation requires VIM and MYH10 filaments, and the helicase DHX9.

Mus musculus (taxid: 10090)

>sp|P33399|LHP1_YEAST La protein homolog OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LHP1 PE=1 SV=2

 Score = 64.7 bits (156), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 66/139 (47%), Gaps = 20/139 (14%)

Query: 196 ESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLAS 255
           E + + L QVE+YFS+ N    D  +R   +  +G+VPIST+A+F ++K        +  
Sbjct: 28  EVLDRCLKQVEFYFSEFNFPY-DRFLRTTAEKNDGWVPISTIATFNRMKK-YRPVDKVIE 85

Query: 256 VLRKSSKLVVSEDGKKIKRQNPLTESDLE-------ELQSRIVVAENLP-ED-------H 300
            LR S  L VS DG+ +KR+ PL   DL        E   R +   N P ED        
Sbjct: 86  ALRSSEILEVSADGENVKRRVPL---DLTAARNARIEQNQRTLAVMNFPHEDVEASQIPE 142

Query: 301 CHQNLMKIFSAVGSVKTIR 319
             +NL   F  +G +  +R
Sbjct: 143 LQENLEAFFKKLGEINQVR 161

Molecular chaperone that binds nascent RNA polymerase III transcripts, stabilizing these RNAs against exonucleases. Required for the 3' endonucleolytic cleavage that matures tRNA precursors and for efficient folding of certain pre-tRNAs. Cooperaes with GCD14 in the maturation of a subset of RNA polymerase III transcripts. Functions also in the assembly of certain RNA polymerase II-transcribed RNAs into RNPs. Binds and stabilizes newly synthesized U6 snRNA as well as precursors of U3 snRNA from degradation. Facilitates efficient Sm protein binding, thus assisting formation of the U4/U6 snRNP. Required fot Ty3 normal transposition frequency.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|P40796|LA_DROME La protein homolog OS=Drosophila melanogaster GN=La PE=1 SV=2

 Score = 60.5 bits (145), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 61/113 (53%), Gaps = 7/113 (6%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           ++ QVEYYF D NL     L   I K+ +G+VP+S + +FK++ ++ +  S + + L KS
Sbjct: 54  IIRQVEYYFGDANLNRDKFLREQIGKNEDGWVPLSVLVTFKRLASLSTDLSEIVAALNKS 113

Query: 261 SKLVV--SEDGKKIKR--QNPL---TESDLEELQSRIVVAENLPEDHCHQNLM 306
            + +V  SED   ++R  + P+    E   +E+Q R   A+  P D     L+
Sbjct: 114 EEGLVEISEDKLSLRRHPERPIPEHNEERRKEIQERTAYAKGFPLDSQISELL 166

May be involved in transcription termination by RNA polymerase III. Binds RNA and DNA. Binds to precursors of RNA polymerase III transcripts. May play a specialized role during fly development.

Drosophila melanogaster (taxid: 7227)

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	401
356573306	467	PREDICTED: uncharacterized protein LOC10	0.793	0.680	0.582	3e-93
356506138	475	PREDICTED: uncharacterized protein LOC10	0.817	0.690	0.590	2e-92
255576440	524	lupus la ribonucleoprotein, putative [Ri	0.778	0.595	0.585	2e-88
356573308	451	PREDICTED: uncharacterized protein LOC10	0.755	0.671	0.561	5e-83
356506140	459	PREDICTED: uncharacterized protein LOC10	0.768	0.671	0.578	7e-83
449444086	492	PREDICTED: uncharacterized protein LOC10	0.438	0.357	0.784	3e-75
449492647	356	PREDICTED: la-related protein 7-like [Cu	0.438	0.494	0.784	5e-75
296084368	325	unnamed protein product [Vitis vinifera]	0.433	0.535	0.767	2e-71
18406414	545	RNA-binding protein [Arabidopsis thalian	0.493	0.363	0.683	2e-71
297828121	534	hypothetical protein ARALYDRAFT_322062 [	0.441	0.331	0.719	5e-68

>gi|356573306|ref|XP_003554803.1| PREDICTED: uncharacterized protein LOC100813426 isoform 1 [Glycine max]

 Score =  348 bits (892), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 216/371 (58%), Positives = 258/371 (69%), Gaps = 53/371 (14%)

Query: 1   MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKP 60
           MAQ+S  ET D+S  +  +QS P    DPSLSRN SFSRLNA+APEFVPTR      + P
Sbjct: 1   MAQESLSETPDISPPSSTAQSQP----DPSLSRNVSFSRLNAQAPEFVPTR------ASP 50

Query: 61  QVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMH 120
           +   Q    P+ V+ PPPPPPA+ ++H + PPP             T  FHV P+     
Sbjct: 51  RADFQ---QPRLVVPPPPPPPASGILHVYSPPP-------------TSQFHV-PIQG--- 90

Query: 121 HQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVK 180
             H VPVQN+HH    QH    ++  HHH HQ  ++ +++S  Q++Q +           
Sbjct: 91  --HVVPVQNHHHHLAHQHHVPAHYRSHHHPHQ--YYVSSDSAVQHSQVD----------- 135

Query: 181 DKKEKKDH---QHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTV 237
                 DH       ++DE+ QK+LNQVEYYFSDLNLATTDHL+RF+ KDPEG+VPIS V
Sbjct: 136 -----PDHALSSKSKMSDEASQKILNQVEYYFSDLNLATTDHLMRFVNKDPEGFVPISVV 190

Query: 238 ASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLP 297
           ASFKKIKA+I+SHS LA+VLR SSKLVVSEDGKKIKRQ PLTESD+EE+QSRIVVAENLP
Sbjct: 191 ASFKKIKALIASHSQLATVLRNSSKLVVSEDGKKIKRQYPLTESDIEEIQSRIVVAENLP 250

Query: 298 EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV 357
           EDHCHQNLMK+FSAVGSVKTIRTC PQTS  GASS SR  K +GM  SNKLHAFVEYESV
Sbjct: 251 EDHCHQNLMKVFSAVGSVKTIRTCPPQTSNSGASSASRLGKVDGMPLSNKLHAFVEYESV 310

Query: 358 ELAEKAVSHLH 368
           ELAE+AV+ L+
Sbjct: 311 ELAERAVAELN 321

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506138|ref|XP_003521844.1| PREDICTED: uncharacterized protein LOC100801679 isoform 1 [Glycine max]

 Score =  345 bits (885), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 218/369 (59%), Positives = 256/369 (69%), Gaps = 41/369 (11%)

Query: 1   MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTR-NPQSTQSK 59
           MAQ+S  ET D+S  +  +QS P    DPSLSRN SFSRLNA+APEFVPTR +P+    +
Sbjct: 1   MAQESLSETPDISPPSSTAQSLP----DPSLSRNVSFSRLNAQAPEFVPTRVSPRGDFQQ 56

Query: 60  PQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQM 119
           P++ V    P      PPPPP A+ MVH + PPP             T  FHV P+    
Sbjct: 57  PRLVVPSPSPSPPPPPPPPPP-ASGMVHVYSPPP-------------TSQFHV-PIQG-- 99

Query: 120 HHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGV 179
              H VPVQN+HH    QH    ++  HHH HQ  ++ +++S  Q  Q +       P  
Sbjct: 100 ---HVVPVQNHHHHLAHQHHVPAHYRSHHHPHQ--YYVSSDSAVQQPQVD-------PDH 147

Query: 180 KDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVAS 239
              K K       ++DE+ QK+LNQVEYYFSDLNLATTDHL+RFI KDPEG+VPIS VAS
Sbjct: 148 APSKSK-------MSDEASQKILNQVEYYFSDLNLATTDHLMRFINKDPEGFVPISVVAS 200

Query: 240 FKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPED 299
           FKKIKA+I+SHS LA+VLR SSKLVVSEDGKKIKRQ PLTESD+EELQSRIVVAENLPED
Sbjct: 201 FKKIKALIASHSQLATVLRNSSKLVVSEDGKKIKRQYPLTESDIEELQSRIVVAENLPED 260

Query: 300 HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVEL 359
           HCHQNLMK+FSAVGSVKTIRTC PQTS  GAS+ SR  K +GM  SNKLHAFVEY SVEL
Sbjct: 261 HCHQNLMKVFSAVGSVKTIRTCPPQTSNSGASATSRLGKVDGMPLSNKLHAFVEYGSVEL 320

Query: 360 AEKAVSHLH 368
           AE+AV+ L+
Sbjct: 321 AERAVAELN 329

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576440|ref|XP_002529112.1| lupus la ribonucleoprotein, putative [Ricinus communis] gi|223531463|gb|EEF33296.1| lupus la ribonucleoprotein, putative [Ricinus communis]

 Score =  332 bits (851), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 212/362 (58%), Positives = 246/362 (67%), Gaps = 50/362 (13%)

Query: 33  RNSSFSRLNAKAPEFVPTRNPQS--TQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHP 90
           RN SFS+LNA+APEFVPTR P S   Q +            R+ + PPPPP  AM+H +P
Sbjct: 36  RNVSFSKLNAQAPEFVPTR-PSSHQQQQQQPPPPPPTASLNRLTVIPPPPPPPAMMHIYP 94

Query: 91  PPPHPPSPHHVYPPHG-TGAFHVIPVHHQMHHQH--------------------HVPVQN 129
           PP    SP HV P H      HVIPVH+   H H                    +VPV+N
Sbjct: 95  PP----SPFHV-PIHSPVPVSHVIPVHNHHPHHHHQHSNNPNHNHHHHQHHNQQYVPVRN 149

Query: 130 YHHQQHQQH---QHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKK 186
            H+Q   Q+   Q+H N NHH+ +                Q E++ E +     D   K 
Sbjct: 150 -HNQNSSQYVPLQYHGNQNHHYVK--------------KGQLEEEVEKKEVASSDHMSKN 194

Query: 187 DHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAI 246
           D      NDE +QK+LNQVEYYFSDLNLATTDHL+RFI KDP+GYVPIS VASFKK+KA 
Sbjct: 195 DRNG---NDEPMQKLLNQVEYYFSDLNLATTDHLMRFINKDPDGYVPISVVASFKKVKAA 251

Query: 247 ISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLM 306
           I+S+SHLAS+LR S+KLVVSEDGK+++RQNPLTE D+EELQSRIVVAENLPEDHCHQNLM
Sbjct: 252 INSNSHLASILRNSAKLVVSEDGKRVRRQNPLTELDVEELQSRIVVAENLPEDHCHQNLM 311

Query: 307 KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH 366
           KIFSAVGSVKTIRTC PQTSGGGASS SRSAK EGM FSNKLHAFVEYESVE+AEKAV+ 
Sbjct: 312 KIFSAVGSVKTIRTCPPQTSGGGASSASRSAKGEGMHFSNKLHAFVEYESVEIAEKAVAE 371

Query: 367 LH 368
           L+
Sbjct: 372 LN 373

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573308|ref|XP_003554804.1| PREDICTED: uncharacterized protein LOC100813426 isoform 2 [Glycine max]

 Score =  314 bits (805), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 200/356 (56%), Positives = 240/356 (67%), Gaps = 53/356 (14%)

Query: 1   MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKP 60
           MAQ+S  ET D+S  +  +QS P    DPSLSRN SFSRLNA+APEFVPTR      + P
Sbjct: 1   MAQESLSETPDISPPSSTAQSQP----DPSLSRNVSFSRLNAQAPEFVPTR------ASP 50

Query: 61  QVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMH 120
           +   Q    P+ V+ PPPPPPA+ ++H + PPP             T  FHV P+     
Sbjct: 51  RADFQ---QPRLVVPPPPPPPASGILHVYSPPP-------------TSQFHV-PIQG--- 90

Query: 121 HQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVK 180
             H VPVQN+HH    QH    ++  HHH HQ  ++ +++S  Q++Q +           
Sbjct: 91  --HVVPVQNHHHHLAHQHHVPAHYRSHHHPHQ--YYVSSDSAVQHSQVD----------- 135

Query: 181 DKKEKKDH---QHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTV 237
                 DH       ++DE+ QK+LNQVEYYFSDLNLATTDHL+RF+ KDPEG+VPIS V
Sbjct: 136 -----PDHALSSKSKMSDEASQKILNQVEYYFSDLNLATTDHLMRFVNKDPEGFVPISVV 190

Query: 238 ASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLP 297
           ASFKKIKA+I+SHS LA+VLR SSKLVVSEDGKKIKRQ PLTESD+EE+QSRIVVAENLP
Sbjct: 191 ASFKKIKALIASHSQLATVLRNSSKLVVSEDGKKIKRQYPLTESDIEEIQSRIVVAENLP 250

Query: 298 EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVE 353
           EDHCHQNLMK+FSAVGSVKTIRTC PQTS  GASS SR  K +GM  SNK+    E
Sbjct: 251 EDHCHQNLMKVFSAVGSVKTIRTCPPQTSNSGASSASRLGKVDGMPLSNKVAELNE 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506140|ref|XP_003521845.1| PREDICTED: uncharacterized protein LOC100801679 isoform 2 [Glycine max]

 Score =  313 bits (803), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 202/349 (57%), Positives = 238/349 (68%), Gaps = 41/349 (11%)

Query: 1   MAQQSQVETLDLSSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTR-NPQSTQSK 59
           MAQ+S  ET D+S  +  +QS P    DPSLSRN SFSRLNA+APEFVPTR +P+    +
Sbjct: 1   MAQESLSETPDISPPSSTAQSLP----DPSLSRNVSFSRLNAQAPEFVPTRVSPRGDFQQ 56

Query: 60  PQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQM 119
           P++ V    P      PPPPP A+ MVH + PPP             T  FHV P+    
Sbjct: 57  PRLVVPSPSPSPPPPPPPPPP-ASGMVHVYSPPP-------------TSQFHV-PIQG-- 99

Query: 120 HHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGV 179
              H VPVQN+HH    QH    ++  HHH HQ  ++ +++S  Q  Q +       P  
Sbjct: 100 ---HVVPVQNHHHHLAHQHHVPAHYRSHHHPHQ--YYVSSDSAVQQPQVD-------PDH 147

Query: 180 KDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVAS 239
              K K       ++DE+ QK+LNQVEYYFSDLNLATTDHL+RFI KDPEG+VPIS VAS
Sbjct: 148 APSKSK-------MSDEASQKILNQVEYYFSDLNLATTDHLMRFINKDPEGFVPISVVAS 200

Query: 240 FKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPED 299
           FKKIKA+I+SHS LA+VLR SSKLVVSEDGKKIKRQ PLTESD+EELQSRIVVAENLPED
Sbjct: 201 FKKIKALIASHSQLATVLRNSSKLVVSEDGKKIKRQYPLTESDIEELQSRIVVAENLPED 260

Query: 300 HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKL 348
           HCHQNLMK+FSAVGSVKTIRTC PQTS  GAS+ SR  K +GM  SNK+
Sbjct: 261 HCHQNLMKVFSAVGSVKTIRTCPPQTSNSGASATSRLGKVDGMPLSNKV 309

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444086|ref|XP_004139806.1| PREDICTED: uncharacterized protein LOC101207485 [Cucumis sativus]

 Score =  288 bits (738), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 138/176 (78%), Positives = 158/176 (89%)

Query: 193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
           L DE  QK+LNQVEYYFSDLNLATTDHL+RF+ KDP+GYVPIS VASFKKIKA+I+SH  
Sbjct: 162 LTDEVSQKLLNQVEYYFSDLNLATTDHLMRFVNKDPDGYVPISVVASFKKIKALINSHFQ 221

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAV 312
           LA++LR SSKL+VSEDGKK+KR+ P +ESD+EELQSRIV+AENLPEDHCHQNLMKIFSAV
Sbjct: 222 LANILRNSSKLLVSEDGKKVKRKQPFSESDMEELQSRIVIAENLPEDHCHQNLMKIFSAV 281

Query: 313 GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
           GSVK IRTC PQ S  GASS S+SAK++GM +SNKLHAFVEYESVELAEKAV+ L+
Sbjct: 282 GSVKNIRTCQPQISDSGASSTSKSAKADGMHYSNKLHAFVEYESVELAEKAVAELN 337

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449492647|ref|XP_004159060.1| PREDICTED: la-related protein 7-like [Cucumis sativus]

 Score =  287 bits (735), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 138/176 (78%), Positives = 158/176 (89%)

Query: 193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
           L DE  QK+LNQVEYYFSDLNLATTDHL+RF+ KDP+GYVPIS VASFKKIKA+I+SH  
Sbjct: 162 LTDEVSQKLLNQVEYYFSDLNLATTDHLMRFVNKDPDGYVPISVVASFKKIKALINSHFQ 221

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAV 312
           LA++LR SSKL+VSEDGKK+KR+ P +ESD+EELQSRIV+AENLPEDHCHQNLMKIFSAV
Sbjct: 222 LANILRNSSKLLVSEDGKKVKRKQPFSESDMEELQSRIVIAENLPEDHCHQNLMKIFSAV 281

Query: 313 GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
           GSVK IRTC PQ S  GASS S+SAK++GM +SNKLHAFVEYESVELAEKAV+ L+
Sbjct: 282 GSVKNIRTCQPQISDSGASSTSKSAKADGMHYSNKLHAFVEYESVELAEKAVAELN 337

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084368|emb|CBI24756.3| unnamed protein product [Vitis vinifera]

 Score =  276 bits (705), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 135/176 (76%), Positives = 157/176 (89%), Gaps = 2/176 (1%)

Query: 193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
           L  +S +K+L +  +  SD+NLATT+HL+RFI KDPEGYVPIS VASFKKIKA++SSHS 
Sbjct: 5   LGTDSPRKLLRR--FSISDVNLATTEHLMRFINKDPEGYVPISVVASFKKIKALVSSHSQ 62

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAV 312
           LA+VLR S+KLVVSEDGKK++R +PLTESD+EELQSRIVVAENLPEDHCHQNLMKIFSAV
Sbjct: 63  LATVLRNSTKLVVSEDGKKVRRLHPLTESDMEELQSRIVVAENLPEDHCHQNLMKIFSAV 122

Query: 313 GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
           GSVKTIRTC PQTS GGASS +RS+K++ MLFSNKLHAFVEYES+ELAEKAV  L+
Sbjct: 123 GSVKTIRTCQPQTSNGGASSAARSSKTDNMLFSNKLHAFVEYESIELAEKAVVELN 178

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18406414|ref|NP_566004.1| RNA-binding protein [Arabidopsis thaliana] gi|14030639|gb|AAK52994.1|AF375410_1 At2g43970/F6E13.10 [Arabidopsis thaliana] gi|14194143|gb|AAK56266.1|AF367277_1 At2g43970/F6E13.10 [Arabidopsis thaliana] gi|12744919|gb|AAK06847.1| VirF-interacting protein FIP1 [Arabidopsis thaliana] gi|15810399|gb|AAL07087.1| unknown protein [Arabidopsis thaliana] gi|20197078|gb|AAC23405.2| expressed protein [Arabidopsis thaliana] gi|22136548|gb|AAM91060.1| At2g43970/F6E13.10 [Arabidopsis thaliana] gi|330255262|gb|AEC10356.1| RNA-binding protein [Arabidopsis thaliana]

 Score =  275 bits (704), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 136/199 (68%), Positives = 161/199 (80%), Gaps = 1/199 (0%)

Query: 192 GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHS 251
           GL ++SIQK++NQVEYYFSDLNLATTDHL+RFI KDPEGYVPI  VASFKKIKA+I+++S
Sbjct: 188 GLPEDSIQKIVNQVEYYFSDLNLATTDHLMRFICKDPEGYVPIHVVASFKKIKAVINNNS 247

Query: 252 HLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSA 311
            LA+VL+ S+KL VSEDGKK++R +P+TES +EELQSRI+VAENLPEDHC+QNLMKIFS 
Sbjct: 248 QLAAVLQNSAKLFVSEDGKKVRRISPITESAIEELQSRIIVAENLPEDHCYQNLMKIFST 307

Query: 312 VGSVKTIRTCLPQTSGGGASSGSRS-AKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM 370
           VGSVK IRTC PQ +G GA   +RS AKS+G LFSNK+HAFVEYE VELAE+AV+ L   
Sbjct: 308 VGSVKNIRTCQPQNNGSGAPPAARSAAKSDGTLFSNKVHAFVEYEIVELAERAVTELSEA 367

Query: 371 IMLFFFSAFCLMFVTQTNE 389
                     LM   QT E
Sbjct: 368 GNWRSGLKVRLMLKHQTKE 386

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297828121|ref|XP_002881943.1| hypothetical protein ARALYDRAFT_322062 [Arabidopsis lyrata subsp. lyrata] gi|297327782|gb|EFH58202.1| hypothetical protein ARALYDRAFT_322062 [Arabidopsis lyrata subsp. lyrata]

 Score =  264 bits (675), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 128/178 (71%), Positives = 153/178 (85%), Gaps = 1/178 (0%)

Query: 192 GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHS 251
           GL ++SIQK++NQVEYYFSDLNLATTDHL+RFI KDPEGYVPI  VASFKKIKA+I+S+S
Sbjct: 182 GLPEDSIQKIVNQVEYYFSDLNLATTDHLMRFICKDPEGYVPIHVVASFKKIKAVINSNS 241

Query: 252 HLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSA 311
            LA+VL+ S+KL VSEDGKK++R NP+TES +EELQSRI++AENLPEDHC+QNLMKIFS 
Sbjct: 242 QLAAVLQNSAKLFVSEDGKKVRRINPITESAIEELQSRIIIAENLPEDHCYQNLMKIFST 301

Query: 312 VGSVKTIRTCLPQTSG-GGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
           VGSVK IRTC PQ +G     +   +AKS+G L SNK+HAFVEYE VELAEKAV+ L+
Sbjct: 302 VGSVKNIRTCQPQNNGSSAPPAARSAAKSDGTLLSNKVHAFVEYEMVELAEKAVAELN 359

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	401
TAIR|locus:2051734	545	LARP6b "AT2G43970" [Arabidopsi	0.438	0.322	0.649	2e-59
TAIR|locus:2089508	455	LARP6c "La related protein 6c"	0.421	0.371	0.448	2.2e-38
TAIR|locus:2170478	422	LARP6a "La related protein 6a"	0.416	0.395	0.379	3.5e-27
UNIPROTKB|F1NJ86	233	LARP7 "Uncharacterized protein	0.346	0.596	0.276	3.4e-13
UNIPROTKB|E1BQG3	602	LARP7 "Uncharacterized protein	0.346	0.230	0.276	1e-10
RGD|1592474	571	Larp7 "La ribonucleoprotein do	0.356	0.250	0.292	2.7e-10
UNIPROTKB|Q5XI01	571	Larp7 "La-related protein 7" [	0.356	0.250	0.292	2.7e-10
ZFIN|ZDB-GENE-030131-6896	555	larp7 "La ribonucleoprotein do	0.331	0.239	0.282	3.4e-10
MGI|MGI:107634	570	Larp7 "La ribonucleoprotein do	0.354	0.249	0.292	4.9e-10
UNIPROTKB|D6RFF0	299	LARP7 "La-related protein 7" [	0.334	0.448	0.274	6.9e-10

TAIR|locus:2051734 LARP6b "AT2G43970" [Arabidopsis thaliana (taxid:3702)]

 Score = 579 (208.9 bits), Expect = 2.0e-59, Sum P(2) = 2.0e-59
 Identities = 115/177 (64%), Positives = 134/177 (75%)

Query:   192 GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHS 251
             GL ++SIQK++NQVEYYFSDLNLATTDHL+RFI KDPEGYVPI  VASFKKIKA+I+++S
Sbjct:   188 GLPEDSIQKIVNQVEYYFSDLNLATTDHLMRFICKDPEGYVPIHVVASFKKIKAVINNNS 247

Query:   252 HLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSA 311
              LA            EDGKK++R +P+TES +EELQSRI+VAENLPEDHC+QNLMKIFS 
Sbjct:   248 QLAAVLQNSAKLFVSEDGKKVRRISPITESAIEELQSRIIVAENLPEDHCYQNLMKIFST 307

Query:   312 VGSVKTIRTCLPQTXXXXXX-XXXXXXXXXXMLFSNKLHAFVEYESVELAEKAVSHL 367
             VGSVK IRTC PQ                   LFSNK+HAFVEYE VELAE+AV+ L
Sbjct:   308 VGSVKNIRTCQPQNNGSGAPPAARSAAKSDGTLFSNKVHAFVEYEIVELAERAVTEL 364

GO:0003676 "nucleic acid binding" evidence=ISS

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

TAIR|locus:2089508 LARP6c "La related protein 6c" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 2.2e-38, Sum P(2) = 2.2e-38
 Identities = 79/176 (44%), Positives = 108/176 (61%)

Query:   193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
             L+D+   K++ QVEY F+D++L   + + + I KDPEGYVP+S +AS KKIKA+ S+H  
Sbjct:   140 LSDDLRLKIVKQVEYQFTDMSLLANESISKHISKDPEGYVPVSYIASTKKIKALTSNHHL 199

Query:   253 LAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAV 312
             ++            EDGKK+KR +  T+ D EELQ R VVAENLP+DH +QNL KIF  V
Sbjct:   200 VSLALRSSSKLVVSEDGKKVKRTSQFTDRDREELQGRTVVAENLPDDHSYQNLEKIFGVV 259

Query:   313 GSVKTIRTCLPQTXXXXXXXXXXXXXXXXMLFSNKLHAFVEYESVELAEKAVSHLH 368
             G+VK IR C P                   L SNK+HA +EY++  +A+KAV  L+
Sbjct:   260 GNVKAIRICHPPESNSSRPKGD-------FLMSNKIHALIEYDNTVIADKAVEKLN 308

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

TAIR|locus:2170478 LARP6a "La related protein 6a" [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 66/174 (37%), Positives = 97/174 (55%)

Query:   195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
             DE  QK++ QVEYYFSD NL T   L+  + ++ +G+VPIST+A+F K+K +   H+ + 
Sbjct:   101 DELNQKIIRQVEYYFSDENLPTDKFLLNAMKRNKKGFVPISTIATFHKMKKLTRDHALIV 160

Query:   255 XXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGS 314
                          D KK+KR +PL E  + + +   V+ ENLPEDH ++N+ +IF   GS
Sbjct:   161 SALKESSFLVVSADEKKVKRLSPLPE--IRDPKIFTVLVENLPEDHSNENIREIFGKAGS 218

Query:   315 VKTIRTCLPQTXXXXXXXXXXXXXXXXMLFSNKLHAFVEYESVELAEKAVSHLH 368
             +K++  C P                       +LHAFVEYE+VE AEKA + L+
Sbjct:   219 IKSVSICDPNAVEESEKGGKKEN-----FIRTRLHAFVEYETVEAAEKAAATLN 267

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006396 "RNA processing" evidence=IEA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

UNIPROTKB|F1NJ86 LARP7 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 156 (60.0 bits), Expect = 3.4e-13, Sum P(2) = 3.4e-13
 Identities = 39/141 (27%), Positives = 70/141 (49%)

Query:   175 EVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPI 234
             E    + KKE++  +   +  + +  +  QV+++F D+NL     L   I K  +GYV I
Sbjct:    15 EEESTEQKKEREKKKRSRVK-QVLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYVDI 73

Query:   235 STVASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAE 294
             S + SF K+K + +    +A             +G +I+R+ PL E   +++ SR V  E
Sbjct:    74 SLLVSFNKMKKLTTDGKLIARAVKSSSVVELDLEGTRIRRRRPLGERP-KDVDSRTVYVE 132

Query:   295 NLPEDHCHQNLMKIFSAVGSV 315
              LP++  H  + ++F   G+V
Sbjct:   133 LLPKNVNHSWIERVFGKCGNV 153

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|E1BQG3 LARP7 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 156 (60.0 bits), Expect = 1.0e-10, Sum P(2) = 1.0e-10
 Identities = 39/141 (27%), Positives = 70/141 (49%)

Query:   175 EVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPI 234
             E    + KKE++  +   +  + +  +  QV+++F D+NL     L   I K  +GYV I
Sbjct:    15 EEESTEQKKEREKKKRSRVK-QVLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYVDI 73

Query:   235 STVASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAE 294
             S + SF K+K + +    +A             +G +I+R+ PL E   +++ SR V  E
Sbjct:    74 SLLVSFNKMKKLTTDGKLIARAVKSSSVVELDLEGTRIRRRRPLGERP-KDVDSRTVYVE 132

Query:   295 NLPEDHCHQNLMKIFSAVGSV 315
              LP++  H  + ++F   G+V
Sbjct:   133 LLPKNVNHSWIERVFGKCGNV 153

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

RGD|1592474 Larp7 "La ribonucleoprotein domain family, member 7" [Rattus norvegicus (taxid:10116)]

 Score = 157 (60.3 bits), Expect = 2.7e-10, Sum P(2) = 2.7e-10
 Identities = 43/147 (29%), Positives = 70/147 (47%)

Query:   169 EDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDP 228
             E+Q+  E    K K+EKK         + +  +  QV+++F D NL     L   I K  
Sbjct:     4 ENQKTMEESTEKRKEEKKKRSRV---KQVLADIAKQVDFWFGDANLHKDRFLREQIEKSR 60

Query:   229 EGYVPISTVASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQS 288
             +GYV IS + SF K+K + +    +A             +G +I+R+ PL E   +E + 
Sbjct:    61 DGYVDISLLVSFNKMKKLTTDGKLIARALKSSSVVELDLEGTRIRRKKPLGERPKDE-EE 119

Query:   289 RIVVAENLPEDHCHQNLMKIFSAVGSV 315
             R V  E LP++  H  + ++F   G+V
Sbjct:   120 RTVYVELLPKNVTHSWIERVFGKCGNV 146

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005654 "nucleoplasm" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0035562 "negative regulation of chromatin binding" evidence=ISO

GO:0036093 "germ cell proliferation" evidence=ISO

GO:1900087 "positive regulation of G1/S transition of mitotic cell cycle" evidence=ISO

UNIPROTKB|Q5XI01 Larp7 "La-related protein 7" [Rattus norvegicus (taxid:10116)]

 Score = 157 (60.3 bits), Expect = 2.7e-10, Sum P(2) = 2.7e-10
 Identities = 43/147 (29%), Positives = 70/147 (47%)

Query:   169 EDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDP 228
             E+Q+  E    K K+EKK         + +  +  QV+++F D NL     L   I K  
Sbjct:     4 ENQKTMEESTEKRKEEKKKRSRV---KQVLADIAKQVDFWFGDANLHKDRFLREQIEKSR 60

Query:   229 EGYVPISTVASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQS 288
             +GYV IS + SF K+K + +    +A             +G +I+R+ PL E   +E + 
Sbjct:    61 DGYVDISLLVSFNKMKKLTTDGKLIARALKSSSVVELDLEGTRIRRKKPLGERPKDE-EE 119

Query:   289 RIVVAENLPEDHCHQNLMKIFSAVGSV 315
             R V  E LP++  H  + ++F   G+V
Sbjct:   120 RTVYVELLPKNVTHSWIERVFGKCGNV 146

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-030131-6896 larp7 "La ribonucleoprotein domain family, member 7" [Danio rerio (taxid:7955)]

 Score = 153 (58.9 bits), Expect = 3.4e-10, Sum P(2) = 3.4e-10
 Identities = 39/138 (28%), Positives = 73/138 (52%)

Query:   181 DKKEKKDHQHGGLN--DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDP-EGYVPISTV 237
             D  EKKD++    +   + +  V  QVE++F D+NL   D  ++ I++   +GY+ I+ +
Sbjct:    24 DLSEKKDNEKKKRSRVKQLLSDVKKQVEFWFGDVNLHK-DRFMKSIIEQSRDGYIDIAVL 82

Query:   238 ASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAENLP 297
              +F ++K + +    +A            ++G +I+R+ PL E+  +++ SR V  E LP
Sbjct:    83 TTFNRMKNLTADVKLIARALKNSTIVEVNDEGTRIRRKEPLGETP-KDVDSRTVYVELLP 141

Query:   298 EDHCHQNLMKIFSAVGSV 315
             +   H  L ++FS  G V
Sbjct:   142 KTVTHIWLERVFSKCGHV 159

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

MGI|MGI:107634 Larp7 "La ribonucleoprotein domain family, member 7" [Mus musculus (taxid:10090)]

 Score = 155 (59.6 bits), Expect = 4.9e-10, Sum P(2) = 4.9e-10
 Identities = 43/147 (29%), Positives = 70/147 (47%)

Query:   169 EDQQEGEVPGVKDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDP 228
             E+Q+  E    K K+EKK         + +  +  QV+++F D NL     L   I K  
Sbjct:     4 ENQKTME-ESTKRKEEKKKRSRV---KQVLADIAKQVDFWFGDANLHKDKFLREQIEKSR 59

Query:   229 EGYVPISTVASFKKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQS 288
             +GYV IS + SF K+K + +    +A             +G +I+R+ PL E   +E + 
Sbjct:    60 DGYVDISLLVSFNKMKKLTTDGKLIARALKSSSVVELDLEGTRIRRKKPLGERPKDE-EE 118

Query:   289 RIVVAENLPEDHCHQNLMKIFSAVGSV 315
             R V  E LP++  H  + ++F   G+V
Sbjct:   119 RTVYVELLPKNVTHSWIERVFGKCGNV 145

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IGI

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0035562 "negative regulation of chromatin binding" evidence=IGI

GO:0036093 "germ cell proliferation" evidence=IMP

GO:1900087 "positive regulation of G1/S transition of mitotic cell cycle" evidence=IMP

UNIPROTKB|D6RFF0 LARP7 "La-related protein 7" [Homo sapiens (taxid:9606)]

 Score = 146 (56.5 bits), Expect = 6.9e-10, Sum P(2) = 6.9e-10
 Identities = 37/135 (27%), Positives = 65/135 (48%)

Query:   181 DKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASF 240
             +KK++ + +      + +  +  QV+++F D NL     L   I K  +GYV IS + SF
Sbjct:    18 EKKKEVEKKKRSRVKQVLADIAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSF 77

Query:   241 KKIKAIISSHSHLAXXXXXXXXXXXXEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDH 300
              K+K + +    +A             +G +I+R+ PL E   +E   R V  E LP++ 
Sbjct:    78 NKMKKLTTDGKLIARALRSSAVVELDLEGTRIRRKKPLGERPKDE-DERTVYVELLPKNV 136

Query:   301 CHQNLMKIFSAVGSV 315
              H  + ++F   G+V
Sbjct:   137 NHSWIERVFGKCGNV 151

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" 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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	401
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	3e-34
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	7e-32
cd12288	93	cd12288, RRM_La_like_plant, RNA recognition motif	3e-31
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	1e-21
pfam05383	59	pfam05383, La, La domain	4e-21
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	4e-20
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	1e-18
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	1e-14
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	5e-10
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	1e-09
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	1e-09
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	1e-08
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	1e-06
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	4e-06
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	5e-06
cd08035	75	cd08035, LARP_4, La RNA-binding domain of La-relat	1e-05
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-05
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	2e-05
PRK10019	279	PRK10019, PRK10019, nickel/cobalt efflux protein R	4e-05
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	4e-05
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	5e-05
smart00360	73	smart00360, RRM, RNA recognition motif	5e-05
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	6e-05
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	8e-05
pfam04684	508	pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorga	1e-04
cd12365	73	cd12365, RRM_RNPS1, RNA recognition motif in RNA-b	1e-04
PLN02983	274	PLN02983, PLN02983, biotin carboxyl carrier protei	1e-04
cd12290	80	cd12290, RRM1_LARP7, RNA recognition motif 1 in La	2e-04
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	3e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	8e-04
pfam04652	315	pfam04652, DUF605, Vta1 like	8e-04
PRK10019	279	PRK10019, PRK10019, nickel/cobalt efflux protein R	0.001
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	0.001
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	0.001
cd08036	75	cd08036, LARP_5, La RNA-binding domain of La-relat	0.001
PRK07764	824	PRK07764, PRK07764, DNA polymerase III subunits ga	0.001
pfam04592	238	pfam04592, SelP_N, Selenoprotein P, N terminal reg	0.001
cd12241	77	cd12241, RRM_SF3B14, RNA recognition motif found i	0.001
pfam13388	422	pfam13388, DUF4106, Protein of unknown function (D	0.002
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	0.002
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	0.002
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	0.002
cd12362	73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	0.003

>gnl|CDD|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6

 Score =  121 bits (306), Expect = 3e-34
 Identities = 43/77 (55%), Positives = 58/77 (75%)

Query: 198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVL 257
           IQK++ QVEYYFSD NL     L++ + ++ EGYVPI  +ASFKK+KA+      +A+ L
Sbjct: 1   IQKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAAL 60

Query: 258 RKSSKLVVSEDGKKIKR 274
           R+SSKLVVSEDGKK++R
Sbjct: 61  RRSSKLVVSEDGKKVRR 77

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 77

>gnl|CDD|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function

 Score =  115 bits (290), Expect = 7e-32
 Identities = 39/81 (48%), Positives = 56/81 (69%), Gaps = 1/81 (1%)

Query: 195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
           +E  QK+  QVEYYFSD NL     L + + K+ +GYVPIST+ASFK++K++ +  + + 
Sbjct: 1   EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKN-DGYVPISTIASFKRVKSLTTDVNLIV 59

Query: 255 SVLRKSSKLVVSEDGKKIKRQ 275
             LR S KL VSEDG K++R+
Sbjct: 60  EALRSSPKLEVSEDGLKVRRR 80

Length = 80

>gnl|CDD|240734 cd12288, RRM_La_like_plant, RNA recognition motif in plant proteins related to the La autoantigen

 Score =  114 bits (286), Expect = 3e-31
 Identities = 46/79 (58%), Positives = 54/79 (68%), Gaps = 2/79 (2%)

Query: 289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKL 348
           R VVAENLPEDH  +NL +IF  VGSVK +R C P   G G+++    AK    L SNKL
Sbjct: 1   RTVVAENLPEDHSIENLEEIFGTVGSVKNVRICDPGRVGSGSTAS--KAKKPDTLVSNKL 58

Query: 349 HAFVEYESVELAEKAVSHL 367
           HA VEYE+VE AEKAV+ L
Sbjct: 59  HALVEYETVEAAEKAVTEL 77

This subfamily corresponds to the RRM of plant La-like proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Members in this family contain an LAM domain followed by an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 93

>gnl|CDD|153396 cd07323, LAM, LA motif RNA-binding domain

 Score = 88.0 bits (219), Expect = 1e-21
 Identities = 32/77 (41%), Positives = 48/77 (62%), Gaps = 2/77 (2%)

Query: 198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVL 257
           ++K+  QVEYYFSD NL     L   +  D +G+VP+S +ASF ++K + +    +   L
Sbjct: 1   LEKIKKQVEYYFSDENLCKDRFLRSLM--DDDGWVPLSLLASFNRVKKLTTDVELILEAL 58

Query: 258 RKSSKLVVSEDGKKIKR 274
           R SS + VSEDG K++R
Sbjct: 59  RDSSVVEVSEDGTKVRR 75

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|203243 pfam05383, La, La domain

 Score = 85.7 bits (213), Expect = 4e-21
 Identities = 30/60 (50%), Positives = 39/60 (65%), Gaps = 1/60 (1%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QVEYYFSD NL     L + + KDP GYVPIST+ASFK+IK + +  + +   LR S
Sbjct: 1   IKKQVEYYFSDENLPRDKFLRKQMDKDP-GYVPISTIASFKRIKKLTTDVNLIVEALRSS 59

This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain. Length = 59

>gnl|CDD|153398 cd08029, LA_like_fungal, La-motif domain of fungal proteins similar to the La autoantigen

 Score = 83.5 bits (207), Expect = 4e-20
 Identities = 30/75 (40%), Positives = 43/75 (57%), Gaps = 1/75 (1%)

Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRK 259
           ++  QVE+YFSD NL T   L         G+VPI T+ASFK+++        +   LR+
Sbjct: 3   EIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRR-FQPLEAVVEALRE 61

Query: 260 SSKLVVSEDGKKIKR 274
           S  L VSEDG+ ++R
Sbjct: 62  SELLEVSEDGENVRR 76

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 76

>gnl|CDD|153399 cd08030, LA_like_plant, La-motif domain of plant proteins similar to the La autoantigen

 Score = 79.7 bits (197), Expect = 1e-18
 Identities = 32/88 (36%), Positives = 51/88 (57%), Gaps = 12/88 (13%)

Query: 199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHS------- 251
           +KVL QVE+YFSD NL   D L+  + +DP+G V ++ + SF ++++++           
Sbjct: 3   EKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVP 62

Query: 252 -----HLASVLRKSSKLVVSEDGKKIKR 274
                 +A  LR S+ L VSEDGK++ R
Sbjct: 63  EDTLKAVAEALRTSTLLKVSEDGKRVGR 90

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 90

>gnl|CDD|153397 cd08028, LARP_3, La RNA-binding domain of La-related protein 3

 Score = 68.5 bits (168), Expect = 1e-14
 Identities = 32/82 (39%), Positives = 50/82 (60%), Gaps = 3/82 (3%)

Query: 195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
           D+  +K++ Q+EYYF D NL     L   I +D +G+VP+  +  F ++K++ S    +A
Sbjct: 2   DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKED-DGWVPMEVMLKFNRLKSLSSDPEVIA 60

Query: 255 SVLRKS-SKLV-VSEDGKKIKR 274
             L+KS S L+ VSED  KI+R
Sbjct: 61  KALKKSKSGLIEVSEDKTKIRR 82

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B). Length = 82

>gnl|CDD|153400 cd08031, LARP_4_5_like, La RNA-binding domain of proteins similar to La-related proteins 4 and 5

 Score = 55.1 bits (133), Expect = 5e-10
 Identities = 28/71 (39%), Positives = 43/71 (60%), Gaps = 2/71 (2%)

Query: 203 NQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSK 262
            Q+EYYFS  NLA   +L+  +  D + YVPI T+A+F KIK + +    +   LR+S  
Sbjct: 6   RQLEYYFSRENLANDAYLLSQM--DSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPN 63

Query: 263 LVVSEDGKKIK 273
           + V E G+K++
Sbjct: 64  VQVDEKGEKVR 74

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153401 cd08032, LARP_7, La RNA-binding domain of La-related protein 7

 Score = 54.2 bits (130), Expect = 1e-09
 Identities = 24/74 (32%), Positives = 43/74 (58%)

Query: 201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS 260
           +  QV+++F D+NL     L   I K  +GY+ IS + SF K+K + +    +A  L+ S
Sbjct: 9   IAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNS 68

Query: 261 SKLVVSEDGKKIKR 274
           S + ++ +G +I+R
Sbjct: 69  SVVELNLEGTRIRR 82

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation. Length = 82

>gnl|CDD|153403 cd08034, LARP_1_2, La RNA-binding domain proteins similar to La-related proteins 1 and 2

 Score = 53.6 bits (129), Expect = 1e-09
 Identities = 26/73 (35%), Positives = 46/73 (63%), Gaps = 5/73 (6%)

Query: 196 ESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLAS 255
           E I+K   Q+EYYFS  NL   D  +R  + DPEGY+PI+ +ASF +++A+ +  + +  
Sbjct: 2   EYIKK---QIEYYFSVDNL-EKDFFLRRKM-DPEGYLPIALIASFHRVQALTTDVNLILE 56

Query: 256 VLRKSSKLVVSED 268
            L+ S+ + + ++
Sbjct: 57  ALKDSTVVELVDE 69

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 56.3 bits (136), Expect = 1e-08
 Identities = 28/123 (22%), Positives = 36/123 (29%), Gaps = 3/123 (2%)

Query: 35  SSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHP---P 91
             F    ++AP   P       Q  P  Q Q     Q++  PPP PP      P P   P
Sbjct: 217 QQFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPPQPPQQQQQPPQPQAQP 276

Query: 92  PPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRH 151
           PP      H   P G  A    P   Q+      P       Q ++     +        
Sbjct: 277 PPQNQPTPHPGLPQGQNAPLPPPQQPQLLPLVQQPQGQQRGPQFREQLVQLSQQQREALS 336

Query: 152 QNH 154
           Q  
Sbjct: 337 QEE 339

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|153406 cd08037, LARP_1, La RNA-binding domain of La-related protein 1

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 25/67 (37%), Positives = 41/67 (61%), Gaps = 3/67 (4%)

Query: 204 QVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKL 263
           Q+EYYFS  NL   D  +R  + D +G++P++ +ASF +++A+ +  S +   L K SK+
Sbjct: 7   QIEYYFSVDNL-ERDFFLRRKM-DEDGFLPVTLIASFHRVQALTTDISLIIKAL-KDSKV 63

Query: 264 VVSEDGK 270
           V   D K
Sbjct: 64  VEIIDMK 70

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 48.6 bits (116), Expect = 4e-06
 Identities = 27/161 (16%), Positives = 35/161 (21%), Gaps = 14/161 (8%)

Query: 45  PEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVH----------PHPPPPH 94
           P   P       +     Q            P PP                     PPP 
Sbjct: 200 PPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPP 259

Query: 95  PPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNH--NHHHHRHQ 152
           P  P     P    A    P +    H      QN      QQ Q            R  
Sbjct: 260 PQPPQQQQQPPQPQAQPP-PQNQPTPHPGLPQGQNAPLPPPQQPQLLPLVQQPQGQQRGP 318

Query: 153 NHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKKDHQHGGL 193
                      Q  +   Q+E +    + K      ++ GL
Sbjct: 319 QFREQLVQLSQQQREALSQEEAKRAKRRHKIVSLS-KYNGL 358

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

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

 Score = 43.8 bits (104), Expect = 5e-06
 Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 18/74 (24%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           NLP D   ++L ++FS  G ++++R  + +   G                 +K  AFVE+
Sbjct: 5   NLPPDTTEEDLRELFSKFGEIESVR--IVRDKDG----------------KSKGFAFVEF 46

Query: 355 ESVELAEKAVSHLH 368
           ES E AEKA+  L+
Sbjct: 47  ESPEDAEKALEALN 60

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|153404 cd08035, LARP_4, La RNA-binding domain of La-related protein 4

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 27/78 (34%), Positives = 45/78 (57%), Gaps = 5/78 (6%)

Query: 196 ESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLAS 255
           E ++K   Q+E+ FS  NL+   +LI  +  D + +VPI TVA+ + IK + +    +  
Sbjct: 2   ECLKK---QLEFCFSRENLSKDLYLISQM--DSDQFVPIWTVANMEGIKKLTTDMDLILD 56

Query: 256 VLRKSSKLVVSEDGKKIK 273
           VLR S  + V E G+K++
Sbjct: 57  VLRSSPMVQVDETGEKVR 74

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

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

 Score = 42.6 bits (101), Expect = 1e-05
 Identities = 25/77 (32%), Positives = 35/77 (45%), Gaps = 18/77 (23%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           NLP D   ++L  +FS  G +++IR    +T   G S G                AFVE+
Sbjct: 5   NLPPDTTEEDLKDLFSKFGPIESIRIVRDET---GRSKG---------------FAFVEF 46

Query: 355 ESVELAEKAVSHLHFMI 371
           E  E AEKA+  L+   
Sbjct: 47  EDEEDAEKALEALNGKE 63

(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|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 23/71 (32%), Positives = 45/71 (63%), Gaps = 4/71 (5%)

Query: 204 QVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKL 263
           Q+EYYFS  NL   D  +R  + D +G++PIS +A F +++A+ ++   +   L+ S+++
Sbjct: 7   QIEYYFSTENLER-DFFLRRKM-DLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEV 64

Query: 264 VVSEDGKKIKR 274
            + +  +KI+R
Sbjct: 65  EIVD--QKIRR 73

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|236641 PRK10019, PRK10019, nickel/cobalt efflux protein RcnA; Provisional

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 1/43 (2%)

Query: 131 HHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQE 173
            +  H  H H  +H+H HH H + HH+++       +Y+D  E
Sbjct: 118 ENMHHHDHDHDHDHDHEHH-HDHGHHHHHEHGATAEEYQDAHE 159

Length = 279

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

 Score = 41.1 bits (97), Expect = 4e-05
 Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 17/73 (23%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           N+P D   + L++IFS VG V + R    + +G          K +G         F E+
Sbjct: 5   NIPYDATEEQLIEIFSEVGPVVSFRLVTDRDTG----------KPKGY-------GFCEF 47

Query: 355 ESVELAEKAVSHL 367
           E +E A  A+ +L
Sbjct: 48  EDIETAASAIRNL 60

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

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 45.1 bits (107), Expect = 5e-05
 Identities = 27/167 (16%), Positives = 40/167 (23%), Gaps = 17/167 (10%)

Query: 14  SSNDQSQSSPSSSSDPSL-SRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQ--VQQPP 70
            ++   +  P    DPSL            +APE  P      T ++  + ++    Q  
Sbjct: 108 EASTDPEYIPDLQPDPSLWGTAPKPEPQPPQAPESQP---QPQTPAQKMLSLEEVEAQLQ 164

Query: 71  QRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNY 130
           QR   P  P P   ++    PP     P    P          P  +    Q     +  
Sbjct: 165 QRQQAPQLPQPPQQVLPQGMPPRQAAFPQQGPPE--------QPPGYPQPPQG--HPEQV 214

Query: 131 HHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVP 177
             QQ                             Q      Q     P
Sbjct: 215 QPQQFLPAPSQAPAQPPLPPQLPQQPPPLQ-QPQFPGLSQQMPPPPP 260

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

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

 Score = 41.0 bits (97), Expect = 5e-05
 Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 18/80 (22%)

Query: 289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKL 348
            + V  NLP D   + L ++FS  G V+++R    + +G          KS+G       
Sbjct: 1   TLFVG-NLPPDTTEEELRELFSKFGKVESVRLVRDKETG----------KSKGF------ 43

Query: 349 HAFVEYESVELAEKAVSHLH 368
            AFVE+ES E AEKA+  L+
Sbjct: 44  -AFVEFESEEDAEKALEALN 62

Length = 73

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 45.3 bits (107), Expect = 6e-05
 Identities = 26/85 (30%), Positives = 33/85 (38%), Gaps = 9/85 (10%)

Query: 22   SPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPP--P 79
            S S ++ P+        RL   A         +ST+S      Q ++PPQ    PPP   
Sbjct: 2868 SRSPAAKPAAPARPPVRRLARPAV-------SRSTESFALPPDQPERPPQPQAPPPPQPQ 2920

Query: 80   PPAAAMVHPHPPPPHPPSPHHVYPP 104
            P       P PPPP PP P     P
Sbjct: 2921 PQPPPPPQPQPPPPPPPRPQPPLAP 2945

Length = 3151

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

 Score = 40.2 bits (95), Expect = 8e-05
 Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 19/82 (23%)

Query: 291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHA 350
           +   NLP     ++L + FS  G V+ +R    +    G                    A
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRG-------------------FA 41

Query: 351 FVEYESVELAEKAVSHLHFMIM 372
           FVE+ S E AE A+  L+ +++
Sbjct: 42  FVEFASPEDAEAALKKLNGLVL 63

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

>gnl|CDD|113452 pfam04684, BAF1_ABF1, BAF1 / ABF1 chromatin reorganising factor

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 3/59 (5%)

Query: 116 HHQMHHQHHVPVQNYH-HQQHQQHQHHRNHNHHHHRHQNHHHNNNNSH--HQNNQYEDQ 171
           HHQ  H HH  +  +H HQ  + HQH   H+H H +    H   +  H  + ++ Y+D+
Sbjct: 291 HHQHQHHHHPSIPAHHQHQLPEGHQHDHQHHHQHQQQDLQHQEQHQQHVDNDHHVYQDR 349

ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication. ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 S. cerevisiae). The N-terminal two thirds of the protein are necessary for DNA binding, and the N-terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure. Length = 508

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

 Score = 39.8 bits (94), Expect = 1e-04
 Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 21/74 (28%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           N+ +DH    L +IFS  G+VK +   LP                +  +   + +A+VE+
Sbjct: 9   NVNKDH----LKEIFSNYGTVKDVD--LP---------------IDREVNLPRGYAYVEF 47

Query: 355 ESVELAEKAVSHLH 368
           ES E AEKA+ H+ 
Sbjct: 48  ESPEDAEKAIKHMD 61

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

>gnl|CDD|215533 PLN02983, PLN02983, biotin carboxyl carrier protein of acetyl-CoA carboxylase

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 19/55 (34%), Positives = 22/55 (40%)

Query: 57  QSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFH 111
           Q  P   V + QPP    MPP  PPAA      P    PP+P    P     + H
Sbjct: 143 QPPPPAPVVMMQPPPPHAMPPASPPAAQPAPSAPASSPPPTPASPPPAKAPKSSH 197

Length = 274

>gnl|CDD|240736 cd12290, RRM1_LARP7, RNA recognition motif 1 in La-related protein 7 (LARP7) and similar proteins

 Score = 39.3 bits (92), Expect = 2e-04
 Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 17/77 (22%)

Query: 291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHA 350
           V  E LP++  H+ L  +FS  G+V  +   LP+    G                 K  A
Sbjct: 2   VYVECLPKNATHEWLKAVFSKYGTVVYVS--LPRYKHTG---------------DIKGFA 44

Query: 351 FVEYESVELAEKAVSHL 367
           F+E+E+ E A+KA  HL
Sbjct: 45  FIEFETPEEAQKACKHL 61

This subfamily corresponds to the RRM1 of LARP7, also termed La ribonucleoprotein domain family member 7, or P-TEFb-interaction protein for 7SK stability (PIP7S), an oligopyrimidine-binding protein that binds to the highly conserved 3'-terminal U-rich stretch (3' -UUU-OH) of 7SK RNA. LARP7 is a stable component of the 7SK small nuclear ribonucleoprotein (7SK snRNP). It intimately associates with all the nuclear 7SK and is required for 7SK stability. LARP7 also acts as a negative transcriptional regulator of cellular and viral polymerase II genes, acting by means of the 7SK snRNP system. It plays an essential role in the inhibition of positive transcription elongation factor b (P-TEFb)-dependent transcription, which has been linked to the global control of cell growth and tumorigenesis. LARP7 contains a La motif (LAM) and an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), at the N-terminal region, which mediates binding to the U-rich 3' terminus of 7SK RNA. LARP7 also carries another putative RRM domain at its C-terminus. . Length = 80

>gnl|CDD|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

 Score = 42.3 bits (99), Expect = 3e-04
 Identities = 24/126 (19%), Positives = 46/126 (36%), Gaps = 14/126 (11%)

Query: 132 HQQHQQHQHHRNHNHHHH----RHQNHHHNNNNS---HHQNNQYEDQQ-----EGEVPGV 179
            +Q +  +     ++H      R++    N N       +   + + Q            
Sbjct: 193 PEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNNGFYRNKKY 252

Query: 180 KDKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVAS 239
            +  E   +        SI     Q+EYYFS+ NL  +D  +R   K   G++P+S +  
Sbjct: 253 PNDPETVYYYSVEPILLSIMAKKEQIEYYFSEENL-KSDEFLRKKFKK-AGFIPLSFIGK 310

Query: 240 FKKIKA 245
           F +  +
Sbjct: 311 FYRNLS 316

Length = 438

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 41.5 bits (97), Expect = 8e-04
 Identities = 25/90 (27%), Positives = 31/90 (34%), Gaps = 11/90 (12%)

Query: 20   QSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPP 79
            +S P     P  S  +  SR         P   PQS   +P+  V  +  P+    P P 
Sbjct: 2566 RSVPPPRPAPRPSEPAVTSR------ARRPDAPPQSA--RPRAPVDDRGDPRGPAPPSPL 2617

Query: 80   PPAAAMVHPHPPPPHPPSPHHVYPPHGTGA 109
            PP     H   PPP  PSP    P      
Sbjct: 2618 PPDT---HAPDPPPPSPSPAANEPDPHPPP 2644

Length = 3151

>gnl|CDD|218191 pfam04652, DUF605, Vta1 like

 Score = 40.8 bits (96), Expect = 8e-04
 Identities = 25/128 (19%), Positives = 35/128 (27%), Gaps = 4/128 (3%)

Query: 14  SSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRV 73
                 +    +    + S NS     +A      P+  P S+   P      + P    
Sbjct: 150 PGPPLDEEDEDADVATTNSDNSFPG-EDADPASASPSDPPSSSPGVPSFPSPPEDPSS-- 206

Query: 74  MMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPV-QNYHH 132
                 PPA +      PPP P SP +  PP G  A    PV          P   +   
Sbjct: 207 PSDSSLPPAPSSFQSDTPPPSPESPTNPSPPPGPAAPPPPPVQQVPPLSTAKPTPPSASA 266

Query: 133 QQHQQHQH 140
                   
Sbjct: 267 TPAPIGGI 274

Vta1 (VPS20-associated protein 1) is a positive regulator of Vps4. Vps4 is an ATPase that is required in the multivesicular body (MVB) sorting pathway to dissociate the endosomal sorting complex required for transport (ESCRT). Vta1 promotes correct assembly of Vps4 and stimulates its ATPase activity through its conserved Vta1/SBP1/LIP5 region. Length = 315

>gnl|CDD|236641 PRK10019, PRK10019, nickel/cobalt efflux protein RcnA; Provisional

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 116 HHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSH 162
            +  HH H       H   H    HH + +HHHH H        ++H
Sbjct: 118 ENMHHHDHD------HDHDHDHEHHHDHGHHHHHEHGATAEEYQDAH 158

Length = 279

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 40.7 bits (95), Expect = 0.001
 Identities = 18/84 (21%), Positives = 27/84 (32%)

Query: 21   SSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPP 80
            + P++   P      S     + AP     R P S     +     + P +R+  P    
Sbjct: 2834 AQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSR 2893

Query: 81   PAAAMVHPHPPPPHPPSPHHVYPP 104
               +   P   P  PP P    PP
Sbjct: 2894 STESFALPPDQPERPPQPQAPPPP 2917

Length = 3151

>gnl|CDD|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

 Score = 40.4 bits (94), Expect = 0.001
 Identities = 31/119 (26%), Positives = 50/119 (42%), Gaps = 10/119 (8%)

Query: 181 DKKEKKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDP-------EGYVP 233
             K KK+ ++      + +  L QVE+YFS      ++      LK         + +VP
Sbjct: 55  SSKSKKEDKNPSKLTSNTKWTLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVP 114

Query: 234 ISTVASFKKIKAIISSHSHLASVLRKSSK---LVVSEDGKKIKRQNPLTESDLEELQSR 289
           I T+A+F ++K   S  S ++  LRKS     L VS  G    R   L  ++ +     
Sbjct: 115 IKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGSNKNRTEKLISNNNKSTSQM 173

Length = 438

>gnl|CDD|153405 cd08036, LARP_5, La RNA-binding domain of La-related protein 5

 Score = 37.3 bits (86), Expect = 0.001
 Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 5/78 (6%)

Query: 196 ESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLAS 255
           E ++K L   E+  S  NLA+  +LI  +  D + YVPI TVA+   IK + +    +  
Sbjct: 2   ELLKKTL---EFCLSRENLASDMYLISQM--DSDQYVPIMTVANLDHIKKLSTDVDLIVD 56

Query: 256 VLRKSSKLVVSEDGKKIK 273
           VLR    + V E G+K++
Sbjct: 57  VLRSLPLVQVDEKGEKVR 74

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 14/72 (19%), Positives = 15/72 (20%)

Query: 38  SRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPS 97
            RL        P     S  +                   P P AA    P P P   P 
Sbjct: 383 RRLGVAGGAGAPAAAAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPAPAPAPP 442

Query: 98  PHHVYPPHGTGA 109
                 P G   
Sbjct: 443 SPAGNAPAGGAP 454

Length = 824

>gnl|CDD|218163 pfam04592, SelP_N, Selenoprotein P, N terminal region

 Score = 39.5 bits (92), Expect = 0.001
 Identities = 16/52 (30%), Positives = 23/52 (44%)

Query: 126 PVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVP 177
           PV+    Q H  H  H  H  H H H + HH+  ++ H  +Q  D  +   P
Sbjct: 176 PVEAEPRQDHPHHHSHHEHQGHAHHHPHGHHHPGSNSHSESQQPDPDKPTEP 227

SelP is the only known eukaryotic selenoprotein that contains multiple selenocysteine (Sec) residues, and accounts for more than 50% of the selenium content of rat and human plasma. It is thought to be glycosylated. SelP may have antioxidant properties. It can attach to epithelial cells, and may protect vascular endothelial cells against peroxynitrite toxicity. The high selenium content of SelP suggests that it may be involved in selenium intercellular transport or storage. The promoter structure of bovine SelP suggest that it may be involved in countering heavy metal intoxication, and may also have a developmental function. The N-terminal region of SelP can exist independently of the C terminal region. Zebrafish selenoprotein Pb lacks the C terminal Sec-rich region, and a protein encoded by the rat SelP gene and lacking this region has also been reported. N-terminal region contains a conserved SecxxCys motif, which is similar to the CysxxCys found in thioredoxins. It is speculated that the N terminal region may adopt a thioredoxin fold and catalyze redox reactions. The N-terminal region also contains a His-rich region, which is thought to mediate heparin binding. Binding to heparan proteoglycans could account for the membrane binding properties of SelP. The function of the bacterial members of this family is uncharcterised. Length = 238

>gnl|CDD|240687 cd12241, RRM_SF3B14, RNA recognition motif found in pre-mRNA branch site protein p14 (SF3B14) and similar proteins

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 21/81 (25%), Positives = 31/81 (38%), Gaps = 22/81 (27%)

Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRT-CLPQTSGGGASSGSRSAKSEGMLFSN 346
           +RI+   NLP     + L  +F   G+++ IR     +T G                   
Sbjct: 2   NRILYVRNLPFKISSEELYDLFGKYGAIRQIRIGNTKETRGT------------------ 43

Query: 347 KLHAFVEYESVELAEKAVSHL 367
              AFV YE +  A+ A  HL
Sbjct: 44  ---AFVVYEDIYDAKNACDHL 61

This subfamily corresponds to the RRM of SF3B14 (also termed p14), a 14 kDa protein subunit of SF3B which is a multiprotein complex that is an integral part of the U2 small nuclear ribonucleoprotein (snRNP) and the U11/U12 di-snRNP. SF3B is essential for the accurate excision of introns from pre-messenger RNA and has been involved in the recognition of the pre-mRNA's branch site within the major and minor spliceosomes. SF3B14 associates directly with another SF3B subunit called SF3B155. It is also present in both U2- and U12-dependent spliceosomes and may contribute to branch site positioning in both the major and minor spliceosome. Moreover, SF3B14 interacts directly with the pre-mRNA branch adenosine early in spliceosome assembly and within the fully assembled spliceosome. SF3B14 contains one well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 77

>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106)

 Score = 40.0 bits (93), Expect = 0.002
 Identities = 19/80 (23%), Positives = 26/80 (32%), Gaps = 2/80 (2%)

Query: 23  PSSSSDPSLSRN--SSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPP 80
           P  +  P L +   SS    +  AP+       Q+   +P VQ   QQP Q+    P  P
Sbjct: 177 PREAPAPGLPKTFTSSHGHRHRHAPKPTQQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQP 236

Query: 81  PAAAMVHPHPPPPHPPSPHH 100
                       P      H
Sbjct: 237 AQQPTPQNPAQQPPQTEQGH 256

This family of proteins are found in large numbers in the Trichomonas vaginalis proteome. The function of this protein is unknown. Length = 422

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

 Score = 36.4 bits (85), Expect = 0.002
 Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 19/78 (24%)

Query: 289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCL-PQTSGGGASSGSRSAKSEGMLFSNK 347
           R V   NLP D   + L ++FS  G VK  R      T   G S G+             
Sbjct: 1   RTVFIRNLPFDATEEELKELFSQFGEVKYARIVKDKLT---GHSKGT------------- 44

Query: 348 LHAFVEYESVELAEKAVS 365
             AFV++++ E A+K + 
Sbjct: 45  --AFVKFKTKESAQKCLE 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|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 19/65 (29%), Positives = 21/65 (32%), Gaps = 3/65 (4%)

Query: 42  AKAPEFV-PTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPA--AAMVHPHPPPPHPPSP 98
           A AP  V PT  P +            + P R    PPP P    A   PH P   P   
Sbjct: 373 AAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPRPVAPPVPHTPESAPKLT 432

Query: 99  HHVYP 103
               P
Sbjct: 433 RAAIP 437

Length = 585

>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 15/64 (23%), Positives = 18/64 (28%), Gaps = 2/64 (3%)

Query: 42  AKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHV 101
           A AP       P    +          PP     PP P  A A   P   P   P+   +
Sbjct: 390 AAAPVAQAAAAPAPAAAPAAAASAPAAPPAAA--PPAPVAAPAAAAPAAAPAAAPAAVAL 447

Query: 102 YPPH 105
            P  
Sbjct: 448 APAP 451

Length = 618

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

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 16/79 (20%), Positives = 36/79 (45%), Gaps = 18/79 (22%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           +LP +   Q+L ++F+  G+V + +  + + +G                  +K   FV Y
Sbjct: 5   HLPNEFTDQDLYQLFAPFGNVISAKVFVDKNTG-----------------QSKCFGFVSY 47

Query: 355 ESVELAEKAVSHLH-FMIM 372
           ++ E A+ A+  ++ F + 
Sbjct: 48  DNPESAQAAIKAMNGFQVG 66

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	401
KOG1855	484	consensus Predicted RNA-binding protein [General f	100.0
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.92
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.92
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.91
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.91
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.91
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.9
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.9
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.9
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.89
KOG2591	684	consensus c-Mpl binding protein, contains La domai	99.89
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.88
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.87
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.87
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.87
KOG4213	205	consensus RNA-binding protein La [RNA processing a	99.82
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.79
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.46
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.42
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.38
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.33
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.31
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.24
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.24
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.23
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.22
KOG0122	270	consensus Translation initiation factor 3, subunit	99.16
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.15
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.14
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.13
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.12
PLN03120	260	nucleic acid binding protein; Provisional	99.1
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.1
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.1
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.1
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.09
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.07
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.06
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.05
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.05
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.04
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.02
smart00362	72	RRM_2 RNA recognition motif.	99.02
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.01
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.0
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.0
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.99
PLN03213	759	repressor of silencing 3; Provisional	98.99
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.98
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.97
PLN03121	243	nucleic acid binding protein; Provisional	98.96
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.95
smart00360	71	RRM RNA recognition motif.	98.94
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.93
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.91
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.88
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.87
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.87
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.83
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.8
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.72
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.69
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.65
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.65
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	98.64
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.62
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.61
smart00361	70	RRM_1 RNA recognition motif.	98.61
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.6
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.59
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.55
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.53
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	98.53
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	98.5
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.49
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.41
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.4
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.37
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.36
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.36
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.33
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.33
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.31
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.25
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.18
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.16
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.1
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.09
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.09
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.07
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.0
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.88
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.87
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.87
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.85
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	97.84
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.8
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	97.78
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.66
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.65
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.65
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.63
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	97.62
KOG0151	877	consensus Predicted splicing regulator, contains R	97.6
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.51
KOG1548	382	consensus Transcription elongation factor TAT-SF1	97.49
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	97.34
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.21
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.19
KOG0226	290	consensus RNA-binding proteins [General function p	97.17
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	96.99
KOG1457	284	consensus RNA binding protein (contains RRM repeat	96.91
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.85
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	96.85
KOG1548	382	consensus Transcription elongation factor TAT-SF1	96.39
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	96.28
KOG2314	698	consensus Translation initiation factor 3, subunit	96.28
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.83
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	95.81
KOG3152	278	consensus TBP-binding protein, activator of basal	95.66
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	95.6
KOG3671	569	consensus Actin regulatory protein (Wiskott-Aldric	95.58
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	95.4
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.08
KOG4210	285	consensus Nuclear localization sequence binding pr	94.8
KOG1995	351	consensus Conserved Zn-finger protein [General fun	94.78
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	94.78
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	94.75
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	94.68
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	94.67
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.44
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	94.34
PF07145	18	PAM2: Ataxin-2 C-terminal region; InterPro: IPR009	94.27
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	94.26
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	94.05
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	93.99
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	93.42
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	93.3
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	93.18
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	92.98
KOG2068	327	consensus MOT2 transcription factor [Transcription	92.96
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	92.92
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	92.52
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	92.44
KOG1819	990	consensus FYVE finger-containing proteins [General	91.51
KOG3671	569	consensus Actin regulatory protein (Wiskott-Aldric	91.18
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	89.5
KOG1923	830	consensus Rac1 GTPase effector FRL [Signal transdu	89.15
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	88.27
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	88.06
KOG1923	830	consensus Rac1 GTPase effector FRL [Signal transdu	88.03
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	87.51
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	87.21
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	86.75
KOG4660	549	consensus Protein Mei2, essential for commitment t	86.44
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	86.03
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	86.0
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	85.36
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	83.05
KOG1996	378	consensus mRNA splicing factor [RNA processing and	82.0
KOG1830	518	consensus Wiskott Aldrich syndrome proteins [Cytos	81.63
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	80.79
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	80.71

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

Probab=100.00  E-value=1.8e-43  Score=352.18  Aligned_cols=222  Identities=40%  Similarity=0.519  Sum_probs=190.3

Q ss_pred             CCCCCCCCCCCCCcccCcc-ccccccCCCCCcccccccc-------ccCCCCCChHHHHHHhhcccccccCCCcCcCHHH
Q 015730          149 HRHQNHHHNNNNSHHQNNQ-YEDQQEGEVPGVKDKKEKK-------DHQHGGLNDESIQKVLNQVEYYFSDLNLATTDHL  220 (401)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~-y~~~~~~~~~~~~~~~~~~-------~~~~~~~~~e~~~kI~~QvEfYFSd~NL~~D~fL  220 (401)
                      ..+++.+|.++|+|....+ .......+...+....++.       ..+...+++|+..+|.+||||||||+||.+|+||
T Consensus        84 n~~~~~~~~~~R~~~~~~q~~~v~~pqe~e~~~~p~de~~~~~~~s~dsk~~lsedl~~kIv~QVEyyFSDenL~~d~fL  163 (484)
T KOG1855|consen   84 NSPSLSDKRPVRGHGETKQEGGVEPPQEKEQEVKPHDEQDTKEIDSLDSKLILSEDLAAKIVDQVEYYFSDENLLKDAFL  163 (484)
T ss_pred             CCcccccceeccCCcchhhccCCCCccccccccCcchhcchhhcccccccccccHHHHHHHHHHhheeeccccccchHHH
Confidence            4566778888888888666 4333333333333334433       3457788999999999999999999999999999


Q ss_pred             HHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcc
Q 015730          221 IRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDH  300 (401)
Q Consensus       221 ~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~  300 (401)
                      +++|++|.+|||+|++|++|+|||+|+.++..++.||+.|.+|+|++||+||||..||++.+.+++.+|||+|.|||.|.
T Consensus       164 lkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgkKVrRisPlp~~~~eel~srtivaenLP~Dh  243 (484)
T KOG1855|consen  164 LKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGKKVRRISPLPEFDEEELPSRTIVAENLPLDH  243 (484)
T ss_pred             HHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCceeeecCCCCCccccccccceEEEecCCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999899999999999999999


Q ss_pred             cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          301 CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       301 t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      +.|.|++||+.||.|+.||||.|.    .++.+.|.....-.+..++-||+|||+..+.|.||.+.||....|.
T Consensus       244 ~~enl~kiFg~~G~IksIRIckPg----aip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e~~wr  313 (484)
T KOG1855|consen  244 SYENLSKIFGTVGSIKSIRICKPG----AIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPEQNWR  313 (484)
T ss_pred             HHHHHHHHhhcccceeeeeecCCC----CCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchhhhhh
Confidence            999999999999999999999884    4566777554433344568899999999999999999998877766

>cd08032 LARP_7 La RNA-binding domain of La-related protein 7

Probab=99.92  E-value=4e-26  Score=184.53  Aligned_cols=80  Identities=30%  Similarity=0.552  Sum_probs=77.7

Q ss_pred             hHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       195 ~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      .+++++|++||||||||+||++|.||+++|.++.+|||+|++|++|+||++++.+.+.|++||+.|..|||++||++|||
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR   82 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR   82 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence            57889999999999999999999999999988899999999999999999999999999999999999999999999998

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.

>cd08033 LARP_6 La RNA-binding domain of La-related protein 6

Probab=99.92  E-value=5.1e-26  Score=182.02  Aligned_cols=76  Identities=55%  Similarity=0.873  Sum_probs=74.5

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||.+|.||+++|.++++|||+|++|++|+|||+++.+.+.|++||+.|..|||++||++|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR   77 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR   77 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999998

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08035 LARP_4 La RNA-binding domain of La-related protein 4

Probab=99.91  E-value=2.9e-25  Score=176.10  Aligned_cols=74  Identities=34%  Similarity=0.482  Sum_probs=71.0

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||++|.||+++  |+.+|||||++|++|+||++++.|.+.|++||+.|..|+|++||++||.
T Consensus         2 e~i~~QvEyYFSd~NL~~D~fL~~~--md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVRp   75 (75)
T cd08035           2 ECLKKQLEFCFSRENLSKDLYLISQ--MDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVRP   75 (75)
T ss_pred             hHHHhhHHhhcCHhhcccCHHHHHh--hCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccCc
Confidence            6899999999999999999999998  5789999999999999999999999999999999999999999999983

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen

Probab=99.91  E-value=4.8e-25  Score=176.13  Aligned_cols=75  Identities=40%  Similarity=0.650  Sum_probs=72.3

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||.+|.||+++|.++.+|||+|++|++|+|||+++.+ +.|++||+.|..|||++||++|||
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR   76 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR   76 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence            589999999999999999999999999899999999999999999999865 999999999999999999999998

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08036 LARP_5 La RNA-binding domain of La-related protein 5

Probab=99.91  E-value=6.2e-25  Score=173.31  Aligned_cols=73  Identities=33%  Similarity=0.482  Sum_probs=70.5

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEeccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIK  273 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVR  273 (401)
                      +.|++||||||||+||.+|.||+++  |+.+|||||.+|++|+|||+++.|.+.|++||+.|..|+|+++|++||
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~--md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVR   74 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQ--MDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVR   74 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHH--hccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccC
Confidence            5799999999999999999999999  578999999999999999999999999999999999999999999998

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function

Probab=99.90  E-value=8.4e-25  Score=176.48  Aligned_cols=79  Identities=49%  Similarity=0.743  Sum_probs=76.3

Q ss_pred             HHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEeccccccccC
Q 015730          196 ESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQ  275 (401)
Q Consensus       196 e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRRk  275 (401)
                      ++.++|++||||||||+||.+|.||+++|..+ +|||+|++|++|+||++++.+.+.|++||+.|..|||++||++|||.
T Consensus         2 ~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~-~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR~   80 (80)
T smart00715        2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKN-DGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRRR   80 (80)
T ss_pred             hHHHHHHHHHHHHcCHhhhhhCHHHHHHhccC-CCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCcC
Confidence            67899999999999999999999999998877 99999999999999999999999999999999999999999999984

>cd08028 LARP_3 La RNA-binding domain of La-related protein 3

Probab=99.90  E-value=1e-24  Score=176.44  Aligned_cols=79  Identities=38%  Similarity=0.668  Sum_probs=75.6

Q ss_pred             hHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCc--ceEEecccccc
Q 015730          195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSS--KLVVSEDGKKI  272 (401)
Q Consensus       195 ~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~--~LEVsedg~kV  272 (401)
                      +++..+|++||||||||+||++|.||+++|..+ +|||+|++|++|+|||+++.+.+.|++||+.|.  .|||++||++|
T Consensus         2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~-~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~V   80 (82)
T cd08028           2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKED-DGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKI   80 (82)
T ss_pred             hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhcc-CCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCcc
Confidence            568899999999999999999999999998655 999999999999999999999999999999999  99999999999


Q ss_pred             cc
Q 015730          273 KR  274 (401)
Q Consensus       273 RR  274 (401)
                      ||
T Consensus        81 RR   82 (82)
T cd08028          81 RR   82 (82)
T ss_pred             CC
Confidence            98

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).

>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen

Probab=99.90  E-value=1.6e-24  Score=177.84  Aligned_cols=77  Identities=42%  Similarity=0.708  Sum_probs=73.4

Q ss_pred             HHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcC------------HHHHHHhhhcCcceEE
Q 015730          198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISS------------HSHLASVLRKSSKLVV  265 (401)
Q Consensus       198 ~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d------------~e~I~eALk~S~~LEV  265 (401)
                      .++|++||||||||.||.+|.||+++|.++.+|||+|++|++|+||++++.+            .+.|++||+.|..|||
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev   81 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV   81 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence            5799999999999999999999999999999999999999999999999853            6899999999999999


Q ss_pred             ecccccccc
Q 015730          266 SEDGKKIKR  274 (401)
Q Consensus       266 sedg~kVRR  274 (401)
                      ++||++|||
T Consensus        82 seD~~~VRR   90 (90)
T cd08030          82 SEDGKRVGR   90 (90)
T ss_pred             cCCCCccCC
Confidence            999999998

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5

Probab=99.89  E-value=3.9e-24  Score=170.37  Aligned_cols=74  Identities=38%  Similarity=0.624  Sum_probs=70.7

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||.+|.||+++|  +.+|||+|++|++|+||++++.+.+.|++||+.|..|||++||++||.
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m--~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR~   75 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQM--DSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVRP   75 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHh--CCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCc
Confidence            68999999999999999999999985  679999999999999999999999999999999999999999999983

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=99.89  E-value=1.9e-23  Score=214.16  Aligned_cols=161  Identities=26%  Similarity=0.362  Sum_probs=144.0

Q ss_pred             CCCCCChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecc
Q 015730          189 QHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSED  268 (401)
Q Consensus       189 ~~~~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsed  268 (401)
                      ....++.|+++.+++|||||||-+||..|.||+.+  ||+|.||+|.+|++|.+|++|+.|.++|+++|+.|..|+|+++
T Consensus        88 ~~~Pls~~~kq~lk~qlEy~fSreNlssD~YL~sQ--MDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDek  165 (684)
T KOG2591|consen   88 PSPPLSRDLKQLLKKQLEYYFSRENLSSDRYLISQ--MDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEK  165 (684)
T ss_pred             CCCccchhHHHHHHHHHHHhhccccccchhhhhhh--cccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccC
Confidence            33456778999999999999999999999999997  8999999999999999999999999999999999999999999


Q ss_pred             ccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhc--cCCeeEEEEecCCCCCCCCCCCCCcccccCccccC
Q 015730          269 GKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSA--VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSN  346 (401)
Q Consensus       269 g~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~--fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~  346 (401)
                      |.+||...          +.|+|++..||+++-+|+|+.||+.  |=++.++..                        +.
T Consensus       166 gekVrp~~----------kRcIvilREIpettp~e~Vk~lf~~encPk~iscef------------------------a~  211 (684)
T KOG2591|consen  166 GEKVRPNH----------KRCIVILREIPETTPIEVVKALFKGENCPKVISCEF------------------------AH  211 (684)
T ss_pred             ccccccCc----------ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeee------------------------ee
Confidence            99998764          3678899999999999999999986  444444443                        33


Q ss_pred             cceEEEEecCHHHHHHHHHHhcccccccccceEEEeecc
Q 015730          347 KLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       347 KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~~  385 (401)
                      ...|||+|++.+||++|++.|.+++..|.+|.+|+.||+
T Consensus       212 N~nWyITfesd~DAQqAykylreevk~fqgKpImARIKa  250 (684)
T KOG2591|consen  212 NDNWYITFESDTDAQQAYKYLREEVKTFQGKPIMARIKA  250 (684)
T ss_pred             cCceEEEeecchhHHHHHHHHHHHHHhhcCcchhhhhhh
Confidence            556999999999999999999999999999999999886

>cd08037 LARP_1 La RNA-binding domain of La-related protein 1

Probab=99.88  E-value=2.7e-23  Score=164.29  Aligned_cols=72  Identities=32%  Similarity=0.556  Sum_probs=67.7

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||++|.||+++|  +.+|||+|++|++|+||++++.+.+.|++||+.|..|||+++  +|||
T Consensus         2 ~~I~~QvEyYFSd~NL~~D~fLr~~m--d~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~--~~r~   73 (73)
T cd08037           2 DYIKRQIEYYFSVDNLERDFFLRRKM--DEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDM--KIRR   73 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHh--ccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecc--hhcC
Confidence            68999999999999999999999985  689999999999999999999999999999999999999976  5765

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08038 LARP_2 La RNA-binding domain of La-related protein 2

Probab=99.87  E-value=4e-23  Score=163.32  Aligned_cols=72  Identities=32%  Similarity=0.588  Sum_probs=67.6

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||++|.||+++|  +.+|||+|++|++|+||++++.|.+.|++||+.|..|||+++  +|||
T Consensus         2 e~I~~QvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~--~~r~   73 (73)
T cd08038           2 EYIKRQIEYYFSTENLERDFFLRRKM--DLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQ--KIRR   73 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHh--CCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCC--cccC
Confidence            68999999999999999999999985  789999999999999999999999999999999999999977  4664

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd07323 LAM LA motif RNA-binding domain

Probab=99.87  E-value=7.1e-23  Score=163.47  Aligned_cols=74  Identities=43%  Similarity=0.723  Sum_probs=71.7

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||.+|.||+++|  +++|||+|++|++|+||++++.+.+.|++||+.|..|+|++++++|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~--~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr   75 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLM--DDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR   75 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhc--CCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence            58999999999999999999999997  889999999999999999999999999999999999999999999987

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2

Probab=99.87  E-value=8.2e-23  Score=161.91  Aligned_cols=72  Identities=33%  Similarity=0.583  Sum_probs=68.0

Q ss_pred             HHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccccc
Q 015730          199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKR  274 (401)
Q Consensus       199 ~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRR  274 (401)
                      ++|++||||||||+||.+|.||+++  ++.+|||+|++|++|+||++++.+.+.|++||+.|..|||++  ++||+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fLr~~--m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e--~kvR~   73 (73)
T cd08034           2 EYIKKQIEYYFSVDNLEKDFFLRRK--MDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVD--EKVRC   73 (73)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHH--cCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEec--CeecC
Confidence            6899999999999999999999998  478999999999999999999999999999999999999998  46775

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>KOG4213 consensus RNA-binding protein La [RNA processing and modification]

Probab=99.82  E-value=1.8e-20  Score=169.60  Aligned_cols=155  Identities=26%  Similarity=0.349  Sum_probs=131.5

Q ss_pred             ChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCc--ceEEeccccc
Q 015730          194 NDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSS--KLVVSEDGKK  271 (401)
Q Consensus       194 ~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~--~LEVsedg~k  271 (401)
                      ..++.++|+.||||||+|.||++|+||+++|.+..+|||+|.++..|+|+..++.|...|++||+.|.  ++++++|.++
T Consensus        10 ~a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k   89 (205)
T KOG4213|consen   10 MAALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTK   89 (205)
T ss_pred             hhHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhh
Confidence            45667889999999999999999999999998889999999999999999999999999999999886  7899999999


Q ss_pred             cccCC--CCCc---chhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccC
Q 015730          272 IKRQN--PLTE---SDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSN  346 (401)
Q Consensus       272 VRRk~--Pl~e---~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~  346 (401)
                      +||..  ||++   ........|++|.+  +.+...++|..+-+  |++.+|.+++-..                .....
T Consensus        90 ~rr~~skplpEvt~e~~~~~~~r~v~~K--~td~ql~~l~qw~~--~k~~nv~mr~~~~----------------k~~~f  149 (205)
T KOG4213|consen   90 IRRSPSKPLPEVTDEYKEGIKERTVYKK--ITDDQLDDLNQWAS--GKGHNVKMRRHGN----------------KAHPF  149 (205)
T ss_pred             hhcCcCCCCccccHHHHHHHHHhhhhcc--CCHHHHHHHHHHhc--ccceEeeccccCC----------------CCCCC
Confidence            99964  7765   34566778999988  67777888888777  8999998864321                11234


Q ss_pred             cceEEEEecCHHHHHHHHHHhc
Q 015730          347 KLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       347 KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      +|..||.|.+.+.|..++++-.
T Consensus       150 kGsvkv~f~tk~qa~a~~~~~e  171 (205)
T KOG4213|consen  150 KGSVKVTFQTKEQAFANDDTHE  171 (205)
T ss_pred             CCceEEEeecHHHHHhhhhhhh
Confidence            8999999999999988887653

>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La

Probab=99.79  E-value=1.8e-20  Score=143.88  Aligned_cols=60  Identities=40%  Similarity=0.678  Sum_probs=55.1

Q ss_pred             HhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhh-cCHHHHHHhhhcC
Q 015730          201 VLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAII-SSHSHLASVLRKS  260 (401)
Q Consensus       201 I~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt-~d~e~I~eALk~S  260 (401)
                      |++||||||||+||.+|.||+++|..+++|||+|++|++|+||++++ .+.+.|.+||++|
T Consensus         1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S   61 (61)
T PF05383_consen    1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS   61 (61)
T ss_dssp             HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred             ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence            68999999999999999999999998889999999999999999999 8999999999986

The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.46  E-value=3.2e-13  Score=136.33  Aligned_cols=84  Identities=20%  Similarity=0.220  Sum_probs=69.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|+.|+|++++.++.                 .||||||+|++.++|++||+.
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~-----------------~kG~aFV~F~~~e~A~~Ai~~  254 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGT-----------------PRGVAFVRFNKREEAQEAISA  254 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCc-----------------cceEEEEEECCHHHHHHHHHH
Confidence            457899999999999999999999999999999987643321                 389999999999999999999


Q ss_pred             hcccccccccceEEEeecccC
Q 015730          367 LHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      ||+..+......+.+.+..+.
T Consensus       255 lng~~~~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       255 LNNVIPEGGSQPLTVRLAEEH  275 (346)
T ss_pred             hCCCccCCCceeEEEEECCcc
Confidence            999877665456666665443

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).

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=99.42  E-value=9.8e-14  Score=139.06  Aligned_cols=163  Identities=26%  Similarity=0.328  Sum_probs=132.6

Q ss_pred             cccCCCCCChHHHHH---------------Hhhccccccc-----CCCcCcCHHHHHhhccC--CCCceecccccchhhH
Q 015730          186 KDHQHGGLNDESIQK---------------VLNQVEYYFS-----DLNLATTDHLIRFILKD--PEGYVPISTVASFKKI  243 (401)
Q Consensus       186 ~~~~~~~~~~e~~~k---------------I~~QvEfYFS-----d~NL~~D~fL~~~i~~~--~eG~Vpi~~i~sFkKv  243 (401)
                      +.-..++++++.+.+               +..|+|||||     |.|+.+|+||+..-.++  .+|||+|.++++|++|
T Consensus        45 t~~~~eE~~~~sksKk~d~~ps~l~~~~kw~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~  124 (438)
T COG5193          45 TVIPVEELTESSKSKKEDKNPSKLTSNTKWTLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRM  124 (438)
T ss_pred             CCcchhhccchhhhcccccCccccccCccccccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccc
Confidence            334566677777777               9999999999     99999999999864332  4899999999999999


Q ss_pred             HhhhcCHHHHHHhhhcC---cceEEeccccccccCCCCCcchhh--hhhhhheeccCCCCcccH--------HHHHHHHh
Q 015730          244 KAIISSHSHLASVLRKS---SKLVVSEDGKKIKRQNPLTESDLE--ELQSRIVVAENLPEDHCH--------QNLMKIFS  310 (401)
Q Consensus       244 K~lt~d~e~I~eALk~S---~~LEVsedg~kVRRk~Pl~e~~~~--e~~~rtVyV~nLP~d~t~--------edL~~lFs  310 (401)
                      +..+...+.+..+|++|   .+++++.+|.+++|..++......  ....|.+|+.+|....+.        ++++..|.
T Consensus       125 k~~gs~~~~v~~a~rks~~~rv~e~Sssgsn~~r~~k~~s~n~~s~~~~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p  204 (438)
T COG5193         125 KNSGSPVSAVSGALRKSLDARVLEVSSSGSNKNRTEKLISNNNKSTSQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFP  204 (438)
T ss_pred             cccCCchhhhhhhhhcCcccceeeeccccccccccchhhhhhhhhhhhHhhhHHhhcCCcccccccccchhhhhHHhhCC
Confidence            99999999999999999   789999999998888766543322  344688999999876543        49999999


Q ss_pred             c--cCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          311 A--VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       311 ~--fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .  .|.+..|+++++-          +.     .  .++|..|++|.....|+++..
T Consensus       205 ~h~h~~~~~i~~rrd~----------~n-----k--n~~gSv~~efk~~~~~q~~nn  244 (438)
T COG5193         205 PHYHAPPSQIRNRRDW----------LN-----K--NFRGSVFVEFKYFREAQRFNN  244 (438)
T ss_pred             CcccCChhhccchhhh----------hh-----c--cccCcccccccChHHHHHHhc
Confidence            8  6788899987642          11     1  237889999999999999985

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

Probab=99.38  E-value=1.8e-12  Score=115.55  Aligned_cols=78  Identities=15%  Similarity=0.129  Sum_probs=65.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++|+++|+++|++||.|..|+|+.+..++.                 .+|||||+|++.|+|++|++.|
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~-----------------~kGfaFV~F~~~e~A~~Al~~l   96 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGR-----------------SRGFGFVNFNDEGAATAAISEM   96 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCC-----------------cceEEEEEECCHHHHHHHHHHc
Confidence            56899999999999999999999999999999987654322                 3899999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+...  .+.+.+.
T Consensus        97 ng~~i~Gr--~l~V~~a  111 (144)
T PLN03134         97 DGKELNGR--HIRVNPA  111 (144)
T ss_pred             CCCEECCE--EEEEEeC
Confidence            98766553  4444443

>PF00076 RRM_1: RNA recognition motif

Probab=99.33  E-value=2.8e-12  Score=97.51  Aligned_cols=66  Identities=35%  Similarity=0.398  Sum_probs=57.3

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+|||.++|+++|+++|+.||.|..+.+.... .          +       ..+|+|||+|++.++|++|++.|++.
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~-~----------~-------~~~~~a~V~F~~~~~a~~a~~~l~g~   62 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNS-S----------G-------KSKGYAFVEFESEEDAEKALEELNGK   62 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEET-T----------S-------SEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccc-c----------c-------cccceEEEEEcCHHHHHHHHHHcCCC
Confidence            7999999999999999999999999999997531 0          1       13899999999999999999999987


Q ss_pred             cccc
Q 015730          371 IMLF  374 (401)
Q Consensus       371 ~~~~  374 (401)
                      .+..
T Consensus        63 ~~~~   66 (70)
T PF00076_consen   63 KING   66 (70)
T ss_dssp             EETT
T ss_pred             EECc
Confidence            6554

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.31  E-value=4.1e-12  Score=126.50  Aligned_cols=81  Identities=20%  Similarity=0.200  Sum_probs=69.0

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|||.++++++|+++|++||.|.+|+|+++..++.                 .||||||+|++.++|.+|++.||
T Consensus       270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~-----------------skG~aFV~F~~~~~A~~Ai~~ln  332 (352)
T TIGR01661       270 YCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQ-----------------CKGYGFVSMTNYDEAAMAILSLN  332 (352)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCC-----------------ccceEEEEECCHHHHHHHHHHhC
Confidence            3699999999999999999999999999999998754332                 38999999999999999999999


Q ss_pred             ccccccccceEEEeecccCH
Q 015730          369 FMIMLFFFSAFCLMFVTQTN  388 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~~~  388 (401)
                      +..+..  ..+.+.|+..+.
T Consensus       333 G~~~~g--r~i~V~~~~~~~  350 (352)
T TIGR01661       333 GYTLGN--RVLQVSFKTNKA  350 (352)
T ss_pred             CCEECC--eEEEEEEccCCC
Confidence            977544  567777766553

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

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

Probab=99.24  E-value=3.7e-11  Score=128.74  Aligned_cols=70  Identities=14%  Similarity=0.258  Sum_probs=61.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++++++|+++|+.||.|++++|.++..++                 ..||||||+|++.++|.+|++.|
T Consensus       204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tg-----------------ksKGfGFVeFe~~e~A~kAI~am  266 (612)
T TIGR01645       204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGR-----------------GHKGYGFIEYNNLQSQSEAIASM  266 (612)
T ss_pred             cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCC-----------------CcCCeEEEEECCHHHHHHHHHHh
Confidence            4689999999999999999999999999999998764322                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       267 Ng~elgG  273 (612)
T TIGR01645       267 NLFDLGG  273 (612)
T ss_pred             CCCeeCC
Confidence            9886554

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=99.24  E-value=1.7e-11  Score=122.05  Aligned_cols=70  Identities=21%  Similarity=0.353  Sum_probs=61.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||.++|+++|+++|+.||.|..|+|++++.++.                 ++|||||+|++.++|++||+.|
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~-----------------s~g~afV~f~~~~~A~~Ai~~l   65 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQ-----------------SLGYGFVNYVRPEDAEKAVNSL   65 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCc-----------------cceEEEEEECcHHHHHHHHhhc
Confidence            46899999999999999999999999999999998754321                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        66 ~g~~l~g   72 (352)
T TIGR01661        66 NGLRLQN   72 (352)
T ss_pred             ccEEECC
Confidence            9876554

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.23  E-value=1.8e-11  Score=123.67  Aligned_cols=71  Identities=21%  Similarity=0.332  Sum_probs=62.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|+.|+|+++..+++                 .+|||||||+++++|++||++
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~-----------------srGyaFVeF~~~e~A~~Ai~~  168 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGY-----------------SFGYAFVDFGSEADSQRAIKN  168 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCc-----------------cCcEEEEEEccHHHHHHHHHH
Confidence            468999999999999999999999999999999987654322                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus       169 LnG~~l~g  176 (346)
T TIGR01659       169 LNGITVRN  176 (346)
T ss_pred             cCCCccCC
Confidence            98866544

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

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

Probab=99.22  E-value=4.6e-11  Score=127.03  Aligned_cols=89  Identities=21%  Similarity=0.336  Sum_probs=69.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+||+.++|+++|+++|+.||.|+.|+++++.+ +                 ..+|||||+|++.++|++|+++
T Consensus       284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~-g-----------------~~~g~gfV~f~~~~~A~~A~~~  345 (562)
T TIGR01628       284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEK-G-----------------VSRGFGFVCFSNPEEANRAVTE  345 (562)
T ss_pred             CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCC-C-----------------CcCCeEEEEeCCHHHHHHHHHH
Confidence            356799999999999999999999999999999987521 1                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeecccCHHHHHHHHH
Q 015730          367 LHFMIMLFFFSAFCLMFVTQTNEIRTSFLA  396 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~~e~R~~~~~  396 (401)
                      ||+..+.  ++.+.+.+.. .++.|+..+.
T Consensus       346 ~~g~~~~--gk~l~V~~a~-~k~~~~~~~~  372 (562)
T TIGR01628       346 MHGRMLG--GKPLYVALAQ-RKEQRRAHLQ  372 (562)
T ss_pred             hcCCeeC--CceeEEEecc-CcHHHHHHHH
Confidence            9985543  3566666554 4444444433

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

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

Probab=99.16  E-value=5.7e-11  Score=112.92  Aligned_cols=72  Identities=25%  Similarity=0.306  Sum_probs=66.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +..+|-|.||++++++++|+++|..||.|.+|.|.+++.+|.                 .||||||.|+++++|.+||+.
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~-----------------~kGFAFVtF~sRddA~rAI~~  250 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGL-----------------SKGFAFVTFESRDDAARAIAD  250 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCc-----------------ccceEEEEEecHHHHHHHHHH
Confidence            567899999999999999999999999999999999887654                 299999999999999999999


Q ss_pred             hcccccccc
Q 015730          367 LHFMIMLFF  375 (401)
Q Consensus       367 ln~~~~~~~  375 (401)
                      ||+.....+
T Consensus       251 LnG~gyd~L  259 (270)
T KOG0122|consen  251 LNGYGYDNL  259 (270)
T ss_pred             ccCcccceE
Confidence            999887775

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.15  E-value=1e-10  Score=90.02  Aligned_cols=64  Identities=31%  Similarity=0.437  Sum_probs=53.4

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+|||.+++.++|.++|+.||.|..|++.+.+. +                 ..+|+|||+|.+.++|++|++.+++.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~-----------------~~~~~a~v~f~~~~~a~~al~~~~~~   62 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-G-----------------QSRGFAFVEFSSEEDAKRALELLNGK   62 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-S-----------------SEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-c-----------------ccCCEEEEEeCCHHHHHHHHHHCCCc
Confidence            79999999999999999999999999999976432 1                 13899999999999999999998755


Q ss_pred             cc
Q 015730          371 IM  372 (401)
Q Consensus       371 ~~  372 (401)
                      .+
T Consensus        63 ~~   64 (70)
T PF14259_consen   63 EI   64 (70)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

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 ....

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

Probab=99.14  E-value=9.5e-11  Score=101.99  Aligned_cols=74  Identities=24%  Similarity=0.175  Sum_probs=64.4

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..+++||||+||.+.+++|.|-++|+++|.|..|-|-.++           .+|+      .+|||||||-+.++|+.|+
T Consensus        33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr-----------~kkt------pCGFCFVeyy~~~dA~~Al   95 (153)
T KOG0121|consen   33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDR-----------FKKT------PCGFCFVEYYSRDDAEDAL   95 (153)
T ss_pred             HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEecccc-----------CCcC------ccceEEEEEecchhHHHHH
Confidence            3457899999999999999999999999999999886553           3343      3999999999999999999


Q ss_pred             HHhcccccccc
Q 015730          365 SHLHFMIMLFF  375 (401)
Q Consensus       365 ~~ln~~~~~~~  375 (401)
                      +.+|+..+...
T Consensus        96 ryisgtrLddr  106 (153)
T KOG0121|consen   96 RYISGTRLDDR  106 (153)
T ss_pred             HHhccCccccc
Confidence            99999887763

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

Probab=99.13  E-value=2.3e-10  Score=116.38  Aligned_cols=151  Identities=23%  Similarity=0.237  Sum_probs=103.9

Q ss_pred             HHHHHhhccCCCCceecccccch-hhHHhhh----c--CHHHHHHhhhc--CcceEEeccccccccCCCCCcchhhhh-h
Q 015730          218 DHLIRFILKDPEGYVPISTVASF-KKIKAII----S--SHSHLASVLRK--SSKLVVSEDGKKIKRQNPLTESDLEEL-Q  287 (401)
Q Consensus       218 ~fL~~~i~~~~eG~Vpi~~i~sF-kKvK~lt----~--d~e~I~eALk~--S~~LEVsedg~kVRRk~Pl~e~~~~e~-~  287 (401)
                      +.+++.|++-.+|.|++-+..+= +|+|+..    +  +-..++.+-++  +..+.|....-.|....|..+.+.+.+ +
T Consensus       179 eeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~  258 (506)
T KOG0117|consen  179 EEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSK  258 (506)
T ss_pred             HHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhh
Confidence            35566678889999998887654 2443332    1  22222222222  335677766666776666655443322 3


Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      -+.|||+||+.++|+|.|+++|+.||.|++|..+                         +.||||.|.++++|.+|++++
T Consensus       259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~-------------------------rDYaFVHf~eR~davkAm~~~  313 (506)
T KOG0117|consen  259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP-------------------------RDYAFVHFAEREDAVKAMKET  313 (506)
T ss_pred             eeeeeeeccchhhhHHHHHHHHHhccceEEeecc-------------------------cceeEEeecchHHHHHHHHHh
Confidence            4579999999999999999999999999999763                         558999999999999999999


Q ss_pred             cccccccccceEEEee-cccCHHHHHH
Q 015730          368 HFMIMLFFFSAFCLMF-VTQTNEIRTS  393 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~-~~~~~e~R~~  393 (401)
                      |+..+.....+..... +.+++..|+.
T Consensus       314 ngkeldG~~iEvtLAKP~~k~k~~r~~  340 (506)
T KOG0117|consen  314 NGKELDGSPIEVTLAKPVDKKKKERKA  340 (506)
T ss_pred             cCceecCceEEEEecCChhhhccchhh
Confidence            9999888655555443 2344444543

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

Probab=99.12  E-value=3.4e-10  Score=95.34  Aligned_cols=67  Identities=28%  Similarity=0.372  Sum_probs=59.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .|.|||.|||+++|.|++-++|.+||.|..|||-..+                    ..+|.|||.|++..+|++||+.|
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k--------------------~TrGTAFVVYedi~dAk~A~dhl   77 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK--------------------ETRGTAFVVYEDIFDAKKACDHL   77 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCcc--------------------CcCceEEEEehHhhhHHHHHHHh
Confidence            6899999999999999999999999999999993221                    23899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++.-.+.
T Consensus        78 sg~n~~~   84 (124)
T KOG0114|consen   78 SGYNVDN   84 (124)
T ss_pred             cccccCC
Confidence            9876655

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.10  E-value=2e-10  Score=111.25  Aligned_cols=66  Identities=18%  Similarity=0.225  Sum_probs=58.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++|+++|+++|+.||+|+.|+|++++.                    .+|||||+|++.++|++|+. |
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~--------------------~~GfAFVtF~d~eaAe~All-L   62 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE--------------------RSQIAYVTFKDPQGAETALL-L   62 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC--------------------CCCEEEEEeCcHHHHHHHHH-h
Confidence            58999999999999999999999999999999976421                    27899999999999999995 8


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        63 nG~~l~g   69 (260)
T PLN03120         63 SGATIVD   69 (260)
T ss_pred             cCCeeCC
Confidence            8776655

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

Probab=99.10  E-value=1.1e-10  Score=106.24  Aligned_cols=76  Identities=24%  Similarity=0.190  Sum_probs=66.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+.|||+||+.+++..||+.+|++||.|..|+|.+-                      .-|||||||++.-+|+.|+..|
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn----------------------PPGfAFVEFed~RDA~DAvr~L   67 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN----------------------PPGFAFVEFEDPRDAEDAVRYL   67 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec----------------------CCCceEEeccCcccHHHHHhhc
Confidence            578999999999999999999999999999999641                      2789999999999999999999


Q ss_pred             cccccccccceEEEeecccC
Q 015730          368 HFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~~~  387 (401)
                      ++..++..  .+.+.+....
T Consensus        68 DG~~~cG~--r~rVE~S~G~   85 (195)
T KOG0107|consen   68 DGKDICGS--RIRVELSTGR   85 (195)
T ss_pred             CCccccCc--eEEEEeecCC
Confidence            99987773  6666665444

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

Probab=99.10  E-value=5.2e-10  Score=113.81  Aligned_cols=72  Identities=24%  Similarity=0.347  Sum_probs=64.3

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...+-|||+.||.|+.+++|.-+|++.|+|..+||+.+..+|.                 +||||||.|.+.++|++||+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~-----------------nRGYAFVtf~~Ke~Aq~Aik  143 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGD-----------------NRGYAFVTFCTKEEAQEAIK  143 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCC-----------------CcceEEEEeecHHHHHHHHH
Confidence            3578899999999999999999999999999999998865442                 59999999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      +||+..+..
T Consensus       144 ~lnn~Eir~  152 (506)
T KOG0117|consen  144 ELNNYEIRP  152 (506)
T ss_pred             HhhCccccC
Confidence            999885544

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

Probab=99.10  E-value=8.1e-11  Score=119.16  Aligned_cols=80  Identities=18%  Similarity=0.233  Sum_probs=68.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+.|||+-|+..+|+.+|+++|++||.|+.++|+|+.+-                  ..||||||.|+++|.|..||+.
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~------------------~sRGcaFV~fstke~A~~Aika  184 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDG------------------LSRGCAFVKFSTKEMAVAAIKA  184 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhCccchhhheecccc------------------cccceeEEEEehHHHHHHHHHh
Confidence            4689999999999999999999999999999999986420                  1399999999999999999999


Q ss_pred             hccccccc-ccceEEEeec
Q 015730          367 LHFMIMLF-FFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~-~~~~~~~~~~  384 (401)
                      ||+.-.+. -..+++++|.
T Consensus       185 ~ng~~tmeGcs~PLVVkFA  203 (510)
T KOG0144|consen  185 LNGTQTMEGCSQPLVVKFA  203 (510)
T ss_pred             hccceeeccCCCceEEEec
Confidence            99875555 4567787775

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

Probab=99.09  E-value=2.3e-10  Score=115.86  Aligned_cols=81  Identities=22%  Similarity=0.322  Sum_probs=67.5

Q ss_pred             CCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecC
Q 015730          277 PLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYES  356 (401)
Q Consensus       277 Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes  356 (401)
                      .+...+..+.+...+||+-||..+++.||+++|++||.|..|.|++|+.++-                 .+|||||.|.+
T Consensus        23 ~~~~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~-----------------s~gcCFv~~~t   85 (510)
T KOG0144|consen   23 SLDHTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQ-----------------SKGCCFVKYYT   85 (510)
T ss_pred             CCCCCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCc-----------------ccceEEEEecc
Confidence            3444444555677899999999999999999999999999999998875431                 38999999999


Q ss_pred             HHHHHHHHHHhccccccc
Q 015730          357 VELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       357 ~E~A~kAv~~ln~~~~~~  374 (401)
                      +++|.+|+..|.+.+.+-
T Consensus        86 rk~a~~a~~Alhn~ktlp  103 (510)
T KOG0144|consen   86 RKEADEAINALHNQKTLP  103 (510)
T ss_pred             HHHHHHHHHHhhcccccC
Confidence            999999999997765544

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

Probab=99.07  E-value=4.1e-10  Score=120.37  Aligned_cols=69  Identities=26%  Similarity=0.365  Sum_probs=60.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++ .++                 .++|||||+|.+.|+|++||+.
T Consensus        57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG-----------------~sRGfaFV~F~~~e~A~~Ai~~  118 (578)
T TIGR01648        57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSG-----------------QNRGYAFVTFCGKEEAKEAVKL  118 (578)
T ss_pred             CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCC-----------------CccceEEEEeCCHHHHHHHHHH
Confidence            4689999999999999999999999999999999876 222                 1489999999999999999999


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      ||+..+.
T Consensus       119 lng~~i~  125 (578)
T TIGR01648       119 LNNYEIR  125 (578)
T ss_pred             cCCCeec
Confidence            9876553

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.

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

Probab=99.06  E-value=2.3e-10  Score=109.77  Aligned_cols=115  Identities=19%  Similarity=0.236  Sum_probs=88.3

Q ss_pred             HHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCC
Q 015730          250 HSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGG  329 (401)
Q Consensus       250 ~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~  329 (401)
                      .++..+|+..-.-|.+..  +.|+....-+..  +.+....|||++||..+|..+|+.+|+.||.|..-||+-++.++- 
T Consensus        93 p~DAe~AintlNGLrLQ~--KTIKVSyARPSs--~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~-  167 (360)
T KOG0145|consen   93 PKDAEKAINTLNGLRLQN--KTIKVSYARPSS--DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGL-  167 (360)
T ss_pred             hHHHHHHHhhhcceeecc--ceEEEEeccCCh--hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccce-
Confidence            345556666655566653  344443332322  335578999999999999999999999999999999987765432 


Q ss_pred             CCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEeecc
Q 015730          330 ASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       330 ~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~~  385 (401)
                                      .||.+||.|+.+++|+.||+.||+.+...-..++.+.|..
T Consensus       168 ----------------srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFan  207 (360)
T KOG0145|consen  168 ----------------SRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFAN  207 (360)
T ss_pred             ----------------ecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecC
Confidence                            3899999999999999999999999988877788887753

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

Probab=99.05  E-value=8.3e-10  Score=115.49  Aligned_cols=71  Identities=18%  Similarity=0.179  Sum_probs=61.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..++|+++..++                 .++|||||+|++.++|.+||+.|
T Consensus       295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g-----------------~~~g~afv~f~~~~~a~~A~~~l  357 (509)
T TIGR01642       295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATG-----------------LSKGYAFCEYKDPSVTDVAIAAL  357 (509)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCC-----------------CcCeEEEEEECCHHHHHHHHHHc
Confidence            4689999999999999999999999999999998654322                 13899999999999999999999


Q ss_pred             cccccccc
Q 015730          368 HFMIMLFF  375 (401)
Q Consensus       368 n~~~~~~~  375 (401)
                      |+..+...
T Consensus       358 ~g~~~~~~  365 (509)
T TIGR01642       358 NGKDTGDN  365 (509)
T ss_pred             CCCEECCe
Confidence            98876553

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

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

Probab=99.05  E-value=1.1e-09  Score=116.70  Aligned_cols=69  Identities=22%  Similarity=0.268  Sum_probs=60.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+||+.++|+++|+++|+.||.|..|+++++.+ +                 ..+|||||+|++.++|.+|++.
T Consensus       177 ~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~-g-----------------~~~G~afV~F~~~e~A~~Av~~  238 (562)
T TIGR01628       177 KFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGS-G-----------------RSRGFAFVNFEKHEDAAKAVEE  238 (562)
T ss_pred             CCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCC-C-----------------CcccEEEEEECCHHHHHHHHHH
Confidence            356899999999999999999999999999999976531 1                 1389999999999999999999


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      |++..+.
T Consensus       239 l~g~~i~  245 (562)
T TIGR01628       239 MNGKKIG  245 (562)
T ss_pred             hCCcEec
Confidence            9988765

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

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

Probab=99.04  E-value=3.9e-10  Score=120.92  Aligned_cols=70  Identities=23%  Similarity=0.288  Sum_probs=61.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++++++|+++|++||.|..|+|++++.+++                 +||||||+|++.++|++|++.|
T Consensus       107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tgk-----------------skGfAFVeF~s~e~A~~Ai~~l  169 (612)
T TIGR01645       107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGK-----------------HKGFAFVEYEVPEAAQLALEQM  169 (612)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCC-----------------cCCeEEEEeCcHHHHHHHHHhc
Confidence            57899999999999999999999999999999987654332                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       170 nG~~i~G  176 (612)
T TIGR01645       170 NGQMLGG  176 (612)
T ss_pred             CCeEEec
Confidence            8876544

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.

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

Probab=99.02  E-value=1.1e-09  Score=117.22  Aligned_cols=70  Identities=24%  Similarity=0.251  Sum_probs=60.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhcc--CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAV--GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~f--G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+||+.++|+++|+++|++|  |+|+.|+++                         ++||||+|++.++|++|++
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-------------------------rgfAFVeF~s~e~A~kAi~  287 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-------------------------RDYAFVHFEDREDAVKAMD  287 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-------------------------cCeEEEEeCCHHHHHHHHH
Confidence            4789999999999999999999999  999999763                         6799999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .||+..+...  .+.+.+.
T Consensus       288 ~lnG~~i~Gr--~I~V~~A  304 (578)
T TIGR01648       288 ELNGKELEGS--EIEVTLA  304 (578)
T ss_pred             HhCCCEECCE--EEEEEEc
Confidence            9998876553  4444443

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.

>smart00362 RRM_2 RNA recognition motif

Probab=99.02  E-value=1.4e-09  Score=81.08  Aligned_cols=64  Identities=34%  Similarity=0.496  Sum_probs=55.6

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||+|||.+++.++|+++|+.||.|..+++.+..  +                 ..+|+|||+|.+.++|++|++.+++
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~-----------------~~~~~~~v~f~~~~~a~~a~~~~~~   61 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--G-----------------KSKGFAFVEFESEEDAEKAIEALNG   61 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--C-----------------CCCceEEEEeCCHHHHHHHHHHhCC
Confidence            58999999999999999999999999999987532  0                 1378999999999999999999987


Q ss_pred             ccc
Q 015730          370 MIM  372 (401)
Q Consensus       370 ~~~  372 (401)
                      ...
T Consensus        62 ~~~   64 (72)
T smart00362       62 TKL   64 (72)
T ss_pred             cEE
Confidence            543

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

Probab=99.01  E-value=8.2e-10  Score=114.16  Aligned_cols=71  Identities=30%  Similarity=0.366  Sum_probs=60.4

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +...++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|.+.++|++||
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~-----------------skg~afVeF~~~e~A~~Al  148 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRR-----------------SKGVAYVEFYDVESVIKAL  148 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCC-----------------cceEEEEEECCHHHHHHHH
Confidence            34578999999999999999999999999999999987654321                 3899999999999999999


Q ss_pred             HHhcccccc
Q 015730          365 SHLHFMIML  373 (401)
Q Consensus       365 ~~ln~~~~~  373 (401)
                      . |++..+.
T Consensus       149 ~-l~g~~~~  156 (457)
T TIGR01622       149 A-LTGQMLL  156 (457)
T ss_pred             H-hCCCEEC
Confidence            6 6665543

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

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

Probab=99.00  E-value=7.2e-10  Score=116.41  Aligned_cols=74  Identities=23%  Similarity=0.283  Sum_probs=60.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      +|+|||+|||.++++++|+++|+.||.|.+|+|+.                       .||||||||++.|+|++|++.+
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~-----------------------~k~~afVef~~~e~A~~Ai~~~   58 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP-----------------------GKRQALVEFEDEESAKACVNFA   58 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC-----------------------CCCEEEEEeCchHHHHHHHHHh
Confidence            58999999999999999999999999999999863                       1789999999999999999987


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      +..-....+..+.+.+.
T Consensus        59 ~~~~~~l~g~~l~v~~s   75 (481)
T TIGR01649        59 TSVPIYIRGQPAFFNYS   75 (481)
T ss_pred             hcCCceEcCeEEEEEec
Confidence            43322233345555554

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).

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

Probab=99.00  E-value=1.6e-09  Score=112.04  Aligned_cols=77  Identities=17%  Similarity=0.234  Sum_probs=64.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..|+|+++..++.                 .+|||||+|.+.++|.+|++.|
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~-----------------~~g~afV~f~~~e~A~~A~~~l  248 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGR-----------------SKGFGFIQFHDAEEAKEALEVM  248 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCc-----------------cceEEEEEECCHHHHHHHHHhc
Confidence            57899999999999999999999999999999987543221                 3899999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus       249 ~g~~i~g--~~i~v~~  262 (457)
T TIGR01622       249 NGFELAG--RPIKVGY  262 (457)
T ss_pred             CCcEECC--EEEEEEE
Confidence            9865543  4555555

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.

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

Probab=98.99  E-value=5.3e-10  Score=105.93  Aligned_cols=67  Identities=18%  Similarity=0.251  Sum_probs=59.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      -..|||+||++++..|.|+++|++||+|..+.|+.++.++++                 |||+||+|.+.|+|++||+..
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rs-----------------kGyGfVTf~d~~aa~rAc~dp   74 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRS-----------------KGYGFVTFRDAEAATRACKDP   74 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccc-----------------cceeeEEeecHHHHHHHhcCC
Confidence            457999999999999999999999999999999888776542                 999999999999999999977


Q ss_pred             cccc
Q 015730          368 HFMI  371 (401)
Q Consensus       368 n~~~  371 (401)
                      |-.+
T Consensus        75 ~piI   78 (247)
T KOG0149|consen   75 NPII   78 (247)
T ss_pred             CCcc
Confidence            6444

>PLN03213 repressor of silencing 3; Provisional

Probab=98.99  E-value=1.1e-09  Score=112.64  Aligned_cols=68  Identities=18%  Similarity=0.218  Sum_probs=59.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH--HHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV--ELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~--E~A~kAv  364 (401)
                      ...+|||+||.++++.++|+.+|+.||.|.+|.|+|.+                     .||||||+|.+.  +++.+||
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRET---------------------GRGFAFVEMssdddaEeeKAI   67 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTK---------------------GRSFAYIDFSPSSTNSLTKLF   67 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeccc---------------------CCceEEEEecCCcHHHHHHHH
Confidence            34689999999999999999999999999999997431                     189999999987  7899999


Q ss_pred             HHhcccccccc
Q 015730          365 SHLHFMIMLFF  375 (401)
Q Consensus       365 ~~ln~~~~~~~  375 (401)
                      +.||+...+..
T Consensus        68 SaLNGAEWKGR   78 (759)
T PLN03213         68 STYNGCVWKGG   78 (759)
T ss_pred             HHhcCCeecCc
Confidence            99998875553

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

Probab=98.98  E-value=7.9e-10  Score=106.60  Aligned_cols=70  Identities=19%  Similarity=0.232  Sum_probs=62.5

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .+.+||||+||+..+|+++|++.|+.||.|..||+..                       -+||+||.|++.|+|.+||-
T Consensus       162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk-----------------------~qGYaFVrF~tkEaAahAIv  218 (321)
T KOG0148|consen  162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK-----------------------DQGYAFVRFETKEAAAHAIV  218 (321)
T ss_pred             CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEec-----------------------ccceEEEEecchhhHHHHHH
Confidence            4678999999999999999999999999999999953                       28999999999999999999


Q ss_pred             Hhcccccccccce
Q 015730          366 HLHFMIMLFFFSA  378 (401)
Q Consensus       366 ~ln~~~~~~~~~~  378 (401)
                      .+|+..+.....+
T Consensus       219 ~mNntei~G~~Vk  231 (321)
T KOG0148|consen  219 QMNNTEIGGQLVR  231 (321)
T ss_pred             HhcCceeCceEEE
Confidence            9999887774333

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

Probab=98.97  E-value=7.4e-10  Score=97.29  Aligned_cols=82  Identities=24%  Similarity=0.312  Sum_probs=68.3

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      +...+|||.++.+.+++++|.+.|..||+|++|.+..++.+|.                 -||||+|||++.++|++|+.
T Consensus        70 VEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy-----------------~KGYaLvEYet~keAq~A~~  132 (170)
T KOG0130|consen   70 VEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGY-----------------VKGYALVEYETLKEAQAAID  132 (170)
T ss_pred             eeeEEEEEeccCcchhHHHHHHHHhhcccccceeecccccccc-----------------ccceeeeehHhHHHHHHHHH
Confidence            3467899999999999999999999999999999977654332                 29999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .+|+..++......-++|+
T Consensus       133 ~~Ng~~ll~q~v~VDw~Fv  151 (170)
T KOG0130|consen  133 ALNGAELLGQNVSVDWCFV  151 (170)
T ss_pred             hccchhhhCCceeEEEEEe
Confidence            9999888875444444443

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.96  E-value=1.4e-09  Score=104.09  Aligned_cols=67  Identities=16%  Similarity=0.203  Sum_probs=58.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..||||+||+..+|+++|+++|+.||+|..|+|++++.                    .++||||+|+++++|+.|+ .|
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e--------------------t~gfAfVtF~d~~aaetAl-lL   63 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE--------------------YACTAYVTFKDAYALETAV-LL   63 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC--------------------cceEEEEEECCHHHHHHHH-hc
Confidence            57999999999999999999999999999999986521                    1579999999999999999 58


Q ss_pred             cccccccc
Q 015730          368 HFMIMLFF  375 (401)
Q Consensus       368 n~~~~~~~  375 (401)
                      |+..+...
T Consensus        64 nGa~l~d~   71 (243)
T PLN03121         64 SGATIVDQ   71 (243)
T ss_pred             CCCeeCCc
Confidence            88776663

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

Probab=98.95  E-value=1.2e-09  Score=106.41  Aligned_cols=71  Identities=23%  Similarity=0.244  Sum_probs=63.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .-+||||.-|+.++++..|++.|++||.|+.|+|++++-+++                 .||||||||+++-+...|++.
T Consensus       100 Py~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgk-----------------skGYAFIeye~erdm~~AYK~  162 (335)
T KOG0113|consen  100 PYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGK-----------------SKGYAFIEYEHERDMKAAYKD  162 (335)
T ss_pred             ccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCC-----------------ccceEEEEeccHHHHHHHHHh
Confidence            368999999999999999999999999999999999876553                 399999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ..+.++..
T Consensus       163 adG~~Idg  170 (335)
T KOG0113|consen  163 ADGIKIDG  170 (335)
T ss_pred             ccCceecC
Confidence            88665444

>smart00360 RRM RNA recognition motif

Probab=98.94  E-value=4.2e-09  Score=78.05  Aligned_cols=63  Identities=37%  Similarity=0.511  Sum_probs=53.2

Q ss_pred             ccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccc
Q 015730          293 AENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIM  372 (401)
Q Consensus       293 V~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~  372 (401)
                      |+|||.+++.++|+++|+.||.|..+++.....++                 ..+|+|||+|.+.++|.+|++.+++...
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~-----------------~~~~~a~v~f~~~~~a~~a~~~~~~~~~   63 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTG-----------------KSKGFAFVEFESEEDAEKALEALNGKEL   63 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCC-----------------CCCceEEEEeCCHHHHHHHHHHcCCCee
Confidence            57999999999999999999999999987543211                 2388999999999999999999986554

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

Probab=98.93  E-value=2.5e-09  Score=98.29  Aligned_cols=70  Identities=33%  Similarity=0.442  Sum_probs=61.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++++++|.++|+.||.|..|++.+++.++                 ..+|||||+|.+.++|.+|+..+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~-----------------~~~g~~~v~f~~~~~~~~a~~~~  177 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETG-----------------KSRGFAFVEFESEESAEKAIEEL  177 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccC-----------------ccCceEEEEecCHHHHHHHHHHc
Confidence            5899999999999999999999999999999998764222                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++.....
T Consensus       178 ~~~~~~~  184 (306)
T COG0724         178 NGKELEG  184 (306)
T ss_pred             CCCeECC
Confidence            9666555

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

Probab=98.91  E-value=3.2e-09  Score=108.32  Aligned_cols=107  Identities=23%  Similarity=0.284  Sum_probs=78.4

Q ss_pred             CHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCC
Q 015730          249 SHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG  328 (401)
Q Consensus       249 d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~  328 (401)
                      +..++..||..-+.-.+  .|+.||-.+...       +...|||+||+.+++..+|.++|+.||+|.++++..+..   
T Consensus        46 ~~~da~~A~~~~n~~~~--~~~~~rim~s~r-------d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~---  113 (369)
T KOG0123|consen   46 QPADAERALDTMNFDVL--KGKPIRIMWSQR-------DPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN---  113 (369)
T ss_pred             CHHHHHHHHHHcCCccc--CCcEEEeehhcc-------CCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC---
Confidence            34455555555433222  355555443211       233499999999999999999999999999999976531   


Q ss_pred             CCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEeecc
Q 015730          329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       329 ~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~~  385 (401)
                                      +.||| ||+|+++++|++|++.+|+.+.... +.|+..+..
T Consensus       114 ----------------g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~k-ki~vg~~~~  152 (369)
T KOG0123|consen  114 ----------------GSKGY-FVQFESEESAKKAIEKLNGMLLNGK-KIYVGLFER  152 (369)
T ss_pred             ----------------Cceee-EEEeCCHHHHHHHHHHhcCcccCCC-eeEEeeccc
Confidence                            13899 9999999999999999999987774 667777544

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

Probab=98.88  E-value=4.5e-09  Score=108.87  Aligned_cols=80  Identities=25%  Similarity=0.370  Sum_probs=68.7

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|+|+++++++|..+|+..|.|.++|+++|+.+|+                 .|||+|+||.+.++|++|++.||
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~-----------------~~G~~f~~~~~~~~~~~a~~~lN   81 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGK-----------------PKGFGFCEFTDEETAERAIRNLN   81 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCC-----------------cCceeeEecCchhhHHHHHHhcC
Confidence            8999999999999999999999999999999999877654                 39999999999999999999999


Q ss_pred             ccccccccceEEEeecccC
Q 015730          369 FMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~~  387 (401)
                      +.....  ..+.+.++...
T Consensus        82 g~~~~g--r~l~v~~~~~~   98 (435)
T KOG0108|consen   82 GAEFNG--RKLRVNYASNR   98 (435)
T ss_pred             CcccCC--ceEEeeccccc
Confidence            776444  45565555333

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

Probab=98.87  E-value=2.2e-09  Score=105.87  Aligned_cols=69  Identities=22%  Similarity=0.273  Sum_probs=62.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+.|+|+|||+..-+.||+.+|.+||+|..|.|++..          |         +.|||+||+|++.+||++|-++|
T Consensus        96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE----------R---------GSKGFGFVTmen~~dadRARa~L  156 (376)
T KOG0125|consen   96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE----------R---------GSKGFGFVTMENPADADRARAEL  156 (376)
T ss_pred             CceeEeecCCccccCccHHHHHHhhCceeeEEEEecc----------C---------CCCccceEEecChhhHHHHHHHh
Confidence            5789999999999999999999999999999998632          2         35999999999999999999999


Q ss_pred             cccccccc
Q 015730          368 HFMIMLFF  375 (401)
Q Consensus       368 n~~~~~~~  375 (401)
                      ++..++.-
T Consensus       157 Hgt~VEGR  164 (376)
T KOG0125|consen  157 HGTVVEGR  164 (376)
T ss_pred             hcceeece
Confidence            99988874

>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=98.87  E-value=1.5e-08  Score=75.86  Aligned_cols=64  Identities=34%  Similarity=0.464  Sum_probs=55.9

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|+|+|||.+++.++|+++|+.||.|..+.+......                  ..+|+|||+|.+.++|..|++.+++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~------------------~~~~~~~v~f~s~~~a~~a~~~~~~   62 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT------------------KSKGFAFVEFEDEEDAEKALEALNG   62 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC------------------CcceEEEEEECCHHHHHHHHHHhCC
Confidence            5899999999999999999999999999999754211                  1378999999999999999999988


Q ss_pred             cc
Q 015730          370 MI  371 (401)
Q Consensus       370 ~~  371 (401)
                      ..
T Consensus        63 ~~   64 (74)
T cd00590          63 KE   64 (74)
T ss_pred             Ce
Confidence            76

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).

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

Probab=98.83  E-value=9.3e-09  Score=108.05  Aligned_cols=73  Identities=16%  Similarity=0.237  Sum_probs=61.6

Q ss_pred             hhhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+||+. .+|+++|+++|+.||.|.+|+++++                      .+|||||+|++.++|++|++
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~----------------------~~g~afV~f~~~~~A~~Ai~  331 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN----------------------KKETALIEMADPYQAQLALT  331 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC----------------------CCCEEEEEECCHHHHHHHHH
Confidence            357899999997 6999999999999999999999753                      17899999999999999999


Q ss_pred             HhcccccccccceEEEee
Q 015730          366 HLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~  383 (401)
                      .||+..+..  ..+.+.+
T Consensus       332 ~lng~~l~g--~~l~v~~  347 (481)
T TIGR01649       332 HLNGVKLFG--KPLRVCP  347 (481)
T ss_pred             HhCCCEECC--ceEEEEE
Confidence            999976654  3444443

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).

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

Probab=98.80  E-value=7.2e-10  Score=101.60  Aligned_cols=71  Identities=24%  Similarity=0.302  Sum_probs=65.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ++.-|||+|||++.|+.||-.+||+||+|..|.++|++.+|++                 |||||.+|++.-+..-||..
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKS-----------------KGFaFLcYEDQRSTILAVDN   96 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKS-----------------KGFAFLCYEDQRSTILAVDN   96 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcc-----------------cceEEEEecCccceEEEEec
Confidence            4678999999999999999999999999999999999876642                 99999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..++.
T Consensus        97 ~NGiki~g  104 (219)
T KOG0126|consen   97 LNGIKILG  104 (219)
T ss_pred             cCCceecc
Confidence            99988776

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

Probab=98.72  E-value=4.2e-08  Score=102.17  Aligned_cols=63  Identities=27%  Similarity=0.377  Sum_probs=57.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+||||.|||+|+|+++|.+.|++||+|.+++|+..+.++.                 .+|+|||.|.+..+|++||+..
T Consensus       292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~-----------------skGtAFv~Fkt~~~~~~ci~~A  354 (678)
T KOG0127|consen  292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGH-----------------SKGTAFVKFKTQIAAQNCIEAA  354 (678)
T ss_pred             cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCC-----------------cccceEEEeccHHHHHHHHHhc
Confidence            47999999999999999999999999999999998866543                 2899999999999999999977

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

Probab=98.69  E-value=3.4e-08  Score=95.34  Aligned_cols=89  Identities=18%  Similarity=0.178  Sum_probs=74.3

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|.|||+-|...-.+||++++|..||.|+.+.+++-.+                  -..||||||.|.+--||+.||
T Consensus        16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d------------------g~sKGCAFVKf~s~~eAqaAI   77 (371)
T KOG0146|consen   16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD------------------GNSKGCAFVKFSSHAEAQAAI   77 (371)
T ss_pred             CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC------------------CCCCCceEEEeccchHHHHHH
Confidence            33579999999999999999999999999999999876321                  234999999999999999999


Q ss_pred             HHhcccccccccceEEEeecccCHHHH
Q 015730          365 SHLHFMIMLFFFSAFCLMFVTQTNEIR  391 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~~~~e~R  391 (401)
                      ..|.+...+-+.+.-++++.+.+++||
T Consensus        78 ~aLHgSqTmpGASSSLVVK~ADTdkER  104 (371)
T KOG0146|consen   78 NALHGSQTMPGASSSLVVKFADTDKER  104 (371)
T ss_pred             HHhcccccCCCCccceEEEeccchHHH
Confidence            999988888866666666666666654

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

Probab=98.65  E-value=3.4e-08  Score=90.70  Aligned_cols=79  Identities=20%  Similarity=0.256  Sum_probs=63.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +..||||+||+..++++-|-++|-+.|.|.+|++-+++-++                 ..+|||||||.++|+|+.||+-
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~-----------------~~qGygF~Ef~~eedadYAiki   70 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQ-----------------KHQGYGFAEFRTEEDADYAIKI   70 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcc-----------------cccceeEEEEechhhhHHHHHH
Confidence            46799999999999999999999999999999985443221                 2489999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      || .+.+. ++++.+...
T Consensus        71 ln-~VkLY-grpIrv~ka   86 (203)
T KOG0131|consen   71 LN-MVKLY-GRPIRVNKA   86 (203)
T ss_pred             HH-HHHhc-CceeEEEec
Confidence            99 44444 355555443

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

Probab=98.65  E-value=3.8e-08  Score=95.14  Aligned_cols=81  Identities=19%  Similarity=0.221  Sum_probs=67.7

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      -|||+.|..+++.|+|++.|.+||+|..+||+|+..+++                 .|||+||-|-.+++|++||..||+
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~K-----------------sKGYgFVSf~~k~dAEnAI~~MnG  126 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGK-----------------SKGYGFVSFPNKEDAENAIQQMNG  126 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCCc-----------------ccceeEEeccchHHHHHHHHHhCC
Confidence            489999999999999999999999999999999876553                 399999999999999999999997


Q ss_pred             cccccccceEEEeecccCHH
Q 015730          370 MIMLFFFSAFCLMFVTQTNE  389 (401)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~e  389 (401)
                      .=+..  -.++-.+.+.|..
T Consensus       127 qWlG~--R~IRTNWATRKp~  144 (321)
T KOG0148|consen  127 QWLGR--RTIRTNWATRKPS  144 (321)
T ss_pred             eeecc--ceeeccccccCcc
Confidence            75443  3455555555543

>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=2.7e-08  Score=103.00  Aligned_cols=63  Identities=25%  Similarity=0.432  Sum_probs=56.7

Q ss_pred             HHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEec
Q 015730          198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSE  267 (401)
Q Consensus       198 ~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVse  267 (401)
                      .+-+.+|||||||.+||.+|.|+++       |||+|.+|++|+||..++.|+++|.+||+.+-+|++..
T Consensus       301 ~~~~~~~ie~~FSeE~~~~d~~n~~-------k~~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~  363 (448)
T KOG2590|consen  301 IAFIQEPIEFYFSEENLQRDRFNRE-------KFVPLRVIAKFKRVADLSSDINLILAALRNSLIVEETG  363 (448)
T ss_pred             ccccccccccccchHHHhhhhhhhc-------ccchhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccc
Confidence            4678899999999999999987775       78999999999999999999999999999997766653

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

Probab=98.62  E-value=9e-08  Score=89.39  Aligned_cols=80  Identities=23%  Similarity=0.417  Sum_probs=63.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhcc-CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAV-GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~f-G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..-+|+..+|....+.++..+|.+| |.|..+|+.|.+.+|                 ++||||||||+++|.|+-|.+.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTG-----------------NSKgYAFVEFEs~eVA~IaAET  111 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTG-----------------NSKGYAFVEFESEEVAKIAAET  111 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccC-----------------CcCceEEEEeccHHHHHHHHHH
Confidence            4468899999999999999999998 788888886543322                 2499999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      ||+++++.... .|-.|..
T Consensus       112 MNNYLl~e~lL-~c~vmpp  129 (214)
T KOG4208|consen  112 MNNYLLMEHLL-ECHVMPP  129 (214)
T ss_pred             hhhhhhhhhee-eeEEeCc
Confidence            99999887533 3333333

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

Probab=98.61  E-value=7.6e-08  Score=98.06  Aligned_cols=70  Identities=27%  Similarity=0.315  Sum_probs=60.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhc-cCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSA-VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~-fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..|++||+|||+|..+++|+++|.. .|+|+.|.++.+.           ++|       .+|||+|||+++|.++||++
T Consensus        43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-----------~GK-------~rGcavVEFk~~E~~qKa~E  104 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-----------SGK-------ARGCAVVEFKDPENVQKALE  104 (608)
T ss_pred             ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-----------CCC-------cCCceEEEeeCHHHHHHHHH
Confidence            3578999999999999999999975 8999999998864           233       38999999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .||...+..
T Consensus       105 ~lnk~~~~G  113 (608)
T KOG4212|consen  105 KLNKYEVNG  113 (608)
T ss_pred             HhhhccccC
Confidence            999776544

>smart00361 RRM_1 RNA recognition motif

Probab=98.61  E-value=1.1e-07  Score=74.29  Aligned_cols=58  Identities=17%  Similarity=0.216  Sum_probs=44.7

Q ss_pred             HHHHHHHHh----ccCCeeEEE-EecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          302 HQNLMKIFS----AVGSVKTIR-TCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       302 ~edL~~lFs----~fG~V~~Vr-i~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      +++|+++|+    +||.|.+|. +..++.+..        +       ..+|||||+|++.++|.+|++.||+.....
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~--------~-------~~rG~~fV~f~~~~dA~~A~~~l~g~~~~g   64 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYE--------N-------HKRGNVYITFERSEDAARAIVDLNGRYFDG   64 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCC--------C-------CCcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            468888888    999999995 655543200        0       138999999999999999999999876443

>PF13893 RRM_5: RNA recognition motif

Probab=98.60  E-value=1.7e-07  Score=69.61  Aligned_cols=48  Identities=40%  Similarity=0.449  Sum_probs=40.0

Q ss_pred             HHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          305 LMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       305 L~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      |.++|++||+|..|++...                      .+++|||+|.+.++|++|++.||+.....
T Consensus         1 L~~~f~~fG~V~~i~~~~~----------------------~~~~a~V~f~~~~~A~~a~~~l~~~~~~g   48 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKK----------------------KRGFAFVEFASVEDAQKAIEQLNGRQFNG   48 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETT----------------------STTEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred             ChHHhCCcccEEEEEEEeC----------------------CCCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            6789999999999998632                      04899999999999999999999887543

(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 ....

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

Probab=98.59  E-value=7.1e-08  Score=101.00  Aligned_cols=66  Identities=23%  Similarity=0.350  Sum_probs=52.0

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccC------------CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEE
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVG------------SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFV  352 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG------------~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFV  352 (401)
                      ....++|||+|||.++|+++|+++|+.|+            .|..+.+.                       ..+|||||
T Consensus       172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-----------------------~~kg~afV  228 (509)
T TIGR01642       172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-----------------------KEKNFAFL  228 (509)
T ss_pred             CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-----------------------CCCCEEEE
Confidence            34578999999999999999999999862            33333331                       13899999


Q ss_pred             EecCHHHHHHHHHHhccccccc
Q 015730          353 EYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       353 EFes~E~A~kAv~~ln~~~~~~  374 (401)
                      ||.+.|+|.+||+ |++..+..
T Consensus       229 eF~~~e~A~~Al~-l~g~~~~g  249 (509)
T TIGR01642       229 EFRTVEEATFAMA-LDSIIYSN  249 (509)
T ss_pred             EeCCHHHHhhhhc-CCCeEeeC
Confidence            9999999999994 88765444

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

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

Probab=98.55  E-value=9.7e-08  Score=89.35  Aligned_cols=77  Identities=16%  Similarity=0.188  Sum_probs=63.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      -.+|-|.||-+-++.++|..+|++||.|-.|-|-+++.+.                 ..+|||||-|....+|++|++.|
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr-----------------~sRgFaFVrf~~k~daedA~dam   75 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTR-----------------QSRGFAFVRFHDKRDAEDALDAM   75 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccc-----------------cccceeEEEeeecchHHHHHHhh
Confidence            3579999999999999999999999999999996554321                 13899999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      ++.++..  .+|.+.+
T Consensus        76 DG~~ldg--RelrVq~   89 (256)
T KOG4207|consen   76 DGAVLDG--RELRVQM   89 (256)
T ss_pred             cceeecc--ceeeehh
Confidence            9887665  3554443

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

Probab=98.53  E-value=9.6e-08  Score=99.55  Aligned_cols=69  Identities=29%  Similarity=0.341  Sum_probs=59.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|+|.|||+.+...+|+.+|+.||.|..|.|  |+             +.+|.+   +|||||.|....+|.+|++.+
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~I--P~-------------k~dgkl---cGFaFV~fk~~~dA~~Al~~~  178 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVI--PR-------------KKDGKL---CGFAFVQFKEKKDAEKALEFF  178 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEc--cc-------------CCCCCc---cceEEEEEeeHHHHHHHHHhc
Confidence            567999999999999999999999999999988  32             122222   799999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       179 N~~~i~g  185 (678)
T KOG0127|consen  179 NGNKIDG  185 (678)
T ss_pred             cCceecC
Confidence            9887766

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

Probab=98.53  E-value=7.5e-08  Score=88.77  Aligned_cols=65  Identities=26%  Similarity=0.285  Sum_probs=55.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++-+.+|+.+|.+||.|..|.|.-+            .        +.-.||||||++.-+|+.||..
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r------------~--------g~ppfafVeFEd~RDAeDAiyg   64 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR------------P--------GPPPFAFVEFEDPRDAEDAIYG   64 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC------------C--------CCCCeeEEEecCccchhhhhhc
Confidence            4689999999999999999999999999999988321            1        1257999999999999999997


Q ss_pred             hcccc
Q 015730          367 LHFMI  371 (401)
Q Consensus       367 ln~~~  371 (401)
                      -++.-
T Consensus        65 RdGYd   69 (241)
T KOG0105|consen   65 RDGYD   69 (241)
T ss_pred             ccccc
Confidence            76543

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

Probab=98.50  E-value=1.5e-07  Score=90.70  Aligned_cols=70  Identities=20%  Similarity=0.344  Sum_probs=61.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|+|.-||.++|.|+|+.+|+..|+|++++++|++.+|-                 .-||+||.|-+++||++||..|
T Consensus        41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGq-----------------SLGYGFVNYv~p~DAe~Aintl  103 (360)
T KOG0145|consen   41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQ-----------------SLGYGFVNYVRPKDAEKAINTL  103 (360)
T ss_pred             cceeeeeecccccCHHHHHHHhhcccceeeeeeeecccccc-----------------ccccceeeecChHHHHHHHhhh
Confidence            34588888999999999999999999999999999875432                 2689999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+.++-.
T Consensus       104 NGLrLQ~  110 (360)
T KOG0145|consen  104 NGLRLQN  110 (360)
T ss_pred             cceeecc
Confidence            9887655

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

Probab=98.49  E-value=2.3e-07  Score=99.86  Aligned_cols=82  Identities=18%  Similarity=0.198  Sum_probs=69.0

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      .+.+|||+|++|+..++++||..+|+.||+|.+|.|+-                       ++|||||++..+.+|++|+
T Consensus       418 sV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~-----------------------~R~cAfI~M~~RqdA~kal  474 (894)
T KOG0132|consen  418 SVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP-----------------------PRGCAFIKMVRRQDAEKAL  474 (894)
T ss_pred             eEeeeeeeeccccchhhHHHHHHHHHhcccceeEeecc-----------------------CCceeEEEEeehhHHHHHH
Confidence            45689999999999999999999999999999998863                       3899999999999999999


Q ss_pred             HHhcccccccccceEEEeecccCHH
Q 015730          365 SHLHFMIMLFFFSAFCLMFVTQTNE  389 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~~~~e  389 (401)
                      ..|++..+..+...+.|.....-++
T Consensus       475 qkl~n~kv~~k~Iki~Wa~g~G~ks  499 (894)
T KOG0132|consen  475 QKLSNVKVADKTIKIAWAVGKGPKS  499 (894)
T ss_pred             HHHhcccccceeeEEeeeccCCcch
Confidence            9999887777555556655444333

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

Probab=98.41  E-value=1.7e-07  Score=100.12  Aligned_cols=78  Identities=21%  Similarity=0.355  Sum_probs=60.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|.|+|||+.++..+|+.+|..||.|.+|||  |+-.          ++     ...+|||||+|-+..+|.+|++.|
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRl--PKK~----------~k-----~a~rGF~Fv~f~t~~ea~nA~~al  675 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRL--PKKI----------GK-----GAHRGFGFVDFLTPREAKNAFDAL  675 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceeeecc--chhh----------cc-----hhhccceeeeccCcHHHHHHHHhh
Confidence            346999999999999999999999999999998  3211          11     134899999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      ..+-++.  .+++..|.
T Consensus       676 ~STHlyG--RrLVLEwA  690 (725)
T KOG0110|consen  676 GSTHLYG--RRLVLEWA  690 (725)
T ss_pred             cccceec--hhhheehh
Confidence            8444333  34554443

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

Probab=98.40  E-value=3.3e-07  Score=84.28  Aligned_cols=87  Identities=20%  Similarity=0.215  Sum_probs=68.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEE-EEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTI-RTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~V-ri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ...|||+||...+++.-|-.+|+.||.+.+. .++++.+++.                 .+||+||.|++.|.+.+|+..
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~-----------------~~~~g~i~~~sfeasd~ai~s  158 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGN-----------------PKGFGFINYASFEASDAAIGS  158 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCcccccccCCC-----------------CCCCeEEechhHHHHHHHHHH
Confidence            4689999999999999999999999998653 4555433221                 288999999999999999999


Q ss_pred             hcccccccccceEEEeecccCHHHH
Q 015730          367 LHFMIMLFFFSAFCLMFVTQTNEIR  391 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~~e~R  391 (401)
                      +|+..++.-.......++..++.+|
T Consensus       159 ~ngq~l~nr~itv~ya~k~~~kg~~  183 (203)
T KOG0131|consen  159 MNGQYLCNRPITVSYAFKKDTKGER  183 (203)
T ss_pred             hccchhcCCceEEEEEEecCCCccc
Confidence            9999998865555556666666654

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

Probab=98.37  E-value=1.9e-07  Score=88.17  Aligned_cols=71  Identities=25%  Similarity=0.332  Sum_probs=60.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.|||||++|-+++++.-|...|-.||.|+.|.+-.+..          +.|       ++||+||||+-.|+|..|+..
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDye----------sqk-------HRgFgFVefe~aEDAaaAiDN   71 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYE----------SQK-------HRGFGFVEFEEAEDAAAAIDN   71 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchh----------ccc-------ccceeEEEeeccchhHHHhhc
Confidence            578999999999999999999999999999999844322          222       489999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        72 MnesEL~G   79 (298)
T KOG0111|consen   72 MNESELFG   79 (298)
T ss_pred             Cchhhhcc
Confidence            99876554

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

Probab=98.36  E-value=2.2e-07  Score=92.72  Aligned_cols=130  Identities=18%  Similarity=0.332  Sum_probs=84.3

Q ss_pred             hcccccccCCCcCcCHHHHHhh---ccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEeccccccccCCCCC
Q 015730          203 NQVEYYFSDLNLATTDHLIRFI---LKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLT  279 (401)
Q Consensus       203 ~QvEfYFSd~NL~~D~fL~~~i---~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~  279 (401)
                      +.|.+||++.-...|..+++-.   .....|||..+.-....             .+|.... +.  -||..|.-+..++
T Consensus        21 e~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~-------------~vl~~~~-h~--~dgr~ve~k~av~   84 (311)
T KOG4205|consen   21 ESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVD-------------AVLNART-HK--LDGRSVEPKRAVS   84 (311)
T ss_pred             HHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchh-------------eeecccc-cc--cCCccccceeccC
Confidence            3455788877777776555532   12355666554333322             2222211 11  1344444444444


Q ss_pred             cchhhhh----hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEec
Q 015730          280 ESDLEEL----QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYE  355 (401)
Q Consensus       280 e~~~~e~----~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFe  355 (401)
                      ..+....    ..+.|||++|+.++++++++++|.+||.|..+-++++..+.+                 .+||+||.|+
T Consensus        85 r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~-----------------~rgFgfv~~~  147 (311)
T KOG4205|consen   85 REDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSR-----------------PRGFGFVTFD  147 (311)
T ss_pred             cccccccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccc-----------------cccceeeEec
Confidence            3322221    245899999999999999999999999999999988765332                 3899999999


Q ss_pred             CHHHHHHHHH
Q 015730          356 SVELAEKAVS  365 (401)
Q Consensus       356 s~E~A~kAv~  365 (401)
                      +++++.+++.
T Consensus       148 ~e~sVdkv~~  157 (311)
T KOG4205|consen  148 SEDSVDKVTL  157 (311)
T ss_pred             cccccceecc
Confidence            9999988876

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

Probab=98.36  E-value=2.7e-07  Score=90.05  Aligned_cols=61  Identities=28%  Similarity=0.323  Sum_probs=56.4

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||..+++.+|+.+|++||+|..+.|+                         |.|+||..|++..|+.||..|++
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv-------------------------KNYgFVHiEdktaaedairNLhg   58 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGKVLECDIV-------------------------KNYGFVHIEDKTAAEDAIRNLHG   58 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCceEeeeee-------------------------cccceEEeecccccHHHHhhccc
Confidence            58999999999999999999999999999986                         67999999999999999999998


Q ss_pred             cccccc
Q 015730          370 MIMLFF  375 (401)
Q Consensus       370 ~~~~~~  375 (401)
                      ..+...
T Consensus        59 YtLhg~   64 (346)
T KOG0109|consen   59 YTLHGV   64 (346)
T ss_pred             ceecce
Confidence            877663

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

Probab=98.33  E-value=6.8e-07  Score=89.05  Aligned_cols=68  Identities=24%  Similarity=0.316  Sum_probs=58.1

Q ss_pred             hhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       284 ~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ++...+||||++|-..+++.+|++.|.+||+|.+|++..                       .++||||+|.|+++|++|
T Consensus       224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~-----------------------~~~CAFv~ftTR~aAE~A  280 (377)
T KOG0153|consen  224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP-----------------------RKGCAFVTFTTREAAEKA  280 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec-----------------------ccccceeeehhhHHHHHH
Confidence            344578999999988999999999999999999999852                       178999999999999999


Q ss_pred             HHHhccccccc
Q 015730          364 VSHLHFMIMLF  374 (401)
Q Consensus       364 v~~ln~~~~~~  374 (401)
                      .++.-+.++..
T Consensus       281 ae~~~n~lvI~  291 (377)
T KOG0153|consen  281 AEKSFNKLVIN  291 (377)
T ss_pred             HHhhcceeeec
Confidence            99876544444

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

Probab=98.33  E-value=1.5e-06  Score=85.04  Aligned_cols=71  Identities=23%  Similarity=0.186  Sum_probs=61.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|+|+||...++.++|++.|.+||.|..+.|+                         |+|+||.|+-.|+|..|+++|
T Consensus        78 stkl~vgNis~tctn~ElRa~fe~ygpviecdiv-------------------------kdy~fvh~d~~eda~~air~l  132 (346)
T KOG0109|consen   78 STKLHVGNISPTCTNQELRAKFEKYGPVIECDIV-------------------------KDYAFVHFDRAEDAVEAIRGL  132 (346)
T ss_pred             ccccccCCCCccccCHHHhhhhcccCCceeeeee-------------------------cceeEEEEeeccchHHHHhcc
Confidence            5689999999999999999999999999999885                         789999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      ++...  .+++.-+.+.+
T Consensus       133 ~~~~~--~gk~m~vq~st  148 (346)
T KOG0109|consen  133 DNTEF--QGKRMHVQLST  148 (346)
T ss_pred             ccccc--ccceeeeeeec
Confidence            98874  44566555443

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=98.31  E-value=1.3e-07  Score=95.51  Aligned_cols=61  Identities=25%  Similarity=0.474  Sum_probs=54.7

Q ss_pred             HHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcC
Q 015730          198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS  260 (401)
Q Consensus       198 ~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S  260 (401)
                      +..+.+|||||||.+||..|.||++++.+  +|||++++|..|.|...+..|..++..||+.+
T Consensus       271 I~a~k~QiEyYFseenl~~d~~lrkk~~k--aGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~  331 (438)
T COG5193         271 IMAKKEQIEYYFSEENLKSDEFLRKKFKK--AGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV  331 (438)
T ss_pred             hhhHHhhhHhhhhHHhhhhhhHHHhhhhh--cccccHhhhhhhhhccccCCchhhhHHHHHHH
Confidence            46777899999999999999999999654  69999999999999999999998888888775

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

Probab=98.25  E-value=3.6e-06  Score=86.14  Aligned_cols=117  Identities=27%  Similarity=0.300  Sum_probs=78.2

Q ss_pred             ccchhhHHhhhcCHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCee
Q 015730          237 VASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVK  316 (401)
Q Consensus       237 i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~  316 (401)
                      +.-|..-+...+.++++...|.....+.|...-.+-.|..++.+ ..  .....+||+|++.+.+.+.|..+|+.||.|.
T Consensus       119 FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~-~~--~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~  195 (369)
T KOG0123|consen  119 FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE-YK--KRFTNVYVKNLEEDSTDEELKDLFSAYGSIT  195 (369)
T ss_pred             EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc-hh--hhhhhhheeccccccchHHHHHhhcccCcce
Confidence            33444333333333333333333445555543333333334433 21  2356899999999999999999999999999


Q ss_pred             EEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          317 TIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       317 ~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      .+.++....           +       .++||+||+|++.++|.+|+..|++.....
T Consensus       196 s~~v~~~~~-----------g-------~~~~~gfv~f~~~e~a~~av~~l~~~~~~~  235 (369)
T KOG0123|consen  196 SVAVMRDSI-----------G-------KSKGFGFVNFENPEDAKKAVETLNGKIFGD  235 (369)
T ss_pred             EEEEeecCC-----------C-------CCCCccceeecChhHHHHHHHhccCCcCCc
Confidence            999975421           1       138999999999999999999999888653

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

Probab=98.18  E-value=2.2e-06  Score=89.56  Aligned_cols=67  Identities=21%  Similarity=0.260  Sum_probs=58.0

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+||..++++++|+.+|+.||.|..|.+.++-.+|.                 .|||+||+|.+.++|.+|+..||+.
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~-----------------skgfGfi~f~~~~~ar~a~e~lngf  343 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGR-----------------SKGFGFITFVNKEDARKALEQLNGF  343 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeecccccccc-----------------ccCcceEEEecHHHHHHHHHHhccc
Confidence            99999999999999999999999999999876532322                 3899999999999999999999984


Q ss_pred             cccc
Q 015730          371 IMLF  374 (401)
Q Consensus       371 ~~~~  374 (401)
                      .+-.
T Consensus       344 elAG  347 (549)
T KOG0147|consen  344 ELAG  347 (549)
T ss_pred             eecC
Confidence            4433

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

Probab=98.16  E-value=2e-06  Score=86.31  Aligned_cols=70  Identities=23%  Similarity=0.293  Sum_probs=60.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      -|.|||+.+.++.-++.|+..|..||.|++|.|--+--++                 .+||||||||+-.|.|+-|++.|
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~-----------------kHKgFAFVEYEvPEaAqLAlEqM  175 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATG-----------------KHKGFAFVEYEVPEAAQLALEQM  175 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccc-----------------cccceEEEEEeCcHHHHHHHHHh
Confidence            4789999999999999999999999999999986542221                 25999999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+.++..
T Consensus       176 Ng~mlGG  182 (544)
T KOG0124|consen  176 NGQMLGG  182 (544)
T ss_pred             ccccccC
Confidence            9887655

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

Probab=98.10  E-value=7e-06  Score=88.06  Aligned_cols=71  Identities=24%  Similarity=0.281  Sum_probs=58.0

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+||++++|.++|+..|++.|.|.+|.|..-++        .+ .+     +..+|||||||.+.|+|+.|++.|++
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd--------~~-~k-----~lSmGfgFVEF~~~e~A~~a~k~lqg  582 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKD--------PA-NK-----YLSMGFGFVEFAKPESAQAALKALQG  582 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcCeEEEEEEecccc--------cc-cc-----ccccceeEEEecCHHHHHHHHHHhcC
Confidence            399999999999999999999999999999854221        01 12     23589999999999999999999986


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+-.
T Consensus       583 tvldG  587 (725)
T KOG0110|consen  583 TVLDG  587 (725)
T ss_pred             ceecC
Confidence            65544

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

Probab=98.09  E-value=2.8e-06  Score=84.95  Aligned_cols=69  Identities=20%  Similarity=0.276  Sum_probs=58.1

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ..|||-.|..-+|.++|+-|||.||.|.++.++++..+|.+                 -.||||||++.+++++|+-.|+
T Consensus       240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgds-----------------LqyaFiEFen~escE~AyFKMd  302 (479)
T KOG0415|consen  240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDS-----------------LQYAFIEFENKESCEQAYFKMD  302 (479)
T ss_pred             ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccch-----------------hheeeeeecchhhHHHHHhhhc
Confidence            45777788777899999999999999999999988654432                 4589999999999999999998


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +.++-.
T Consensus       303 NvLIDD  308 (479)
T KOG0415|consen  303 NVLIDD  308 (479)
T ss_pred             ceeecc
Confidence            776554

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

Probab=98.09  E-value=5.4e-06  Score=83.24  Aligned_cols=65  Identities=17%  Similarity=0.375  Sum_probs=56.3

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ..|||..+..|.+++||+.+|+.||+|..+.+.+..+.        |         ++|||+||||++..+...||..||
T Consensus       211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~--------~---------~HkGyGfiEy~n~qs~~eAiasMN  273 (544)
T KOG0124|consen  211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG--------R---------GHKGYGFIEYNNLQSQSEAIASMN  273 (544)
T ss_pred             heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCC--------C---------CccceeeEEeccccchHHHhhhcc
Confidence            46999999999999999999999999999999875321        1         359999999999999999999887


Q ss_pred             cc
Q 015730          369 FM  370 (401)
Q Consensus       369 ~~  370 (401)
                      -.
T Consensus       274 lF  275 (544)
T KOG0124|consen  274 LF  275 (544)
T ss_pred             hh
Confidence            43

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

Probab=98.07  E-value=7.8e-06  Score=77.45  Aligned_cols=67  Identities=24%  Similarity=0.280  Sum_probs=57.8

Q ss_pred             hhheeccCCCCcccHHHHHH----HHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMK----IFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~----lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..||||.||++-...++|++    +|++||+|..|.++...             |       -+|=|||.|++.+.|-.|
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~-------------K-------mRGQA~VvFk~~~~As~A   68 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTP-------------K-------MRGQAFVVFKETEAASAA   68 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCC-------------C-------ccCceEEEecChhHHHHH
Confidence            34999999999999999888    99999999999987431             1       278899999999999999


Q ss_pred             HHHhccccccc
Q 015730          364 VSHLHFMIMLF  374 (401)
Q Consensus       364 v~~ln~~~~~~  374 (401)
                      ++.|++.....
T Consensus        69 ~r~l~gfpFyg   79 (221)
T KOG4206|consen   69 LRALQGFPFYG   79 (221)
T ss_pred             HHHhcCCcccC
Confidence            99999887555

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

Probab=98.00  E-value=3.9e-06  Score=81.34  Aligned_cols=81  Identities=12%  Similarity=0.251  Sum_probs=67.4

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..+.|.|||--||.+....+|..+|-.||.|.+.++.-++.++-                 .|.|+||.|++..+|+.||
T Consensus       282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQ-----------------SKCFGFVSfDNp~SaQaAI  344 (371)
T KOG0146|consen  282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQ-----------------SKCFGFVSFDNPASAQAAI  344 (371)
T ss_pred             CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhcccc-----------------ccceeeEecCCchhHHHHH
Confidence            34689999999999999999999999999999998877765432                 2889999999999999999


Q ss_pred             HHhcccccccccceEEEeec
Q 015730          365 SHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ..||+.-+.++  ++-+.+|
T Consensus       345 qAMNGFQIGMK--RLKVQLK  362 (371)
T KOG0146|consen  345 QAMNGFQIGMK--RLKVQLK  362 (371)
T ss_pred             HHhcchhhhhh--hhhhhhc
Confidence            99998876663  4444444

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

Probab=97.88  E-value=4.2e-05  Score=64.99  Aligned_cols=59  Identities=22%  Similarity=0.313  Sum_probs=39.4

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|.+.++..+++.++|+++|+.||.|..|.+.+-                       ...|||-|.+.++|++|++.+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-----------------------~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-----------------------DTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT------------------------SEEEEEESS---HHHHHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-----------------------CCEEEEEECCcchHHHHHHHHH
Confidence            57889999999999999999999999999987421                       3369999999999999999886


Q ss_pred             cc
Q 015730          369 FM  370 (401)
Q Consensus       369 ~~  370 (401)
                      ..
T Consensus        59 ~~   60 (105)
T PF08777_consen   59 EA   60 (105)
T ss_dssp             HT
T ss_pred             hc
Confidence            55

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

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

Probab=97.87  E-value=1e-05  Score=83.75  Aligned_cols=63  Identities=24%  Similarity=0.363  Sum_probs=51.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||.+++.++|+++|+.||.|+..+|..-.          |..+       +.+||||+|++.++++.||..-
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~----------~~~~-------~~~fgFV~f~~~~~~~~~i~As  350 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRS----------PGGK-------NPCFGFVEFENAAAVQNAIEAS  350 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEec----------cCCC-------cCceEEEEEeecchhhhhhhcC
Confidence            4569999999999999999999999999988875311          1111       1379999999999999999865

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

Probab=97.87  E-value=8.8e-06  Score=77.28  Aligned_cols=67  Identities=19%  Similarity=0.176  Sum_probs=58.8

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||++||+.+.+.+|+++|.+||+|..|.|.                         .||+||+|++.-+|..||..|++
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-------------------------~gf~fv~fed~rda~Dav~~l~~   57 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMK-------------------------NGFGFVEFEDPRDADDAVHDLDG   57 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceee-------------------------cccceeccCchhhhhcccchhcC
Confidence            58999999999999999999999999999872                         67899999999999999999999


Q ss_pred             cccccccceEEEee
Q 015730          370 MIMLFFFSAFCLMF  383 (401)
Q Consensus       370 ~~~~~~~~~~~~~~  383 (401)
                      .+++...  ..+++
T Consensus        58 ~~l~~e~--~vve~   69 (216)
T KOG0106|consen   58 KELCGER--LVVEH   69 (216)
T ss_pred             ceeccee--eeeec
Confidence            8877753  44444

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

Probab=97.85  E-value=1.1e-05  Score=84.60  Aligned_cols=66  Identities=29%  Similarity=0.459  Sum_probs=57.2

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ....++|+|-|||.+++.++|.++|+.||+|+.||.-+                      ..+|.+||||-+.-+|+.|+
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~----------------------~~~~~~~v~FyDvR~A~~Al  129 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP----------------------NKRGIVFVEFYDVRDAERAL  129 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc----------------------ccCceEEEEEeehHhHHHHH
Confidence            35678999999999999999999999999999987631                      12789999999999999999


Q ss_pred             HHhccccc
Q 015730          365 SHLHFMIM  372 (401)
Q Consensus       365 ~~ln~~~~  372 (401)
                      ++|+...+
T Consensus       130 k~l~~~~~  137 (549)
T KOG4660|consen  130 KALNRREI  137 (549)
T ss_pred             HHHHHHHh
Confidence            99986553

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

Probab=97.84  E-value=1.6e-05  Score=81.55  Aligned_cols=66  Identities=26%  Similarity=0.182  Sum_probs=56.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ++|+|+|+|||.++|++.|++-|..||.|..+.|+...             |       .||  +|.|.+.++|++||+.
T Consensus       535 Ka~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~G-------------k-------skG--VVrF~s~edAEra~a~  592 (608)
T KOG4212|consen  535 KACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENG-------------K-------SKG--VVRFFSPEDAERACAL  592 (608)
T ss_pred             cccEEEEecCCccccHHHHHHHHHhccceehhhhhccC-------------C-------ccc--eEEecCHHHHHHHHHH
Confidence            47889999999999999999999999999999885321             1       144  8999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus       593 Mngs~l~G  600 (608)
T KOG4212|consen  593 MNGSRLDG  600 (608)
T ss_pred             hccCcccC
Confidence            99877655

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

Probab=97.80  E-value=1.7e-05  Score=76.27  Aligned_cols=74  Identities=22%  Similarity=0.175  Sum_probs=61.8

Q ss_pred             hhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          283 LEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       283 ~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..+.+.+.|||+|+...+|.++++..|+.||.|..|.|..++..+                 ..|||+||||.+.+.+++
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~-----------------~~k~~~yvef~~~~~~~~  158 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRG-----------------HPKGFAYVEFSSYELVEE  158 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCC-----------------CcceeEEEecccHhhhHH
Confidence            456678999999999999999999999999999999987654321                 138999999999999999


Q ss_pred             HHHHhccccccc
Q 015730          363 AVSHLHFMIMLF  374 (401)
Q Consensus       363 Av~~ln~~~~~~  374 (401)
                      |+. ||+..+-.
T Consensus       159 ay~-l~gs~i~~  169 (231)
T KOG4209|consen  159 AYK-LDGSEIPG  169 (231)
T ss_pred             Hhh-cCCccccc
Confidence            999 77655433

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

Probab=97.78  E-value=1.7e-05  Score=79.36  Aligned_cols=64  Identities=17%  Similarity=0.243  Sum_probs=55.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.+.|||++|.+++++|.|+++|+.||+|..+.++++..+++                 .+||+||+|++.+....++..
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~r-----------------srgFgfv~f~~~~~v~~vl~~   67 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGR-----------------SRGFGFVTFATPEGVDAVLNA   67 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCC-----------------cccccceecCCCcchheeecc
Confidence            478999999999999999999999999999999988765432                 289999999999888888775


Q ss_pred             h
Q 015730          367 L  367 (401)
Q Consensus       367 l  367 (401)
                      .
T Consensus        68 ~   68 (311)
T KOG4205|consen   68 R   68 (311)
T ss_pred             c
Confidence            4

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

Probab=97.66  E-value=0.00012  Score=70.90  Aligned_cols=68  Identities=24%  Similarity=0.280  Sum_probs=57.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|+|.||+..++.+||+++|..||.++.+-|-+++.           +.       ..|+|-|.|+..++|++||+.+
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~-----------G~-------s~Gta~v~~~r~~DA~~avk~~  144 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA-----------GR-------SLGTADVSFNRRDDAERAVKKY  144 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC-----------CC-------CCccceeeecchHhHHHHHHHh
Confidence            35799999999999999999999999999998866532           22       2688999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++ +.+.
T Consensus       145 ~g-v~ld  150 (243)
T KOG0533|consen  145 NG-VALD  150 (243)
T ss_pred             cC-cccC
Confidence            98 4444

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

Probab=97.65  E-value=0.00024  Score=59.64  Aligned_cols=77  Identities=18%  Similarity=0.191  Sum_probs=57.3

Q ss_pred             hheeccCCCCcccHHHHHHHHhc--cCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSA--VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~--fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .||.++|||...|.++|.+++..  .|...-+-+.          .|.+.+       .|.|||||-|.+.+.|.+..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLP----------iDf~~~-------~N~GYAFVNf~~~~~~~~F~~~   64 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLP----------IDFKNK-------CNLGYAFVNFTSPQAAIRFYKA   64 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEee----------eeccCC-------CceEEEEEEcCCHHHHHHHHHH
Confidence            58999999999999999988876  3555555552          232322       3689999999999999999999


Q ss_pred             hccccccccc-ceEEEe
Q 015730          367 LHFMIMLFFF-SAFCLM  382 (401)
Q Consensus       367 ln~~~~~~~~-~~~~~~  382 (401)
                      +++..-..+. ...|.+
T Consensus        65 f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen   65 FNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             HcCCccccCCCCcEEEE
Confidence            9988765432 334433

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

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

Probab=97.65  E-value=7e-05  Score=78.91  Aligned_cols=71  Identities=23%  Similarity=0.252  Sum_probs=57.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..|.|+|.+|...+---+|+.||++||+|.-+.++...          |+   .    +.+.|+||++.+.++|.+||+.
T Consensus       404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNa----------Rs---P----GaRCYGfVTMSts~eAtkCI~h  466 (940)
T KOG4661|consen  404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNA----------RS---P----GARCYGFVTMSTSAEATKCIEH  466 (940)
T ss_pred             cccceeeeccccchhhhHHHHHHHHhcceeceeeeecC----------CC---C----CcceeEEEEecchHHHHHHHHH
Confidence            35789999999888889999999999999988886321          21   1    2378999999999999999998


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |.-+.+..
T Consensus       467 LHrTELHG  474 (940)
T KOG4661|consen  467 LHRTELHG  474 (940)
T ss_pred             hhhhhhcc
Confidence            86554443

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

Probab=97.63  E-value=0.00016  Score=75.18  Aligned_cols=83  Identities=24%  Similarity=0.329  Sum_probs=61.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .-.|-..+||+.+|++||.++|+..=-|.. |.+  +        .+.|..        ..|-|||+|++.|.|++|+..
T Consensus       103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l--~--------~d~rgR--------~tGEAfVqF~sqe~ae~Al~r  164 (510)
T KOG4211|consen  103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILL--P--------MDQRGR--------PTGEAFVQFESQESAEIALGR  164 (510)
T ss_pred             CceEEecCCCccCcHHHHHHHhcCCcccccceee--e--------ccCCCC--------cccceEEEecCHHHHHHHHHH
Confidence            457888999999999999999997543333 222  2        222322        267799999999999999987


Q ss_pred             hcccccccccceEEEeecccCHHHHH
Q 015730          367 LHFMIMLFFFSAFCLMFVTQTNEIRT  392 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~~e~R~  392 (401)
                      -++.+    .-+|+..|+....|.+.
T Consensus       165 hre~i----GhRYIEvF~Ss~~e~~~  186 (510)
T KOG4211|consen  165 HRENI----GHRYIEVFRSSRAEVKR  186 (510)
T ss_pred             HHHhh----ccceEEeehhHHHHHHh
Confidence            76555    56888888887777654

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

Probab=97.62  E-value=4.4e-05  Score=72.33  Aligned_cols=68  Identities=16%  Similarity=0.114  Sum_probs=58.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .|||||.||-..+++|-|.++|-+-|.|..|.|...+           ..+       .| ||||+|+++-+..-|++-+
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-----------d~~-------~k-Fa~v~f~~E~sv~~a~~L~   69 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-----------DQE-------QK-FAYVFFPNENSVQLAGQLE   69 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-----------cCC-------Cc-eeeeecccccchhhhhhhc
Confidence            6899999999999999999999999999999874322           121       25 9999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+.....
T Consensus        70 ng~~l~~   76 (267)
T KOG4454|consen   70 NGDDLEE   76 (267)
T ss_pred             ccchhcc
Confidence            8877665

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

Probab=97.60  E-value=7.1e-05  Score=80.54  Aligned_cols=81  Identities=19%  Similarity=0.283  Sum_probs=66.7

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .....|||+||+..++++.|...|+.||.|..|+|+.|++-.-      |.        ..+.|+||-|.+..+|++|++
T Consensus       172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeE------k~--------r~r~cgfvafmnR~D~era~k  237 (877)
T KOG0151|consen  172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEE------KR--------RERNCGFVAFMNRADAERALK  237 (877)
T ss_pred             CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhh------hc--------cccccceeeehhhhhHHHHHH
Confidence            3456899999999999999999999999999999999875211      11        126799999999999999999


Q ss_pred             HhcccccccccceEE
Q 015730          366 HLHFMIMLFFFSAFC  380 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~  380 (401)
                      +|++.+++.....|.
T Consensus       238 ~lqg~iv~~~e~K~g  252 (877)
T KOG0151|consen  238 ELQGIIVMEYEMKLG  252 (877)
T ss_pred             Hhcceeeeeeeeeec
Confidence            999998887444444

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

Probab=97.51  E-value=0.00019  Score=74.62  Aligned_cols=77  Identities=22%  Similarity=0.283  Sum_probs=56.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .-|-+.+||+.+|++||.++|+-++ |+++.+.|  .++          +       +.|=|||||+++|++++|++.-.
T Consensus        11 ~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~G----------r-------~sGeA~Ve~~seedv~~AlkkdR   70 (510)
T KOG4211|consen   11 FEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNG----------R-------PSGEAYVEFTSEEDVEKALKKDR   70 (510)
T ss_pred             eEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCC----------C-------cCcceEEEeechHHHHHHHHhhH
Confidence            3566789999999999999999986 66654432  222          1       26779999999999999998543


Q ss_pred             ccccccccceEEEeecccCHH
Q 015730          369 FMIMLFFFSAFCLMFVTQTNE  389 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~~~e  389 (401)
                      ..+    ..+|+.+|...-+|
T Consensus        71 ~~m----g~RYIEVf~~~~~e   87 (510)
T KOG4211|consen   71 ESM----GHRYIEVFTAGGAE   87 (510)
T ss_pred             HHh----CCceEEEEccCCcc
Confidence            322    46788887764444

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

Probab=97.49  E-value=0.00027  Score=70.86  Aligned_cols=74  Identities=20%  Similarity=0.129  Sum_probs=55.7

Q ss_pred             hhhhhhhheeccCCCCcccHHHHHHHHhccCCeeE--------EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEe
Q 015730          283 LEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKT--------IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY  354 (401)
Q Consensus       283 ~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~--------Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEF  354 (401)
                      .+......|||.|||.|+|.+++.++|++||-|..        |.|-+++           .++       -||=|.|+|
T Consensus       129 ~~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-----------~G~-------lKGDaLc~y  190 (382)
T KOG1548|consen  129 PEPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-----------QGK-------LKGDALCCY  190 (382)
T ss_pred             cccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-----------CCC-------ccCceEEEe
Confidence            33445667999999999999999999999997632        2222211           111       278899999


Q ss_pred             cCHHHHHHHHHHhccccccc
Q 015730          355 ESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       355 es~E~A~kAv~~ln~~~~~~  374 (401)
                      -.+|+.+-|++-|++.....
T Consensus       191 ~K~ESVeLA~~ilDe~~~rg  210 (382)
T KOG1548|consen  191 IKRESVELAIKILDEDELRG  210 (382)
T ss_pred             ecccHHHHHHHHhCcccccC
Confidence            99999999999998776554

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

Probab=97.34  E-value=0.00024  Score=74.70  Aligned_cols=75  Identities=27%  Similarity=0.264  Sum_probs=64.1

Q ss_pred             hhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          283 LEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       283 ~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      .++.+.||||+.-+....+.-+|+++|+.+|+|..|+++.++.+.+                 .||.|||||.+.++...
T Consensus       174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~r-----------------skgi~Yvef~D~~sVp~  236 (549)
T KOG0147|consen  174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRR-----------------SKGIAYVEFCDEQSVPL  236 (549)
T ss_pred             chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchh-----------------hcceeEEEEecccchhh
Confidence            3567889999999999999999999999999999999998765332                 28999999999999998


Q ss_pred             HHHHhcccccccc
Q 015730          363 AVSHLHFMIMLFF  375 (401)
Q Consensus       363 Av~~ln~~~~~~~  375 (401)
                      || .|++...+..
T Consensus       237 ai-aLsGqrllg~  248 (549)
T KOG0147|consen  237 AI-ALSGQRLLGV  248 (549)
T ss_pred             Hh-hhcCCcccCc
Confidence            88 5888876663

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

Probab=97.21  E-value=0.00061  Score=50.85  Aligned_cols=52  Identities=21%  Similarity=0.399  Sum_probs=41.4

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +.|.|.|++.+.. +.|.+.|..||+|..+.+-  .                     ...+.||+|+++.+|++|+
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~--~---------------------~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVP--E---------------------STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcC--C---------------------CCcEEEEEECCHHHHHhhC
Confidence            5788999986654 5566699999999998872  0                     1457999999999999985

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

Probab=97.19  E-value=0.00096  Score=63.65  Aligned_cols=71  Identities=17%  Similarity=0.190  Sum_probs=54.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .|||||.+||.|+..-+|-.+|..|---+..-|.+.   +       |.++    .  -+.+|||.|.+..+|+.|++.|
T Consensus        34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~T---s-------k~~~----~--~~pvaFatF~s~q~A~aamnaL   97 (284)
T KOG1457|consen   34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYT---S-------KGDQ----V--CKPVAFATFTSHQFALAAMNAL   97 (284)
T ss_pred             cceeeeccCCcccCHHHHHHHhccCCCccceeeeec---c-------CCCc----c--ccceEEEEecchHHHHHHHHHh
Confidence            689999999999999999999998854444444321   1       1111    1  1679999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+.+.--
T Consensus        98 NGvrFDp  104 (284)
T KOG1457|consen   98 NGVRFDP  104 (284)
T ss_pred             cCeeecc
Confidence            9876443

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

Probab=97.17  E-value=0.00056  Score=66.18  Aligned_cols=71  Identities=15%  Similarity=0.142  Sum_probs=60.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ++-.||.+.|-.+++.+-|.+.|.+|=.....++++++          |.+|+       |||+||-|.+.+++..|+++
T Consensus       189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdk----------RTgKS-------kgygfVSf~~pad~~rAmre  251 (290)
T KOG0226|consen  189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDK----------RTGKS-------KGYGFVSFRDPADYVRAMRE  251 (290)
T ss_pred             ccceeecccccccccHHHHHHHHHhccchhhccccccc----------ccccc-------ccceeeeecCHHHHHHHHHh
Confidence            35578999999999999999999999888888887764          44443       89999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++.-+..
T Consensus       252 m~gkyVgs  259 (290)
T KOG0226|consen  252 MNGKYVGS  259 (290)
T ss_pred             hccccccc
Confidence            99876655

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

Probab=96.99  E-value=0.00096  Score=63.45  Aligned_cols=154  Identities=18%  Similarity=0.207  Sum_probs=93.3

Q ss_pred             HHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccch-hhHHhhhc-----CHHHHHHhhhcCcce-----EEe
Q 015730          198 IQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASF-KKIKAIIS-----SHSHLASVLRKSSKL-----VVS  266 (401)
Q Consensus       198 ~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sF-kKvK~lt~-----d~e~I~eALk~S~~L-----EVs  266 (401)
                      ++.++++|.-.||.-.=.-|--.++..++.++-||.++-+.+= .-+++|..     ..-.|..|..+|..+     ++.
T Consensus        23 ~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v  102 (221)
T KOG4206|consen   23 KDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFV  102 (221)
T ss_pred             HHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceec
Confidence            3677777777888766444544455456777888877664332 22333322     112333344444322     122


Q ss_pred             ccccc-----cccC-CCCCcc----------------hhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCC
Q 015730          267 EDGKK-----IKRQ-NPLTES----------------DLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQ  324 (401)
Q Consensus       267 edg~k-----VRRk-~Pl~e~----------------~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~  324 (401)
                      +.+.+     +++. .+....                +.......++++.|||..++.+.|..+|.+|+-.+.||++..+
T Consensus       103 ~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~  182 (221)
T KOG4206|consen  103 EKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR  182 (221)
T ss_pred             cccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC
Confidence            21111     1100 111000                1112345789999999999999999999999999999997421


Q ss_pred             CCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccc
Q 015730          325 TSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIML  373 (401)
Q Consensus       325 ~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~  373 (401)
                                            ++.|||||.+...|.-|...+.+-..-
T Consensus       183 ----------------------~~iAfve~~~d~~a~~a~~~lq~~~it  209 (221)
T KOG4206|consen  183 ----------------------SGIAFVEFLSDRQASAAQQALQGFKIT  209 (221)
T ss_pred             ----------------------CceeEEecchhhhhHHHhhhhccceec
Confidence                                  678999999999888888888665443

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

Probab=96.91  E-value=0.0012  Score=63.01  Aligned_cols=62  Identities=21%  Similarity=0.333  Sum_probs=51.6

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      ||||-||-.++|+++|+.+|+.|--...++|+-            |         +....|||+|++.|.|..|+..|.+
T Consensus       212 tlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~------------~---------~g~~vaf~~~~~~~~at~am~~lqg  270 (284)
T KOG1457|consen  212 TLFIANLGPNCTEDELKQLLSRYPGFHILKIRA------------R---------GGMPVAFADFEEIEQATDAMNHLQG  270 (284)
T ss_pred             hHhhhccCCCCCHHHHHHHHHhCCCceEEEEec------------C---------CCcceEeecHHHHHHHHHHHHHhhc
Confidence            799999999999999999999998777777631            1         1256799999999999999999876


Q ss_pred             ccc
Q 015730          370 MIM  372 (401)
Q Consensus       370 ~~~  372 (401)
                      ..+
T Consensus       271 ~~~  273 (284)
T KOG1457|consen  271 NLL  273 (284)
T ss_pred             cee
Confidence            654

>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=96.85  E-value=0.0038  Score=51.23  Aligned_cols=67  Identities=18%  Similarity=0.263  Sum_probs=43.4

Q ss_pred             hheeccCCCCcccHH----HHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQ----NLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       289 rtVyV~nLP~d~t~e----dL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..|||.|||.+.+..    -|+.++.-|| +|..|.                           .+.|+|-|.+.|.|.+|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~---------------------------~~tAilrF~~~~~A~RA   55 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS---------------------------GGTAILRFPNQEFAERA   55 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----------------------------TT-EEEEESSHHHHHHH
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe---------------------------CCEEEEEeCCHHHHHHH
Confidence            368999999987754    4666777776 565552                           45799999999999999


Q ss_pred             HHHhcccccccccceEEEeec
Q 015730          364 VSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~~  384 (401)
                      .+.|+++.+..  ..|.+.+.
T Consensus        56 ~KRmegEdVfG--~kI~v~~~   74 (90)
T PF11608_consen   56 QKRMEGEDVFG--NKISVSFS   74 (90)
T ss_dssp             HHHHTT--SSS--S--EEESS
T ss_pred             HHhhccccccc--ceEEEEEc
Confidence            99998887655  34555554

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

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

Probab=96.85  E-value=0.00048  Score=65.59  Aligned_cols=64  Identities=23%  Similarity=0.224  Sum_probs=54.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+.++|.|+...+.+++|++.|..+|.+....++                         .+++||+|++.++|.+|+..
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~-------------------------~~~~~v~Fs~~~da~ra~~~  152 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR-------------------------RNFAFVEFSEQEDAKRALEK  152 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhhh-------------------------ccccceeehhhhhhhhcchh
Confidence            45678899999999999999999999998555442                         56799999999999999999


Q ss_pred             hcccccccc
Q 015730          367 LHFMIMLFF  375 (401)
Q Consensus       367 ln~~~~~~~  375 (401)
                      |++..+...
T Consensus       153 l~~~~~~~~  161 (216)
T KOG0106|consen  153 LDGKKLNGR  161 (216)
T ss_pred             ccchhhcCc
Confidence            998876653

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

Probab=96.39  E-value=0.016  Score=58.46  Aligned_cols=134  Identities=15%  Similarity=0.230  Sum_probs=81.0

Q ss_pred             CcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCc----ceEEecccc------ccccC----C--
Q 015730          213 NLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSS----KLVVSEDGK------KIKRQ----N--  276 (401)
Q Consensus       213 NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~----~LEVsedg~------kVRRk----~--  276 (401)
                      +..+.++..+ +.++.+|-+.-+-+|.|-|-.+.    ++++..|.++.    .|.|.....      .+.++    .  
T Consensus       164 d~~t~epk~K-lYrd~~G~lKGDaLc~y~K~ESV----eLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~  238 (382)
T KOG1548|consen  164 DPQTGEPKVK-LYRDNQGKLKGDALCCYIKRESV----ELAIKILDEDELRGKKLRVERAKFQMKGEYDASKKEKGKCKD  238 (382)
T ss_pred             cCCCCCeeEE-EEecCCCCccCceEEEeecccHH----HHHHHHhCcccccCcEEEEehhhhhhccCcCccccccccccc
Confidence            3333344444 34567788888888888766544    44555554433    455553210      01111    0  


Q ss_pred             ---------C-C---Ccc--hhhhhhhhheeccCCC--Cc--cc-------HHHHHHHHhccCCeeEEEEecCCCCCCCC
Q 015730          277 ---------P-L---TES--DLEELQSRIVVAENLP--ED--HC-------HQNLMKIFSAVGSVKTIRTCLPQTSGGGA  330 (401)
Q Consensus       277 ---------P-l---~e~--~~~e~~~rtVyV~nLP--~d--~t-------~edL~~lFs~fG~V~~Vri~~p~~~~~~~  330 (401)
                               . +   ++.  .......+||+++|+=  .+  .+       .++|++-.++||.|.+|.|. ++      
T Consensus       239 ~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d~------  311 (382)
T KOG1548|consen  239 KKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-DR------  311 (382)
T ss_pred             HHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-cc------
Confidence                     0 0   001  1122346789999983  21  12       36677788999999999874 32      


Q ss_pred             CCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccc
Q 015730          331 SSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIM  372 (401)
Q Consensus       331 p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~  372 (401)
                                    .+.|.+-|.|.+.++|..||+.|++.-.
T Consensus       312 --------------hPdGvvtV~f~n~eeA~~ciq~m~GR~f  339 (382)
T KOG1548|consen  312 --------------HPDGVVTVSFRNNEEADQCIQTMDGRWF  339 (382)
T ss_pred             --------------CCCceeEEEeCChHHHHHHHHHhcCeee
Confidence                          1378899999999999999999987643

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

Probab=96.28  E-value=0.013  Score=54.68  Aligned_cols=68  Identities=22%  Similarity=0.057  Sum_probs=57.0

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      -.|+|.+||...++++|+..+.+-|.|....+-+                        .|+++|||...|+++.||+.|.
T Consensus       116 ~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~r------------------------Dg~GvV~~~r~eDMkYAvr~ld  171 (241)
T KOG0105|consen  116 YRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQR------------------------DGVGVVEYLRKEDMKYAVRKLD  171 (241)
T ss_pred             eeEEEecCCCCCchHHHHHHHHhhCCeeeeeeec------------------------ccceeeeeeehhhHHHHHHhhc
Confidence            3588999999999999999999999998887743                        4578999999999999999998


Q ss_pred             ccccccccceEE
Q 015730          369 FMIMLFFFSAFC  380 (401)
Q Consensus       369 ~~~~~~~~~~~~  380 (401)
                      +.+.......++
T Consensus       172 ~~~~~seGe~~y  183 (241)
T KOG0105|consen  172 DQKFRSEGETAY  183 (241)
T ss_pred             cccccCcCcEee
Confidence            887665433333

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

Probab=96.28  E-value=0.0074  Score=64.10  Aligned_cols=69  Identities=28%  Similarity=0.259  Sum_probs=51.1

Q ss_pred             hhheeccCCCCcc--cH----HHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          288 SRIVVAENLPEDH--CH----QNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       288 ~rtVyV~nLP~d~--t~----edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      ...|+|.|+|.--  -.    .-|.++|+++|+|...-+-.+.          -        .+.+||.|+||++..+|+
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e----------~--------ggtkG~lf~E~~~~~~A~  119 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDE----------E--------GGTKGYLFVEYASMRDAK  119 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCc----------c--------CCeeeEEEEEecChhhHH
Confidence            4567888888532  22    3467899999998877662211          1        123899999999999999


Q ss_pred             HHHHHhccccccc
Q 015730          362 KAVSHLHFMIMLF  374 (401)
Q Consensus       362 kAv~~ln~~~~~~  374 (401)
                      +||+.||+..+..
T Consensus       120 ~aVK~l~G~~ldk  132 (698)
T KOG2314|consen  120 KAVKSLNGKRLDK  132 (698)
T ss_pred             HHHHhcccceecc
Confidence            9999999987665

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.83  E-value=0.013  Score=59.00  Aligned_cols=73  Identities=18%  Similarity=0.257  Sum_probs=51.5

Q ss_pred             hhhhheeccCCCCcccHHH------HHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcce--EEEEecCH
Q 015730          286 LQSRIVVAENLPEDHCHQN------LMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLH--AFVEYESV  357 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~ed------L~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~--AFVEFes~  357 (401)
                      ++...|||-+|+..+-.|+      -.++|++||+|..|-+-+-.      ++.+.          ..++  +||+|.+.
T Consensus       112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt------~s~ns----------t~~h~gvYITy~~k  175 (480)
T COG5175         112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKT------SSLNS----------TASHAGVYITYSTK  175 (480)
T ss_pred             eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccc------ccccc----------ccccceEEEEecch
Confidence            3455789999987665554      36899999999999884321      11111          1122  59999999


Q ss_pred             HHHHHHHHHhccccccc
Q 015730          358 ELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~  374 (401)
                      |+|.+||.+.++..+..
T Consensus       176 edAarcIa~vDgs~~DG  192 (480)
T COG5175         176 EDAARCIAEVDGSLLDG  192 (480)
T ss_pred             HHHHHHHHHhccccccC
Confidence            99999999988765444

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

Probab=95.81  E-value=0.02  Score=58.88  Aligned_cols=71  Identities=18%  Similarity=0.267  Sum_probs=59.4

Q ss_pred             hheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..|.|.||.+ .+|.+-|--+|+.||.|.+|.|++.+                      |..|.|.|.+...|+-|++.|
T Consensus       298 ~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk----------------------kd~ALIQmsd~~qAqLA~~hL  355 (492)
T KOG1190|consen  298 VVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK----------------------KDNALIQMSDGQQAQLAMEHL  355 (492)
T ss_pred             eEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC----------------------CcceeeeecchhHHHHHHHHh
Confidence            5677888865 47999999999999999999998632                      567999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      ++.+++.  +.+++.+
T Consensus       356 ~g~~l~g--k~lrvt~  369 (492)
T KOG1190|consen  356 EGHKLYG--KKLRVTL  369 (492)
T ss_pred             hcceecC--ceEEEee
Confidence            9888776  4566555

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

Probab=95.66  E-value=0.0037  Score=60.64  Aligned_cols=82  Identities=20%  Similarity=0.183  Sum_probs=57.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .-.||+++||..+....|++||+.||.|-+|.+-....+..  -...|.++.....|   .-+.|||.+...|.++...|
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~--~~r~~~~~n~~~~y---~EGWvEF~~KrvAK~iAe~L  148 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKR--AARKRKGGNYKKLY---SEGWVEFISKRVAKRIAELL  148 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHH--HHHhhcCCCccccc---hhHHHHHHHHHHHHHHHHHh
Confidence            34799999999999999999999999999998853322100  00001111111111   11578999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       149 nn~~Igg  155 (278)
T KOG3152|consen  149 NNTPIGG  155 (278)
T ss_pred             CCCccCC
Confidence            9887665

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.60  E-value=0.016  Score=60.98  Aligned_cols=69  Identities=23%  Similarity=0.177  Sum_probs=50.8

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcc---eEEEEecCHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKL---HAFVEYESVELAEK  362 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG---~AFVEFes~E~A~k  362 (401)
                      .-.+.|||++||.+++++.|...|..||.+..=.=.+.+.         + +     .+-.||   |+|+-|+++.+...
T Consensus       257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~---------~-~-----~~ppkGs~~YvflvFe~E~sV~~  321 (520)
T KOG0129|consen  257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANS---------R-G-----RAPPKGSYGYVFLVFEDERSVQS  321 (520)
T ss_pred             ccccceeecCCCccccHHHHHhhcccccceEeecCCCccc---------c-c-----cCCCCCcccEEEEEecchHHHHH
Confidence            3478999999999999999999999999875433211111         1 1     122356   99999999999888


Q ss_pred             HHHHhcc
Q 015730          363 AVSHLHF  369 (401)
Q Consensus       363 Av~~ln~  369 (401)
                      -+..+..
T Consensus       322 Ll~aC~~  328 (520)
T KOG0129|consen  322 LLSACSE  328 (520)
T ss_pred             HHHHHhh
Confidence            8877643

>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]

Probab=95.58  E-value=0.08  Score=55.78  Aligned_cols=6  Identities=0%  Similarity=0.146  Sum_probs=2.3

Q ss_pred             HHHHHh
Q 015730          197 SIQKVL  202 (401)
Q Consensus       197 ~~~kI~  202 (401)
                      ++..|+
T Consensus       498 LmaqIR  503 (569)
T KOG3671|consen  498 LMAQIR  503 (569)
T ss_pred             HHHHHH
Confidence            333443

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

Probab=95.40  E-value=0.012  Score=62.25  Aligned_cols=70  Identities=20%  Similarity=0.304  Sum_probs=59.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|||++||...+...++++.+.||.+...+++.+..++                 .+|||||.||.+......|++.|
T Consensus       289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g-----------------~skg~af~ey~dpsvtd~A~agL  351 (500)
T KOG0120|consen  289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATG-----------------NSKGFAFCEYCDPSVTDQAIAGL  351 (500)
T ss_pred             cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccc-----------------cccceeeeeeeCCcchhhhhccc
Confidence            4579999999999999999999999999999887543221                 35999999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       352 nGm~lgd  358 (500)
T KOG0120|consen  352 NGMQLGD  358 (500)
T ss_pred             chhhhcC
Confidence            8876654

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.08  E-value=0.044  Score=49.26  Aligned_cols=60  Identities=20%  Similarity=0.304  Sum_probs=46.6

Q ss_pred             hhhheeccCCCCcc----cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDH----CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~----t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      .-.||+|..|..++    +...|....+.||.|.+|.++-                        +-.|+|.|++..+|=+
T Consensus        85 PMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG------------------------rqsavVvF~d~~SAC~  140 (166)
T PF15023_consen   85 PMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG------------------------RQSAVVVFKDITSACK  140 (166)
T ss_pred             CceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC------------------------CceEEEEehhhHHHHH
Confidence            34688887766654    3445666678999999999861                        4579999999999999


Q ss_pred             HHHHhccc
Q 015730          363 AVSHLHFM  370 (401)
Q Consensus       363 Av~~ln~~  370 (401)
                      ||..+...
T Consensus       141 Av~Af~s~  148 (166)
T PF15023_consen  141 AVSAFQSR  148 (166)
T ss_pred             HHHhhcCC
Confidence            99998644

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=94.80  E-value=0.015  Score=57.81  Aligned_cols=62  Identities=18%  Similarity=0.274  Sum_probs=50.4

Q ss_pred             hhhee-ccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVV-AENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVy-V~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++| |+||+.+++.++|...|..+|.|..||+.-...+          +.       -+|||||+|.+.+++.+++..
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s----------~~-------~kg~a~~~~~~~~~~~~~~~~  246 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEES----------GD-------SKGFAYVDFSAGNSKKLALND  246 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcCcceeeccCCCCCc----------cc-------hhhhhhhhhhhchhHHHHhhc
Confidence            34555 9999999999999999999999999998432221          11       289999999999999888875

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

Probab=94.78  E-value=0.034  Score=56.26  Aligned_cols=79  Identities=16%  Similarity=0.160  Sum_probs=56.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..-||||.+++..+|.++|.++|.+||.|..     ++.+++.-+..-+.+++    -..||-|.|.|++.-.|+.||.-
T Consensus        65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikr-----nK~t~kPki~~y~dkeT----~~~KGeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   65 DNETIFVWGCPDSVCENDNADFFLQCGVIKR-----NKRTGKPKIKIYTDKET----GAPKGEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             ccccceeeccCccchHHHHHHHHhhcceecc-----CCCCCCcchhccccccc----cCcCCceeeeecChhhhhhhhhh
Confidence            4569999999999999999999999998753     22222211111111122    13489999999999999999998


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ++....+.
T Consensus       136 ~agkdf~g  143 (351)
T KOG1995|consen  136 FAGKDFCG  143 (351)
T ss_pred             hccccccC
Confidence            87666554

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

Probab=94.78  E-value=0.056  Score=58.89  Aligned_cols=67  Identities=21%  Similarity=0.279  Sum_probs=53.3

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCe-eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSV-KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V-~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .|-+.|+|++++.+||.++|..|-.+ .+|++++..               +|+   ..|-|-|-|++.|+|..|+..|+
T Consensus       869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd---------------~G~---pTGe~mvAfes~~eAr~A~~dl~  930 (944)
T KOG4307|consen  869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRND---------------DGV---PTGECMVAFESQEEARRASMDLD  930 (944)
T ss_pred             EEEecCCCccccHHHHHHHhcccccCCCceeEeecC---------------CCC---cccceeEeecCHHHHHhhhhccc
Confidence            46688999999999999999999765 467776521               111   25779999999999999999998


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +..+..
T Consensus       931 ~~~i~n  936 (944)
T KOG4307|consen  931 GQKIRN  936 (944)
T ss_pred             cCcccc
Confidence            876554

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=94.75  E-value=0.0072  Score=66.74  Aligned_cols=66  Identities=21%  Similarity=0.284  Sum_probs=53.8

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .+..++||+||+..++.++|...|+.+|.+..|++..-..              .+ .  .+|.|||+|...++|.+||.
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n--------------~~-~--~rG~~Y~~F~~~~~~~aaV~  727 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKN--------------EK-R--FRGKAYVEFLKPEHAGAAVA  727 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhh--------------cc-c--cccceeeEeecCCchhhhhh
Confidence            4567899999999999999999999999998888752211              11 1  28999999999999999998


Q ss_pred             Hhc
Q 015730          366 HLH  368 (401)
Q Consensus       366 ~ln  368 (401)
                      ...
T Consensus       728 f~d  730 (881)
T KOG0128|consen  728 FRD  730 (881)
T ss_pred             hhh
Confidence            554

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

Probab=94.68  E-value=0.05  Score=55.71  Aligned_cols=88  Identities=22%  Similarity=0.197  Sum_probs=59.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhc-----cCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSA-----VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~-----fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      .-+|-..+||+|++..++.++|..     -|.+.-+.+.++.         .|          ..|=|||.|..+++|+.
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd---------gr----------pTGdAFvlfa~ee~aq~  221 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD---------GR----------PTGDAFVLFACEEDAQF  221 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC---------CC----------cccceEEEecCHHHHHH
Confidence            346777999999999999999973     3443334443331         12          25779999999999999


Q ss_pred             HHHHhcccccccccceEEEeecccCHHHHHHHHHHHh
Q 015730          363 AVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCR  399 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~~~~~~e~R~~~~~~~~  399 (401)
                      |+..-.+.+    +++|+..|+ +++-|=-+.++++.
T Consensus       222 aL~khrq~i----GqRYIElFR-STaaEvqqvlnr~~  253 (508)
T KOG1365|consen  222 ALRKHRQNI----GQRYIELFR-STAAEVQQVLNREV  253 (508)
T ss_pred             HHHHHHHHH----hHHHHHHHH-HhHHHHHHHHHhhc
Confidence            998665443    456665544 45555556666654

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

Probab=94.67  E-value=0.018  Score=59.29  Aligned_cols=57  Identities=26%  Similarity=0.288  Sum_probs=48.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ++.|-++|||.++++++|-.++..||+|+.+.+++-                       |.-||+||.++++|..-+...
T Consensus        28 SkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkG-----------------------knQAflem~d~~sAvtmv~~y   84 (492)
T KOG1190|consen   28 SKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKG-----------------------KNQAFLEMADEESAVTMVNYY   84 (492)
T ss_pred             cceeEeccCCccccHHHHHHhcccccceeeeeeecc-----------------------chhhhhhhcchhhhhheeecc
Confidence            678999999999999999999999999999988631                       335999999999988755544

>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=94.44  E-value=0.088  Score=44.50  Aligned_cols=73  Identities=18%  Similarity=0.212  Sum_probs=42.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+.|.|=++|.. ....|.+.|++||.|....-+.....+..          ..+.+....+..|.|++..+|++||.+
T Consensus         5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~----------~~~~~~~~NWi~I~Y~~~~~A~rAL~~   73 (100)
T PF05172_consen    5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGIN----------PYPIPSGGNWIHITYDNPLSAQRALQK   73 (100)
T ss_dssp             GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG--------------------E-CCTTEEEEEESSHHHHHHHHTT
T ss_pred             CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccc----------cccCCCCCCEEEEECCCHHHHHHHHHh
Confidence            3556778899888 45677789999999976652211000000          001223366889999999999999984


Q ss_pred             hcccc
Q 015730          367 LHFMI  371 (401)
Q Consensus       367 ln~~~  371 (401)
                       |+.+
T Consensus        74 -NG~i   77 (100)
T PF05172_consen   74 -NGTI   77 (100)
T ss_dssp             -TTEE
T ss_pred             -CCeE
Confidence             4444

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.

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

Probab=94.34  E-value=0.064  Score=54.92  Aligned_cols=81  Identities=19%  Similarity=0.315  Sum_probs=61.4

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCC-eeE--EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGS-VKT--IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~-V~~--Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      -+|-..+||+.++.|+|-.+|+.|-. |..  |.|..... |                 ...|-|||+|.++|+|..|..
T Consensus       281 dcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~q-G-----------------rPSGeAFIqm~nae~a~aaaq  342 (508)
T KOG1365|consen  281 DCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQ-G-----------------RPSGEAFIQMRNAERARAAAQ  342 (508)
T ss_pred             CeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCC-C-----------------CcChhhhhhhhhhHHHHHHHH
Confidence            47888999999999999999999864 433  66654321 1                 126779999999999999988


Q ss_pred             HhcccccccccceEEEeecccCHHH
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQTNEI  390 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~~~e~  390 (401)
                      .+.+..+   +++|+.+|....+|.
T Consensus       343 k~hk~~m---k~RYiEvfp~S~eel  364 (508)
T KOG1365|consen  343 KCHKKLM---KSRYIEVFPCSVEEL  364 (508)
T ss_pred             HHHHhhc---ccceEEEeeccHHHH
Confidence            8876654   578998887655554

>PF07145 PAM2: Ataxin-2 C-terminal region; InterPro: IPR009818 This entry represents a conserved region approximately 250 residues long located towards the C terminus of eukaryotic ataxin-2

Probab=94.27  E-value=0.029  Score=33.04  Aligned_cols=16  Identities=56%  Similarity=0.916  Sum_probs=12.6

Q ss_pred             ccccccCCCCCCCCCC
Q 015730           36 SFSRLNAKAPEFVPTR   51 (401)
Q Consensus        36 ~~~~~~~~~p~~~p~~   51 (401)
                      ..|+||..|+||||+.
T Consensus         2 ~~s~LNp~A~eFvP~~   17 (18)
T PF07145_consen    2 KSSKLNPNAPEFVPSS   17 (18)
T ss_dssp             -SSSSSTTSSSS-TTT
T ss_pred             cccccCCCCccccCCC
Confidence            4689999999999974

Ataxin-2 is a protein of unknown function, within which expansion of a polyglutamine tract (due to expansion of unstable CAG repeats in the coding region of the SCA2 gene) causes spinocerebellar ataxia type 2 (SCA2), a late-onset neurodegenerative disorder []. The expanded polyglutamine repeat in ataxin-2 causes disruption of the normal morphology of the Golgi complex and increased incidence of cell death []. Ataxin-2 is predicted to consist of mostly non-globular domains [].; PDB: 3NTW_B 1JH4_B 3KTR_B 3KUJ_B 3KUT_D 3KUS_D 1JGN_B 2RQG_A 2RQH_A.

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

Probab=94.26  E-value=0.092  Score=55.86  Aligned_cols=58  Identities=16%  Similarity=0.205  Sum_probs=42.1

Q ss_pred             HHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          303 QNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       303 edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      |+|+.-+++||.|..|.+-++-..        .      -.....|.+||||.+.+++++|.++|++.....
T Consensus       424 Edvr~ec~k~g~v~~v~ipr~~~~--------~------~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~n  481 (500)
T KOG0120|consen  424 EDVRTECAKFGAVRSVEIPRPYPD--------E------NPVPGTGKVFVEFADTEDSQRAMEELTGRKFAN  481 (500)
T ss_pred             HHHHHHhcccCceeEEecCCCCCC--------C------CcCCCcccEEEEecChHHHHHHHHHccCceeCC
Confidence            455566689999999998554100        0      011236889999999999999999999877443

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

Probab=94.05  E-value=0.13  Score=52.70  Aligned_cols=71  Identities=20%  Similarity=0.257  Sum_probs=55.8

Q ss_pred             hhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .+.+.|-+|..+ ++-+.|-.+|=.||.|++|+.++.+                      .|-|.||+.+..+.++||..
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk----------------------~gtamVemgd~~aver~v~h  344 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK----------------------PGTAMVEMGDAYAVERAVTH  344 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc----------------------cceeEEEcCcHHHHHHHHHH
Confidence            345667778654 5678899999999999999997532                      56799999999999999999


Q ss_pred             hcccccccccceEE
Q 015730          367 LHFMIMLFFFSAFC  380 (401)
Q Consensus       367 ln~~~~~~~~~~~~  380 (401)
                      ||+..+..++..+|
T Consensus       345 Lnn~~lfG~kl~v~  358 (494)
T KOG1456|consen  345 LNNIPLFGGKLNVC  358 (494)
T ss_pred             hccCccccceEEEe
Confidence            99887744434444

>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []

Probab=93.99  E-value=0.037  Score=62.44  Aligned_cols=53  Identities=25%  Similarity=0.463  Sum_probs=47.6

Q ss_pred             hccCCCCceecccccchhhHHhhhcCHHHHHHhhhc-CcceEEeccccccccCC
Q 015730          224 ILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRK-SSKLVVSEDGKKIKRQN  276 (401)
Q Consensus       224 i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~-S~~LEVsedg~kVRRk~  276 (401)
                      +.-|.+|||-|.++|+...+--+..+-+-|..||.+ |.+|+|+.||.|||.+-
T Consensus       471 v~pDaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWRG  524 (989)
T PF09421_consen  471 VHPDAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWRG  524 (989)
T ss_pred             cCcccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeecC
Confidence            345789999999999999999999999999999975 88999999999999875

This protein has been shown to interact with itself via a coiled-coil [].

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=93.42  E-value=0.057  Score=52.61  Aligned_cols=65  Identities=17%  Similarity=0.130  Sum_probs=52.9

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ..|||.||...++.|.|++-|+.||.|...-++-+          .|..-        .+-++|+|...-.|.+|...++
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD----------~r~k~--------t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD----------DRGKP--------TREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeec----------ccccc--------cccchhhhhcchhHHHHHHHhc
Confidence            68999999999999999999999999988766533          23211        3447899999999999999986


Q ss_pred             ccc
Q 015730          369 FMI  371 (401)
Q Consensus       369 ~~~  371 (401)
                      ...
T Consensus        94 ~~g   96 (275)
T KOG0115|consen   94 EGG   96 (275)
T ss_pred             cCc
Confidence            554

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

Probab=93.30  E-value=0.042  Score=53.48  Aligned_cols=64  Identities=14%  Similarity=0.148  Sum_probs=44.6

Q ss_pred             HHHHHHHHh-ccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEE
Q 015730          302 HQNLMKIFS-AVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFC  380 (401)
Q Consensus       302 ~edL~~lFs-~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~  380 (401)
                      .|+|-..|+ +||+|+.+.++..           ..--       -.|.+||.|..+|+|++|+..||+.-...  .++.
T Consensus        82 yEd~f~E~~~kygEiee~~Vc~N-----------l~~h-------l~GNVYV~f~~Ee~ae~a~~~lnnRw~~G--~pi~  141 (260)
T KOG2202|consen   82 YEDVFTELEDKYGEIEELNVCDN-----------LGDH-------LVGNVYVKFRSEEDAEAALEDLNNRWYNG--RPIH  141 (260)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhcc-----------cchh-------hhhhhhhhcccHHHHHHHHHHHcCccccC--Ccce
Confidence            344444445 8999999988631           1111       16789999999999999999999765443  4566


Q ss_pred             Eeecc
Q 015730          381 LMFVT  385 (401)
Q Consensus       381 ~~~~~  385 (401)
                      ..++.
T Consensus       142 ae~~p  146 (260)
T KOG2202|consen  142 AELSP  146 (260)
T ss_pred             eeecC
Confidence            55543

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=93.18  E-value=0.31  Score=37.77  Aligned_cols=53  Identities=19%  Similarity=0.213  Sum_probs=39.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhcc----CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAV----GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~f----G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      -.|+|.|+ .+++-++|+.+|..|    +. .+|.-+-                        ...|-|.|.+.+.|.+|+
T Consensus         6 eavhirGv-d~lsT~dI~~y~~~y~~~~~~-~~IEWId------------------------DtScNvvf~d~~~A~~AL   59 (62)
T PF10309_consen    6 EAVHIRGV-DELSTDDIKAYFSEYFDEEGP-FRIEWID------------------------DTSCNVVFKDEETAARAL   59 (62)
T ss_pred             ceEEEEcC-CCCCHHHHHHHHHHhcccCCC-ceEEEec------------------------CCcEEEEECCHHHHHHHH
Confidence            36888888 568889999999999    43 2333221                        235789999999999999


Q ss_pred             HHh
Q 015730          365 SHL  367 (401)
Q Consensus       365 ~~l  367 (401)
                      ..|
T Consensus        60 ~~L   62 (62)
T PF10309_consen   60 VAL   62 (62)
T ss_pred             HcC
Confidence            765

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

Probab=92.98  E-value=0.25  Score=40.58  Aligned_cols=55  Identities=20%  Similarity=0.317  Sum_probs=42.0

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      -||--.||...-..||.++|+.||.|.--.|                         +...|||....++.|..|++.++.
T Consensus        10 HVFhltFPkeWK~~DI~qlFspfG~I~VsWi-------------------------~dTSAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen   10 HVFHLTFPKEWKTSDIYQLFSPFGQIYVSWI-------------------------NDTSAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             CEEEEE--TT--HHHHHHHCCCCCCEEEEEE-------------------------CTTEEEEEECCCHHHHHHHHHHTT
T ss_pred             eEEEEeCchHhhhhhHHHHhccCCcEEEEEE-------------------------cCCcEEEEeecHHHHHHHHHHhcc
Confidence            3554459999999999999999999876665                         145799999999999999998864

; 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.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=92.96  E-value=0.081  Score=53.25  Aligned_cols=73  Identities=19%  Similarity=0.342  Sum_probs=50.8

Q ss_pred             hhhhheeccCCCCcccHHHH---HHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNL---MKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL---~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ++..-+||-+|+.+.-.+++   .++|.+||.|..|.+.+...          ..+..    ++...+||+|+..|+|..
T Consensus        75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S----------~~s~~----~~~~s~yITy~~~eda~r  140 (327)
T KOG2068|consen   75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPS----------SSSSS----GGTCSVYITYEEEEDADR  140 (327)
T ss_pred             hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcc----------cccCC----CCCCcccccccchHhhhh
Confidence            45567889999877654443   45899999999999865321          01111    113358999999999999


Q ss_pred             HHHHhccccc
Q 015730          363 AVSHLHFMIM  372 (401)
Q Consensus       363 Av~~ln~~~~  372 (401)
                      ||...++.+.
T Consensus       141 ci~~v~g~~~  150 (327)
T KOG2068|consen  141 CIDDVDGFVD  150 (327)
T ss_pred             HHHHhhhHHh
Confidence            9998765543

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=92.92  E-value=0.048  Score=60.45  Aligned_cols=69  Identities=22%  Similarity=0.198  Sum_probs=56.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|+|.|.|+..|.+.|+.+|+++|.++.+++..           .|.+|       .||-|||.|.++.+|.+++...
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt-----------~r~gk-------pkg~a~v~y~~ea~~s~~~~s~  797 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVT-----------VRAGK-------PKGKARVDYNTEADASRKVASV  797 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhh-----------hhccc-------cccceeccCCCcchhhhhcccc
Confidence            45799999999999999999999999999998642           34444       3889999999999999998877


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      +...+..
T Consensus       798 d~~~~rE  804 (881)
T KOG0128|consen  798 DVAGKRE  804 (881)
T ss_pred             hhhhhhh
Confidence            6554433

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=92.52  E-value=0.26  Score=52.22  Aligned_cols=63  Identities=22%  Similarity=0.187  Sum_probs=52.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHh-ccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFS-AVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs-~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..|||||++||.-++-++|-.+|+ -||-|..|-|-.|.           ..|+      .||-|=|.|.+..+-.+||.
T Consensus       369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~-----------k~KY------PkGaGRVtFsnqqsYi~AIs  431 (520)
T KOG0129|consen  369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDP-----------KLKY------PKGAGRVTFSNQQAYIKAIS  431 (520)
T ss_pred             ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCc-----------ccCC------CCCcceeeecccHHHHHHHh
Confidence            368999999999999999999999 59999999883221           1222      38999999999999999998


Q ss_pred             H
Q 015730          366 H  366 (401)
Q Consensus       366 ~  366 (401)
                      .
T Consensus       432 a  432 (520)
T KOG0129|consen  432 A  432 (520)
T ss_pred             h
Confidence            4

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

Probab=92.44  E-value=8.6  Score=42.67  Aligned_cols=62  Identities=16%  Similarity=0.054  Sum_probs=46.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .-.|||+.||..+++.++.++|++--.|+. |.|.+-       |.+.+           ++-|||+|..++++.+|...
T Consensus       434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~-------P~~~~-----------~~~afv~F~~~~a~~~a~~~  495 (944)
T KOG4307|consen  434 GGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL-------PTDLL-----------RPAAFVAFIHPTAPLTASSV  495 (944)
T ss_pred             cceEEeccCCccccccchhhhhhhhhhhhheeEeccC-------Ccccc-----------cchhhheeccccccchhhhc
Confidence            347999999999999999999998766665 666431       11212           56799999998888888664


Q ss_pred             h
Q 015730          367 L  367 (401)
Q Consensus       367 l  367 (401)
                      -
T Consensus       496 ~  496 (944)
T KOG4307|consen  496 K  496 (944)
T ss_pred             c
Confidence            3

>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]

Probab=91.51  E-value=0.11  Score=54.95  Aligned_cols=8  Identities=50%  Similarity=0.725  Sum_probs=4.4

Q ss_pred             HHHHHHhc
Q 015730          304 NLMKIFSA  311 (401)
Q Consensus       304 dL~~lFs~  311 (401)
                      +|..+|+.
T Consensus       741 eldnvfsa  748 (990)
T KOG1819|consen  741 ELDNVFSA  748 (990)
T ss_pred             chhhhhcc
Confidence            45556654

>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]

Probab=91.18  E-value=2.1  Score=45.46  Aligned_cols=9  Identities=11%  Similarity=0.320  Sum_probs=3.7

Q ss_pred             HHHHhhccc
Q 015730          198 IQKVLNQVE  206 (401)
Q Consensus       198 ~~kI~~QvE  206 (401)
                      +..+..||.
T Consensus       495 R~~LmaqIR  503 (569)
T KOG3671|consen  495 RDALMAQIR  503 (569)
T ss_pred             HHHHHHHHH
Confidence            444444433

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=89.50  E-value=0.26  Score=54.92  Aligned_cols=70  Identities=24%  Similarity=0.109  Sum_probs=55.8

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      .++.|.+-..+.-.|-.+|++||+|.++|.+|+                       -..|.|+|.+.|.|-.|.+.|.+.
T Consensus       301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~-----------------------~N~alvs~~s~~sai~a~dAl~gk  357 (1007)
T KOG4574|consen  301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRD-----------------------LNMALVSFSSVESAILALDALQGK  357 (1007)
T ss_pred             hhhhcccccchHHHHHHHHHhhcchhhheeccc-----------------------ccchhhhhHHHHHHHHhhhhhcCC
Confidence            345566666788889999999999999999764                       235899999999999999999988


Q ss_pred             ccccccceEEEee
Q 015730          371 IMLFFFSAFCLMF  383 (401)
Q Consensus       371 ~~~~~~~~~~~~~  383 (401)
                      .....+-+-.+++
T Consensus       358 evs~~g~Ps~V~~  370 (1007)
T KOG4574|consen  358 EVSVTGAPSRVSF  370 (1007)
T ss_pred             cccccCCceeEEe
Confidence            7777555555544

>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]

Probab=89.15  E-value=1.4  Score=49.05  Aligned_cols=11  Identities=18%  Similarity=0.419  Sum_probs=7.3

Q ss_pred             heeccCCCCcc
Q 015730          290 IVVAENLPEDH  300 (401)
Q Consensus       290 tVyV~nLP~d~  300 (401)
                      .=|++||++++
T Consensus       530 M~~m~nF~dsv  540 (830)
T KOG1923|consen  530 MEFMGNFPDSV  540 (830)
T ss_pred             HHHHHhchhhh
Confidence            34678888764

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=88.27  E-value=0.73  Score=47.54  Aligned_cols=88  Identities=11%  Similarity=0.194  Sum_probs=60.4

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ..|-|.||...+|.+.+..||.-.|+|..++|. |.--..++++-             .-.|||-|.+...+.-|- .|.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrly-p~~~d~~~pv~-------------sRtcyVkf~d~~sv~vaQ-hLt   72 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLY-PNVDDSKIPVI-------------SRTCYVKFLDSQSVTVAQ-HLT   72 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhcccccccccc-CCCCCccCcce-------------eeeEEEeccCCcceeHHh-hhc
Confidence            478899999999999999999999999999984 43222222221             346999999988876554 466


Q ss_pred             ccccccccceEEEeecccCHHHHH
Q 015730          369 FMIMLFFFSAFCLMFVTQTNEIRT  392 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~~~e~R~  392 (401)
                      +..+..- -.||++........|-
T Consensus        73 ntvfvdr-aliv~p~~~~~~p~r~   95 (479)
T KOG4676|consen   73 NTVFVDR-ALIVRPYGDEVIPDRF   95 (479)
T ss_pred             cceeeee-eEEEEecCCCCCccHH
Confidence            6665442 2356555554444443

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=88.06  E-value=0.16  Score=56.73  Aligned_cols=73  Identities=16%  Similarity=0.135  Sum_probs=59.7

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ....+|||++||...+++.+|+..|..+|.|..|.|-.+.-            +.      ..-|+||.|.+...+-+|+
T Consensus       369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~------------~~------esa~~f~~~~n~dmtp~ak  430 (975)
T KOG0112|consen  369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI------------KT------ESAYAFVSLLNTDMTPSAK  430 (975)
T ss_pred             hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC------------Cc------ccchhhhhhhccccCcccc
Confidence            34578999999999999999999999999999999965421            11      1347999999999999999


Q ss_pred             HHhcccccccc
Q 015730          365 SHLHFMIMLFF  375 (401)
Q Consensus       365 ~~ln~~~~~~~  375 (401)
                      -++.+..+..+
T Consensus       431 ~e~s~~~I~~g  441 (975)
T KOG0112|consen  431 FEESGPLIGNG  441 (975)
T ss_pred             hhhcCCccccC
Confidence            99877666553

>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]

Probab=88.03  E-value=1.5  Score=48.81  Aligned_cols=11  Identities=18%  Similarity=0.350  Sum_probs=4.9

Q ss_pred             hHHHHHHhhcc
Q 015730          195 DESIQKVLNQV  205 (401)
Q Consensus       195 ~e~~~kI~~Qv  205 (401)
                      +.+.++|.+++
T Consensus       391 ~~~De~Il~~l  401 (830)
T KOG1923|consen  391 ELNDEKILEAL  401 (830)
T ss_pred             hhhHHHHHHhh
Confidence            33344555444

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

Probab=87.51  E-value=0.48  Score=51.08  Aligned_cols=75  Identities=25%  Similarity=0.257  Sum_probs=57.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHh-ccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFS-AVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs-~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +..|+|.||=.-+|+-.|++++. .+|.|+..+|  +              |+       |.+|||.|.+.++|-.....
T Consensus       444 SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D--------------kI-------KShCyV~yss~eEA~atr~A  500 (718)
T KOG2416|consen  444 SNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D--------------KI-------KSHCYVSYSSVEEAAATREA  500 (718)
T ss_pred             cceEeeecccccchHHHHHHHHhhccCchHHHHH--H--------------Hh-------hcceeEecccHHHHHHHHHH
Confidence            56799999999999999999999 5777877776  2              11       66899999999999999999


Q ss_pred             hccccccc-ccceEEEeecc
Q 015730          367 LHFMIMLF-FFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~-~~~~~~~~~~~  385 (401)
                      |++..-=. ..+-+|+.|..
T Consensus       501 lhnV~WP~sNPK~L~adf~~  520 (718)
T KOG2416|consen  501 LHNVQWPPSNPKHLIADFVR  520 (718)
T ss_pred             HhccccCCCCCceeEeeecc
Confidence            98754222 34445555543

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=87.21  E-value=0.9  Score=47.37  Aligned_cols=83  Identities=20%  Similarity=0.218  Sum_probs=58.7

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .+|++||....+..+|+.+|..--      +  +   +            .|.++-..||+||.+.+..-|.+|++.+++
T Consensus         3 klyignL~p~~~psdl~svfg~ak------~--~---~------------~g~fl~k~gyafvd~pdq~wa~kaie~~sg   59 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAK------I--P---G------------SGQFLVKSGYAFVDCPDQQWANKAIETLSG   59 (584)
T ss_pred             cccccccCCCCChHHHHHHhcccc------C--C---C------------CcceeeecceeeccCCchhhhhhhHHhhch
Confidence            589999999999999999997631      1  0   0            112223378999999999999999999998


Q ss_pred             cccccccceEEEee-cccCHHHHHHHHH
Q 015730          370 MIMLFFFSAFCLMF-VTQTNEIRTSFLA  396 (401)
Q Consensus       370 ~~~~~~~~~~~~~~-~~~~~e~R~~~~~  396 (401)
                      ...+-+ ++..+.- +.++...|+..|.
T Consensus        60 k~elqG-kr~e~~~sv~kkqrsrk~Qir   86 (584)
T KOG2193|consen   60 KVELQG-KRQEVEHSVPKKQRSRKIQIR   86 (584)
T ss_pred             hhhhcC-ceeeccchhhHHHHhhhhhHh
Confidence            876664 4444333 3455566775553

>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=86.75  E-value=3.8  Score=35.19  Aligned_cols=70  Identities=13%  Similarity=0.099  Sum_probs=49.0

Q ss_pred             cCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccc
Q 015730          294 ENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIM  372 (401)
Q Consensus       294 ~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~  372 (401)
                      -..|.-++.++|..+.+.+- .|..+||+++...                   ++--+.+.|.+.++|.....++|+...
T Consensus        19 ~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~p-------------------nrymVLikF~~~~~Ad~Fy~~fNGk~F   79 (110)
T PF07576_consen   19 AVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTP-------------------NRYMVLIKFRDQESADEFYEEFNGKPF   79 (110)
T ss_pred             EeCcccccHHHHHHhhhcccccEEEEEEeeCCCC-------------------ceEEEEEEECCHHHHHHHHHHhCCCcc
Confidence            34445556667776666654 5778999876421                   244589999999999999999999876


Q ss_pred             ccccceEEEe
Q 015730          373 LFFFSAFCLM  382 (401)
Q Consensus       373 ~~~~~~~~~~  382 (401)
                      ...-.+.|-.
T Consensus        80 nslEpE~Chv   89 (110)
T PF07576_consen   80 NSLEPETCHV   89 (110)
T ss_pred             CCCCCceeEE
Confidence            6654455543

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

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

Probab=86.44  E-value=2.1  Score=45.95  Aligned_cols=39  Identities=18%  Similarity=-0.048  Sum_probs=30.8

Q ss_pred             cCcceEEEEecCHHHHHHHHHHhcccccccccceEEEee
Q 015730          345 SNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       345 ~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~  383 (401)
                      +|.|||||-|.+.+++.+++++++++.-+.+.......|
T Consensus       429 cNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~i  467 (549)
T KOG4660|consen  429 CNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASI  467 (549)
T ss_pred             cccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeee
Confidence            357999999999999999999999987666544444333

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=86.03  E-value=1.2  Score=45.49  Aligned_cols=69  Identities=16%  Similarity=0.110  Sum_probs=49.3

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCC--eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGS--VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~--V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      -.+||+||-+.+|.+||.+.....|-  +..+++...           |.   +|   -.||||+|...+..+.++.++-
T Consensus        81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFEN-----------R~---NG---QSKG~AL~~~~SdAa~Kq~Mei  143 (498)
T KOG4849|consen   81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFEN-----------RT---NG---QSKGYALLVLNSDAAVKQTMEI  143 (498)
T ss_pred             EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhc-----------cc---CC---cccceEEEEecchHHHHHHHHh
Confidence            36899999999999999888877664  333433221           21   11   1399999999999988888887


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |-...+..
T Consensus       144 LP~k~iHG  151 (498)
T KOG4849|consen  144 LPTKTIHG  151 (498)
T ss_pred             cccceecC
Confidence            75555444

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=86.00  E-value=0.85  Score=51.32  Aligned_cols=73  Identities=15%  Similarity=0.079  Sum_probs=60.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+-++|++|...+....|...|..||.|..|.+..                       ...||||.|++...|+.|+..|
T Consensus       455 ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h-----------------------gq~yayi~yes~~~aq~a~~~~  511 (975)
T KOG0112|consen  455 TTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH-----------------------GQPYAYIQYESPPAAQAATHDM  511 (975)
T ss_pred             ceeeccCCCCCCChHHHHHHHhhccCcceeeeccc-----------------------CCcceeeecccCccchhhHHHH
Confidence            56689999999999999999999999999987732                       1568999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      .+..+.....++++-|
T Consensus       512 rgap~G~P~~r~rvdl  527 (975)
T KOG0112|consen  512 RGAPLGGPPRRLRVDL  527 (975)
T ss_pred             hcCcCCCCCccccccc
Confidence            8777666555655544

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

Probab=85.36  E-value=0.72  Score=47.40  Aligned_cols=56  Identities=25%  Similarity=0.422  Sum_probs=47.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      -.|-|.+|-..+++.+|-+..+.||.|..|.++ |.                      +.-|.|||++.+.|+.||...
T Consensus        32 pvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~-P~----------------------~r~alvefedi~~akn~Vnfa   87 (494)
T KOG1456|consen   32 PVVHVRGLHQGVVEADLVEALSNFGPIAYVTCM-PH----------------------KRQALVEFEDIEGAKNCVNFA   87 (494)
T ss_pred             ceEEEeccccccchhHHHHHHhcCCceEEEEec-cc----------------------cceeeeeeccccchhhheehh
Confidence            357789999999999999999999999999875 31                      345899999999999999854

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

Probab=83.05  E-value=3.6  Score=37.18  Aligned_cols=47  Identities=21%  Similarity=0.178  Sum_probs=34.9

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      ..+|-+.|..||+|..||+..                         +.-+|+|.+-++|.+|+. +++..++.
T Consensus        50 ~~~ll~~~~~~GevvLvRfv~-------------------------~~mwVTF~dg~sALaals-~dg~~v~g   96 (146)
T PF08952_consen   50 MDELLQKFAQYGEVVLVRFVG-------------------------DTMWVTFRDGQSALAALS-LDGIQVNG   96 (146)
T ss_dssp             HHHHHHHHHCCS-ECEEEEET-------------------------TCEEEEESSCHHHHHHHH-GCCSEETT
T ss_pred             HHHHHHHHHhCCceEEEEEeC-------------------------CeEEEEECccHHHHHHHc-cCCcEECC
Confidence            357888899999999998852                         236799999999988887 55555444

; PDB: 1UFW_A 2DNR_A.

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

Probab=82.00  E-value=3  Score=41.73  Aligned_cols=54  Identities=24%  Similarity=0.216  Sum_probs=39.2

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccc
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMI  371 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~  371 (401)
                      ++++++-.++||+|.+|-|.-..  +  .+.+ +           -.-.||||+..++|.||+-.||+.-
T Consensus       300 ede~keEceKyg~V~~viifeip--~--~p~d-e-----------avRiFveF~r~e~aiKA~VdlnGRy  353 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIP--S--QPED-E-----------AVRIFVEFERVESAIKAVVDLNGRY  353 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecC--C--Cccc-h-----------hheeeeeeccHHHHHHHHHhcCCce
Confidence            45788889999999988764321  1  1111 1           1237999999999999999999765

>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]

Probab=81.63  E-value=14  Score=38.85  Aligned_cols=6  Identities=0%  Similarity=0.329  Sum_probs=2.5

Q ss_pred             HHHHHH
Q 015730          196 ESIQKV  201 (401)
Q Consensus       196 e~~~kI  201 (401)
                      |++..|
T Consensus       458 dLL~aI  463 (518)
T KOG1830|consen  458 DLLAAI  463 (518)
T ss_pred             HHHHHH
Confidence            344444

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=80.79  E-value=3.5  Score=43.40  Aligned_cols=75  Identities=11%  Similarity=0.173  Sum_probs=58.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|.|-.+|..+|.-||..+...|- .|..||++|+...                   |+-.++|.|.+.++|...+++
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~p-------------------nrymvLIkFr~q~da~~Fy~e  134 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMP-------------------NRYMVLIKFRDQADADTFYEE  134 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCC-------------------ceEEEEEEeccchhHHHHHHH
Confidence            56888889999999999999888754 5889999985321                   244689999999999999999


Q ss_pred             hcccccccccceEEE
Q 015730          367 LHFMIMLFFFSAFCL  381 (401)
Q Consensus       367 ln~~~~~~~~~~~~~  381 (401)
                      +|+......-.+.|-
T Consensus       135 fNGk~Fn~le~e~Ch  149 (493)
T KOG0804|consen  135 FNGKQFNSLEPEVCH  149 (493)
T ss_pred             cCCCcCCCCCcccee
Confidence            998875554333443

>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=80.71  E-value=1.4  Score=40.79  Aligned_cols=73  Identities=12%  Similarity=0.090  Sum_probs=44.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhc-cCCe---eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSA-VGSV---KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~-fG~V---~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ....|+|.+||.++|++++.+.++. +|.-   ..+.-..+....          +.  ..   -.-|||.|.+.+++..
T Consensus         6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~----------~~--~~---~SRaYi~F~~~~~~~~   70 (176)
T PF03467_consen    6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSF----------KP--PT---YSRAYINFKNPEDLLE   70 (176)
T ss_dssp             ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSS----------TT--S-----EEEEEEESSCHHHHH
T ss_pred             cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccC----------CC--Cc---ceEEEEEeCCHHHHHH
Confidence            3457999999999999998887766 6654   344322222111          00  00   1239999999999999


Q ss_pred             HHHHhccccccc
Q 015730          363 AVSHLHFMIMLF  374 (401)
Q Consensus       363 Av~~ln~~~~~~  374 (401)
                      .+..+++.....
T Consensus        71 F~~~~~g~~F~D   82 (176)
T PF03467_consen   71 FRDRFDGHVFVD   82 (176)
T ss_dssp             HHHHCTTEEEE-
T ss_pred             HHHhcCCcEEEC
Confidence            999987755433

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	401
1s29_A	92	La Autoantigen N-Terminal Domain Length = 92		5e-07
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		2e-04
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		3e-04
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		3e-04

>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain Length = 92

Iteration: 1
 Score = 52.4 bits (124), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 48/89 (53%)
Query: 190 HGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISS 249
           H  L+ E+ QK+  QVE+YFSD+N+     L     ++ EG+V + T+ +FK++ ++ + 
Sbjct: 3   HXPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTD 62
Query: 250 HSHLAXXXXXXXXXXXXEDGKKIKRQNPL 278
              +             EDG  ++R++PL
Sbjct: 63  VKEVVEAIRPSEKLVLSEDGLXVRRRDPL 91

>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
           K+ +Q+EYYF D NL   D  ++  +K  EG+VP+  +  F ++  + +  + +  A   
Sbjct: 15  KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSK 73
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
                    ED  KI+R    PL E   E   ++++R V  +  P D    ++ +     
Sbjct: 74  SKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 133
Query: 313 GSVKTIR 319
           G V  I+
Sbjct: 134 GQVLNIQ 140

>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/127 (26%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
           K+ +Q+EYYF D NL   D  ++  +K  EG+VP+     F ++  + +  + +  A   
Sbjct: 16  KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSK 74
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
                    ED  KI+R    PL E   E   ++++R V  +  P D    ++ +     
Sbjct: 75  SKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 134
Query: 313 GSVKTIR 319
           G V  I+
Sbjct: 135 GQVLNIQ 141

>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/127 (26%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 200 KVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHL--AXXX 257
           K+ +Q+EYYF D NL   D  ++  +K  EG+VP+     F ++  + +  + +  A   
Sbjct: 17  KICHQIEYYFGDFNLP-RDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSK 75
Query: 258 XXXXXXXXXEDGKKIKR--QNPLTESDLE---ELQSRIVVAENLPEDHCHQNLMKIFSAV 312
                    ED  KI+R    PL E   E   ++++R V  +  P D    ++ +     
Sbjct: 76  SKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK 135
Query: 313 GSVKTIR 319
           G V  I+
Sbjct: 136 GQVLNIQ 142

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	401
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	2e-31
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	3e-24
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	2e-23
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-07
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-06
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-06
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	3e-05
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	1e-04
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
2z73_A	448	Rhodopsin; visual pigment, GQ-type, G-protein coup	5e-06
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	5e-06
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	2e-05
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	2e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	6e-05
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	7e-05
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	9e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	9e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	1e-04
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	1e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-04
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-04
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-04
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	2e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	3e-04
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	3e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	6e-04
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-04
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	6e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	6e-04

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Length = 92

 Score =  114 bits (286), Expect = 2e-31
 Identities = 31/86 (36%), Positives = 56/86 (65%)

Query: 193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
           L+ E+ QK+  QVE+YFSD+N+     L   + ++ EG+V + T+ +FK++ ++ +    
Sbjct: 6   LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKE 65

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPL 278
           +   +R S KLV+SEDG  ++R++PL
Sbjct: 66  VVEAIRPSEKLVLSEDGLMVRRRDPL 91

>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 = 98.0 bits (243), Expect = 3e-24
 Identities = 37/177 (20%), Positives = 67/177 (37%), Gaps = 26/177 (14%)

Query: 195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
                K+ +Q+EYYF D NL     L   I  D  G+VP+  +  F ++  + +  + + 
Sbjct: 10  AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDE-GWVPLEIMIKFNRLNRLTTDFNVIV 68

Query: 255 SVLRKSSKLVVSEDGKKIK-------RQNPLTESDLEELQSRIVVAENLPEDHCHQNLMK 307
             L KS   ++     K K           +T+    ++++R V  +  P D    ++ +
Sbjct: 69  EALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKE 128

Query: 308 IFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV 364
                G V  I+                         + K   FV ++S+E A+K V
Sbjct: 129 WLEDKGQVLNIQMRRTLH------------------KAFKGSIFVVFDSIESAKKFV 167

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46 Length = 101

 Score = 92.6 bits (230), Expect = 2e-23
 Identities = 24/80 (30%), Positives = 46/80 (57%), Gaps = 2/80 (2%)

Query: 195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
           ++  + +  Q+E+ FS  NL+   +LI  +  D + ++PI TVA+ ++IK + +    + 
Sbjct: 12  EDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDPDLIL 69

Query: 255 SVLRKSSKLVVSEDGKKIKR 274
            VLR S  + V E G+K++ 
Sbjct: 70  EVLRSSPMVQVDEKGEKVRP 89

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 51.0 bits (121), Expect = 4e-07
 Identities = 18/125 (14%), Positives = 25/125 (20%)

Query: 53  PQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHV 112
            Q  Q  P             M  PP     +M       P     H       T    +
Sbjct: 24  QQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDM 83

Query: 113 IPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQ 172
              +  +   +         Q     Q  +         Q       N    N  Y    
Sbjct: 84  HLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDL 143

Query: 173 EGEVP 177
             E+P
Sbjct: 144 LTELP 148

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 49.1 bits (116), Expect = 2e-06
 Identities = 17/129 (13%), Positives = 26/129 (20%)

Query: 44  APEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYP 103
           A            Q      +   Q         P       + P     H         
Sbjct: 20  ATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTS 79

Query: 104 PHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHH 163
            +     +V  V    + Q  VPVQ     Q QQ                 +    N  +
Sbjct: 80  MNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLY 139

Query: 164 QNNQYEDQQ 172
             +   +  
Sbjct: 140 PIDLLTELP 148

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 17/131 (12%), Positives = 29/131 (22%), Gaps = 2/131 (1%)

Query: 49  PTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTG 108
           P    Q  Q+   +Q   Q  P +             + P    P       + P     
Sbjct: 10  PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL 69

Query: 109 AFHVIPVHHQMH--HQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNN 166
              +      M+  H H+VP+ + +     Q            +                
Sbjct: 70  HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMG 129

Query: 167 QYEDQQEGEVP 177
           Q         P
Sbjct: 130 QNMRPMNQLYP 140

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 45.2 bits (106), Expect = 3e-05
 Identities = 14/162 (8%), Positives = 31/162 (19%), Gaps = 4/162 (2%)

Query: 13  SSSNDQSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQR 72
            ++    Q +         +   S+ ++    P+       Q     P  +   QQ  Q 
Sbjct: 18  QNATPLQQPAQFMPPQDPAAAGMSYGQMGM-PPQGAVPSMGQQQFLTPAQEQLHQQIDQA 76

Query: 73  VMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHH 132
                        +        P  P  +  P         P+    + Q    +     
Sbjct: 77  TTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQ---PMAAPAYGQPSAAMGQNMR 133

Query: 133 QQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEG 174
             +Q +                                 +  
Sbjct: 134 PMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELS 175

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 43.3 bits (101), Expect = 1e-04
 Identities = 12/152 (7%), Positives = 26/152 (17%)

Query: 18  QSQSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPP 77
                  +++  S  +     +    +        P   Q   Q+           +   
Sbjct: 29  FMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNV 88

Query: 78  PPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQ 137
           P     A + P  P            P    A+         + +    +          
Sbjct: 89  PLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELP 148

Query: 138 HQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYE 169
                                  S   N   +
Sbjct: 149 PPITDLTLPPPPLVIPPERMLVPSELSNASPD 180

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 45.1 bits (107), Expect = 2e-06
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 18/81 (22%)

Query: 284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML 343
            ++++R V  +  P D    ++ +     G V  I+    + +   A  GS         
Sbjct: 7   NDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQ---MRRTLHKAFKGS--------- 54

Query: 344 FSNKLHAFVEYESVELAEKAV 364
                  FV ++S+E A+K V
Sbjct: 55  ------IFVVFDSIESAKKFV 69

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 48/289 (16%), Positives = 90/289 (31%), Gaps = 58/289 (20%)

Query: 147 HHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVK---DKKEKKDHQHGGLNDESIQKVLN 203
           HHH    HHH +  +     QY+D             D K+ +D     L+ E I  ++ 
Sbjct: 1   HHH----HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIM 56

Query: 204 ------QVEYYFSDLNLATTDHLIRFI---LKDPEGYV--PISTV--ASFKKIKAIISSH 250
                      F  L     + + +F+   L+    ++  PI T         +  I   
Sbjct: 57  SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116

Query: 251 SHLASVLRKSSKLVVSEDGKKIKRQNPLTE--SDLEELQS--RIVV-----------AEN 295
             L +  +  +K  VS       R  P  +    L EL+    +++           A +
Sbjct: 117 DRLYNDNQVFAKYNVS-------RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169

Query: 296 LPEDHCHQNLM--KIF-SAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFV 352
           +   +  Q  M  KIF   + +  +  T L               + +    S   H+  
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ-------KLLYQIDPNWTSRSDHSSN 222

Query: 353 EYESVELAEKAVSHLHFMIMLFFFSAFCLMFV--TQTNEIRTSFLADCR 399
               +   +  +  L      +     CL+ +   Q  +   +F   C+
Sbjct: 223 IKLRIHSIQAELRRL-LKSKPY---ENCLLVLLNVQNAKAWNAFNLSCK 267

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 6e-04
 Identities = 18/142 (12%), Positives = 48/142 (33%), Gaps = 31/142 (21%)

Query: 185 KKDHQHGGLNDESIQKVLNQVEYYFSDLNLATTDH---LIRFILKDPEGYVPISTVASFK 241
             +      +  +I+  ++ ++     L L +  +   L+  +L +         V + K
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRL-LKSKPYENCLL--VLLN---------VQNAK 257

Query: 242 KIKA--------IISSHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIV-- 291
              A        + +    +   L  ++   +S D         LT  +++ L  + +  
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD----HHSMTLTPDEVKSLLLKYLDC 313

Query: 292 VAENLPEDHCHQN--LMKIFSA 311
             ++LP +    N   + I + 
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAE 335

>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor, chromophore, glycoprotein, lipoprotein, membrane, palmitate phosphorylation; HET: BOG RET PLM TWT PC1; 2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A* Length = 448

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 19/96 (19%), Positives = 28/96 (29%), Gaps = 6/96 (6%)

Query: 20  QSSPSSSSDPSLSRNSSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPP- 78
                +  D            +  AP     +  +      ++Q Q    P +   PPP 
Sbjct: 339 FDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQ 398

Query: 79  -PPPAAAMVHPHPPPPHPP----SPHHVYPPHGTGA 109
             PP       +PP  +PP     P    PP G   
Sbjct: 399 GYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPP 434

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

 Score = 43.9 bits (104), Expect = 5e-06
 Identities = 15/81 (18%), Positives = 27/81 (33%), Gaps = 17/81 (20%)

Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNK 347
            + V    L ++     L  +    G V+ +   L   +           K  G+     
Sbjct: 6   LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTR----------KHLGL----- 50

Query: 348 LHAFVEYESVELAEKAVSHLH 368
             A V + S   A++ V +LH
Sbjct: 51  --ARVLFTSTRGAKETVKNLH 69

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

 Score = 42.4 bits (100), Expect = 2e-05
 Identities = 19/92 (20%), Positives = 33/92 (35%), Gaps = 25/92 (27%)

Query: 283 LEELQSRIVVAENLP------EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRS 336
             +    ++V +N+P       +     + KIFS  G +       P+  G         
Sbjct: 10  EADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDF--YPEEDG--------- 58

Query: 337 AKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
            K++G       + F+EY S   A  AV +  
Sbjct: 59  -KTKG-------YIFLEYASPAHAVDAVKNAD 82

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 20/81 (24%)

Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNK 347
           +RI+   NLP     + +  IF   G ++ IR  +  T            ++ G      
Sbjct: 8   NRILYIRNLPYKITAEEMYDIFGKYGPIRQIR--VGNT-----------PETRGT----- 49

Query: 348 LHAFVEYESVELAEKAVSHLH 368
             A+V YE +  A+ AV HL 
Sbjct: 50  --AYVVYEDIFDAKNAVDHLS 68

>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 = 4e-05
 Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 19/78 (24%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           NLP+ +    + K F   G +  +   +  +                    N   A +E+
Sbjct: 48  NLPKSYNQNKVYKYFKHCGPIIHVD--VADSLKK-----------------NFRFARIEF 88

Query: 355 ESVELAEKAVSHLHFMIM 372
              + A  A++  H ++ 
Sbjct: 89  ARYDGALAAITKTHKVVG 106

>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 = 42.6 bits (101), Expect = 4e-05
 Identities = 20/105 (19%), Positives = 41/105 (39%), Gaps = 23/105 (21%)

Query: 268 DGK--KIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQT 325
            G+  KI+R +            ++ +   LP       + ++ ++ G +K     L + 
Sbjct: 76  QGQSLKIRRPHDYQPLPGA---HKLFIG-GLPNYLNDDQVKELLTSFGPLKAFN--LVKD 129

Query: 326 SGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM 370
           S  G S G               +AF EY  + + ++A++ L+ M
Sbjct: 130 SATGLSKG---------------YAFCEYVDINVTDQAIAGLNGM 159

>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 = 42.1 bits (99), Expect = 6e-05
 Identities = 20/111 (18%), Positives = 43/111 (38%), Gaps = 17/111 (15%)

Query: 258 RKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKT 317
             + + + S +  + +  + L       ++  I+   ++ E+     + + F   G +K 
Sbjct: 42  SNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKN 101

Query: 318 IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
           I   L + +G           S+G  +     A VEYE+ + A  A   L+
Sbjct: 102 IHLNLDRRTG----------FSKG--Y-----ALVEYETHKQALAAKEALN 135

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

 Score = 41.8 bits (99), Expect = 7e-05
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 17/76 (22%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            LP+D   + L  +F A+G + T R      +G           S G       +AFV++
Sbjct: 10  YLPQDMTDRELYALFRAIGPINTCRIMRDYKTG----------YSYG-------YAFVDF 52

Query: 355 ESVELAEKAVSHLHFM 370
            S   +++A+  L+ +
Sbjct: 53  TSEMDSQRAIKVLNGI 68

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 40.5 bits (95), Expect = 9e-05
 Identities = 18/88 (20%), Positives = 26/88 (29%), Gaps = 22/88 (25%)

Query: 286 LQSRIVV-----AENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSE 340
               IVV       +       + L  +FS  G V  +    P     G + G       
Sbjct: 5   SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNME--FPIDEATGKTKG------- 55

Query: 341 GMLFSNKLHAFVEYESVELAEKAVSHLH 368
                     FVE  S+  A+K +   H
Sbjct: 56  --------FLFVECGSMNDAKKIIKSFH 75

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

 Score = 41.8 bits (99), Expect = 9e-05
 Identities = 15/76 (19%), Positives = 34/76 (44%), Gaps = 17/76 (22%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            LP++   +    +F ++G +++ +    + +G          +S G       + FV Y
Sbjct: 9   YLPQNMTQEEFRSLFGSIGEIESCKLVRDKITG----------QSLG-------YGFVNY 51

Query: 355 ESVELAEKAVSHLHFM 370
              + AEKA++ L+ +
Sbjct: 52  IDPKDAEKAINTLNGL 67

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 41.8 bits (99), Expect = 1e-04
 Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 15/74 (20%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            +P     ++L ++F   G+V  I     ++     S G                 FV +
Sbjct: 10  QVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG---------------CCFVTF 54

Query: 355 ESVELAEKAVSHLH 368
            + + A +A + LH
Sbjct: 55  YTRKAALEAQNALH 68

>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 = 39.4 bits (93), Expect = 1e-04
 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 25/85 (29%)

Query: 288 SRIVVAENLP----EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML 343
           +++ +   L     +DH    +M+IFS  G +K I   + +              S+G  
Sbjct: 5   TKVHI-GRLTRNVTKDH----IMEIFSTYGKIKMIDMPVERMHPH---------LSKGY- 49

Query: 344 FSNKLHAFVEYESVELAEKAVSHLH 368
                 A+VE+E+ + AEKA+ H+ 
Sbjct: 50  ------AYVEFENPDEAEKALKHMD 68

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

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 20/104 (19%), Positives = 43/104 (41%), Gaps = 18/104 (17%)

Query: 269 GKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG 328
           G+++ R +         + SR+ V  ++  +     + + F+  G +K+I       +  
Sbjct: 10  GQQMGRGSAAQRQGALAIMSRVYVG-SIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTM- 67

Query: 329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIM 372
                    K +G        AFVEYE  E A+ A+  ++ +++
Sbjct: 68  ---------KHKG-------FAFVEYEVPEAAQLALEQMNSVML 95

>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 = 41.2 bits (97), Expect = 2e-04
 Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 17/78 (21%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            LP       + ++ ++ G +K     L + S  G S G                AF EY
Sbjct: 121 GLPNYLNDDQVKELLTSFGPLKAFN--LVKDSATGLSKGY---------------AFCEY 163

Query: 355 ESVELAEKAVSHLHFMIM 372
             + + ++A++ L+ M +
Sbjct: 164 VDINVTDQAIAGLNGMQL 181

>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 = 41.1 bits (97), Expect = 2e-04
 Identities = 19/101 (18%), Positives = 40/101 (39%), Gaps = 22/101 (21%)

Query: 268 DGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSG 327
            G +IK + P      +   +R ++A+NL  +     L ++F     ++ +         
Sbjct: 79  FGNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVS-------- 130

Query: 328 GGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
                  +  KS+G+       A++E++S   AEK +    
Sbjct: 131 -------QDGKSKGI-------AYIEFKSEADAEKNLEEKQ 157

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

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 25/85 (29%)

Query: 290 IVVAENLPE------DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML 343
           ++V +N+P+      +     + KIFS  G +       P+  G          K++G  
Sbjct: 3   VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDF--YPEEDG----------KTKGY- 49

Query: 344 FSNKLHAFVEYESVELAEKAVSHLH 368
                  F+EY S   A  AV +  
Sbjct: 50  ------IFLEYASPAHAVDAVKNAD 68

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 40.8 bits (95), Expect = 3e-04
 Identities = 10/95 (10%), Positives = 26/95 (27%), Gaps = 17/95 (17%)

Query: 274 RQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSG 333
                   +  +  S ++   N P +   +N  +I   +G  +     +           
Sbjct: 109 STPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSE----- 163

Query: 334 SRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH 368
                             +E++S   A + +  L+
Sbjct: 164 ------------RSSSGLLEWDSKSDALETLGFLN 186

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

 Score = 38.6 bits (90), Expect = 3e-04
 Identities = 12/85 (14%), Positives = 25/85 (29%), Gaps = 20/85 (23%)

Query: 284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML 343
           +  + R +   N+P     + L  +    G V++       +                  
Sbjct: 11  KRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVV------------- 57

Query: 344 FSNKLHAFVEYESVELAEKAVSHLH 368
                   V Y S + A +A+  L+
Sbjct: 58  -------NVTYSSKDQARQALDKLN 75

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

 Score = 41.1 bits (97), Expect = 4e-04
 Identities = 19/107 (17%), Positives = 36/107 (33%), Gaps = 30/107 (28%)

Query: 268 DGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVG--SVKTIRTCLPQT 325
           D ++I+++   TE      + +I++   LP D  +Q +  + S          +      
Sbjct: 4   DPEEIRKRLEHTERQFRN-RRKILIR-GLPGDVTNQEVHDLLSDYELKYCFVDK------ 55

Query: 326 SGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIM 372
                                K  AFV   + E AE A++  H   +
Sbjct: 56  --------------------YKGTAFVTLLNGEQAEAAINAFHQSRL 82

>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 = 40.3 bits (95), Expect = 6e-04
 Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 17/74 (22%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           NLP     Q   ++    GS++       + +G          +S+G  +      F EY
Sbjct: 102 NLPPSLTQQQFEELVRPFGSLERCFLVYSERTG----------QSKG--Y-----GFAEY 144

Query: 355 ESVELAEKAVSHLH 368
              + A +A S L 
Sbjct: 145 MKKDSAARAKSDLL 158

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

 Score = 39.8 bits (94), Expect = 5e-04
 Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 18/78 (23%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
           NL +      L + F   G +  I+  +            ++ K+         +AFVEY
Sbjct: 7   NLDKAITEDILKQYFQVGGPIANIKIMI-----------DKNNKNVN-------YAFVEY 48

Query: 355 ESVELAEKAVSHLHFMIM 372
                A  A+  L+   +
Sbjct: 49  HQSHDANIALQTLNGKQI 66

>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 = 38.0 bits (89), Expect = 6e-04
 Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 18/74 (24%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            L +    ++++++F   G +             G+S G                AFV++
Sbjct: 22  MLNKQQSEEDVLRLFQPFGVIDECTVLRGPD---GSSKGC---------------AFVKF 63

Query: 355 ESVELAEKAVSHLH 368
            S   A+ A+  LH
Sbjct: 64  SSHTEAQAAIHALH 77

>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 = 39.0 bits (91), Expect = 6e-04
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 18/118 (15%)

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAV 312
           L   LR  S + +S+   +  R +   +  L +    + V  NL      + + ++FS  
Sbjct: 5   LLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVG-NLSFYTTEEQIYELFSKS 63

Query: 313 GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM 370
           G +K I   L +              + G  F      FVEY S   AE A+ +++  
Sbjct: 64  GDIKKIIMGLDKMKK----------TACG--F-----CFVEYYSRADAENAMRYINGT 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	401
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	100.0
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.94
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.91
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.6
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.57
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.55
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.55
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.54
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.52
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.52
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.52
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.51
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.51
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.51
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.5
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.5
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.5
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.5
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.5
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.5
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.49
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.49
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.48
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.48
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.48
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.48
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.48
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.48
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.47
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.47
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.47
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.47
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.47
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.47
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.47
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.47
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.47
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.47
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.46
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.46
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.46
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.46
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.46
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.46
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.46
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.46
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.46
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.45
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.45
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.45
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.45
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.45
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.45
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.45
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.45
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.44
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.44
2div_A	99	TRNA selenocysteine associated protein; structural	99.44
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.44
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.44
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.44
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.43
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.43
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.43
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.43
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.43
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.43
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.42
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.42
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.42
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.42
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.42
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.42
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.41
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.41
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.41
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.41
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.41
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.4
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.4
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.4
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.4
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.4
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.4
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.4
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.4
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.39
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.39
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.39
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.39
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.39
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.39
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.39
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.39
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.39
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.39
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.39
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.39
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.39
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.38
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.38
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.38
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.38
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.38
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.38
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.38
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.38
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.38
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.38
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.38
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.38
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.37
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.37
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.37
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.37
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.37
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.37
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.37
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.37
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.37
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.37
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.35
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.35
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.35
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.35
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.34
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.34
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.34
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.34
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.34
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.34
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.34
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.34
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.34
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.33
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.33
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.33
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.33
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.32
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.32
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.32
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.32
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.32
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.32
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.32
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.99
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.31
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.31
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.31
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.3
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.3
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.3
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.3
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.3
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.29
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.29
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.28
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.28
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.28
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.27
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.27
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.27
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.27
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.27
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.26
1x5p_A	97	Negative elongation factor E; structure genomics,	99.26
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.26
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.26
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.26
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.25
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.25
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.25
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.25
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.25
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.24
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.24
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.23
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.23
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.23
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.2
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.2
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.2
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.18
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.17
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.17
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.17
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.17
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.16
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.15
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.14
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.12
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.11
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.11
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.09
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.07
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.05
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.03
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.99
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.99
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.97
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.95
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.93
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.92
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.87
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.87
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.79
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.64
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.1
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.99
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.65
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.07
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	96.13
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.09
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.8
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	95.75
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	95.16
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.96
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	93.14
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	92.99
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	92.19
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	85.95
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	84.96
2l4h_A	214	Calcium and integrin-binding protein 1; metal bind	83.15
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	82.71
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	80.51

>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=100.00  E-value=3.4e-36  Score=277.35  Aligned_cols=172  Identities=26%  Similarity=0.398  Sum_probs=145.0

Q ss_pred             CCCChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcC--cceEEecc
Q 015730          191 GGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKS--SKLVVSED  268 (401)
Q Consensus       191 ~~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S--~~LEVsed  268 (401)
                      ....+++..+|++||||||||+||.+|.||+++|.++ +|||+|++|++|+||+.++.+.+.|.+||+.|  ..|+++++
T Consensus         6 ~~~~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~-~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~lev~ed   84 (193)
T 2voo_A            6 NEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISED   84 (193)
T ss_dssp             ---CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHT-TTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTT
T ss_pred             cCCcHHHHHHHHHHhheecchhhcccCHHHHHHhccc-CCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEEEecc
Confidence            4456788999999999999999999999999998765 99999999999999999999999999999999  89999999


Q ss_pred             ccccccCC--CCCcc---hhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCcc
Q 015730          269 GKKIKRQN--PLTES---DLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML  343 (401)
Q Consensus       269 g~kVRRk~--Pl~e~---~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~  343 (401)
                      +.+|||..  |+++.   ...+...++|||+|||.++|+++|+++|++||.|..|+|+++.+           +      
T Consensus        85 ~~~vrR~~~~p~p~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~-----------~------  147 (193)
T 2voo_A           85 KTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-----------K------  147 (193)
T ss_dssp             SSEEEECTTSCCCCCCHHHHHHHHHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-----------C------
T ss_pred             cceEEecccCCCcccchhhhhccccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC-----------C------
Confidence            99999984  44432   23456789999999999999999999999999999999987532           1      


Q ss_pred             ccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEeec
Q 015730          344 FSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       344 ~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                       ..+|||||+|++.++|++|++.++. .  +.+..+.++++
T Consensus       148 -~~kG~aFVeF~~~e~A~~A~~~~~~-~--~~Gr~l~V~~~  184 (193)
T 2voo_A          148 -AFKGSIFVVFDSIESAKKFVETPGQ-K--YKETDLLILFK  184 (193)
T ss_dssp             -CEEEEEEEEESSHHHHHHHHHCTTC-E--ETTEECEEEET
T ss_pred             -CcccEEEEEECCHHHHHHHHHhCCC-e--ECCEEEEEEEh
Confidence             1389999999999999999987764 2  22344555544

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46

Probab=99.94  E-value=6.7e-28  Score=198.15  Aligned_cols=88  Identities=35%  Similarity=0.630  Sum_probs=85.4

Q ss_pred             CCChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEeccccc
Q 015730          192 GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKK  271 (401)
Q Consensus       192 ~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~k  271 (401)
                      .+++++.++|++||||||||+||.+|.||+++|.++.+|||+|++|++|+|||+++.+.+.|++||+.|..|||++||++
T Consensus         5 ~~~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg~~   84 (92)
T 1s29_A            5 PLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLM   84 (92)
T ss_dssp             CCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSE
T ss_pred             CCCHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCCCE
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCCC
Q 015730          272 IKRQNPLT  279 (401)
Q Consensus       272 VRRk~Pl~  279 (401)
                      |||+.||+
T Consensus        85 VRR~~PlP   92 (92)
T 1s29_A           85 VRRRDPLP   92 (92)
T ss_dssp             EEESSCCC
T ss_pred             EeCCCCCC
Confidence            99999875

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46

Probab=99.91  E-value=1e-25  Score=187.82  Aligned_cols=87  Identities=28%  Similarity=0.415  Sum_probs=81.1

Q ss_pred             CCCChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccc
Q 015730          191 GGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGK  270 (401)
Q Consensus       191 ~~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~  270 (401)
                      ...+++++++|++||||||||+||.+|.||+++|  +.+|||+|++|++|+|||+++.+.+.|++||+.|..|||++||+
T Consensus         8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~m--d~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~~levsedg~   85 (101)
T 2cqk_A            8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGE   85 (101)
T ss_dssp             SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHS--CTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSS
T ss_pred             CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhh--hcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCCcEEEcCCCC
Confidence            3456788899999999999999999999999995  78999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCC
Q 015730          271 KIKRQNPLT  279 (401)
Q Consensus       271 kVRRk~Pl~  279 (401)
                      +|||+.+.+
T Consensus        86 kVRr~~~~~   94 (101)
T 2cqk_A           86 KVRPSHKRC   94 (101)
T ss_dssp             EEEECCSCC
T ss_pred             eeeeCCCCC
Confidence            999997654

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

Probab=99.60  E-value=3.2e-15  Score=125.44  Aligned_cols=91  Identities=15%  Similarity=0.120  Sum_probs=73.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+||+.++++++|+++|++||.|..|+|+++..++.                 .+|||||+|++.++|++|++.|
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~-----------------~rG~aFV~f~~~~~A~~Ai~~l   68 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRK-----------------HLGLARVLFTSTRGAKETVKNL   68 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCc-----------------eeeEEEEEECCHHHHHHHHHHh
Confidence            67999999999999999999999999999999988754332                 3899999999999999999999


Q ss_pred             cccccccccceEEEeecccCHHHHHHHHHHH
Q 015730          368 HFMIMLFFFSAFCLMFVTQTNEIRTSFLADC  398 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~~~~e~R~~~~~~~  398 (401)
                      |+..+..  ..+.+.+. .+.+.|+++++..
T Consensus        69 ng~~~~g--r~i~V~~a-~~~~~~~~~~~~~   96 (110)
T 3s8s_A           69 HLTSVMG--NIIHAQLD-IKGQQRMKYYELI   96 (110)
T ss_dssp             TTCEETT--EECEEEEC-STTHHHHHHHHHH
T ss_pred             CCCEECC--eEEEEEEC-CCCcHHHHHHHHh
Confidence            9887665  34555544 4444555555543

>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=99.57  E-value=5e-15  Score=121.72  Aligned_cols=71  Identities=23%  Similarity=0.374  Sum_probs=62.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~-----------------~kG~afV~f~~~~~A~~Ai~~   80 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGH-----------------SLGYGFVNYVTAKDAERAINT   80 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCc-----------------ccccEEEEECCHHHHHHHHHH
Confidence            467899999999999999999999999999999987654332                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        81 lng~~~~g   88 (99)
T 4fxv_A           81 LNGLRLQS   88 (99)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEECC
Confidence            99877554

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.55  E-value=9e-15  Score=121.74  Aligned_cols=77  Identities=19%  Similarity=0.166  Sum_probs=65.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .+++|||+|||.++|+++|+++|++||.|++|++++                       .||||||||++.++|++|++.
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~-----------------------~kg~AFVef~~~~~A~~Av~~   76 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP-----------------------KKRQALVEFEDVLGACNAVNY   76 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc-----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999863                       178999999999999999999


Q ss_pred             hcccccccccceEEEeeccc
Q 015730          367 LHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~  386 (401)
                      |++......+..+.+.+...
T Consensus        77 ln~~~~~i~Gr~i~V~~S~~   96 (100)
T 3r27_A           77 AADNQIYIAGHPAFVNYSTS   96 (100)
T ss_dssp             HHHSCEEETTEEEEEEECSC
T ss_pred             hcCCCceeCCcEEEEEeccc
Confidence            99876544456677666543

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.55  E-value=2.5e-15  Score=121.49  Aligned_cols=78  Identities=17%  Similarity=0.295  Sum_probs=63.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ++|||+|||.++|+++|+++|++|| .|..|+|++++.++.                 ++|||||+|++.++|++|++.+
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~-----------------~rg~aFV~F~~~~~A~~Ai~~~   64 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQ-----------------SRGFAFVEFSHLQDATRWMEAN   64 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCC-----------------CSSEEEEECSSHHHHHHHHHTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCC-----------------cCceEEEEecCHHHHHHHHHhc
Confidence            5899999999999999999999999 899999987654332                 3899999999999999999988


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      ++..... +..+.+.+.
T Consensus        65 ~~~~~~~-gr~i~V~~a   80 (91)
T 2lxi_A           65 QHSLNIL-GQKVSMHYS   80 (91)
T ss_dssp             TTEEEET-TEEEEEECC
T ss_pred             CCCeEEC-CEEEEEEEc
Confidence            6554333 245655554

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.54  E-value=2.5e-15  Score=126.15  Aligned_cols=75  Identities=20%  Similarity=0.238  Sum_probs=61.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||+++|+++|+++|++||.|+.|+|+++                       ||||||||++.++|++|++.
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~-----------------------kGfaFVeF~~~~~A~~Ai~~   71 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-----------------------KNQAFIEMNTEEAANTMVNY   71 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT-----------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-----------------------CCEEEEEECCHHHHHHHHHH
Confidence            3689999999999999999999999999999999742                       78999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++....+.+..+.+.+.
T Consensus        72 l~~~~~~l~Gr~l~V~~A   89 (105)
T 1sjq_A           72 YTSVTPVLRGQPIYIQFS   89 (105)
T ss_dssp             HTTSCCEETTEECCBCCC
T ss_pred             hccCCceECCEEEEEEEc
Confidence            975422222345555544

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.52  E-value=2e-14  Score=119.27  Aligned_cols=78  Identities=21%  Similarity=0.233  Sum_probs=63.9

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|+.||.|..|+|++++. +                 ..+|||||+|++.++|++|++
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g-----------------~~rG~aFV~F~~~e~a~~Ai~   70 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-K-----------------AFKGSIFVVFDSIESAKKFVE   70 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-T-----------------SCCCEEEEEESSHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC-C-----------------CCccEEEEEECCHHHHHHHHH
Confidence            4579999999999999999999999999999999987642 1                 138999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                       +++..+..  ..+.+.++
T Consensus        71 -~~~~~~~g--r~l~V~~~   86 (103)
T 1s79_A           71 -TPGQKYKE--TDLLILFK   86 (103)
T ss_dssp             -SSCCCCTT--TTCEEEEH
T ss_pred             -cCCCEECC--EEEEEEEc
Confidence             77655433  44555543

>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=99.52  E-value=1e-14  Score=121.53  Aligned_cols=77  Identities=17%  Similarity=0.177  Sum_probs=64.4

Q ss_pred             hhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||+ ++|+++|+++|+.||.|..|+|+++                       +|||||||++.++|++|++.
T Consensus        15 ~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~-----------------------kg~aFVef~~~~~A~~Ai~~   71 (102)
T 1x4d_A           15 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK-----------------------INEAFIEMATTEDAQAAVDY   71 (102)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS-----------------------SSCEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC-----------------------CCEEEEEECCHHHHHHHHHH
Confidence            68999999999 9999999999999999999999632                       68999999999999999999


Q ss_pred             hcccccccccceEEEeecccC
Q 015730          367 LHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      |++....+.+..+.+.+...+
T Consensus        72 l~~~~~~~~Gr~l~V~~a~~~   92 (102)
T 1x4d_A           72 YTTTPALVFGKPVRVHLSQKY   92 (102)
T ss_dssp             HHHSCCEETTEECEEEEECCC
T ss_pred             HcCCCceECCcEEEEEECCCC
Confidence            987654444455666655433

>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=99.52  E-value=1.3e-14  Score=121.86  Aligned_cols=68  Identities=25%  Similarity=0.351  Sum_probs=60.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||.++|+++|+++|++||.|..|+|++++.                   ..||||||+|++.++|++|++.|
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~-------------------~~kg~afV~f~~~~~A~~Ai~~l   65 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN-------------------GSKGYGFVHFETQEAAERAIEKM   65 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT-------------------EEEEEEEEEESCHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCC-------------------CCCceEEEEECCHHHHHHHHHHc
Confidence            46899999999999999999999999999999986531                   13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        66 ~~~~~~g   72 (115)
T 4f25_A           66 NGMLLND   72 (115)
T ss_dssp             TTCEETT
T ss_pred             CCCEECC
Confidence            9887655

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.51  E-value=4.1e-14  Score=125.87  Aligned_cols=80  Identities=16%  Similarity=0.084  Sum_probs=66.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC--CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG--SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG--~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+|||.++|+++|+++|+.||  .|..|+|++++.++.                 .+|||||+|++.++|++||+
T Consensus        55 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~-----------------skGfaFV~f~~~~~A~~Ai~  117 (156)
T 3n9u_C           55 RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQ-----------------SKGYAEVVVASENSVHKLLE  117 (156)
T ss_dssp             -CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCC-----------------EEEEEEEEESCHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCc-----------------cceEEEEEECCHHHHHHHHH
Confidence            57999999999999999999999999  999999987754332                 38999999999999999999


Q ss_pred             HhcccccccccceEEEeeccc
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~  386 (401)
                      .||+..+..  ..+.+.+...
T Consensus       118 ~lng~~~~G--r~l~V~~a~~  136 (156)
T 3n9u_C          118 LLPGKVLNG--EKVDVRPATR  136 (156)
T ss_dssp             HSTTCEETT--EECEEEECCH
T ss_pred             HcCCCEECC--eEeEEEEcCC
Confidence            999887654  3455554443

>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=99.51  E-value=3e-14  Score=118.66  Aligned_cols=75  Identities=19%  Similarity=0.219  Sum_probs=63.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..|+|++                       .||||||||++.++|++|++.|
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~-----------------------~kg~aFVef~~~~~A~~Ai~~l   71 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP-----------------------FKRQALVEFENIDSAKECVTFA   71 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC-----------------------CCCEEEEEECCHHHHHHHHHHh
Confidence            68999999999999999999999999999999863                       1789999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      ++......+..+.+.+..
T Consensus        72 ~~~~~~i~Gr~l~V~~a~   89 (104)
T 1wex_A           72 ADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             HHSCCBSSSSBCEEEECS
T ss_pred             ccCCceECCEEEEEEEcc
Confidence            865444434556666544

>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=99.51  E-value=4.1e-14  Score=117.83  Aligned_cols=80  Identities=26%  Similarity=0.276  Sum_probs=66.1

Q ss_pred             hhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       284 ~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .+...++|||+|||.++++++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|
T Consensus        21 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A   83 (114)
T 2cq4_A           21 EERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR-----------------SKGIAYVEFCEIQSVPLA   83 (114)
T ss_dssp             THHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSS-----------------CCCCEEEEESCGGGHHHH
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCc-----------------cCcEEEEEeCcHHHHHHH
Confidence            445689999999999999999999999999999999987643221                 389999999999999999


Q ss_pred             HHHhcccccccccceEEEee
Q 015730          364 VSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~  383 (401)
                      + .||+..+..  ..+.+.+
T Consensus        84 ~-~l~g~~~~g--~~l~V~~  100 (114)
T 2cq4_A           84 I-GLTGQRLLG--VPIIVQA  100 (114)
T ss_dssp             H-HHTTEEETT--EEEEEEE
T ss_pred             H-HcCCCEeCC--eEEEEEe
Confidence            9 999877544  3455444

>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=99.50  E-value=3.5e-14  Score=115.86  Aligned_cols=83  Identities=27%  Similarity=0.287  Sum_probs=68.1

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++++++|+++|++||.|..|++++++.++                 .++|||||+|++.++|++|++
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g-----------------~~~g~afV~f~~~~~a~~A~~   68 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETG-----------------KPKGYGFCEYQDQETALSAMR   68 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTT-----------------EEEEEEEEECSCHHHHHHHHH
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCC-----------------ccceEEEEEECCHHHHHHHHH
Confidence            357899999999999999999999999999999998764322                 138999999999999999999


Q ss_pred             HhcccccccccceEEEeecccC
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      .|++..+..  ..+.+.+...+
T Consensus        69 ~l~g~~~~g--~~l~v~~a~~~   88 (104)
T 1p1t_A           69 NLNGREFSG--RALRVDNAASE   88 (104)
T ss_dssp             HSSSBSCSS--SCBEEEETTCT
T ss_pred             HhCCCeeCC--cEEEEEeCCCc
Confidence            999877654  44555554433

>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=99.50  E-value=4.4e-14  Score=111.42  Aligned_cols=78  Identities=15%  Similarity=0.126  Sum_probs=64.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++++.++.                 .+|||||+|++.++|++|++.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~A~~A~~~   67 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGK-----------------SKGYGFVSFFNKWDAENAIQQ   67 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCc-----------------cceEEEEEECCHHHHHHHHHH
Confidence            367999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      ||+..+..  ..+.+.+
T Consensus        68 l~g~~~~g--~~l~v~~   82 (87)
T 3bs9_A           68 MGGQWLGG--RQIRTNW   82 (87)
T ss_dssp             HTTCEETT--EECEEEE
T ss_pred             cCCCEECC--eEEEEEe
Confidence            99876544  3444444

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

Probab=99.50  E-value=4.9e-14  Score=114.17  Aligned_cols=81  Identities=22%  Similarity=0.201  Sum_probs=66.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~   69 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTK-----------------KPKGFAFVTFMFPEHAVKAYAE   69 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTC-----------------CCCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCC-----------------CcCeEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeeccc
Q 015730          367 LHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~  386 (401)
                      ||+..+..  ..+.+.+...
T Consensus        70 l~g~~~~g--~~l~V~~a~~   87 (99)
T 1whw_A           70 VDGQVFQG--RMLHVLPSTI   87 (99)
T ss_dssp             TTTEESSS--CEEEEEECCC
T ss_pred             hCCCEECC--cEEEEEEcCC
Confidence            99877554  4555555433

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

Probab=99.50  E-value=2.7e-14  Score=117.05  Aligned_cols=79  Identities=22%  Similarity=0.275  Sum_probs=65.7

Q ss_pred             hhheeccCCCC------cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          288 SRIVVAENLPE------DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       288 ~rtVyV~nLP~------d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      .++|||+|||.      ++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|+
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~-----------------~kG~afV~f~~~~~A~   68 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGK-----------------TKGFLFVECGSMNDAK   68 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTE-----------------ECSEEEEEESSHHHHH
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCc-----------------cceEEEEEECCHHHHH
Confidence            68999999999      999999999999999999999987654321                 3899999999999999


Q ss_pred             HHHHHhcccccccccceEEEeec
Q 015730          362 KAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       362 kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +|++.||+..+... ..+.+.+.
T Consensus        69 ~Ai~~lng~~~~g~-r~l~V~~a   90 (100)
T 3ns6_A           69 KIIKSFHGKRLDLK-HRLFLYTM   90 (100)
T ss_dssp             HHHHHHTTCBSSSS-CBCEEEES
T ss_pred             HHHHHhCCcccCCC-eEEEEEEC
Confidence            99999998776541 34444443

>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=99.50  E-value=2.7e-14  Score=122.27  Aligned_cols=75  Identities=20%  Similarity=0.241  Sum_probs=62.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||+++|+++|+++|++||.|+.|+|+++                       ||||||||++.++|++|++.|
T Consensus        31 s~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~-----------------------kG~AFVeF~~~e~A~~Ai~~l   87 (119)
T 2ad9_A           31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-----------------------KNQAFIEMNTEEAANTMVNYY   87 (119)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG-----------------------GTEEEEECSCHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC-----------------------CCEEEEEECCHHHHHHHHHHh
Confidence            689999999999999999999999999999999642                       789999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      ++......+..+.+.+..
T Consensus        88 ~~~~~~l~Gr~l~V~~a~  105 (119)
T 2ad9_A           88 TSVTPVLRGQPIYIQFSN  105 (119)
T ss_dssp             HHHCCCBTTBCCEEEECS
T ss_pred             ccCCceECCeEEEEEEcc
Confidence            864333333455555543

>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=99.50  E-value=3.7e-14  Score=117.66  Aligned_cols=75  Identities=19%  Similarity=0.205  Sum_probs=61.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..|+|+++                       ||||||||++.++|++|++.|
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~-----------------------kg~aFVef~~~~~A~~Ai~~l   71 (101)
T 2cq1_A           15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG-----------------------KNQAFLELATEEAAITMVNYY   71 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT-----------------------TTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC-----------------------CCEEEEEECCHHHHHHHHHHh
Confidence            689999999999999999999999999999998631                       789999999999999999998


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      +.......+..+.+.+..
T Consensus        72 ~~~~~~~~Gr~l~V~~a~   89 (101)
T 2cq1_A           72 SAVTPHLRNQPIYIQYSN   89 (101)
T ss_dssp             HHSCCEETTEECEEEECS
T ss_pred             ccCCceECCcEEEEEEcC
Confidence            754333334555555543

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

Probab=99.49  E-value=9.5e-14  Score=111.44  Aligned_cols=79  Identities=20%  Similarity=0.208  Sum_probs=65.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..|++++++.++.                 .+|||||+|++.++|++|++.|
T Consensus         5 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A~~~l   67 (95)
T 2dnz_A            5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGR-----------------SKGYGFITFSDSECARRALEQL   67 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCC-----------------CCSEEEEEESCHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCc-----------------eeeEEEEEECCHHHHHHHHHHh
Confidence            67999999999999999999999999999999987643221                 3899999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      |+..+..  ..+.+.+..
T Consensus        68 ~g~~~~g--~~l~V~~a~   83 (95)
T 2dnz_A           68 NGFELAG--RPMRVGHVT   83 (95)
T ss_dssp             TTCCSSS--SCCEEEESS
T ss_pred             CCCeeCC--cEEEEEEcc
Confidence            9876554  345555443

>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=99.49  E-value=7e-14  Score=112.95  Aligned_cols=79  Identities=23%  Similarity=0.352  Sum_probs=65.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.|
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~Ai~~l   64 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGR-----------------SKGYAFIEFRDLESSASAVRNL   64 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCC-----------------BCSEEEEEESSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCc-----------------cceEEEEEECCHHHHHHHHHHh
Confidence            47999999999999999999999999999999976543221                 3899999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      |+..+..  ..+.+.+..
T Consensus        65 ~g~~~~g--~~l~V~~a~   80 (96)
T 2x1f_A           65 NGYQLGS--RFLKCGYSS   80 (96)
T ss_dssp             TTCEETT--EECEEEECS
T ss_pred             CCCeECC--eEEEEEEcC
Confidence            9876554  345555543

>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=99.48  E-value=5.8e-14  Score=115.10  Aligned_cols=82  Identities=21%  Similarity=0.190  Sum_probs=66.6

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~A~~   73 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGM-----------------HKGCAFLTYCERESALKAQS   73 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCS-----------------CCSEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCC-----------------cceEEEEEECCHHHHHHHHH
Confidence            3478999999999999999999999999999999987643221                 38999999999999999999


Q ss_pred             Hhccccccc-ccceEEEeec
Q 015730          366 HLHFMIMLF-FFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~-~~~~~~~~~~  384 (401)
                      .|++..++. ....+.+.+.
T Consensus        74 ~l~g~~~~~~~g~~l~v~~a   93 (106)
T 2dgp_A           74 ALHEQKTLPGMNRPIQVKPA   93 (106)
T ss_dssp             HHTTTCCCTTCSSCCEEEEC
T ss_pred             HhcCCcccCCCCceEEEEEC
Confidence            999876522 2344555544

>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=99.48  E-value=8.2e-14  Score=110.32  Aligned_cols=72  Identities=21%  Similarity=0.245  Sum_probs=62.3

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +.+.++|||+|||.++++++|+++|+.||.|..|++++++.++.                 .+|||||+|++.++|++|+
T Consensus         3 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~a~   65 (89)
T 3ucg_A            3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGH-----------------PKGFAYIEFSDKESVRTSL   65 (89)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSS-----------------CCEEEEEEESSTHHHHHHG
T ss_pred             CCcCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCC-----------------cceEEEEEECCHHHHHHHH
Confidence            34578999999999999999999999999999999987643221                 3899999999999999999


Q ss_pred             HHhccccccc
Q 015730          365 SHLHFMIMLF  374 (401)
Q Consensus       365 ~~ln~~~~~~  374 (401)
                       .|++..+..
T Consensus        66 -~~~g~~~~g   74 (89)
T 3ucg_A           66 -ALDESLFRG   74 (89)
T ss_dssp             -GGTTCEETT
T ss_pred             -hcCCCEECC
Confidence             999887554

>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=99.48  E-value=3.1e-14  Score=114.07  Aligned_cols=69  Identities=17%  Similarity=0.095  Sum_probs=58.7

Q ss_pred             hheeccCCCCcccHHHHHHHHhccC--CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVG--SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG--~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .+|||+|||.++|+++|+++|++||  .|..|++++++.++.                 .+|||||+|++.++|++|++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~-----------------~kG~afV~f~~~~~a~~Ai~~   64 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ-----------------SKGFALVGVGSEASSKKLMDL   64 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCC-----------------EEEEEEECC-CHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCc-----------------cCcEEEEEECCHHHHHHHHHH
Confidence            5899999999999999999999999  999999987654332                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        65 l~g~~~~g   72 (90)
T 3p5t_L           65 LPKRELHG   72 (90)
T ss_dssp             GGGSCSSS
T ss_pred             cCCCeeCC
Confidence            99877554

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=1.1e-13  Score=112.76  Aligned_cols=79  Identities=15%  Similarity=0.174  Sum_probs=65.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        11 ~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   73 (102)
T 1x5s_A           11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQ-----------------RSRGFGFVTFENIDDAKDAMMA   73 (102)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSC-----------------SCCSEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-----------------CcccEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999998654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        74 l~g~~~~g--~~l~v~~a   89 (102)
T 1x5s_A           74 MNGKSVDG--RQIRVDQA   89 (102)
T ss_dssp             HTTCCTTS--CCCEEEEE
T ss_pred             hCCCEECC--eEEEEEEC
Confidence            99887654  33444443

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.48  E-value=3.7e-14  Score=116.30  Aligned_cols=67  Identities=21%  Similarity=0.249  Sum_probs=58.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCC--eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGS--VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~--V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      -.||||+|||.++|+++|+++|++||.  |..|++++++.++.                 +||||||+|++.++|++|++
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~-----------------srG~aFV~f~~~~~A~~Ai~   71 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQ-----------------NRGFAFVQLSSAMDASQLLQ   71 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSS-----------------CSSEEEEECSSSHHHHHHHH
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCC-----------------CceEeEEEECCHHHHHHHHH
Confidence            358999999999999999999999995  67899887654332                 38999999999999999999


Q ss_pred             Hhcccc
Q 015730          366 HLHFMI  371 (401)
Q Consensus       366 ~ln~~~  371 (401)
                      .||+..
T Consensus        72 ~lng~~   77 (95)
T 2lkz_A           72 ILQSLH   77 (95)
T ss_dssp             HHHSSS
T ss_pred             HhcCCC
Confidence            999863

>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=99.48  E-value=1.1e-13  Score=108.27  Aligned_cols=77  Identities=13%  Similarity=0.098  Sum_probs=64.2

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .+|||+|||.++++++|+++|+.||.|..|+++++..++.                 .+|||||+|++.++|++|++.||
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~a~~~l~   64 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGS-----------------SRGYGFVSFTSQDDAQNAMDSMQ   64 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCC-----------------EEEEEEEEESCHHHHHHHHHHHT
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCC-----------------ccceEEEEECCHHHHHHHHHHhc
Confidence            5899999999999999999999999999999987643221                 38999999999999999999999


Q ss_pred             ccccccccceEEEeec
Q 015730          369 FMIMLFFFSAFCLMFV  384 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~  384 (401)
                      +..+..  ..+.+.+.
T Consensus        65 g~~~~g--~~l~v~~a   78 (83)
T 3md1_A           65 GQDLNG--RPLRINWA   78 (83)
T ss_dssp             TCEETT--EECEEEEC
T ss_pred             CCeeCC--cEEEEEec
Confidence            887654  34454444

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

Probab=99.47  E-value=1.2e-13  Score=127.04  Aligned_cols=121  Identities=18%  Similarity=0.235  Sum_probs=82.1

Q ss_pred             CHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCC
Q 015730          249 SHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG  328 (401)
Q Consensus       249 d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~  328 (401)
                      +.+.+..||+......+  .|+.++...............++|||+|||.++|+++|+++|++||.|..|+|++++.   
T Consensus        66 ~~~~A~~Ai~~~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~---  140 (213)
T 4f02_A           66 QPADAERALDTMNFDVI--KGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN---  140 (213)
T ss_dssp             SHHHHHHHHHHHTTCEE--TTEECEEEECCCCTHHHHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT---
T ss_pred             CHHHHHHHHHHhhhhhc--CCcccccccccccccccccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCC---
Confidence            34455555554333233  2344443333222223334467899999999999999999999999999999986531   


Q ss_pred             CCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEeecccCHHHHHH
Q 015730          329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFVTQTNEIRTS  393 (401)
Q Consensus       329 ~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~~~~~e~R~~  393 (401)
                                      ..+|||||+|++.++|++|++.||+..+..  ..+.+.+. +.+++|+.
T Consensus       141 ----------------~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g--~~i~V~~a-~~~~~~~~  186 (213)
T 4f02_A          141 ----------------GSKGYGFVHFETQEAAERAIEKMNGMLLND--RKVFVGRF-KSRKEREA  186 (213)
T ss_dssp             ----------------EEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEC-CCHHHHHH
T ss_pred             ----------------CCceEEEEEeCCHHHHHHHHHHhCCCEECC--EEEEEEEc-CCCcccch
Confidence                            138999999999999999999999877654  34554443 33444443

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

Probab=99.47  E-value=1.5e-13  Score=110.13  Aligned_cols=71  Identities=20%  Similarity=0.255  Sum_probs=61.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++++.++                 ..+|||||+|++.++|++|++.
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   77 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTR-----------------KSKGVAFILFLDKDSAQNCTRA   77 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSC-----------------CCTTCEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-----------------CcccEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        78 l~g~~~~g   85 (94)
T 2e5h_A           78 INNKQLFG   85 (94)
T ss_dssp             TTTEEETT
T ss_pred             cCCCeeCC
Confidence            99876554

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

Probab=99.47  E-value=1.5e-13  Score=110.02  Aligned_cols=71  Identities=21%  Similarity=0.195  Sum_probs=61.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+++++..++                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   76 (95)
T 2cqc_A           14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR-----------------RSRGFAFVYFENVDDAKEAKER   76 (95)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSS-----------------SEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCC-----------------CcccEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999998764322                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        77 l~g~~~~g   84 (95)
T 2cqc_A           77 ANGMELDG   84 (95)
T ss_dssp             HTTEEETT
T ss_pred             hCCCEECC
Confidence            99876554

>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=99.47  E-value=6.2e-14  Score=115.84  Aligned_cols=79  Identities=22%  Similarity=0.268  Sum_probs=65.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~Ai~~   87 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG-----------------FSKGYALVEYETHKQALAAKEA   87 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTS-----------------SBCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        88 l~g~~~~g--~~l~V~~a  103 (110)
T 1oo0_B           88 LNGAEIMG--QTIQVDWC  103 (110)
T ss_dssp             HTTCEETT--EECEEEES
T ss_pred             cCCCEECC--cEEEEEEc
Confidence            99876544  34555544

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

Probab=99.47  E-value=1.1e-13  Score=115.32  Aligned_cols=79  Identities=15%  Similarity=0.142  Sum_probs=65.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A~~~   76 (115)
T 2dgo_A           14 NHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGK-----------------SKGYGFVSFFNKWDAENAIQQ   76 (115)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCC-----------------cceEEEEEECCHHHHHHHHHH
Confidence            478999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        77 l~g~~~~g--~~l~V~~a   92 (115)
T 2dgo_A           77 MGGQWLGG--RQIRTNWA   92 (115)
T ss_dssp             TTTCEETT--EECEEEES
T ss_pred             hCCCEECC--EEEEEEEc
Confidence            99876544  34555554

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=5.8e-14  Score=110.61  Aligned_cols=70  Identities=24%  Similarity=0.283  Sum_probs=61.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.|
T Consensus         5 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A~~~l   67 (85)
T 1x4e_A            5 SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNK-----------------CKGYGFVDFDSPSAAQKAVTAL   67 (85)
T ss_dssp             CCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCS-----------------CCSEEEEEESCHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC-----------------cCcEEEEEECCHHHHHHHHHHh
Confidence            68999999999999999999999999999999987643221                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        68 ~g~~~~g   74 (85)
T 1x4e_A           68 KASGVQA   74 (85)
T ss_dssp             HHHTCCE
T ss_pred             cCCeEee
Confidence            9876544

>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=99.47  E-value=3.1e-14  Score=120.73  Aligned_cols=75  Identities=23%  Similarity=0.242  Sum_probs=62.5

Q ss_pred             hhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.+ +++++|+++|++||.|..|+|++                       .||||||||++.++|++|++.
T Consensus        25 ~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~-----------------------~kg~aFVef~~~~~A~~Ai~~   81 (112)
T 1x4f_A           25 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-----------------------MKSQAFIEMETREDAMAMVDH   81 (112)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-----------------------TTTEEEEECSSHHHHHHHHHH
T ss_pred             CCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec-----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            689999999998 99999999999999999999963                       278999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      |++....+.+..+.+.+..
T Consensus        82 l~~~~~~l~Gr~l~V~~a~  100 (112)
T 1x4f_A           82 CLKKALWFQGRCVKVDLSE  100 (112)
T ss_dssp             HHHSCCCSSSSCCEEEEEC
T ss_pred             hccCCceECCEEEEEEECc
Confidence            9865433333455555543

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=1e-13  Score=113.59  Aligned_cols=79  Identities=20%  Similarity=0.284  Sum_probs=65.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|++++.++.                 ++|||||+|++.++|++|++.
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A~~~   84 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY-----------------LKGYTLVEYETYKEAQAAMEG   84 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS-----------------EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCc-----------------eeeEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        85 l~g~~~~g--~~l~V~~a  100 (106)
T 1p27_B           85 LNGQDLMG--QPISVDWC  100 (106)
T ss_dssp             HTTCBSSS--SBCEEEES
T ss_pred             hcCCEECC--cEEEEEee
Confidence            99876554  34444443

>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=99.47  E-value=8.3e-14  Score=109.37  Aligned_cols=71  Identities=23%  Similarity=0.292  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+++++..++                 ..+|||||+|++.++|++|++.
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~   68 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-----------------KHRGFAFVEFELAEDAAAAIDN   68 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTT-----------------EECSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCC-----------------ccccEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997653221                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        69 l~g~~~~g   76 (85)
T 3mdf_A           69 MNESELFG   76 (85)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEECC
Confidence            99887654

>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=99.47  E-value=1.1e-13  Score=114.18  Aligned_cols=80  Identities=19%  Similarity=0.228  Sum_probs=65.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~A~~~   76 (111)
T 1x4h_A           14 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH-----------------SKGCAFAQFMTQEAAQKCLAA   76 (111)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCC-----------------BCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC-----------------CccEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hc------ccccccccceEEEeecc
Q 015730          367 LH------FMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln------~~~~~~~~~~~~~~~~~  385 (401)
                      |+      +..+..  ..+.+.+..
T Consensus        77 ~~~~~~~~~~~~~g--~~l~v~~a~   99 (111)
T 1x4h_A           77 ASLEAEGGGLKLDG--RQLKVDLAV   99 (111)
T ss_dssp             HCTTTTTCCEESSS--CEEEEECCC
T ss_pred             hccccccCCcEEcC--EEEEEEECC
Confidence            98      555433  455555543

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.46  E-value=1.9e-13  Score=110.86  Aligned_cols=78  Identities=15%  Similarity=0.264  Sum_probs=64.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++ 
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A~~-   70 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQR-----------------PRGFGFITFEDEQSVDQAVN-   70 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCS-----------------CCSEEEEEESSHHHHHHHHH-
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCC-----------------CCceEEEEECCHHHHHHHHH-
Confidence            468999999999999999999999999999999987643221                 38999999999999999998 


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        71 ~~~~~~~g--~~l~V~~a   86 (99)
T 2dgs_A           71 MHFHDIMG--KKVEVKRA   86 (99)
T ss_dssp             HCCCBSSS--CBCEEEEC
T ss_pred             hCCCEECC--eEEEEEEC
Confidence            88776544  34444443

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.46  E-value=1e-13  Score=119.10  Aligned_cols=82  Identities=15%  Similarity=0.245  Sum_probs=67.8

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ....++|||+|||.++++++|+++|+.||.|..|+|++++.++                 ..+|||||+|++.++|++|+
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~  101 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETR-----------------QSRGYGFVKFQSGSSAQQAI  101 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTT-----------------EEEEEEEEEESSHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-----------------CcceEEEEEECCHHHHHHHH
Confidence            3457899999999999999999999999999999998764322                 13899999999999999999


Q ss_pred             HHhcccccccccceEEEeecc
Q 015730          365 SHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~  385 (401)
                      +.||+..+..  ..+.+.+..
T Consensus       102 ~~l~g~~~~g--~~l~v~~a~  120 (139)
T 1u6f_A          102 AGLNGFNILN--KRLKVALAA  120 (139)
T ss_dssp             HHTTTEECSS--CEEEEEESS
T ss_pred             HHhCCCEECC--eEEEEEECC
Confidence            9999877554  455555543

>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=99.46  E-value=1.4e-13  Score=112.69  Aligned_cols=79  Identities=20%  Similarity=0.207  Sum_probs=65.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~   76 (105)
T 1x5u_A           14 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTG-----------------QHQGYGFVEFLSEEDADYAIKI   76 (105)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC-----------------SBCSCEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-----------------cCCcEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        77 l~g~~~~g--~~l~v~~a   92 (105)
T 1x5u_A           77 MDMIKLYG--KPIRVNKA   92 (105)
T ss_dssp             SSSCBCSS--CBCEEEET
T ss_pred             hCCCeECC--eEEEEEEC
Confidence            99877554  34554443

>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=99.46  E-value=1e-13  Score=115.52  Aligned_cols=79  Identities=16%  Similarity=0.322  Sum_probs=65.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-----------------~~~g~afV~f~~~~~a~~A~~~   86 (115)
T 2cpz_A           24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTN-----------------LSKCFGFVSYDNPVSAQAAIQS   86 (115)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSC-----------------SEEEEEEEECSSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCC-----------------CcCccEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998764322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        87 l~g~~~~g--~~l~V~~a  102 (115)
T 2cpz_A           87 MNGFQIGM--KRLKVQLK  102 (115)
T ss_dssp             HTTCEETT--EECEEECC
T ss_pred             cCCCEECC--EEEEEEEc
Confidence            99877554  34555544

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

Probab=99.46  E-value=1.2e-13  Score=112.15  Aligned_cols=78  Identities=26%  Similarity=0.312  Sum_probs=65.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|++++ ++                 ..+|||||+|++.++|++|++.
T Consensus        16 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-----------------~~~g~afV~f~~~~~a~~A~~~   77 (100)
T 2do4_A           16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AG-----------------KPKGLAYVEYENESQASQAVMK   77 (100)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TS-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CC-----------------CEEeEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998653 11                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        78 l~g~~~~g--~~l~v~~a   93 (100)
T 2do4_A           78 MDGMTIKE--NIIKVAIS   93 (100)
T ss_dssp             HTTEESSS--CEEEEEEC
T ss_pred             hCCCEECC--EEEEEEEC
Confidence            99876554  44555544

>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=99.46  E-value=2.8e-13  Score=125.98  Aligned_cols=74  Identities=24%  Similarity=0.259  Sum_probs=62.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++++++|+++|+.|| .|..|+++..                      .+|||||+|++.++|.+|++.
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~----------------------~~g~afV~f~~~~~A~~Ai~~  208 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----------------------DRKMALIQMGSVEEAVQALID  208 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS----------------------STTCEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC----------------------CCcEEEEEECCHHHHHHHHHH
Confidence            57899999999999999999999999 9999998531                      278999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+.. ...+.+.+.
T Consensus       209 l~g~~~~~-g~~l~v~~a  225 (229)
T 2adc_A          209 LHNHDLGE-NHHLRVSFS  225 (229)
T ss_dssp             HTTCBSSS-SCBCEEEEC
T ss_pred             HCCCccCC-CCeEEEEEe
Confidence            99987651 234554443

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.46  E-value=8.5e-14  Score=113.33  Aligned_cols=79  Identities=20%  Similarity=0.266  Sum_probs=65.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   73 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-----------------KHRGFAFVEFELAEDAAAAIDN   73 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSC-----------------CCSSEEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        74 l~g~~~~g--~~l~V~~a   89 (102)
T 2cqb_A           74 MNESELFG--RTIRVNLA   89 (102)
T ss_dssp             HTTEEETT--EEEEEEEC
T ss_pred             hCCCEECC--cEEEEEeC
Confidence            99877554  34555543

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.46  E-value=1.4e-13  Score=112.72  Aligned_cols=79  Identities=22%  Similarity=0.365  Sum_probs=64.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecC-CCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLP-QTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p-~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|+++ +.++                 ..+|||||+|++.++|++|++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~   76 (107)
T 2cph_A           14 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTG-----------------AHRGFGFVDFITKQDAKKAFN   76 (107)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSC-----------------SSCSEEEEEESSHHHHHHHHH
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCC-----------------CcCceEEEEECCHHHHHHHHH
Confidence            4689999999999999999999999999999999765 3221                 138999999999999999999


Q ss_pred             Hh-cccccccccceEEEeec
Q 015730          366 HL-HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~l-n~~~~~~~~~~~~~~~~  384 (401)
                      .| |+..+..  ..+.+.+.
T Consensus        77 ~l~~~~~~~g--~~l~v~~a   94 (107)
T 2cph_A           77 ALCHSTHLYG--RRLVLEWA   94 (107)
T ss_dssp             HHHTCCBSSS--CBCEEEEC
T ss_pred             HhccCCeECC--CEEEEEeC
Confidence            99 7666544  34554444

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

Probab=99.46  E-value=9.5e-14  Score=113.41  Aligned_cols=79  Identities=22%  Similarity=0.295  Sum_probs=65.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~A~~A~~~   76 (103)
T 2cq0_A           14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ-----------------SKGFAFISFHRREDAARAIAG   76 (103)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCS-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCc-----------------eeeEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        77 l~g~~~~g--~~l~v~~a   92 (103)
T 2cq0_A           77 VSGFGYDH--LILNVEWA   92 (103)
T ss_dssp             TTTCEETT--EECEEEES
T ss_pred             cCCCeeCC--cEEEEEEC
Confidence            99877554  34444443

>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=99.45  E-value=7.1e-14  Score=114.36  Aligned_cols=81  Identities=21%  Similarity=0.294  Sum_probs=66.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++.+ +                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-g-----------------~~~g~afV~f~~~~~A~~Ai~~   75 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-G-----------------SSKGCAFVKFSSHTEAQAAIHA   75 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSS-S-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-C-----------------CcCcEEEEEeCCHHHHHHHHHH
Confidence            368999999999999999999999999999999986531 1                 1389999999999999999999


Q ss_pred             hcccccccc-cceEEEeecc
Q 015730          367 LHFMIMLFF-FSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~-~~~~~~~~~~  385 (401)
                      ||+..+... ...+.+.+..
T Consensus        76 l~g~~~~gg~~~~l~V~~a~   95 (105)
T 2dnh_A           76 LHGSQTMPGASSSLVVKFAD   95 (105)
T ss_dssp             HSSCCCCTTCSSCCEEEESC
T ss_pred             HcCCccCCCCCccEEEEECc
Confidence            998875541 1345555543

>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=99.45  E-value=1.6e-13  Score=118.05  Aligned_cols=79  Identities=20%  Similarity=0.184  Sum_probs=65.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        45 ~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~-----------------~~G~afV~F~~~~~A~~Ai~~  107 (129)
T 2kxn_B           45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR-----------------SRGFAFVYFENVDDAKEAKER  107 (129)
T ss_dssp             CSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSC-----------------CCCEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc-----------------cceEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus       108 lng~~i~g--~~l~V~~a  123 (129)
T 2kxn_B          108 ANGMELDG--RRIRVDFS  123 (129)
T ss_dssp             HTTCCSSS--SCCEESCC
T ss_pred             hCCCEECC--EEEEEEEe
Confidence            99876554  34444443

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.8e-13  Score=111.68  Aligned_cols=78  Identities=24%  Similarity=0.296  Sum_probs=65.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.                   ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-------------------~~~g~afV~f~~~~~a~~A~~~   74 (103)
T 2cqi_A           14 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT-------------------SNDPYCFVEFYEHRDAAAALAA   74 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCC-------------------SSCCEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCC-------------------CCCCEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999986521                   1289999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      |++..+..  ..+.+.+..
T Consensus        75 l~g~~~~g--~~l~V~~a~   91 (103)
T 2cqi_A           75 MNGRKILG--KEVKVNWAT   91 (103)
T ss_dssp             HTTEEETT--EEEEEEECC
T ss_pred             hCCCCcCC--CeEEEEECC
Confidence            99887554  455555543

>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=99.45  E-value=1.8e-13  Score=109.75  Aligned_cols=70  Identities=21%  Similarity=0.308  Sum_probs=61.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++.+ +                 ..+|||||+|++.++|++|++.
T Consensus        15 ~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-g-----------------~~~g~afV~f~~~~~a~~A~~~   76 (95)
T 2ywk_A           15 ADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-G-----------------KPKSFGFVCFKHPESVSYAIAL   76 (95)
T ss_dssp             GGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-S-----------------CEEEEEEEEESSTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-C-----------------CCceEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999986532 1                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        77 l~g~~~~g   84 (95)
T 2ywk_A           77 LNGIRLYG   84 (95)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEECC
Confidence            99877554

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.45  E-value=2.2e-13  Score=113.34  Aligned_cols=66  Identities=14%  Similarity=0.147  Sum_probs=56.5

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|++
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~-----------------~kg~afV~f~~~~~A~~Ai~   85 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR-----------------SRGFGFVTFMDQAGVDKVLA   85 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCC-----------------CTTCEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCC-----------------cCcEEEEEECCHHHHHHHHH
Confidence            3578999999999999999999999999999999987643221                 38999999999999999999


Q ss_pred             Hhc
Q 015730          366 HLH  368 (401)
Q Consensus       366 ~ln  368 (401)
                      .++
T Consensus        86 ~~~   88 (109)
T 2rs2_A           86 QSR   88 (109)
T ss_dssp             SSC
T ss_pred             HCC
Confidence            875

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

Probab=99.45  E-value=5.1e-14  Score=113.26  Aligned_cols=78  Identities=18%  Similarity=0.258  Sum_probs=65.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEE-EEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTI-RTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~V-ri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++++++|+++|++||.|..| +|++++.++                 ..+|||||+|++.++|++|++.
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g-----------------~~~g~afV~f~~~~~A~~A~~~   67 (96)
T 1x5t_A            5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTG-----------------NSKGYAFINFASFDASDAAIEA   67 (96)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTC-----------------SCCSEEEEEBSSHHHHHHHHHT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCC-----------------CcCeEEEEEECCHHHHHHHHHH
Confidence            6899999999999999999999999999999 997653322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        68 l~g~~~~g--~~l~v~~a   83 (96)
T 1x5t_A           68 MNGQYLCN--RPITVSYA   83 (96)
T ss_dssp             TTTCEETT--EECEEEES
T ss_pred             cCCCEECC--EEEEEEEe
Confidence            99887654  34554443

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.5e-13  Score=114.65  Aligned_cols=78  Identities=17%  Similarity=0.172  Sum_probs=64.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~Ai~~   78 (116)
T 2cqd_A           16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGK-----------------SRGYGFVTMADRAAAERACKD   78 (116)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCC-----------------CCSEEEEEESSHHHHHHHHTC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCc-----------------cceEEEEEECCHHHHHHHHHh
Confidence            478999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ++. .+.  ...+.+.+.
T Consensus        79 ~~~-~~~--g~~l~V~~a   93 (116)
T 2cqd_A           79 PNP-IID--GRKANVNLA   93 (116)
T ss_dssp             SSC-EET--TEECEEEES
T ss_pred             CCC-cCC--CEEEEEEEc
Confidence            997 322  344555554

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.45  E-value=9.5e-14  Score=115.55  Aligned_cols=80  Identities=20%  Similarity=0.243  Sum_probs=66.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++++.++                 ..+|||||+|++.++|++|++.
T Consensus        25 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g-----------------~~~g~afV~F~~~~~A~~Ai~~   87 (108)
T 2jrs_A           25 GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETG-----------------RSKGYGFITFSDSECAKKALEQ   87 (108)
T ss_dssp             SCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTT-----------------EEEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-----------------ccceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998764322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      |++..+..  ..+.+.+..
T Consensus        88 l~g~~i~g--~~l~V~~a~  104 (108)
T 2jrs_A           88 LNGFELAG--RPMKVGHVT  104 (108)
T ss_dssp             HTTCCSSS--SCCEEECSC
T ss_pred             cCCCEECC--EEEEEEEcc
Confidence            99876544  445555543

>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=99.44  E-value=2.3e-13  Score=114.64  Aligned_cols=78  Identities=13%  Similarity=0.150  Sum_probs=65.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|++++ ++                 ..+|||||+|++.++|++|++.
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-----------------~~~g~afV~F~~~~~A~~Ai~~   67 (116)
T 2fy1_A            6 HPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TS-----------------KSRGFAFITFENPADAKNAAKD   67 (116)
T ss_dssp             SCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST-TT-----------------TCCCEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CC-----------------CcccEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998654 21                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        68 l~g~~~~g--~~l~V~~a   83 (116)
T 2fy1_A           68 MNGKSLHG--KAIKVEQA   83 (116)
T ss_dssp             CSSCBCSS--SBCEEEEC
T ss_pred             hCCCEECC--EEEEEEEC
Confidence            99877654  34444443

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.44  E-value=1.4e-13  Score=112.40  Aligned_cols=79  Identities=14%  Similarity=0.113  Sum_probs=65.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++.
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   74 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTK-----------------APRGFAFVRFHDRRDAQDAEAA   74 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSC-----------------SBCSCEEEEESSSSHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCC-----------------CCCeEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        75 l~g~~~~g--~~l~V~~a   90 (103)
T 2dnm_A           75 MDGAELDG--RELRVQVA   90 (103)
T ss_dssp             HSSCCBTT--BCCEEEEC
T ss_pred             cCCCEECC--cEEEEEEC
Confidence            99877554  34444443

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.44  E-value=1.1e-13  Score=112.11  Aligned_cols=72  Identities=14%  Similarity=0.135  Sum_probs=62.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCee-EEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVK-TIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~-~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++++++|+++|++||.|. .|+|++++.++.                 .+|||||+|++.++|++|++
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~   70 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGI-----------------PAGYCFVEFADLATAEKCLH   70 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCC-----------------EEEEEEEECSCHHHHHHHHH
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCC-----------------cCCEEEEEeCCHHHHHHHHH
Confidence            368999999999999999999999999999 999987653321                 38999999999999999999


Q ss_pred             Hhcccccccc
Q 015730          366 HLHFMIMLFF  375 (401)
Q Consensus       366 ~ln~~~~~~~  375 (401)
                      .||+..+...
T Consensus        71 ~l~g~~~~g~   80 (99)
T 2div_A           71 KINGKPLPGA   80 (99)
T ss_dssp             TTTTSEESSC
T ss_pred             HHcCCccCCC
Confidence            9998765553

>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=99.44  E-value=1.2e-13  Score=108.88  Aligned_cols=72  Identities=26%  Similarity=0.289  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|++.++..+++                ..+|||||+|++.++|++|++.
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~----------------~~~g~afV~f~~~~~a~~A~~~   66 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPH----------------LSKGYAYVEFENPDEAEKALKH   66 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEE----------------EECSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCC----------------CCCcEEEEEEecHHHHHHHHHH
Confidence            357999999999999999999999999999999976532110                1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        67 l~g~~~~g   74 (88)
T 4a8x_A           67 MDGGQIDG   74 (88)
T ss_dssp             HTTCEETT
T ss_pred             cCCCeECC
Confidence            99887655

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.44  E-value=1.4e-13  Score=111.23  Aligned_cols=82  Identities=23%  Similarity=0.235  Sum_probs=65.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++....+       .+       ..+|||||+|++.++|++|++.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~g-------t~-------~~~g~afV~f~~~~~a~~A~~~   69 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAG-------VL-------LSMGFGFVEYKKPEQAQKALKQ   69 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTC-------CE-------EEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC-------Cc-------CcccEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999986532100       00       1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        70 l~g~~~~g--~~l~V~~a   85 (98)
T 2cpf_A           70 LQGHTVDG--HKLEVRIS   85 (98)
T ss_dssp             STTCEETT--EECEEECS
T ss_pred             hCCCeeCC--eEEEEEEc
Confidence            99876554  34554443

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.44  E-value=1.5e-13  Score=114.90  Aligned_cols=71  Identities=15%  Similarity=0.270  Sum_probs=62.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        39 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~A~~~  101 (118)
T 2khc_A           39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSL-----------------SKCFGFVSFDNPDSAQVAIKA  101 (118)
T ss_dssp             CSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSC-----------------CCCEEEEEEESSHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCC-----------------cCcEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus       102 l~g~~~~g  109 (118)
T 2khc_A          102 MNGFQVGT  109 (118)
T ss_dssp             CCCCEETT
T ss_pred             cCCCEECC
Confidence            99876544

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

Probab=99.43  E-value=1.3e-13  Score=108.14  Aligned_cols=67  Identities=25%  Similarity=0.255  Sum_probs=57.7

Q ss_pred             hheeccCCCCcc------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          289 RIVVAENLPEDH------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       289 rtVyV~nLP~d~------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ++|||+|||.++      ++++|+++|++||.|..|+|.+  .++                 ..+|||||+|++.++|++
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~--~~g-----------------~~~g~afV~f~~~~~A~~   62 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE--EDG-----------------KTKGYIFLEYASPAHAVD   62 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCC--BTT-----------------BCCCEEEEEESSHHHHHH
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecC--CCC-----------------cEeEEEEEEECCHHHHHH
Confidence            689999999999      7899999999999999999852  111                 138999999999999999


Q ss_pred             HHHHhccccccc
Q 015730          363 AVSHLHFMIMLF  374 (401)
Q Consensus       363 Av~~ln~~~~~~  374 (401)
                      |++.||+..+..
T Consensus        63 Ai~~lng~~~~g   74 (81)
T 2krb_A           63 AVKNADGYKLDK   74 (81)
T ss_dssp             HHTTSSSCCCSS
T ss_pred             HHHHhcCcccCC
Confidence            999999877544

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.43  E-value=1.2e-13  Score=106.45  Aligned_cols=63  Identities=14%  Similarity=0.166  Sum_probs=56.2

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|||.++++++|+++|++||.|..|++.+++.++                 .++|||||+|++.++|++|++.++
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~a~~~~~   63 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK-----------------RSRGFGFVTFMDQAGVDKVLAQSR   63 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSS-----------------SCSSEEEECCCCTTHHHHHHHTTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCC-----------------CcCceEEEEEcCHHHHHHHHHhCC
Confidence            579999999999999999999999999999998654322                 138999999999999999999998

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

Probab=99.43  E-value=1.5e-13  Score=112.28  Aligned_cols=78  Identities=24%  Similarity=0.320  Sum_probs=65.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++  ++                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~--~g-----------------~~~g~afV~f~~~~~A~~A~~~   74 (103)
T 2d9p_A           14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GG-----------------RSKGFGFVCFSSPEEATKAVTE   74 (103)
T ss_dssp             SCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC--SS-----------------SEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CC-----------------CcCEEEEEEECCHHHHHHHHHH
Confidence            4789999999999999999999999999999999764  11                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      |++..+..  ..+.+.+..
T Consensus        75 l~g~~~~g--~~l~V~~a~   91 (103)
T 2d9p_A           75 MNGRIVAT--KPLYVALAQ   91 (103)
T ss_dssp             HTTCBSSS--SBCEEEECS
T ss_pred             hCCCEeCC--cEEEEEEec
Confidence            99887644  345555543

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.43  E-value=2.7e-13  Score=110.05  Aligned_cols=71  Identities=18%  Similarity=0.218  Sum_probs=61.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeE--------EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKT--------IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVE  358 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~--------Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E  358 (401)
                      ..++|||+|||.++++++|+++|++||.|..        |++++++.++.                 .+|||||+|++.+
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~-----------------~~G~afV~f~~~~   74 (99)
T 2la6_A           12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGK-----------------LKGEATVSFDDPP   74 (99)
T ss_dssp             CCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCS-----------------EEEEEEEEBSSHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCC-----------------eeeEEEEEECCHH
Confidence            3689999999999999999999999999999        99987643221                 3899999999999


Q ss_pred             HHHHHHHHhccccccc
Q 015730          359 LAEKAVSHLHFMIMLF  374 (401)
Q Consensus       359 ~A~kAv~~ln~~~~~~  374 (401)
                      +|++|++.||+..+..
T Consensus        75 ~a~~Ai~~l~g~~~~g   90 (99)
T 2la6_A           75 SAKAAIDWFDGKEFSG   90 (99)
T ss_dssp             HHHHHHHHHTTCBSSS
T ss_pred             HHHHHHHHhCCCEeCC
Confidence            9999999999886544

>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=4.6e-13  Score=109.30  Aligned_cols=76  Identities=17%  Similarity=0.246  Sum_probs=64.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++..                   ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~-------------------~~~g~afV~f~~~~~a~~A~~~   74 (103)
T 2cq3_A           14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER-------------------GSKGFGFVTFENSADADRAREK   74 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT-------------------TTCCEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-------------------CCcEEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999986421                   1389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      |++..+..  ..+.+.+
T Consensus        75 l~g~~~~g--~~l~v~~   89 (103)
T 2cq3_A           75 LHGTVVEG--RKIEVNN   89 (103)
T ss_dssp             HTTCEETT--EECEEEE
T ss_pred             hCCCEECC--EEEEEEE
Confidence            99887554  3444444

>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=99.43  E-value=6.1e-13  Score=110.66  Aligned_cols=75  Identities=25%  Similarity=0.379  Sum_probs=63.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..|++++++                    ..+|||||+|.+.++|++|++.|
T Consensus         8 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~--------------------~~~g~afV~f~~~~~A~~A~~~l   67 (115)
T 3lqv_A            8 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP--------------------ETRGTAYVVYEDIFDAKNAVDHL   67 (115)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST--------------------TTTTCEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC--------------------CCCcEEEEEECCHHHHHHHHHHc
Confidence            6899999999999999999999999999999997532                    12899999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+..  ..+.+.+.
T Consensus        68 ~g~~~~g--~~l~v~~a   82 (115)
T 3lqv_A           68 SGFNVSN--RYLVVLYY   82 (115)
T ss_dssp             TTCBSSS--CBCEEEEC
T ss_pred             CCCEECC--eEEEEEEe
Confidence            9887654  34444443

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.42  E-value=5.6e-13  Score=108.61  Aligned_cols=72  Identities=19%  Similarity=0.166  Sum_probs=62.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      +..|||+||+..+|+++|+++|++||+|.++++..                       .||||||||.++++|++|++.|
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-----------------------~kGfaFVey~~~~eA~~Ai~~L   63 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-----------------------NQGIALCKYTTREEANKAQMAL   63 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHHH
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-----------------------CCcEEEEEECCHHHHHHHHHHh
Confidence            45799999999999999999999999999999853                       2899999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+..  ..+++.+.
T Consensus        64 n~~~l~g--r~I~V~~A   78 (89)
T 2wbr_A           64 NNCVLAN--TTIFAESP   78 (89)
T ss_dssp             TTEEETT--EEEEEECC
T ss_pred             cCCEECC--cEEEEEEC
Confidence            9866554  46776655

>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=99.42  E-value=1.8e-13  Score=120.12  Aligned_cols=79  Identities=22%  Similarity=0.147  Sum_probs=66.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++||+.
T Consensus        38 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~A~~Ai~~  100 (156)
T 1h2v_Z           38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT-----------------ACGFCFVEYYSRADAENAMRY  100 (156)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc-----------------cceEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus       101 l~g~~~~g--~~l~V~~a  116 (156)
T 1h2v_Z          101 INGTRLDD--RIIRTDWD  116 (156)
T ss_dssp             TTTSEETT--EECEEEEE
T ss_pred             hCCCEECC--eEEEEEEC
Confidence            99877654  34555554

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=1.9e-13  Score=113.36  Aligned_cols=80  Identities=23%  Similarity=0.238  Sum_probs=65.5

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCee--------EEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVK--------TIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV  357 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~--------~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~  357 (401)
                      ...++|||+|||.++|+++|+++|++||.|.        .|+|++++.++                 ..+|||||+|++.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g-----------------~~~g~afV~f~~~   75 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG-----------------KPKGDATVSYEDP   75 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTC-----------------SBCSEEEEEBSSH
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCC-----------------CeeeEEEEEECCH
Confidence            3478999999999999999999999999998        68887654322                 1389999999999


Q ss_pred             HHHHHHHHHhcccccccccceEEEeec
Q 015730          358 ELAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ++|++|++.||+..+..  ..+.+.+.
T Consensus        76 ~~A~~Ai~~l~g~~~~g--~~l~V~~a  100 (113)
T 2cpe_A           76 PTAKAAVEWFDGKDFQG--SKLKVSLA  100 (113)
T ss_dssp             HHHHHHHHHHTTCEETT--EECEEECS
T ss_pred             HHHHHHHHHcCCCccCC--CEEEEEEC
Confidence            99999999999887654  34454443

>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=99.42  E-value=4.6e-13  Score=108.31  Aligned_cols=74  Identities=19%  Similarity=0.230  Sum_probs=62.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|++..                       .+|||||+|++.++|++|++.|
T Consensus        17 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~-----------------------~~g~afV~f~~~~~A~~A~~~l   73 (97)
T 1why_A           17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK-----------------------GDSFAYIQYESLDAAQAACAKM   73 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS-----------------------SSCCEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeC-----------------------CCCEEEEEECCHHHHHHHHHHH
Confidence            58999999999999999999999999999999852                       1789999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+......+.+.+.
T Consensus        74 ~g~~~~~~g~~l~V~~a   90 (97)
T 1why_A           74 RGFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             TTCBCSSSSCBCEEEEC
T ss_pred             CCCEeCCCCcEEEEEEC
Confidence            98876521244555544

>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=99.42  E-value=3.8e-13  Score=110.34  Aligned_cols=70  Identities=19%  Similarity=0.165  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++. ++                 ..+|||||+|++.++|++|++.
T Consensus        28 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-----------------~~~g~afV~f~~~~~a~~A~~~   89 (107)
T 3ulh_A           28 TGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SG-----------------RSLGTADVHFERKADALKAMKQ   89 (107)
T ss_dssp             CSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT-TS-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999998754 21                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus        90 l~g~~~~g   97 (107)
T 3ulh_A           90 YNGVPLDG   97 (107)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEeCC
Confidence            99887654

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.42  E-value=4.1e-13  Score=113.49  Aligned_cols=78  Identities=21%  Similarity=0.285  Sum_probs=65.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++..++                 .++|||||+|++.++|++|++.
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~   83 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTG-----------------YLKGYTLVEYETYKEAQAAMEG   83 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTS-----------------SBCSCEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-----------------ccceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      ||+..+...  .+.+.+
T Consensus        84 l~g~~~~g~--~l~v~~   98 (126)
T 3ex7_B           84 LNGQDLMGQ--PISVDW   98 (126)
T ss_dssp             HTTCBSSSS--BCEEEE
T ss_pred             hCCCeeCCe--EEEEEE
Confidence            998876553  344444

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.41  E-value=3.2e-13  Score=113.86  Aligned_cols=80  Identities=23%  Similarity=0.260  Sum_probs=65.7

Q ss_pred             hhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       284 ~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .....++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|
T Consensus        32 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~a~~A   94 (124)
T 2jwn_A           32 KEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGH-----------------PKGYAYIEFAERNSVDAA   94 (124)
T ss_dssp             HHHHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSS-----------------CEEEEEEEESSHHHHHHH
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCC-----------------cccEEEEEECCHHHHHHH
Confidence            445678999999999999999999999999999999987643221                 389999999999999999


Q ss_pred             HHHhcccccccccceEEEee
Q 015730          364 VSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~  383 (401)
                      + +|++..+..  ..+.+.+
T Consensus        95 ~-~l~g~~~~g--~~l~V~~  111 (124)
T 2jwn_A           95 V-AMDETVFRG--RTIKVLP  111 (124)
T ss_dssp             H-TTTTCEETT--EECEEEE
T ss_pred             H-hcCCCeECC--eEEEEEE
Confidence            9 898877544  3444444

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=2.7e-13  Score=112.69  Aligned_cols=78  Identities=18%  Similarity=0.243  Sum_probs=64.8

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++++++|+++|++||.|..|++++++.                   +.+|||||+|++.++|++|++
T Consensus        27 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-------------------~~kg~afV~f~~~~~A~~Ai~   87 (109)
T 2err_A           27 SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER-------------------GSKGFGFVTFENSADADRARE   87 (109)
T ss_dssp             TCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT-------------------BCTTEEEEECCCSHHHHHHHH
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC-------------------CCceEEEEEECCHHHHHHHHH
Confidence            3578999999999999999999999999999999975421                   138999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .|++..+..  ..+.+.+.
T Consensus        88 ~l~g~~~~g--~~l~V~~a  104 (109)
T 2err_A           88 KLHGTVVEG--RKIEVNNA  104 (109)
T ss_dssp             HHTTCEETT--EECEEEEC
T ss_pred             HcCCCEECC--EEEEEEEC
Confidence            999887554  34444443

>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=99.41  E-value=2.9e-13  Score=111.47  Aligned_cols=80  Identities=18%  Similarity=0.167  Sum_probs=62.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCC-eeEEEEe-cCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGS-VKTIRTC-LPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~-V~~Vri~-~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|||+|||.++|+++|+++|++||. |..|+++ .++.++                 ..+|||||+|++.++|++|+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g-----------------~~~g~afV~f~~~~~A~~A~   69 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKM-----------------KNRGFAFVEYESHRAAAMAR   69 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTT-----------------TTCCEEEEEESSHHHHHHHH
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCC-----------------CcCcEEEEEecCHHHHHHHH
Confidence            3689999999999999999999999998 9999986 443221                 13899999999999999999


Q ss_pred             HHhc-c-cccccccceEEEeecc
Q 015730          365 SHLH-F-MIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln-~-~~~~~~~~~~~~~~~~  385 (401)
                      +.|+ + ..+..  ..+.+.+..
T Consensus        70 ~~l~~g~~~~~g--~~l~V~~a~   90 (109)
T 2dis_A           70 RKLMPGRIQLWG--HQIAVDWAE   90 (109)
T ss_dssp             TTTTTCCSCBTT--BCCEEEESC
T ss_pred             HHhhCCCceecC--CeEEEEEcC
Confidence            9996 3 33332  345555543

>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=99.41  E-value=5.7e-13  Score=110.00  Aligned_cols=76  Identities=22%  Similarity=0.195  Sum_probs=63.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|..++                    ..+|||||+|++.++|++|++.
T Consensus        21 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~--------------------~~~g~afV~f~~~~~A~~A~~~   80 (109)
T 1x4a_A           21 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR--------------------GGPPFAFVEFEDPRDAEDAVYG   80 (109)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS--------------------SSSCCEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--------------------CCCcEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999995321                    1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        81 l~g~~~~g--~~l~V~~a   96 (109)
T 1x4a_A           81 RDGYDYDG--YRLRVEFP   96 (109)
T ss_dssp             HTTCEETT--EECEEECC
T ss_pred             cCCCEECC--eEEEEEEc
Confidence            99876544  34555544

>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=99.41  E-value=2.3e-13  Score=107.65  Aligned_cols=67  Identities=15%  Similarity=0.242  Sum_probs=57.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++++.++.                 .+|||||+|++.++|++|++.
T Consensus        10 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~~   72 (87)
T 3s7r_A           10 DAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGR-----------------SRGFGFILFKDAASVEKVLDQ   72 (87)
T ss_dssp             CTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC-----------------EEEEEEEEESSTHHHHHHHHS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCc-----------------cccEEEEEECCHHHHHHHHHh
Confidence            478999999999999999999999999999999987643321                 389999999999999999965


Q ss_pred             hcccc
Q 015730          367 LHFMI  371 (401)
Q Consensus       367 ln~~~  371 (401)
                       ++..
T Consensus        73 -~~~~   76 (87)
T 3s7r_A           73 -KEHR   76 (87)
T ss_dssp             -SCEE
T ss_pred             -CCCE
Confidence             4443

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=3.4e-13  Score=110.43  Aligned_cols=78  Identities=14%  Similarity=0.167  Sum_probs=63.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.|| |..|+|++++.+.         +       ..+|||||+|++.++|++|+ .
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~---------g-------~~~g~afV~f~~~~~a~~A~-~   75 (104)
T 1wi8_A           14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNP---------E-------RLKGFGYAEFEDLDSLLSAL-S   75 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCT---------T-------SBCSCEEEEESSHHHHHHHH-G
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCC---------C-------CcCeEEEEEECCHHHHHHHH-h
Confidence            368999999999999999999999999 9999998764321         1       13899999999999999999 9


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        76 l~g~~~~g--~~l~V~~a   91 (104)
T 1wi8_A           76 LNEESLGN--KRIRVDVA   91 (104)
T ss_dssp             GGTCEETT--EECEEEEC
T ss_pred             cCCCEeCC--cEEEEEEc
Confidence            99876544  34444443

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=7.2e-13  Score=105.71  Aligned_cols=71  Identities=23%  Similarity=0.237  Sum_probs=61.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+++                         +|||||+|++.++|++|++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~-------------------------~g~afV~f~~~~~A~~A~~~   61 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII-------------------------KNYGFVHIEDKTAAEDAIRN   61 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE-------------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE-------------------------CCEEEEEECCHHHHHHHHHH
Confidence            36899999999999999999999999999999984                         67999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        62 l~g~~~~g--~~l~v~~a   77 (90)
T 2dnq_A           62 LHHYKLHG--VNINVEAS   77 (90)
T ss_dssp             HTTCBCSS--CBCEEECS
T ss_pred             hcCCccCC--cEEEEEEC
Confidence            99876554  34554443

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

Probab=99.40  E-value=5.4e-13  Score=110.64  Aligned_cols=70  Identities=20%  Similarity=0.181  Sum_probs=61.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++++ +                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~-g-----------------~~~g~afV~f~~~~~a~~A~~~   75 (114)
T 2do0_A           14 LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-G-----------------KSRGIGTVTFEQSIEAVQAISM   75 (114)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-C-----------------SEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-C-----------------CeeeEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999987532 1                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        76 l~g~~~~g   83 (114)
T 2do0_A           76 FNGQLLFD   83 (114)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEeCC
Confidence            99887654

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.40  E-value=3.8e-13  Score=113.46  Aligned_cols=77  Identities=16%  Similarity=0.087  Sum_probs=63.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++++++|+++|++|| .|..|++...                     ..+|||||+|++.++|++|++.
T Consensus        28 ~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~---------------------~~rGfaFV~F~~~e~A~~Ai~~   86 (111)
T 2jvr_A           28 RYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR---------------------DFDGTGALEFPSEEILVEALER   86 (111)
T ss_dssp             CEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC---------------------SSSCCEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC---------------------CCCCEEEEEECCHHHHHHHHHH
Confidence            57899999999999999999999999 9999988421                     1289999999999999999999


Q ss_pred             hcccccccccceEEEeecccC
Q 015730          367 LHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      ||+..+..  ..+.+.+....
T Consensus        87 lng~~l~G--r~i~V~~a~~~  105 (111)
T 2jvr_A           87 LNNIEFRG--SVITVERDDNP  105 (111)
T ss_dssp             TTTEEETT--EEEEEEESCC-
T ss_pred             cCCCEECC--eEEEEEECCCC
Confidence            99877554  35555555443

>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=99.40  E-value=1.9e-13  Score=128.63  Aligned_cols=80  Identities=16%  Similarity=0.077  Sum_probs=65.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccC--CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVG--SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG--~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|||+||+.++|+++|+++|++||  .|+.|+|++++.++.                 .||||||+|++.++|++||
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~-----------------skGfaFV~f~~~~~a~~Ai  129 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ-----------------SKGFALVGVGSEASSKKLM  129 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCC-----------------EEEEEEEEESCTTHHHHHH
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCc-----------------cceEEEEEECCHHHHHHHH
Confidence            467899999999999999999999999  999999988754332                 3899999999999999999


Q ss_pred             HHhcccccccccceEEEeecc
Q 015730          365 SHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~  385 (401)
                      +.||+..+..  ..+.+.+..
T Consensus       130 ~~lng~~~~G--r~l~V~~a~  148 (229)
T 3q2s_C          130 DLLPKRELHG--QNPVVTPVN  148 (229)
T ss_dssp             TTSTTSCBTT--BCCEEEECC
T ss_pred             HHcCCCeECC--EEeEEEECC
Confidence            9999887655  344544443

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=4.6e-13  Score=111.75  Aligned_cols=80  Identities=13%  Similarity=0.061  Sum_probs=64.2

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ....++|||+|||.++|+++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|+
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~Ai   86 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKR-----------------SRGFGFVTFSSMAEVDAAM   86 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSS-----------------CCSEEEEECSSHHHHHHHH
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCC-----------------cCceEEEEeCCHHHHHHHH
Confidence            34578999999999999999999999999999999987643221                 3899999999999999999


Q ss_pred             HHhcccccccccceEEEeec
Q 015730          365 SHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +. ++..+..  ..+.+.+.
T Consensus        87 ~~-~~~~~~g--~~l~V~~a  103 (116)
T 1x4b_A           87 AA-RPHSIDG--RVVEPKRA  103 (116)
T ss_dssp             TS-CSEEETT--EEEEEECC
T ss_pred             Hh-CCcEECC--EEEEEEEC
Confidence            97 6554333  34554443

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.40  E-value=5e-13  Score=109.11  Aligned_cols=70  Identities=17%  Similarity=0.153  Sum_probs=61.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhc-cCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSA-VGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~-fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++|+++|+++|+. ||.|..|+|+++. ++.                 .+|||||+|++.++|++|++
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~-~g~-----------------~~g~afV~f~~~~~a~~A~~   69 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGV-----------------SKGYGFVKFTDELEQKRALT   69 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT-TCC-----------------EEEEEEEEESCHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC-CCC-----------------ccceEEEEECCHHHHHHHHH
Confidence            3689999999999999999999999 9999999998764 221                 38999999999999999999


Q ss_pred             Hhcccc-ccc
Q 015730          366 HLHFMI-MLF  374 (401)
Q Consensus       366 ~ln~~~-~~~  374 (401)
                      .|++.. +..
T Consensus        70 ~l~g~~~~~g   79 (104)
T 2dhg_A           70 ECQGAVGLGS   79 (104)
T ss_dssp             HTTTCCSSSS
T ss_pred             HccCCcccCC
Confidence            999877 444

>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=99.40  E-value=4.5e-13  Score=119.11  Aligned_cols=83  Identities=20%  Similarity=0.233  Sum_probs=67.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|.+.++|++||+.
T Consensus        71 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~Ai~~  133 (165)
T 1rk8_A           71 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF-----------------SKGYALVEYETHKQALAAKEA  133 (165)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCc-----------------EeeEEEEEECCHHHHHHHHHH
Confidence            467899999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeecccCH
Q 015730          367 LHFMIMLFFFSAFCLMFVTQTN  388 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~~  388 (401)
                      ||+..+..  ..+.+.+...+.
T Consensus       134 l~g~~~~g--~~l~V~~a~~~~  153 (165)
T 1rk8_A          134 LNGAEIMG--QTIQVDWCFVKG  153 (165)
T ss_dssp             HTTCEETT--EECEEEESEECC
T ss_pred             hCCCEECC--EEEEEEEecCCC
Confidence            99876554  445555544333

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.39  E-value=4.3e-13  Score=109.86  Aligned_cols=70  Identities=13%  Similarity=0.109  Sum_probs=59.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~a~~~   77 (105)
T 2dh8_A           15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQ-----------------SRGFGFVKFKDPNCVGTVLAS   77 (105)
T ss_dssp             SSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCC-----------------EEEEEEEEESSTTHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCC-----------------cceEEEEEECCHHHHHHHHHh
Confidence            468999999999999999999999999999999987643221                 389999999999999999998


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                       ++..+..
T Consensus        78 -~~~~~~g   84 (105)
T 2dh8_A           78 -RPHTLDG   84 (105)
T ss_dssp             -CSEEETT
T ss_pred             -CCCeECC
Confidence             6655443

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

Probab=99.39  E-value=9e-13  Score=113.94  Aligned_cols=78  Identities=13%  Similarity=0.106  Sum_probs=64.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..++++++..++.                 .+|||||+|++.++|.+|++.
T Consensus        86 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~-----------------~~g~afV~f~~~~~A~~A~~~  148 (166)
T 3md3_A           86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGS-----------------SRGYGFVSFTSQDDAQNAMDS  148 (166)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCC-----------------EEEEEEEEESCHHHHHHHHHH
T ss_pred             CCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCC-----------------cceEEEEEeCCHHHHHHHHHH
Confidence            467999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      |++..+..  ..+.+.+
T Consensus       149 l~g~~~~g--~~i~v~~  163 (166)
T 3md3_A          149 MQGQDLNG--RPLRINW  163 (166)
T ss_dssp             HTTCEETT--EECEEEE
T ss_pred             hCCCccCC--cEEEEEe
Confidence            99887544  3444443

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.39  E-value=9.2e-13  Score=111.32  Aligned_cols=78  Identities=18%  Similarity=0.162  Sum_probs=64.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|++++ ++                 ..+|||||+|++.++|++|++.
T Consensus        34 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~g-----------------~~~g~afV~f~~~~~A~~Ai~~   95 (124)
T 2kt5_A           34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SG-----------------RSLGTADVHFERRADALKAMKQ   95 (124)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS-SS-----------------SCCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC-CC-----------------CEeeEEEEEECCHHHHHHHHHH
Confidence            36799999999999999999999999999999998654 21                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        96 l~g~~~~g--~~l~V~~a  111 (124)
T 2kt5_A           96 YKGVPLDG--RPMDIQLV  111 (124)
T ss_dssp             HTTEESSS--CEEEEEEE
T ss_pred             cCCCEECC--cEEEEEEe
Confidence            99876544  34554443

>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=99.39  E-value=8.5e-13  Score=106.97  Aligned_cols=75  Identities=21%  Similarity=0.213  Sum_probs=63.3

Q ss_pred             hhheeccCCCCcccHHHHH----HHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLM----KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~----~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .++|||+|||.++++++|+    ++|++||.|..|+|++++.                    .+|||||+|++.++|++|
T Consensus         9 ~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~--------------------~rg~afV~f~~~~~A~~A   68 (96)
T 2dgx_A            9 GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTD--------------------YQLKAVVQMENLQDAIGA   68 (96)
T ss_dssp             CEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCS--------------------TTCCEEEEESSHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCC--------------------CCeEEEEEECCHHHHHHH
Confidence            5789999999999999999    9999999999999975431                    178999999999999999


Q ss_pred             HHHhcccccccccceEEEeec
Q 015730          364 VSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ++.||+..+..  ..+.+.+.
T Consensus        69 i~~l~g~~~~g--r~l~V~~a   87 (96)
T 2dgx_A           69 VNSLHRYKIGS--KKILVSLA   87 (96)
T ss_dssp             HHHHTTEEETT--EEEEEEEC
T ss_pred             HHHhCCCEECC--eEEEEEEc
Confidence            99999877554  34555443

>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=99.39  E-value=6.6e-13  Score=110.93  Aligned_cols=65  Identities=25%  Similarity=0.337  Sum_probs=58.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|..                       .+|||||+|++.++|++|++.
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~-----------------------~~g~afV~f~~~~~A~~Ai~~   65 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-----------------------GGITAIVEFLEPLEARKAFRH   65 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-----------------------SSSCEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC-----------------------CCCEEEEEeCCHHHHHHHHHH
Confidence            467999999999999999999999999999998842                       278999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        66 l~g~~~~g   73 (111)
T 1whx_A           66 LAYSKFHH   73 (111)
T ss_dssp             HTTCBSSS
T ss_pred             hCCCEECC
Confidence            99887654

>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=99.39  E-value=4.1e-13  Score=109.62  Aligned_cols=70  Identities=16%  Similarity=0.186  Sum_probs=58.4

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCC-CCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQ-TSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~-~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ...++|||+|||.++++++|+++|+.|| |..|+|++++ .++                 ..+|||||+|++.++|++|+
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g-----------------~~~g~afV~f~~~~~a~~Ai   78 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPE-----------------RLKGFGYAEFEDLDSLLSAL   78 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTC-----------------CCCSCEEEEECCHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCC-----------------ccCeEEEEEECCHHHHHHHH
Confidence            3578999999999999999999999999 9999997654 121                 13899999999999999999


Q ss_pred             HHhccccccc
Q 015730          365 SHLHFMIMLF  374 (401)
Q Consensus       365 ~~ln~~~~~~  374 (401)
                       .|++..+..
T Consensus        79 -~l~g~~~~g   87 (100)
T 2j76_E           79 -SLNEESLGN   87 (100)
T ss_dssp             -HTTTCCBTT
T ss_pred             -hcCCCEECC
Confidence             899877554

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.39  E-value=4.1e-13  Score=103.27  Aligned_cols=67  Identities=19%  Similarity=0.335  Sum_probs=57.0

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||+|||.++++++|+++|++||.|..|++.+++.++                 .++|||||+|++.++|++|++ +++
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~a~~-~~~   62 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTN-----------------RHRGFGFVTFESEDIVEKVCE-IHF   62 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSST-----------------TSCBEEEEECSCHHHHHHHHS-SSC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-----------------CcCcEEEEEECCHHHHHHHHH-CCC
Confidence            58999999999999999999999999999987654322                 138999999999999999997 877


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+..
T Consensus        63 ~~~~g   67 (75)
T 2mss_A           63 HEINN   67 (75)
T ss_dssp             CCSSS
T ss_pred             CEECC
Confidence            66544

>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=99.39  E-value=1.6e-12  Score=112.52  Aligned_cols=78  Identities=19%  Similarity=0.231  Sum_probs=65.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++.++..++.                 .+|||||+|++.++|.+|++.
T Consensus        87 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~A~~~  149 (167)
T 1fxl_A           87 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV-----------------SRGVGFIRFDKRIEAEEAIKG  149 (167)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCC-----------------ccceEEEEeCCHHHHHHHHHH
Confidence            467899999999999999999999999999999987543221                 389999999999999999999


Q ss_pred             hcccccccccceEEE
Q 015730          367 LHFMIMLFFFSAFCL  381 (401)
Q Consensus       367 ln~~~~~~~~~~~~~  381 (401)
                      |++..+......+.+
T Consensus       150 l~g~~~~g~~~~i~v  164 (167)
T 1fxl_A          150 LNGQKPSGATEPITV  164 (167)
T ss_dssp             HTTCCCTTCSSCCEE
T ss_pred             hcCCccCCCccceEE
Confidence            999876654334443

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

Probab=99.39  E-value=4.7e-13  Score=108.87  Aligned_cols=64  Identities=17%  Similarity=0.244  Sum_probs=58.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..|++.+                       .+|||||+|++.++|++|++.|
T Consensus        27 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~-----------------------~~g~afV~f~~~~~A~~Ai~~l   83 (101)
T 2la4_A           27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP-----------------------EKGCCFIKYDTHEQAAVCIVAL   83 (101)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET-----------------------TTTEEEEECSSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec-----------------------CCCEEEEEECCHHHHHHHHHHh
Confidence            57899999999999999999999999999999852                       2899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        84 ~g~~~~g   90 (101)
T 2la4_A           84 ANFPFQG   90 (101)
T ss_dssp             TTCEETT
T ss_pred             CCCeECC
Confidence            9876554

>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=99.39  E-value=2.2e-13  Score=108.41  Aligned_cols=68  Identities=19%  Similarity=0.243  Sum_probs=59.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|||.++++++|+++|++||.|..|++++++.++.                 .+|||||+|++.+ |++|++.||
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~-a~~a~~~l~   63 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKK-----------------PKGFGFVEMQEES-VSEAIAKLD   63 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCC-----------------CCEEEEEEECTTH-HHHHHHTSC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCC-----------------cceEEEEEECCHH-HHHHHHHhC
Confidence            6899999999999999999999999999999987643221                 3899999999999 999999999


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +..+..
T Consensus        64 g~~~~g   69 (90)
T 2ki2_A           64 NTDFMG   69 (90)
T ss_dssp             SSCCSS
T ss_pred             CCEECC
Confidence            887654

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.39  E-value=8.5e-13  Score=112.80  Aligned_cols=71  Identities=23%  Similarity=0.292  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|.+++.++                 ..+|||||+|++.++|++|++.
T Consensus        62 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~  124 (140)
T 2ku7_A           62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-----------------KHRGFAFVEFELAEDAAAAIDN  124 (140)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTC-----------------CCCSEEEEEESCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCC-----------------CcCcEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999997654322                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus       125 l~g~~~~g  132 (140)
T 2ku7_A          125 MNESELFG  132 (140)
T ss_dssp             STEEEETT
T ss_pred             hCCCEECC
Confidence            99876543

>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=99.39  E-value=7e-13  Score=104.21  Aligned_cols=65  Identities=18%  Similarity=0.247  Sum_probs=57.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++                       .+|||||+|++.++|++|++.
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~-----------------------~kg~afV~f~~~~~A~~a~~~   67 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ-----------------------RQQCAFIQFATRQAAEVAAEK   67 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEG-----------------------GGTEEEEEESSHHHHHHHHHT
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEEC-----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999963                       178999999999999999999


Q ss_pred             h-ccccccc
Q 015730          367 L-HFMIMLF  374 (401)
Q Consensus       367 l-n~~~~~~  374 (401)
                      | ++..+..
T Consensus        68 l~~~~~~~g   76 (85)
T 2ytc_A           68 SFNKLIVNG   76 (85)
T ss_dssp             TTTTCEETT
T ss_pred             hcCCeeECC
Confidence            9 6655433

>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=99.39  E-value=5.7e-13  Score=108.12  Aligned_cols=73  Identities=25%  Similarity=0.291  Sum_probs=62.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|++.+                       .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~-----------------------~kg~afV~f~~~~~a~~a~~~   70 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK-----------------------DKGFGFIRLETRTLAEIAKVE   70 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET-----------------------TTTEEEEECSSSHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEec-----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999863                       178999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        71 l~g~~~~g--~~l~v~~a   86 (99)
T 2cpj_A           71 LDNMPLRG--KQLRVRFA   86 (99)
T ss_dssp             HTTCCBTT--BCCEEEES
T ss_pred             hCCCEeCC--ceEEEEEc
Confidence            99887554  34444443

>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=99.38  E-value=6.2e-13  Score=108.54  Aligned_cols=63  Identities=24%  Similarity=0.330  Sum_probs=55.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~~   76 (103)
T 2cqg_A           14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGH-----------------SKGFGFVRFTEYETQVKVMSQ   76 (103)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCS-----------------EEEEEEEEESSHHHHHHHHHS
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCC-----------------ccceEEEEECCHHHHHHHHHc
Confidence            468999999999999999999999999999999987643221                 389999999999999999995

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.38  E-value=6.6e-13  Score=108.54  Aligned_cols=77  Identities=14%  Similarity=0.237  Sum_probs=63.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.|| |..|+|++++.++.                 ++|||||+|++.++|++|+ .
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~-~   74 (103)
T 2dng_A           14 PPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDK-----------------FKGFCYVEFDEVDSLKEAL-T   74 (103)
T ss_dssp             SCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCS-----------------EEEEEEEEESSHHHHHHHG-G
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCc-----------------cceEEEEEECCHHHHHHHH-h
Confidence            368999999999999999999999998 99999987653321                 3899999999999999999 8


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        75 l~g~~~~g--~~l~V~~a   90 (103)
T 2dng_A           75 YDGALLGD--RSLRVDIA   90 (103)
T ss_dssp             GTTCEETT--EECEEEEC
T ss_pred             hCCCeECC--eEEEEEEe
Confidence            99876554  34554443

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.38  E-value=8.6e-13  Score=105.19  Aligned_cols=69  Identities=26%  Similarity=0.282  Sum_probs=60.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++  ++                 ..+|||||+|++.++|++|++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~--~g-----------------~~~g~afV~f~~~~~a~~a~~~   67 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NG-----------------KSKGCGVVKFESPEVAERACRM   67 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES--SS-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc--CC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            3689999999999999999999999999999999753  11                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus        68 l~g~~~~g   75 (92)
T 2dgv_A           68 MNGMKLSG   75 (92)
T ss_dssp             HTTCCBTT
T ss_pred             hCCCEECC
Confidence            99877554

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

Probab=99.38  E-value=1.5e-12  Score=113.21  Aligned_cols=79  Identities=24%  Similarity=0.245  Sum_probs=65.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++.++..++                 ..+|||||+|++.++|.+|++.
T Consensus        88 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~  150 (168)
T 1b7f_A           88 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTG-----------------RPRGVAFVRYNKREEAQEAISA  150 (168)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTC-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998754222                 1389999999999999999999


Q ss_pred             hcccccccccceEEEe
Q 015730          367 LHFMIMLFFFSAFCLM  382 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~  382 (401)
                      ||+..+......+.+.
T Consensus       151 l~g~~~~g~~~~l~V~  166 (168)
T 1b7f_A          151 LNNVIPEGGSQPLSVR  166 (168)
T ss_dssp             HTTCCCTTCSSCCEEE
T ss_pred             hcCCEecCCCeEEEEE
Confidence            9998765533444443

>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=99.38  E-value=4.5e-13  Score=112.07  Aligned_cols=68  Identities=12%  Similarity=0.174  Sum_probs=58.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCe-eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSV-KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V-~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++|+++|+++|+.||.| ..|+|++++ ++                 ..+|||||+|++.++|++||+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~-~g-----------------~~~G~afV~F~~~~~a~~Al~   75 (114)
T 2cpy_A           14 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-NG-----------------QGLGQALVQFKNEDDARKSER   75 (114)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT-TS-----------------SCSSCEEEECSSHHHHHHHGG
T ss_pred             CccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC-CC-----------------CcceEEEEEECCHHHHHHHHH
Confidence            46899999999999999999999999999 899997654 22                 138999999999999999998


Q ss_pred             Hhcccccc
Q 015730          366 HLHFMIML  373 (401)
Q Consensus       366 ~ln~~~~~  373 (401)
                      . ++..+.
T Consensus        76 ~-~~~~~~   82 (114)
T 2cpy_A           76 L-HRKKLN   82 (114)
T ss_dssp             G-CSEEET
T ss_pred             h-CCCccC
Confidence            7 664443

>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=99.38  E-value=8.8e-13  Score=107.94  Aligned_cols=71  Identities=20%  Similarity=0.294  Sum_probs=61.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+++                         ++||||+|++.++|++|++.
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~-------------------------~~~afV~f~~~~~a~~A~~~   64 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL-------------------------KDYAFIHFDERDGAVKAMEE   64 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC-------------------------SSCEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE-------------------------CCEEEEEeCCHHHHHHHHHH
Confidence            36899999999999999999999999999999884                         66999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        65 l~g~~~~g--~~l~v~~a   80 (103)
T 2dgu_A           65 MNGKDLEG--ENIEIVFA   80 (103)
T ss_dssp             HTTEEETT--EEEEEEEC
T ss_pred             HCCCccCC--CEEEEEEc
Confidence            99887554  35555554

>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=99.38  E-value=9e-13  Score=108.95  Aligned_cols=74  Identities=18%  Similarity=0.170  Sum_probs=63.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|+++                       +|||||+|++.++|++|++.
T Consensus        24 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-----------------------~g~afV~f~~~~~a~~A~~~   80 (109)
T 1x4g_A           24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----------------------KGYSFVRFSTHESAAHAIVS   80 (109)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-----------------------TTEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC-----------------------CCEEEEEECCHHHHHHHHHH
Confidence            4679999999999999999999999999999999642                       78999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      |++..+..  ..+.+.+..
T Consensus        81 l~g~~~~g--~~l~v~~a~   97 (109)
T 1x4g_A           81 VNGTTIEG--HVVKCYWGK   97 (109)
T ss_dssp             HTTCEETT--EECEEECCC
T ss_pred             cCCCEECC--cEEEEEecC
Confidence            99876544  445555543

>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=5.3e-13  Score=111.14  Aligned_cols=82  Identities=16%  Similarity=0.217  Sum_probs=66.2

Q ss_pred             hhhheeccCCCCcccHHHHH---HHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLM---KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~---~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..++|||+|||.++++++|+   ++|++||.|..|+|.+++.++.       .+       ..+|||||+|++.++|++|
T Consensus        14 ~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~-------~~-------~~~G~afV~f~~~~~A~~A   79 (111)
T 2cpi_A           14 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAG-------SQ-------GPSASAYVTYIRSEDALRA   79 (111)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCS-------SS-------CCCEEEEEEESSHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCc-------cC-------CCCeEEEEEECcHHHHHHH
Confidence            46799999999999999999   9999999999999987643221       11       1379999999999999999


Q ss_pred             HHHhcccccccccceEEEeec
Q 015730          364 VSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ++.||+..+..  ..+.+.+.
T Consensus        80 i~~lng~~~~g--r~l~V~~a   98 (111)
T 2cpi_A           80 IQCVNNVVVDG--RTLKASLG   98 (111)
T ss_dssp             HHHHTTEEETT--EEEEEESC
T ss_pred             HHHhCCCEECC--EEEEEEec
Confidence            99999887554  34555543

>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=99.38  E-value=1.1e-12  Score=106.94  Aligned_cols=71  Identities=17%  Similarity=0.280  Sum_probs=61.2

Q ss_pred             hhhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||. ++++++|+++|++||.|..|++.                         +|||||+|++.++|++|++
T Consensus        21 ~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~-------------------------~g~afV~f~~~~~A~~Ai~   75 (97)
T 2xnq_A           21 MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-------------------------NAFGFIQFDNPQSVRDAIE   75 (97)
T ss_dssp             TTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC-------------------------SSEEEEEESSHHHHHHHHH
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-------------------------CCEEEEEECCHHHHHHHHH
Confidence            478999999998 99999999999999999999982                         7899999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .||+..+..  ..+.+.+.
T Consensus        76 ~l~g~~~~g--~~l~V~~a   92 (97)
T 2xnq_A           76 XESQEMNFG--KKLILEVS   92 (97)
T ss_dssp             HHTTSEETT--EECEEEEC
T ss_pred             HcCCCEECC--EEEEEEec
Confidence            999876544  34444443

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.38  E-value=1.1e-12  Score=105.01  Aligned_cols=71  Identities=23%  Similarity=0.159  Sum_probs=61.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++.                         ++||||+|++.++|++|++.
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~-------------------------~~~afV~f~~~~~a~~A~~~   63 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV-------------------------KDYAFVHMERAEDAVEAIRG   63 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC-------------------------SSEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE-------------------------CCEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999984                         56999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        64 l~g~~~~g--~~l~V~~a   79 (92)
T 2dgt_A           64 LDNTEFQG--KRMHVQLS   79 (92)
T ss_dssp             HTTEEETT--EEEEEEES
T ss_pred             hCCCeeCC--cEEEEEEc
Confidence            99887654  34555544

>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=99.38  E-value=2.9e-13  Score=108.57  Aligned_cols=70  Identities=17%  Similarity=0.144  Sum_probs=59.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|..++++.++.++                 ..+|||||+|++.++|++|++.|
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g-----------------~~~g~afV~f~~~~~a~~Ai~~l   77 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKG-----------------MPTGEAMVAFESRDEATAAVIDL   77 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTS-----------------CEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCC-----------------CEeeEEEEEECCHHHHHHHHHHh
Confidence            5799999999999999999999999999888777653221                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        78 ~g~~~~g   84 (95)
T 2ek1_A           78 NDRPIGS   84 (95)
T ss_dssp             TTCEETT
T ss_pred             CCCeECC
Confidence            9877554

>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=99.38  E-value=1.4e-12  Score=107.82  Aligned_cols=63  Identities=22%  Similarity=0.146  Sum_probs=57.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|+|++                        .|||||+|++.++|++||+.|
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~------------------------~g~afV~f~~~~~a~~Ai~~l   70 (108)
T 1x4c_A           15 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR------------------------DGTGVVEFVRKEDMTYAVRKL   70 (108)
T ss_dssp             CCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEET------------------------TTEEEEEESSHHHHHHHHHHS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEec------------------------CCEEEEEECCHHHHHHHHHHH
Confidence            67999999999999999999999999999999852                        279999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        71 ~g~~~~g   77 (108)
T 1x4c_A           71 DNTKFRS   77 (108)
T ss_dssp             SSEEEEC
T ss_pred             CcCCccC
Confidence            9887654

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.37  E-value=4e-13  Score=115.08  Aligned_cols=66  Identities=12%  Similarity=0.247  Sum_probs=58.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeE--EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKT--IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~--Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|||+|||.++|+++|+++|++||.|..  |+|++++.++.                 .||||||+|++. +|++|+
T Consensus        22 ~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~-----------------~rG~aFV~f~~~-~a~~Ai   83 (131)
T 2m2b_A           22 ANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQL-----------------NRGFAFIQLSTI-EAAQLL   83 (131)
T ss_dssp             CCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSS-----------------BCSCEEEECCHH-HHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCC-----------------cceEEEEEECCH-HHHHHH
Confidence            4679999999999999999999999999977  99987654332                 389999999999 999999


Q ss_pred             HHhccc
Q 015730          365 SHLHFM  370 (401)
Q Consensus       365 ~~ln~~  370 (401)
                      +.||+.
T Consensus        84 ~~l~g~   89 (131)
T 2m2b_A           84 QILQAL   89 (131)
T ss_dssp             HHHTTC
T ss_pred             HHhcCC
Confidence            999987

>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=99.37  E-value=1.1e-12  Score=114.94  Aligned_cols=79  Identities=15%  Similarity=0.167  Sum_probs=66.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|++++.++.                 .+|||||+|++.++|++|++.
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~~  131 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE-----------------SRGFAFVRFHDKRDAEDAMDA  131 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTT-----------------SCCEEEEEESBHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCc-----------------cceEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643321                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus       132 l~g~~~~g--~~l~v~~a  147 (158)
T 2kn4_A          132 MDGAVLDG--RELRVQMA  147 (158)
T ss_dssp             STTEESSS--SEEEEEEE
T ss_pred             hCCCEECC--eEEEEEEC
Confidence            99877544  45555554

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.37  E-value=3.2e-13  Score=116.90  Aligned_cols=80  Identities=15%  Similarity=0.158  Sum_probs=66.2

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++
T Consensus        45 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g-----------------~~~G~afV~F~~~~~A~~Ai~  107 (135)
T 2lea_A           45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK-----------------ESRGFAFVRFHDKRDAEDAMD  107 (135)
T ss_dssp             GGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSS-----------------SCCSCCEEECSCHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-----------------ccceEEEEEECCHHHHHHHHH
Confidence            347899999999999999999999999999999997654322                 138999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .||+..+..  ..+.+.+.
T Consensus       108 ~l~g~~i~g--~~l~V~~a  124 (135)
T 2lea_A          108 AMDGAVLDG--RELRVQMA  124 (135)
T ss_dssp             TTTTCCSSS--SCCEEEEC
T ss_pred             HcCCCEECC--EEEEEEEC
Confidence            999887554  34454443

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

Probab=99.37  E-value=7.7e-13  Score=110.13  Aligned_cols=74  Identities=26%  Similarity=0.385  Sum_probs=63.6

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +...++|||+|||.++|+++|+++|++||.|..|+++                         +|||||+|++.++|++|+
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~-------------------------kg~afV~f~~~~~A~~Ai   82 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-------------------------NGFAFVEFEEAESAAKAI   82 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE-------------------------TTEEEEECSSHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE-------------------------CCEEEEEECCHHHHHHHH
Confidence            3457899999999999999999999999999999984                         689999999999999999


Q ss_pred             HHhcccccccccceEEEeecc
Q 015730          365 SHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~  385 (401)
                      +.||+..+..  ..+.+.+..
T Consensus        83 ~~l~g~~~~g--~~l~V~~a~  101 (108)
T 2jvo_A           83 EEVHGKSFAN--QPLEVVYSK  101 (108)
T ss_dssp             HHHTTCEETT--EECEEESCS
T ss_pred             HHcCCCEECC--eEEEEEEec
Confidence            9999887644  455555543

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

Probab=99.37  E-value=1.4e-12  Score=105.57  Aligned_cols=63  Identities=17%  Similarity=0.308  Sum_probs=58.1

Q ss_pred             hhhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||. ++++++|+++|++||.|..|++.                         +|||||+|++.++|++|++
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~-------------------------~g~afV~f~~~~~A~~A~~   63 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-------------------------NAFGFIQFDNPQSVRDAIE   63 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE-------------------------TTEEEEEESCHHHHHHHHH
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-------------------------CCEEEEEECCHHHHHHHHH
Confidence            468999999998 99999999999999999999982                         7899999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .|++..+..
T Consensus        64 ~l~g~~~~g   72 (96)
T 2kvi_A           64 CESQEMNFG   72 (96)
T ss_dssp             HHTCSSCBT
T ss_pred             HcCCCeeCC
Confidence            999887665

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.37  E-value=5.2e-13  Score=112.75  Aligned_cols=68  Identities=21%  Similarity=0.185  Sum_probs=58.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCC---eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGS---VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~---V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..++|||+|||.++|+++|+++|+.||.   |..|+|++++. +                 ..+|||||+|++.++|++|
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g-----------------~~~G~afV~F~~~~~a~~A   77 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-G-----------------RQSGEAFVELESEDDVKLA   77 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-S-----------------CEEEEEEEEBSSHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-C-----------------CCCeEEEEEECCHHHHHHH
Confidence            3679999999999999999999999999   89999987542 1                 1389999999999999999


Q ss_pred             HHHhcccccc
Q 015730          364 VSHLHFMIML  373 (401)
Q Consensus       364 v~~ln~~~~~  373 (401)
                      ++ +++..+.
T Consensus        78 l~-~~g~~~~   86 (118)
T 2db1_A           78 LK-KDRESMG   86 (118)
T ss_dssp             GG-GTTEEET
T ss_pred             Hh-cCCCeEC
Confidence            99 8875543

>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=5.9e-13  Score=110.58  Aligned_cols=69  Identities=23%  Similarity=0.299  Sum_probs=61.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|+++. ++                 ..+|||||+|++.++|++|++.
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~-~g-----------------~~~g~afV~f~~~~~a~~A~~~   85 (114)
T 1x5o_A           24 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SG-----------------TSRGVGFARMESTEKCEAVIGH   85 (114)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SS-----------------CEEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998753 11                 1389999999999999999999


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      ||+..+.
T Consensus        86 l~g~~~~   92 (114)
T 1x5o_A           86 FNGKFIK   92 (114)
T ss_dssp             HBTCCCC
T ss_pred             hCCCEEc
Confidence            9988764

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.37  E-value=1e-12  Score=114.71  Aligned_cols=78  Identities=17%  Similarity=0.258  Sum_probs=64.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|++.++.+ +                 ..+|||||+|++.++|++|++.
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~-g-----------------~~~g~afV~f~~~~~A~~A~~~  155 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-G-----------------LSRGCAFVTFTTRAMAQTAIKA  155 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-S-----------------CEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCC-C-----------------CEEEEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999976532 1                 1389999999999999999999


Q ss_pred             hcccccccc-cceEEEe
Q 015730          367 LHFMIMLFF-FSAFCLM  382 (401)
Q Consensus       367 ln~~~~~~~-~~~~~~~  382 (401)
                      ||+..+... ...+.+.
T Consensus       156 l~g~~~~~g~~~~l~V~  172 (175)
T 3nmr_A          156 MHQAQTMEGCSSPMVVK  172 (175)
T ss_dssp             HTTSCCCTTCSSCCEEE
T ss_pred             hcCCcccCCCCCCeEEE
Confidence            998765542 2344443

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

Probab=99.37  E-value=1.2e-12  Score=104.51  Aligned_cols=71  Identities=20%  Similarity=0.156  Sum_probs=61.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+++                         ++||||+|++.++|++|++.
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~-------------------------~~~afV~f~~~~~a~~A~~~   62 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV-------------------------KDYAFVHMEKEADAKAAIAQ   62 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC-------------------------SSCEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE-------------------------CCEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999984                         56899999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        63 l~g~~~~g--~~l~v~~a   78 (90)
T 2dnp_A           63 LNGKEVKG--KRINVELS   78 (90)
T ss_dssp             HTTCEETT--EECEEEES
T ss_pred             hCCCEECC--cEEEEEEC
Confidence            99876554  34444443

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

Probab=99.37  E-value=1.4e-12  Score=119.93  Aligned_cols=71  Identities=21%  Similarity=0.295  Sum_probs=61.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+||||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|++.++|++|++.
T Consensus        14 p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~-----------------~~G~afV~F~~~~~A~~Ai~~   76 (213)
T 4f02_A           14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRR-----------------SLGYAYVNFQQPADAERALDT   76 (213)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCC-----------------ccccccceeCCHHHHHHHHHH
Confidence            357999999999999999999999999999999987654332                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      +++.....
T Consensus        77 ~~~~~~~g   84 (213)
T 4f02_A           77 MNFDVIKG   84 (213)
T ss_dssp             HTTCEETT
T ss_pred             hhhhhcCC
Confidence            98776544

>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=99.35  E-value=4.4e-13  Score=108.30  Aligned_cols=70  Identities=19%  Similarity=0.148  Sum_probs=59.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..++++.++.++                 ..+|||||+|++.++|++|++.|
T Consensus        15 ~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g-----------------~~~g~afV~f~~~~~a~~Ai~~l   77 (98)
T 2cqp_A           15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKG-----------------MPTGEAMVAFESRDEATAAVIDL   77 (98)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSS-----------------CEEEEEEEEESCHHHHHHHHHHT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCC-----------------CeeeEEEEEECCHHHHHHHHHHh
Confidence            5789999999999999999999999999877766543221                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        78 ~g~~~~g   84 (98)
T 2cqp_A           78 NDRPIGS   84 (98)
T ss_dssp             TTCEETT
T ss_pred             CCCeeCC
Confidence            9876544

>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=99.35  E-value=8.5e-13  Score=115.16  Aligned_cols=69  Identities=17%  Similarity=0.138  Sum_probs=59.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCC---eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGS---VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~---V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..++|||+|||+++|+++|+++|+.||.   |..|+|++++. ++                 .+|||||+|++.++|++|
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~-g~-----------------srG~aFV~F~~~e~a~~A  104 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-GR-----------------QSGEAFVELGSEDDVKMA  104 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-SC-----------------EEEEEEEECSSHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-CC-----------------CCeEEEEEECCHHHHHHH
Confidence            3679999999999999999999999999   88999987643 21                 389999999999999999


Q ss_pred             HHHhccccccc
Q 015730          364 VSHLHFMIMLF  374 (401)
Q Consensus       364 v~~ln~~~~~~  374 (401)
                      ++ +|+..+..
T Consensus       105 l~-~~g~~l~g  114 (136)
T 2hgl_A          105 LK-KDRESMGH  114 (136)
T ss_dssp             HT-TTEEESSS
T ss_pred             Hh-cCCCEECC
Confidence            99 88766443

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=2.6e-12  Score=107.85  Aligned_cols=67  Identities=16%  Similarity=0.260  Sum_probs=57.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||+++|+++|+++|+.| .|..|+|++++. ++                 .+|||||+|++.++|++|+ .
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~-g~-----------------~~G~afV~F~~~~~a~~Al-~   74 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV-GR-----------------NNGNGLVKFLSPQDTFEAL-K   74 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT-CC-----------------CCSEEEEECSSHHHHHHHH-H
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC-CC-----------------CCeEEEEEECCHHHHHHHH-h
Confidence            36799999999999999999999999 899999986542 21                 3899999999999999999 6


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      +|+..+.
T Consensus        75 ~~~~~~~   81 (109)
T 2dnn_A           75 RNRMLMI   81 (109)
T ss_dssp             TTTEEET
T ss_pred             cCCCeEC
Confidence            8766543

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.35  E-value=1.5e-12  Score=105.77  Aligned_cols=72  Identities=26%  Similarity=0.213  Sum_probs=61.4

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|||.++|+++|+++|++||.|..|++.++                      .+|||||+|++.++|++|++.|+
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~----------------------~~g~afV~f~~~~~a~~A~~~l~   58 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----------------------PPGFAFVEFEDPRDAEDAVRGLD   58 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS----------------------SSSEEEEECSSHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC----------------------CCCEEEEEECCHHHHHHHHHHHC
Confidence            47999999999999999999999999999999642                      28899999999999999999999


Q ss_pred             ccccccccceEEEeec
Q 015730          369 FMIMLFFFSAFCLMFV  384 (401)
Q Consensus       369 ~~~~~~~~~~~~~~~~  384 (401)
                      +..+..  ..+.+.+.
T Consensus        59 g~~~~g--~~l~V~~a   72 (101)
T 2hvz_A           59 GKVICG--SRVRVELS   72 (101)
T ss_dssp             HSCSSS--CCCEEEES
T ss_pred             CCeECC--cEEEEEEc
Confidence            876544  34555444

>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=99.34  E-value=1.1e-12  Score=111.64  Aligned_cols=62  Identities=19%  Similarity=0.262  Sum_probs=56.2

Q ss_pred             hhheec--cCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVA--ENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV--~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||  +||+.++++++|+++|++||.|..|+|..                       .||||||+|++.++|++|++
T Consensus        25 t~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~-----------------------~rgfaFV~f~~~~~A~~Ai~   81 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-----------------------NKPYSFARYRTTEESKRAYV   81 (114)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT-----------------------TCSCEEEEESSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-----------------------CCCEEEEEECCHHHHHHHHH
Confidence            578999  67999999999999999999999998741                       17899999999999999999


Q ss_pred             Hhccccc
Q 015730          366 HLHFMIM  372 (401)
Q Consensus       366 ~ln~~~~  372 (401)
                      .||+..+
T Consensus        82 ~lnG~~~   88 (114)
T 2cq2_A           82 TLNGKEV   88 (114)
T ss_dssp             HTTTCEE
T ss_pred             HhCCCEE
Confidence            9999865

>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=99.34  E-value=9.1e-13  Score=101.15  Aligned_cols=64  Identities=14%  Similarity=0.308  Sum_probs=54.5

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||+|||.++++++|+++|++||.|..|++.+++.++                 .++|||||+|++.++|++|++. ++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~a~~Ai~~-~~   62 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTN-----------------KRRGFCFITFKEEEPVKKIMEK-KY   62 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCS-----------------SSCCCEEEECSSSHHHHHHHTT-SS
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-----------------CcCCEEEEEECCHHHHHHHHHh-CC
Confidence            68999999999999999999999999999987654322                 1389999999999999999985 44


Q ss_pred             cc
Q 015730          370 MI  371 (401)
Q Consensus       370 ~~  371 (401)
                      ..
T Consensus        63 ~~   64 (75)
T 1iqt_A           63 HN   64 (75)
T ss_dssp             CC
T ss_pred             Ce
Confidence            33

>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=99.34  E-value=1.6e-12  Score=106.97  Aligned_cols=69  Identities=25%  Similarity=0.331  Sum_probs=57.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++|+++|+++|+.||.|.. |+|+++. ++                 ..+|||||+|++.++|++|++
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~-~g-----------------~~~G~afV~F~~~~~a~~A~~   75 (104)
T 1wg5_A           14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDF-QG-----------------RSTGEAFVQFASQEIAEKALK   75 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCS-SS-----------------CBCSEEEEEESSHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECC-CC-----------------CcceEEEEEECCHHHHHHHHH
Confidence            3679999999999999999999999999987 8886542 11                 138999999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      . ++..+..
T Consensus        76 ~-~~~~~~g   83 (104)
T 1wg5_A           76 K-HKERIGH   83 (104)
T ss_dssp             T-TTCCSSS
T ss_pred             h-CcchhCC
Confidence            7 6544433

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

Probab=99.34  E-value=8.6e-13  Score=108.79  Aligned_cols=76  Identities=24%  Similarity=0.259  Sum_probs=62.2

Q ss_pred             hhheeccCCCCcc------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          288 SRIVVAENLPEDH------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       288 ~rtVyV~nLP~d~------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      .++|||+|||.++      |+++|+++|++||.|..|+|.+  .++                 ..+|||||+|++.++|+
T Consensus        15 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~--~~g-----------------~~~G~afV~f~~~~~A~   75 (105)
T 2nlw_A           15 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE--EDG-----------------KTKGYIFLEYASPAHAV   75 (105)
T ss_dssp             CSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCC--BTT-----------------BSCCEEEEEECSSSHHH
T ss_pred             CCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeC--CCC-----------------CeeeEEEEEECCHHHHH
Confidence            6799999999999      7899999999999999999862  211                 13899999999999999


Q ss_pred             HHHHHhcccccccccc-eEEEeec
Q 015730          362 KAVSHLHFMIMLFFFS-AFCLMFV  384 (401)
Q Consensus       362 kAv~~ln~~~~~~~~~-~~~~~~~  384 (401)
                      +|++.||+..+..  . .+.+.+.
T Consensus        76 ~Ai~~l~g~~~~g--~~~l~V~~a   97 (105)
T 2nlw_A           76 DAVKNADGYKLDK--QHTFRVNLF   97 (105)
T ss_dssp             HHHHHCSSEECST--TCEEEEECS
T ss_pred             HHHHHhCCcccCC--CceEEEEEc
Confidence            9999999876543  3 4555443

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.34  E-value=1.5e-13  Score=111.82  Aligned_cols=78  Identities=18%  Similarity=0.149  Sum_probs=61.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|.. +++++..+          +       ..+|||||+|++.++|++|++ 
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~----------g-------~~~g~afV~f~~~~~a~~A~~-   76 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRT----------G-------TNRKFGYVDFESAEDLEKALE-   76 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEE----------E-------TTTTEEEEEESSHHHHHHHHH-
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCC----------C-------CcCcEEEEEECCHHHHHHHHh-
Confidence            4689999999999999999999999999877 44433211          1       238999999999999999998 


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      ||+..+..  ..+.+.+..
T Consensus        77 l~g~~~~g--~~l~V~~a~   93 (101)
T 1fj7_A           77 LTGLKVFG--NEIKLEKPK   93 (101)
T ss_dssp             GGGCCBTT--BCCEEECCS
T ss_pred             cCCcEECC--cEEEEEEcC
Confidence            99877654  345555443

>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=99.34  E-value=4.2e-13  Score=113.75  Aligned_cols=70  Identities=17%  Similarity=0.149  Sum_probs=57.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..+.++....++                 ..+|||||+|++.++|++||+ 
T Consensus        24 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g-----------------~~~G~afV~F~~~~~a~~Al~-   85 (124)
T 1wel_A           24 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNG-----------------KATGEGFVEFRNEADYKAALC-   85 (124)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTS-----------------SEEEEEEEEBSSSHHHHHHHT-
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCC-----------------CCCeEEEEEECCHHHHHHHHH-
Confidence            36899999999999999999999999999874443332211                 138999999999999999999 


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        86 ~~g~~~~g   93 (124)
T 1wel_A           86 RHKQYMGN   93 (124)
T ss_dssp             SCSBCSTT
T ss_pred             hCCCeECC
Confidence            98876554

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.34  E-value=8.8e-13  Score=110.29  Aligned_cols=67  Identities=18%  Similarity=0.138  Sum_probs=55.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|. ++++.++.+..           .|   ..+|||||+|++.++|++|++.
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~-----------~g---~~~G~aFV~f~~~~~a~~Ai~~   71 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKS-----------YF---PPKGYAFLLFQEESSVQALIDA   71 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCC-----------CS---CTTSEEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCC-----------CC---CcccEEEEEECCHHHHHHHHHh
Confidence            368999999999999999999999999999 77765432210           01   1389999999999999999999


Q ss_pred             hc
Q 015730          367 LH  368 (401)
Q Consensus       367 ln  368 (401)
                      |+
T Consensus        72 ~~   73 (114)
T 2dnl_A           72 CL   73 (114)
T ss_dssp             SE
T ss_pred             hh
Confidence            84

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.34  E-value=2.2e-12  Score=111.20  Aligned_cols=78  Identities=18%  Similarity=0.234  Sum_probs=63.2

Q ss_pred             hhheeccCCCCcccHHHHH----HHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLM----KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~----~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .++|||+||+.++++++|+    ++|++||.|..|++.+.             +       ..+|||||+|++.++|++|
T Consensus        29 ~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~-------------~-------~~rG~aFV~F~~~~~A~~A   88 (127)
T 2a3j_A           29 SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS-------------D-------DNSGKAYIVFATQESAQAF   88 (127)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCC-------------C-------SSCCCEEEEESSHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccC-------------C-------CcCCEEEEEECCHHHHHHH
Confidence            6799999999999998876    69999999999988431             1       1389999999999999999


Q ss_pred             HHHhcccccccccceEEEeecccC
Q 015730          364 VSHLHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      ++.||+..+..  ..+.+.+...+
T Consensus        89 i~~lng~~l~g--r~l~V~~a~~~  110 (127)
T 2a3j_A           89 VEAFQGYPFQG--NPLVITFSETP  110 (127)
T ss_dssp             HHHSTTCCCTT--SCCEEEECCCC
T ss_pred             HHHHCCCEeCC--CEEEEEEccCc
Confidence            99999987654  35555555444

>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=99.34  E-value=9.4e-13  Score=108.91  Aligned_cols=68  Identities=25%  Similarity=0.302  Sum_probs=58.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCC---eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGS---VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~---V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..++|||+|||.++|+++|+++|+.||.   |..|+|++++. +                 ..+|||||+|++.++|++|
T Consensus        10 ~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g-----------------~~~G~afV~F~~~~~a~~A   71 (107)
T 2lmi_A           10 DVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-G-----------------KRRGDALIEMESEQDVQKA   71 (107)
T ss_dssp             SCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-S-----------------TTCSEEEEEBSSHHHHHHH
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-C-----------------CEeeEEEEEECCHHHHHHH
Confidence            4679999999999999999999999998   89999976532 1                 1389999999999999999


Q ss_pred             HHHhcccccc
Q 015730          364 VSHLHFMIML  373 (401)
Q Consensus       364 v~~ln~~~~~  373 (401)
                      ++ +++..+.
T Consensus        72 l~-~~~~~~~   80 (107)
T 2lmi_A           72 LE-KHRMYMG   80 (107)
T ss_dssp             HT-TTTCCSS
T ss_pred             HH-hCcceeC
Confidence            99 8875543

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.33  E-value=1.3e-12  Score=105.71  Aligned_cols=74  Identities=24%  Similarity=0.316  Sum_probs=60.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|. ++++..                     ..+|||||+|++.++|++|++.
T Consensus        18 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~---------------------~~~g~afV~f~~~~~a~~A~~~   75 (97)
T 2e5j_A           18 LAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ---------------------GPRRRAFLHYPDSAAAQQAVSC   75 (97)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE---------------------TTTTEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC---------------------CCCcEEEEEECCHHHHHHHHHH
Confidence            367999999999999999999999999997 666532                     1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        76 l~g~~~~g--~~l~V~~a   91 (97)
T 2e5j_A           76 LQGLRLGT--DTLRVALA   91 (97)
T ss_dssp             HTTCCSSS--SCCEEEEC
T ss_pred             hCCCEECC--cEEEEEEc
Confidence            99887654  34554443

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

Probab=99.33  E-value=3.4e-12  Score=103.51  Aligned_cols=72  Identities=21%  Similarity=0.263  Sum_probs=61.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhcc--CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAV--GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~f--G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|||+|||.++|+++|+++|++|  |.|..|++.                         +|||||+|++.++|++|+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~-------------------------~g~afV~f~~~~~A~~A~   68 (99)
T 2cpd_A           14 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI-------------------------RDYAFVHFSNREDAVEAM   68 (99)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC-------------------------SSEEEEEESSHHHHHHHH
T ss_pred             CcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe-------------------------CCeEEEEeCCHHHHHHHH
Confidence            36899999999999999999999999  999988862                         689999999999999999


Q ss_pred             HHhcccccccccceEEEeecc
Q 015730          365 SHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~  385 (401)
                      +.||+..+..  ..+.+.+..
T Consensus        69 ~~l~g~~~~g--~~l~v~~a~   87 (99)
T 2cpd_A           69 KALNGKVLDG--SPIEVTLAK   87 (99)
T ss_dssp             HHHSSEEETT--EEEEEECCC
T ss_pred             HHhCCCEeCC--cEEEEEECC
Confidence            9999887654  455555543

>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=99.33  E-value=1.1e-12  Score=108.16  Aligned_cols=68  Identities=19%  Similarity=0.189  Sum_probs=56.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||. ..|+|++++ ++          +       .+|||||+|++.++|++|| +
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~v~i~~d~-~g----------~-------~~G~afV~F~~~~~a~~Al-~   73 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGP-DG----------R-------VTGEADVEFATHEDAVAAM-A   73 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESS-SS----------C-------EEEEEEEECSSSHHHHHHH-T
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCc-eEEEEEECC-CC----------C-------EeeEEEEEECCHHHHHHHH-H
Confidence            3679999999999999999999999995 499998764 21          1       3899999999999999999 4


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      +|+..+..
T Consensus        74 ~~~~~~~g   81 (102)
T 1wez_A           74 KDKANMQH   81 (102)
T ss_dssp             TSSCCSSS
T ss_pred             hCCCeECC
Confidence            77655443

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

Probab=99.33  E-value=1.4e-12  Score=118.08  Aligned_cols=78  Identities=19%  Similarity=0.276  Sum_probs=64.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+++++..++.                 .+|||||+|++.++|.+|++.
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~-----------------~~g~afV~F~~~~~A~~A~~~  186 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGK-----------------HKGYGFIEYEKAQSSQDAVSS  186 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCC-----------------cCceEEEEecCHHHHHHHHHH
Confidence            457999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      |++..+..  ..+.+.+
T Consensus       187 l~g~~~~g--~~i~V~~  201 (216)
T 2qfj_A          187 MNLFDLGG--QYLRVGK  201 (216)
T ss_dssp             HTTCBCSS--SBCEEEE
T ss_pred             ccCCEeCC--cEEEEEE
Confidence            99887544  3444444

>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=99.32  E-value=6.1e-12  Score=109.62  Aligned_cols=75  Identities=20%  Similarity=0.161  Sum_probs=63.7

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|++||.|..|+++++                      .+|||||+|++.++|++|++
T Consensus        71 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~----------------------~~g~afV~f~~~~~a~~A~~  128 (150)
T 2i2y_A           71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN----------------------PPGFAFVEFEDPRDAADAVR  128 (150)
T ss_dssp             TTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS----------------------SCSEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC----------------------CCcEEEEEECCHHHHHHHHH
Confidence            34689999999999999999999999999999999642                      28999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .||+..+..  ..+.+.+.
T Consensus       129 ~l~g~~~~g--~~l~v~~a  145 (150)
T 2i2y_A          129 ELDGRTLCG--CRVRVELS  145 (150)
T ss_dssp             HHSSSCSSS--SCCEEEEC
T ss_pred             HcCCCEECC--eEEEEEEc
Confidence            999977544  34554443

>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=99.32  E-value=3e-12  Score=102.98  Aligned_cols=71  Identities=18%  Similarity=0.180  Sum_probs=55.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ...+|||+|||.++|+++|+++|++||.|..|+|+++                      .||||||+|++.++|++    
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~----------------------srGfaFV~F~~~~~A~~----   63 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP----------------------FRAFAFVTFADDKVAQS----   63 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS----------------------CCSEEEEEESCHHHHHH----
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC----------------------CCCEEEEEECCHHHHHH----
Confidence            4679999999999999999999999999999998642                      28999999999999984    


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      +++.........+.+.+
T Consensus        64 ~~~~~~~~~g~~v~v~~   80 (89)
T 3d2w_A           64 LCGEDLIIKGISVHISN   80 (89)
T ss_dssp             HTTCEEEETTEEEEEEE
T ss_pred             HcCCCcccCCEEEEEEE
Confidence            44443333334444443

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.32  E-value=3.9e-13  Score=109.53  Aligned_cols=61  Identities=20%  Similarity=0.245  Sum_probs=54.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++++++|+++|+.||.|..|+|++++ ++                 ..+|||||+|++.++|++|++
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-----------------~~~g~afV~f~~~~~a~~Ai~   68 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TG-----------------VSKGYGFVSFYNDVDVQKIVE   68 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TS-----------------CEEEEEEEEESSCCCHHHHTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CC-----------------CccceEEEEECCHHHHHHHHh
Confidence            46899999999999999999999999999999998754 21                 138999999999999999999

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=1.8e-12  Score=103.45  Aligned_cols=76  Identities=16%  Similarity=0.152  Sum_probs=62.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.| .|..|+|+++ .++                 ..+|||||+|++.++|++|++ 
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~-~~g-----------------~~~g~afV~f~~~~~a~~A~~-   68 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRN-AHG-----------------NKTGYIFVDFSNEEEVKQALK-   68 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEEC-TTS-----------------CEEEEEEEECSSHHHHHHHHH-
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEEC-CCC-----------------CCceEEEEEECCHHHHHHHHH-
Confidence            46899999999999999999999999 9999999865 211                 138999999999999999999 


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        69 ~~g~~~~g--r~i~v~~a   84 (91)
T 2dgw_A           69 CNREYMGG--RYIEVFRE   84 (91)
T ss_dssp             SCSEEETT--EEEEEEEE
T ss_pred             hCCceeCC--cEEEEEEC
Confidence            99877554  34444443

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=1.4e-12  Score=111.92  Aligned_cols=91  Identities=19%  Similarity=0.229  Sum_probs=67.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCe----eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSV----KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V----~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..++|||+|||+++|+++|+++|+.||.|    ..|+|+++. ++          +       .+|||||+|++.++|++
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~-~g----------r-------~~G~aFV~F~~~~~A~~   83 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP-DG----------R-------PTGDAFVLFACEEYAQN   83 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT-TS----------C-------EEEEEEECCSSHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC-CC----------C-------EeeEEEEEECCHHHHHH
Confidence            35799999999999999999999999975    689987653 11          1       38999999999999999


Q ss_pred             HHHHhcccccccccceEEEeecccCHHHHHHHHHHHhh
Q 015730          363 AVSHLHFMIMLFFFSAFCLMFVTQTNEIRTSFLADCRA  400 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~~~~~~e~R~~~~~~~~~  400 (401)
                      ||+. ++..+.   .+++.+..+ +.++-...++.+++
T Consensus        84 Al~~-~~~~l~---gR~i~V~~a-~~~e~~~~~~~~~~  116 (123)
T 2dha_A           84 ALRK-HKDLLG---KRYIELFRS-TAAEVQQVLNRFSS  116 (123)
T ss_dssp             HHTT-TTEESS---SCEECCEEE-CHHHHHHHHHHHTT
T ss_pred             HHHh-CCCeeC---CeEEEEEEC-CHHHHHHHHHhccC
Confidence            9986 554322   344444444 34444555655553

>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=99.32  E-value=1.7e-12  Score=108.89  Aligned_cols=64  Identities=22%  Similarity=0.145  Sum_probs=57.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+.                        .|||||+|++.++|++||+.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~------------------------~g~afV~f~~~~~a~~Ai~~   70 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR------------------------DGTGVVEFVRKEDMTYAVRK   70 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT------------------------TSEEEEEESSHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEec------------------------CCEEEEEECCHHHHHHHHHH
Confidence            357999999999999999999999999999999852                        27999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        71 l~g~~~~g   78 (115)
T 3beg_B           71 LDNTKFRS   78 (115)
T ss_dssp             HTTCBCCC
T ss_pred             hCCCEECC
Confidence            99887665

>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=99.32  E-value=3e-12  Score=100.83  Aligned_cols=64  Identities=25%  Similarity=0.360  Sum_probs=57.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhcc----C-------CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEec
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAV----G-------SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYE  355 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~f----G-------~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFe  355 (401)
                      ..++|||+|||.++++++|+++|++|    |       .|..+++.++                       +|||||+|+
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~-----------------------kg~afV~f~   61 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD-----------------------KNFAFLEFR   61 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS-----------------------SSEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC-----------------------CcEEEEEcC
Confidence            47899999999999999999999999    8       9999998531                       789999999


Q ss_pred             CHHHHHHHHHHhccccccc
Q 015730          356 SVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       356 s~E~A~kAv~~ln~~~~~~  374 (401)
                      +.++|++|+ .||+..+..
T Consensus        62 ~~~~a~~A~-~l~g~~~~g   79 (87)
T 2hzc_A           62 SVDETTQAM-AFDGIIFQG   79 (87)
T ss_dssp             SHHHHHHHG-GGTTCEETT
T ss_pred             CHHHHHHHH-hcCCCEECC
Confidence            999999999 999877554

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=98.99  E-value=1.5e-13  Score=114.82  Aligned_cols=80  Identities=18%  Similarity=0.219  Sum_probs=64.6

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeE--------EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKT--------IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV  357 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~--------Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~  357 (401)
                      ...++|||+|||.++++++|+++|++||.|..        |+|++++.++                 ..+|||||+|++.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g-----------------~~~g~afV~f~~~   67 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG-----------------KLKGEATVSFDDP   67 (116)
Confidence            35789999999999999999999999999998        8887653322                 1389999999999


Q ss_pred             HHHHHHHHHhcccccccccceEEEeec
Q 015730          358 ELAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ++|++|++.||+..+..  ..+.+.+.
T Consensus        68 ~~A~~Ai~~l~g~~~~g--~~l~V~~a   92 (116)
T 2lcw_A           68 PSAKAAIDWFDGKEFSG--NPIKVSFA   92 (116)
Confidence            99999999999876554  34444443

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.31  E-value=4.4e-12  Score=114.31  Aligned_cols=76  Identities=24%  Similarity=0.212  Sum_probs=62.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+||++++|+++|+++|++||.|+.|+|...+                     .+|||||||++.++|++|++.|
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~---------------------~rgfAFVeF~d~~~A~~Ai~~L  104 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---------------------NQFQALLQYADPVSAQHAKLSL  104 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS---------------------SCEEEEEEESCHHHHHHHHHHS
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC---------------------CCCEEEEEECCHHHHHHHHHHh
Confidence            3579999999999999999999999999999985210                     2789999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+......+.+.+.
T Consensus       105 nG~~i~g~g~~L~V~~A  121 (164)
T 1sjr_A          105 DGQNIYNACCTLRIDFS  121 (164)
T ss_dssp             TTBCSSSSCSCEEEEEC
T ss_pred             CCCEecCCCcEEEEEEe
Confidence            99887543234444443

>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=99.31  E-value=2.2e-12  Score=112.66  Aligned_cols=72  Identities=21%  Similarity=0.296  Sum_probs=61.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|++||.|..|+++++..++.        +       ..+|||||+|.+.++|++|++.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~--------~-------~~~g~afV~f~~~~~A~~A~~~   66 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNP--------P-------QSKGCCFVTFYTRKAALEAQNA   66 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSS--------C-------EEEEEEEEEESSHHHHHHHHHH
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCC--------C-------CcceEEEEEECCHHHHHHHHHH
Confidence            368999999999999999999999999999999987643220        0       1389999999999999999999


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      |++....
T Consensus        67 l~~~~~~   73 (175)
T 3nmr_A           67 LHNMKVL   73 (175)
T ss_dssp             HTTTCCC
T ss_pred             hcCcEEc
Confidence            9886554

>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=99.31  E-value=5.9e-12  Score=110.03  Aligned_cols=104  Identities=16%  Similarity=0.248  Sum_probs=74.8

Q ss_pred             CHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCC
Q 015730          249 SHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG  328 (401)
Q Consensus       249 d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~  328 (401)
                      +.+.+..|| ......+.  |..++...+....  .....++|||+|||.++|+++|+++|++||.|..|++.++..++.
T Consensus        60 ~~~~A~~A~-~~~~~~~~--g~~i~v~~~~~~~--~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~  134 (172)
T 2g4b_A           60 SVDETTQAM-AFDGIIFQ--GQSLKIRRPHDYQ--PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGL  134 (172)
T ss_dssp             SHHHHHHHG-GGTTCEET--TEECEEECCSSCC--CCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCS
T ss_pred             CHHHHHHHH-HhCCcEec--CceeeecCCcccC--CCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCC
Confidence            455566666 33334443  4343333222211  112368999999999999999999999999999999987543221


Q ss_pred             CCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       329 ~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                                       ++|||||+|++.++|++|++.||+..+..
T Consensus       135 -----------------~~g~afV~f~~~~~A~~A~~~l~g~~~~g  163 (172)
T 2g4b_A          135 -----------------SKGYAFCEYVDINVTDQAIAGLNGMQLGD  163 (172)
T ss_dssp             -----------------EEEEEEEEESSTTHHHHHHHHHTTCEETT
T ss_pred             -----------------cceEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence                             38999999999999999999999876554

>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=99.30  E-value=6.5e-12  Score=112.03  Aligned_cols=79  Identities=16%  Similarity=0.236  Sum_probs=61.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+++++..++.                 .+|||||+|++.++|.+|++.
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~F~~~~~A~~A~~~  165 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK-----------------KRGFAFVTFDDHDSVDKIVIQ  165 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHC
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCC-----------------ccceEEEEECCHHHHHHHHHh
Confidence            357999999999999999999999999999999987643221                 389999999999999999986


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                       ++..+..  ..+.+.+..
T Consensus       166 -~~~~~~G--~~i~v~~a~  181 (196)
T 1l3k_A          166 -KYHTVNG--HNCEVRKAL  181 (196)
T ss_dssp             -SCCEETT--EECEEEECC
T ss_pred             -CCcEECC--EEEEEEecC
Confidence             4433322  344444433

>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=99.30  E-value=2.7e-12  Score=103.29  Aligned_cols=78  Identities=19%  Similarity=0.245  Sum_probs=64.0

Q ss_pred             hhhheeccCCCCcccHHHHH----HHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLM----KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~----~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..++|||+|||.++++++|+    ++|++||.|..|++.+.             +       ..+|||||+|++.++|++
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~-------------~-------~~~g~afV~f~~~~~A~~   66 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-------------L-------KMRGQAFVIFKEVSSATN   66 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-------------H-------HHTTCEEEEESSHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC-------------C-------CcCcEEEEEeCCHHHHHH
Confidence            46899999999999999999    99999999999998521             1       138999999999999999


Q ss_pred             HHHHhcccccccccceEEEeeccc
Q 015730          363 AVSHLHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~~~~  386 (401)
                      |++.|++..+..  ..+.+.+...
T Consensus        67 A~~~l~g~~~~g--~~l~v~~a~~   88 (97)
T 1nu4_A           67 ALRSMQGFPFYD--KPMRIQYAKT   88 (97)
T ss_dssp             HHHHHTTCEETT--EECEEEECSS
T ss_pred             HHHHhCCCEECC--cEEEEEEccC
Confidence            999999877644  4555555433

>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=99.30  E-value=2.1e-12  Score=103.50  Aligned_cols=72  Identities=15%  Similarity=0.105  Sum_probs=59.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCC-eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGS-VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~-V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.++|+++|+++|++||. |..+.++                        .+|||||+|++.++|++|++
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~------------------------~~g~afV~f~~~~~A~~A~~   62 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------------------------KSGYAFVDYPDQNWAIRAIE   62 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE------------------------ETTEEEECCSCHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc------------------------CCCEEEEEECCHHHHHHHHH
Confidence            3689999999999999999999999999 6666552                        27899999999999999999


Q ss_pred             Hhcc-cccccccceEEEeec
Q 015730          366 HLHF-MIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~-~~~~~~~~~~~~~~~  384 (401)
                      .||+ ..+..  ..+.+.+.
T Consensus        63 ~l~g~~~~~g--~~l~v~~a   80 (93)
T 2cqh_A           63 TLSGKVELHG--KIMEVDYS   80 (93)
T ss_dssp             HHTTTCEETT--EECEEEEC
T ss_pred             HccCCeeECC--EEEEEEEc
Confidence            9998 55433  44555544

>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=99.30  E-value=4.7e-12  Score=109.51  Aligned_cols=70  Identities=19%  Similarity=0.342  Sum_probs=60.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..|++++++.++.                 ++|||||+|.+.++|++|++.|
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~-----------------~~g~afV~f~~~~~A~~a~~~l   64 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQ-----------------SLGYGFVNYIDPKDAEKAINTL   64 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCc-----------------ceeEEEEEECCHHHHHHHHHHc
Confidence            47999999999999999999999999999999987543221                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        65 ~~~~~~g   71 (167)
T 1fxl_A           65 NGLRLQT   71 (167)
T ss_dssp             TTCEETT
T ss_pred             CCCccCC
Confidence            8866544

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

Probab=99.30  E-value=1.1e-11  Score=112.31  Aligned_cols=72  Identities=21%  Similarity=0.241  Sum_probs=61.2

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|+.||.|..|+|+++..++                 ..+|||||+|.+.++|++|++
T Consensus        26 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g-----------------~~~g~afV~f~~~~~A~~A~~   88 (216)
T 2qfj_A           26 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTM-----------------KHKGFAFVEYEVPEAAQLALE   88 (216)
T ss_dssp             HHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC------------------CCCSEEEEEESSHHHHHHHHH
T ss_pred             CcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCC-----------------ccCceEEEEeCCHHHHHHHHH
Confidence            457899999999999999999999999999999997654322                 138999999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .|++..+..
T Consensus        89 ~l~~~~~~g   97 (216)
T 2qfj_A           89 QMNSVMLGG   97 (216)
T ss_dssp             HHSSCCCC-
T ss_pred             HccCCeeCC
Confidence            999876554

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=4.1e-12  Score=103.27  Aligned_cols=75  Identities=23%  Similarity=0.235  Sum_probs=59.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|   ++++.. +          +       ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~-~----------g-------~~~g~afV~f~~~~~A~~A~~~   72 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQ-N----------G-------KSKGYAFIEFASFEDAKEALNS   72 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCS-S----------S-------CBCSEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECC-C----------C-------CEeeEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999987   443321 1          1       1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        73 l~g~~~~g--~~l~v~~a   88 (101)
T 2fc9_A           73 CNKREIEG--RAIRLELQ   88 (101)
T ss_dssp             TSSEEETT--EEEEEEEC
T ss_pred             hCCCEeCC--eEEEEEEc
Confidence            99876654  44555554

>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=99.29  E-value=7.4e-12  Score=108.86  Aligned_cols=109  Identities=17%  Similarity=0.295  Sum_probs=75.6

Q ss_pred             CHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCC
Q 015730          249 SHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG  328 (401)
Q Consensus       249 d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~  328 (401)
                      +.+.+..||+..  ..+  +|..|+........  .....++|||+|||.++++++|+++|+.||.|..|++.+++.++ 
T Consensus        54 ~~~~a~~A~~~~--~~~--~g~~i~v~~~~~~~--~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g-  126 (167)
T 2cjk_A           54 KPSSVDEVVKTQ--HIL--DGKVIDPKRAIPRD--EQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTG-  126 (167)
T ss_dssp             STHHHHHHHHSC--CEE--TTEECCCEECCCHH--HHHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSS-
T ss_pred             cHHHHHHHHhcc--ccc--CCeEcccccccchh--hccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCC-
Confidence            445556666642  233  34444433333222  22346799999999999999999999999999999997654322 


Q ss_pred             CCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEee
Q 015730          329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       329 ~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~  383 (401)
                                      .++|||||+|++.++|++|++ +++..+..  ..+.+.+
T Consensus       127 ----------------~~~g~afV~f~~~~~a~~A~~-~~~~~~~g--~~i~V~~  162 (167)
T 2cjk_A          127 ----------------QSRGFGFVTYDSADAVDRVCQ-NKFIDFKD--RKIEIKR  162 (167)
T ss_dssp             ----------------TTSEEEEEEESSHHHHHHHHH-CSEECSSS--SCEEEEE
T ss_pred             ----------------ccceEEEEEECCHHHHHHHHh-CCCEEeCC--eEEEEee
Confidence                            138999999999999999998 66554433  3454444

>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=99.28  E-value=5.8e-12  Score=104.22  Aligned_cols=70  Identities=23%  Similarity=0.175  Sum_probs=60.5

Q ss_pred             hhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.+ +++++|+++|++||.|..|+|.                         +|||||+|++.++|++|++.
T Consensus        27 ~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i~-------------------------~g~afV~f~~~~~A~~A~~~   81 (110)
T 1wf1_A           27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVH-------------------------KGYAFVQYSNERHARAAVLG   81 (110)
T ss_dssp             SSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEEE-------------------------TTEEEEECSSSHHHHHHHHH
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEe-------------------------CCEEEEEECCHHHHHHHHHH
Confidence            589999999999 9999999999999999999881                         78999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        82 l~g~~~~g--~~l~V~~a   97 (110)
T 1wf1_A           82 ENGRVLAG--QTLDINMA   97 (110)
T ss_dssp             HTTCEETT--EECCEEES
T ss_pred             cCCCEECC--eEEEEEEC
Confidence            99877654  33444443

>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=99.28  E-value=2.2e-12  Score=112.97  Aligned_cols=68  Identities=19%  Similarity=0.173  Sum_probs=57.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||+++|+++|+++|+.|| |..|+|+++++ +                 ..+|||||+|++.++|++|| .
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~-g-----------------~srGfaFV~F~~~e~A~~Al-~  104 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD-G-----------------RVTGEADVEFATHEEAVAAM-S  104 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS-S-----------------CSSCCCEEECSHHHHHHHHT-T
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC-C-----------------CCceEEEEEeCCHHHHHHHH-h
Confidence            467999999999999999999999999 77999876542 1                 13899999999999999999 7


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      +|+..+..
T Consensus       105 ~~g~~l~g  112 (139)
T 2hgn_A          105 KDRANMQH  112 (139)
T ss_dssp             CCSCSSSS
T ss_pred             hCCCEECC
Confidence            77655443

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

Probab=99.28  E-value=5.6e-12  Score=108.89  Aligned_cols=68  Identities=24%  Similarity=0.266  Sum_probs=59.7

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      |+|||+|||.++|+++|+++|++||.|..|++++++.           +       ..+|||||+|.+.++|++|++.|+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-----------~-------~~~g~afV~f~~~~~a~~A~~~l~   62 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN-----------N-------KNVNYAFVEYHQSHDANIALQTLN   62 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-------------------CCEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC-----------C-------CCCCEEEEEeCCHHHHHHHHHHcC
Confidence            6899999999999999999999999999999986532           1       138999999999999999999998


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +..+..
T Consensus        63 ~~~~~g   68 (166)
T 3md3_A           63 GKQIEN   68 (166)
T ss_dssp             TCEETT
T ss_pred             CCccCC
Confidence            876654

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.27  E-value=8.2e-12  Score=113.05  Aligned_cols=69  Identities=19%  Similarity=0.156  Sum_probs=60.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..|+|+++. ++                 ..+|||||+|++.++|++|++.|
T Consensus        88 ~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~-~g-----------------~~kG~afV~F~~~~~A~~Ai~~l  149 (177)
T 2f3j_A           88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SG-----------------RSLGTADVHFERRADALKAMKQY  149 (177)
T ss_dssp             CEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT-TS-----------------SCSCCEEEEESCHHHHHHHHHHS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CC-----------------CEeeEEEEEeCCHHHHHHHHHHh
Confidence            5799999999999999999999999999999997653 11                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus       150 ng~~l~G  156 (177)
T 2f3j_A          150 KGVPLDG  156 (177)
T ss_dssp             TTCBCSS
T ss_pred             CCCEECC
Confidence            9886554

>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=99.27  E-value=7.4e-12  Score=115.59  Aligned_cols=73  Identities=16%  Similarity=0.243  Sum_probs=62.4

Q ss_pred             hhhheeccCCC-CcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLP-EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP-~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+||+ .++|+++|+++|++||.|.+|+|+++                      .+|||||+|++.++|++|++
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~----------------------~~g~afV~f~~~~~A~~Ai~   60 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS----------------------KPGAAMVEMADGYAVDRAIT   60 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT----------------------STTCEEEEESSHHHHHHHHH
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC----------------------CCCEEEEEECCHHHHHHHHH
Confidence            36799999999 89999999999999999999999642                      17899999999999999999


Q ss_pred             HhcccccccccceEEEee
Q 015730          366 HLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~  383 (401)
                      .||+..+..  ..+.+.+
T Consensus        61 ~lng~~~~g--~~l~v~~   76 (205)
T 3tyt_A           61 HLNNNFMFG--QKMNVCV   76 (205)
T ss_dssp             HHTTCEETT--EECEEEE
T ss_pred             HhCCCEECC--ceEEEEE
Confidence            999877655  3344443

>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=99.27  E-value=6e-12  Score=109.36  Aligned_cols=70  Identities=23%  Similarity=0.341  Sum_probs=60.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..|++++++.++                 ..+|||||+|.+.++|++|++.|
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-----------------~~~g~afV~f~~~~~A~~a~~~l   65 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTG-----------------YSYGYAFVDFTSEMDSQRAIKVL   65 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTT-----------------EECSEEEEEESSHHHHHHHHHHH
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCC-----------------ccceEEEEEECCHHHHHHHHHhc
Confidence            5799999999999999999999999999999997653221                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        66 ~~~~~~g   72 (168)
T 1b7f_A           66 NGITVRN   72 (168)
T ss_dssp             TTCEETT
T ss_pred             CCCEeCC
Confidence            8876544

>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=99.27  E-value=5.5e-12  Score=109.70  Aligned_cols=63  Identities=19%  Similarity=0.308  Sum_probs=55.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|+.||.|..|+++++..++.                 ++|||||+|.+.++|++|++.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~~   64 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGR-----------------SRGFGFLSFEKPSSVDEVVKT   64 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSS-----------------CCSCEEEEESSTHHHHHHHHS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCC-----------------ccceEEEEEccHHHHHHHHhc
Confidence            368999999999999999999999999999999987543221                 389999999999999999996

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

Probab=99.27  E-value=9.1e-12  Score=100.12  Aligned_cols=74  Identities=16%  Similarity=0.179  Sum_probs=60.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEE-EecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIR-TCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vr-i~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++|+++|+++|+.||.|..|+ +++++.                     .|.|||+|++.++|++|++.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~---------------------~~~afV~f~~~~~a~~Ai~~   73 (96)
T 2e44_A           15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE---------------------TAVVNVTYSSKDQARQALDK   73 (96)
T ss_dssp             CCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS---------------------SEEEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC---------------------CCEEEEEECCHHHHHHHHHH
Confidence            67999999999999999999999999999996 654321                     34499999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        74 l~g~~~~g--~~l~V~~a   89 (96)
T 2e44_A           74 LNGFQLEN--FTLKVAYI   89 (96)
T ss_dssp             HTTCBCSS--CBCEEEEC
T ss_pred             hCCCEECC--cEEEEEEc
Confidence            99877654  34554443

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.26  E-value=1.8e-12  Score=104.24  Aligned_cols=75  Identities=19%  Similarity=0.235  Sum_probs=60.3

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++++++|+++|+.||.|..+ . ..             +       ..+|||||+|++.++|++|++
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-~-~~-------------~-------~~~g~afV~f~~~~~a~~A~~   71 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLV-S-QD-------------G-------KSKGIAYIEFKSEADAEKNLE   71 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-E-ET-------------T-------EEEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-C-CC-------------C-------CcceEEEEEECCHHHHHHHHH
Confidence            357899999999999999999999999988766 1 11             1       138999999999999999999


Q ss_pred             HhcccccccccceEEEeec
Q 015730          366 HLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~  384 (401)
                      .|++..+..  ..+.+.+.
T Consensus        72 ~l~g~~~~g--~~l~v~~a   88 (96)
T 1fjc_A           72 EKQGAEIDG--RSVSLYYT   88 (96)
T ss_dssp             HTTEEEETT--EEEEEEEC
T ss_pred             HhCCCEECC--eEEEEEEc
Confidence            999876544  34555544

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=1.4e-11  Score=99.65  Aligned_cols=71  Identities=21%  Similarity=0.199  Sum_probs=59.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+||  ++|+++|+++|++||.|..|+|..                       .+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~-----------------------~~g~afV~f~~~~~a~~Ai~~   68 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDP-----------------------PRNCAFVTYEKMESADQAVAE   68 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecC-----------------------CCCEEEEEECCHHHHHHHHHH
Confidence            3679999996  899999999999999999999841                       288999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        69 l~g~~~~g--~~l~v~~a   84 (97)
T 1x5p_A           69 LNGTQVES--VQLKVNIA   84 (97)
T ss_dssp             TTTEEETT--EEEEEECC
T ss_pred             hCCCeECC--eEEEEEEC
Confidence            99887543  44555543

>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=99.26  E-value=7.4e-12  Score=118.86  Aligned_cols=74  Identities=24%  Similarity=0.271  Sum_probs=62.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+++..                      .+|||||+|++.++|++|++.
T Consensus       206 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~----------------------~~g~afV~f~~~~~A~~A~~~  263 (282)
T 3pgw_A          206 PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPG----------------------RHDIAFVEFDNEVQAGAARDA  263 (282)
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecC----------------------CCcEEEEEeCCHHHHHHHHHH
Confidence            3578999999999999999999999999999999632                      168999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      ||+..+.. +..+.+.|
T Consensus       264 l~g~~~~~-g~~l~v~~  279 (282)
T 3pgw_A          264 LQGFKITQ-NNAMKISF  279 (282)
T ss_pred             cCCcEeCC-CCEEEEEE
Confidence            99977662 23454444

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.26  E-value=1.3e-11  Score=107.30  Aligned_cols=64  Identities=27%  Similarity=0.207  Sum_probs=57.2

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcce-EEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLH-AFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~-AFVEFes~E~A~kAv~~l  367 (401)
                      ..|||+||++.+|+++|+++|++||.|..|+|...                      .+|| |||||++.++|++|++.|
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~----------------------~~gfqAFVef~~~~~A~~Ai~~L   86 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK----------------------NNQFQALLQYADPVSAQHAKLSL   86 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE----------------------TTEEEEEEEESCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC----------------------CCCcEEEEEECCHHHHHHHHHHc
Confidence            46899999999999999999999999999988531                      1677 999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        87 nG~~i~g   93 (130)
T 3zzy_A           87 DGQNIYN   93 (130)
T ss_dssp             TTCEEET
T ss_pred             CCCeecC
Confidence            9988765

>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=99.26  E-value=2.4e-11  Score=106.76  Aligned_cols=109  Identities=22%  Similarity=0.272  Sum_probs=73.2

Q ss_pred             CHHHHHHhhhcCcceEEeccccccccCCCCCcchhhhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCC
Q 015730          249 SHSHLASVLRKSSKLVVSEDGKKIKRQNPLTESDLEELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGG  328 (401)
Q Consensus       249 d~e~I~eALk~S~~LEVsedg~kVRRk~Pl~e~~~~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~  328 (401)
                      +.+.+..||+ .....+.  |..|+...............++|||+|||.++|+++|+++|+.||.|..+   ..  ++ 
T Consensus        63 ~~~~a~~A~~-l~g~~~~--g~~l~v~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~---~~--~~-  133 (175)
T 1fje_B           63 SAEDLEKALE-LTGLKVF--GNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQ--DG-  133 (175)
T ss_dssp             SHHHHHHHHH-GGGEEET--TEEEEEECCCCSSCSTTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE---CS--SS-
T ss_pred             CHHHHHHHHh-cCCCEeC--CeEEEEecCCCccccccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe---cC--CC-
Confidence            3445555553 3333443  33333322222222233457899999999999999999999999988766   11  11 


Q ss_pred             CCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEEeec
Q 015730          329 GASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       329 ~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                                      ..+|||||+|++.++|.+|++.||+..+..  ..+.+.+.
T Consensus       134 ----------------~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~i~v~~a  171 (175)
T 1fje_B          134 ----------------KSKGIAYIEFKSEADAEKNLEEKQGAEIDG--RSVSLYYT  171 (175)
T ss_dssp             ----------------SCCSEEEEECSSHHHHHHHHHHHTEEEETT--EEEEEEEC
T ss_pred             ----------------CCceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEec
Confidence                            138999999999999999999999876554  34555544

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.25  E-value=6.7e-12  Score=104.16  Aligned_cols=75  Identities=16%  Similarity=0.270  Sum_probs=60.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCe----eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSV----KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V----~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..++|||+|||.++|+++|+++|++||.|    ..+++.    ++                 ..+|||||+|++.++|++
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~----~g-----------------~~~g~afV~f~~~~~a~~   82 (115)
T 2cpx_A           24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM----TG-----------------RMRGQAFITFPNKEIAWQ   82 (115)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE----CS-----------------SSCSEEEEECSSHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC----CC-----------------ccceEEEEEECCHHHHHH
Confidence            36899999999999999999999999999    455543    11                 138999999999999999


Q ss_pred             HHHHhcccccccccceEEEeec
Q 015730          363 AVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~~  384 (401)
                      |++.|++..+..  ..+.+.+.
T Consensus        83 Ai~~l~g~~~~g--~~l~v~~a  102 (115)
T 2cpx_A           83 ALHLVNGYKLYG--KILVIEFG  102 (115)
T ss_dssp             HHHHSTTCBCSS--CBCEEEEC
T ss_pred             HHHHhCCCEeCC--cEEEEEEc
Confidence            999999877643  44555554

>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=99.25  E-value=3.4e-12  Score=110.09  Aligned_cols=61  Identities=28%  Similarity=0.385  Sum_probs=52.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCee--EEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVK--TIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~--~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+|||+++|+++|+++|+.| .|.  .|+|++++. +                 ..+|||||+|++.++|++||+
T Consensus        42 ~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~-G-----------------rsrGfaFV~F~~~e~A~~Al~  102 (126)
T 2hgm_A           42 DGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE-G-----------------KITGEAFVQFASQELAEKALG  102 (126)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS-S-----------------SSCSEEEEEESSTTHHHHHHT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC-C-----------------CCceEEEEEECCHHHHHHHHH
Confidence            5789999999999999999999999 566  899876542 2                 138999999999999999998


Q ss_pred             Hh
Q 015730          366 HL  367 (401)
Q Consensus       366 ~l  367 (401)
                      ..
T Consensus       103 ~~  104 (126)
T 2hgm_A          103 KH  104 (126)
T ss_dssp             TT
T ss_pred             HC
Confidence            53

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.25  E-value=2e-11  Score=105.05  Aligned_cols=63  Identities=25%  Similarity=0.179  Sum_probs=55.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcce-EEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLH-AFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~-AFVEFes~E~A~kAv~~l  367 (401)
                      ..|||+||++.+|+++|+++|++||.|..|+|.. +                      .|| |||||++.++|++|++.|
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~-~----------------------~Gf~aFVef~~~~~A~~A~~~L   82 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK-R----------------------NGIQAMVEFESVLCAQKAKAAL   82 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE-S----------------------SSEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe-C----------------------CCCEEEEEECCHHHHHHHHHHh
Confidence            3578999999999999999999999999999852 1                      365 999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        83 nG~~i~g   89 (124)
T 2e5i_A           83 NGADIYA   89 (124)
T ss_dssp             TTCCCBT
T ss_pred             CCCEecC
Confidence            9987665

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.25  E-value=6.9e-12  Score=101.91  Aligned_cols=77  Identities=22%  Similarity=0.235  Sum_probs=59.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.|+.   |++++++.++                 ..+|||||+|++.++|++|++.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~---~~~~~~~~~~-----------------~~~g~afV~f~~~~~A~~A~~~   73 (102)
T 2fc8_A           14 PSKTLFVKGLSEDTTEETLKESFDGSVR---ARIVTDRETG-----------------SSKGFGFVDFNSEEDAKAAKEA   73 (102)
T ss_dssp             CCSSEEEECCCTTCCHHHHHHTSTTCSE---EEEEECSSSC-----------------SEEEEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCccCHHHHHHHhcCCeE---EEEEecCCCC-----------------CcCcEEEEEECCHHHHHHHHHH
Confidence            4689999999999999999999998864   5555443221                 1389999999999999999999


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      ||+..+..  ..+.+.+..
T Consensus        74 l~g~~~~g--~~l~V~~a~   90 (102)
T 2fc8_A           74 MEDGEIDG--NKVTLDWAK   90 (102)
T ss_dssp             HTTCEETT--EECEEEECC
T ss_pred             hCCCeECC--eEEEEEEec
Confidence            99876554  345555543

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.25  E-value=1.3e-11  Score=110.18  Aligned_cols=63  Identities=19%  Similarity=0.248  Sum_probs=56.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|+|+++..++.                 .+|||||+|.+.++|++|++.
T Consensus        12 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~-----------------~~g~afV~f~~~~~A~~A~~~   74 (196)
T 1l3k_A           12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR-----------------SRGFGFVTYATVEEVDAAMNA   74 (196)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCC-----------------ccceEEEEeCCHHHHHHHHhc
Confidence            578999999999999999999999999999999987643221                 389999999999999999986

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

Probab=99.24  E-value=1.4e-11  Score=110.10  Aligned_cols=78  Identities=17%  Similarity=0.262  Sum_probs=64.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++.++..++                 ..+|||||+|++.++|++|++.
T Consensus       113 ~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~-----------------~~~g~afV~f~~~~~a~~A~~~  175 (198)
T 2yh0_A          113 SAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATG-----------------LSKGYAFCEYVDINVTDQAIAG  175 (198)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTC-----------------SEEEEEEEEESSSSHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCC-----------------CcceEEEEEECCHHHHHHHHHH
Confidence            46899999999999999999999999999999998754322                 1389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      |++..+..  ..+.+.+
T Consensus       176 l~g~~~~g--~~l~v~~  190 (198)
T 2yh0_A          176 LNGMQLGD--KKLLVQR  190 (198)
T ss_dssp             HTTCEETT--EECEEEE
T ss_pred             cCCCEECC--EEEEEEE
Confidence            99877644  3444444

>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=99.24  E-value=1.1e-11  Score=127.12  Aligned_cols=79  Identities=19%  Similarity=0.182  Sum_probs=66.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|+.|+|+.+..++.                 .+|||||+|++.++|++||+.
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~-----------------~kG~aFV~F~~~e~A~~Ai~~  163 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGK-----------------PRGYAFIEYEHERDMHSAYKH  163 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCC-----------------ccceEEEeeccHHHHHHHHHH
Confidence            357999999999999999999999999999999987643321                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus       164 lng~~i~g--r~i~V~~a  179 (437)
T 3pgw_S          164 ADGKKIDG--RRVLVDVE  179 (437)
T ss_pred             cCCCEECC--EEEEEEEe
Confidence            99887654  34555554

>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=99.23  E-value=2.9e-11  Score=115.35  Aligned_cols=79  Identities=20%  Similarity=0.286  Sum_probs=64.4

Q ss_pred             hhhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCC-CCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          287 QSRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQT-SGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~-~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ..++|||+|||.+ +|+++|+++|+.||.|..|+|+++.. ++                 ..+|||||+|.+.++|.+|+
T Consensus       209 ~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg-----------------~~~g~afV~F~~~~~A~~A~  271 (292)
T 2ghp_A          209 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHS-----------------FNNCCAFMVFENKDSAERAL  271 (292)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC--------------------CCCEEEEEEESSHHHHHHHG
T ss_pred             CCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCC-----------------CCceEEEEEeCCHHHHHHHH
Confidence            4689999999999 99999999999999999999976432 11                 13899999999999999999


Q ss_pred             HHhcccccccccceEEEeecc
Q 015730          365 SHLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~  385 (401)
                       .||+..+..  ..+.+.+..
T Consensus       272 -~l~g~~~~g--~~i~V~~a~  289 (292)
T 2ghp_A          272 -QMNRSLLGN--REISVSLAD  289 (292)
T ss_dssp             -GGTTEEETT--EEEEEEECC
T ss_pred             -HhcCCEECC--cEEEEEEec
Confidence             999877543  455555544

>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=99.23  E-value=1.2e-11  Score=98.40  Aligned_cols=70  Identities=23%  Similarity=0.240  Sum_probs=59.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++| .|..|++.+                       .+|||||+|++.++|++|++.|
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~-----------------------~~g~afV~f~~~~~a~~Ai~~l   60 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDR-----------------------NKRTAFVTLLNGEQAQNAIQMF   60 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEG-----------------------GGTEEEECCSCHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeC-----------------------CCcEEEEEECCHHHHHHHHHHh
Confidence            5799999999999999999999999 999998831                       2899999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus        61 ~g~~~~g--~~l~V~~   74 (88)
T 1wg1_A           61 HQYSFRG--KDLIVQL   74 (88)
T ss_dssp             TTEEETT--EEEEEEE
T ss_pred             CCCeECC--cEEEEEE
Confidence            9877554  3444444

>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=99.23  E-value=9.3e-12  Score=98.80  Aligned_cols=55  Identities=24%  Similarity=0.286  Sum_probs=49.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++                      .+|||||+|++.++|++|
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~----------------------~~g~afV~f~~~~~a~~~   58 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP----------------------FRAFAFVTFADDQIAQSL   58 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS----------------------CCSCCEEECSCHHHHHHT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC----------------------CCCEEEEEECCHHHHHHH
Confidence            3689999999999999999999999999999998532                      289999999999999764

>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=99.20  E-value=3.3e-11  Score=114.51  Aligned_cols=88  Identities=27%  Similarity=0.258  Sum_probs=70.3

Q ss_pred             hhhhheeccCCCCcc-cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDH-CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~-t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      ...++|||+|||.++ |+++|+++|+.||.|..|+|.++.+ +                 ..+|||||+|++.++|.+|+
T Consensus       182 ~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~-g-----------------~~~g~afV~f~~~~~A~~A~  243 (284)
T 3smz_A          182 LHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQD-G-----------------QLKGFAVLEYETAEMAEEAQ  243 (284)
T ss_dssp             TSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSS-C-----------------CEEEEEEEECSSHHHHHHHH
T ss_pred             CCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCC-C-----------------CcccEEEEEeCCHHHHHHHH
Confidence            346799999999995 9999999999999999999976531 1                 13899999999999999999


Q ss_pred             HHhcccccccccceEEEeecccCHHHHHH
Q 015730          365 SHLHFMIMLFFFSAFCLMFVTQTNEIRTS  393 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~~~~e~R~~  393 (401)
                      +.||+..+..  ..+.+.+...+.+.|.+
T Consensus       244 ~~l~g~~~~g--~~l~v~~a~~~~~~~~~  270 (284)
T 3smz_A          244 QQADGLSLGG--SHLRVSFCAPGPPGRSM  270 (284)
T ss_dssp             HHHTTCEETT--EECEEEECCSSSCHHHH
T ss_pred             HHhCCCccCC--eEEEEEEecCCCcccch
Confidence            9999888644  45666666555544443

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.20  E-value=2.4e-11  Score=115.76  Aligned_cols=78  Identities=15%  Similarity=0.218  Sum_probs=65.3

Q ss_pred             hhhheeccCCCCcc---------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH
Q 015730          287 QSRIVVAENLPEDH---------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV  357 (401)
Q Consensus       287 ~~rtVyV~nLP~d~---------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~  357 (401)
                      ..++|||+||+.++         ++++|+++|++||.|+.|+|+.                       .||||||+|++.
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~-----------------------~kG~AFV~F~~~  189 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE-----------------------SKNCGFVKFKYQ  189 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG-----------------------GGTEEEEEESSH
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC-----------------------CCCEEEEEeCCH
Confidence            47899999999998         7999999999999999999973                       289999999999


Q ss_pred             HHHHHHHHHhccccccc----------ccceEEEeecccC
Q 015730          358 ELAEKAVSHLHFMIMLF----------FFSAFCLMFVTQT  387 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~----------~~~~~~~~~~~~~  387 (401)
                      ++|++|++.|++..++.          ....+.+.+....
T Consensus       190 ~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          190 ANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWANED  229 (240)
T ss_dssp             HHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC--
T ss_pred             HHHHHHHHHhCCCEEeccccccccccCCCCEEEEEEccCC
Confidence            99999999999988731          3356676666544

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=2.4e-11  Score=97.71  Aligned_cols=64  Identities=22%  Similarity=0.198  Sum_probs=54.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..| ++ ++.+                   .+ ||||+|++.++|++|++ |
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v-~~-~~~~-------------------g~-~afV~f~~~~~a~~ai~-l   64 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASV-VM-DKDK-------------------GV-FAIVEMGDVGAREAVLS-Q   64 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEE-EE-CSSS-------------------CC-EEEEEESSHHHHHHHHT-C
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEE-EE-cCCC-------------------Cc-EEEEEECCHHHHHHHHh-c
Confidence            5799999999999999999999999999988 32 2210                   13 99999999999999999 9


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        65 ~g~~~~g   71 (94)
T 2e5g_A           65 SQHSLGG   71 (94)
T ss_dssp             SCCEETT
T ss_pred             CCeEECC
Confidence            8876554

>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=99.18  E-value=2.1e-11  Score=105.38  Aligned_cols=76  Identities=18%  Similarity=0.211  Sum_probs=60.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeE--------EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKT--------IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVE  358 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~--------Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E  358 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..        |++...             +       ..+|||||+|.+.+
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~-------------g-------~~~g~afV~f~~~~  103 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKE-------------G-------RMKGQAFIGLPNEK  103 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEE-------------T-------TTEEEEEEECSSHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccC-------------C-------CcccEEEEEeCCHH
Confidence            3679999999999999999999999999876        333211             1       13899999999999


Q ss_pred             HHHHHHHHhcccccccccceEEEeec
Q 015730          359 LAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       359 ~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +|++|++.||+..+..  ..+.+.+.
T Consensus       104 ~A~~Ai~~lng~~~~g--~~l~V~~a  127 (143)
T 3egn_A          104 AAAKALKEANGYVLFG--KPMVVQFA  127 (143)
T ss_dssp             HHHHHHHHHTTBEETT--EECEEEEC
T ss_pred             HHHHHHHHhCCCEeCC--cEEEEEEC
Confidence            9999999999887654  34555554

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.17  E-value=1e-10  Score=105.14  Aligned_cols=64  Identities=27%  Similarity=0.308  Sum_probs=58.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++++++|+++|+.|| .|..|+++..                      .+|+|||+|++.++|.+|++.
T Consensus       120 ~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~----------------------~~g~afV~f~~~~~A~~A~~~  177 (198)
T 1qm9_A          120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK----------------------DRKMALIQMGSVEEAVQALID  177 (198)
T ss_dssp             CCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESST----------------------TSSCEEEECSSHHHHHHHHHH
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeC----------------------CCcEEEEEeCCHHHHHHHHHH
Confidence            67899999999999999999999999 9999998531                      178999999999999999999


Q ss_pred             hcccccc
Q 015730          367 LHFMIML  373 (401)
Q Consensus       367 ln~~~~~  373 (401)
                      ||+..+.
T Consensus       178 l~g~~~~  184 (198)
T 1qm9_A          178 LHNHDLG  184 (198)
T ss_dssp             HTSSCCS
T ss_pred             hcCCccC
Confidence            9998765

>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=99.17  E-value=2.6e-11  Score=111.96  Aligned_cols=77  Identities=16%  Similarity=0.199  Sum_probs=63.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCe--eEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSV--KTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V--~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+|||.++|+++|+++|+.||.|  ..|+++.++  +                 ..+|||||+|++.++|.+|+.
T Consensus       123 ~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~--~-----------------~~~g~gfV~f~~~~~A~~Ai~  183 (205)
T 3tyt_A          123 SNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK--S-----------------ERSSSGLLEWDSKSDALETLG  183 (205)
T ss_dssp             CSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC--S-----------------SSSEEEEEECSSHHHHHHHHH
T ss_pred             cceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC--C-----------------CCceEEEEEeCCHHHHHHHHH
Confidence            4579999999999999999999999999  899986432  0                 126899999999999999999


Q ss_pred             Hhccccccc--ccceEEEee
Q 015730          366 HLHFMIMLF--FFSAFCLMF  383 (401)
Q Consensus       366 ~ln~~~~~~--~~~~~~~~~  383 (401)
                      .||+..+..  ...+|.+.|
T Consensus       184 ~lng~~~~g~~~~~p~~vk~  203 (205)
T 3tyt_A          184 FLNHYQMKNPNGPYPYTLKL  203 (205)
T ss_dssp             HHTTCEECCSSSSSCEECEE
T ss_pred             HhCCCCccCCCCCcceEEEe
Confidence            999987666  334566554

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.17  E-value=3.4e-11  Score=104.76  Aligned_cols=78  Identities=13%  Similarity=0.072  Sum_probs=61.7

Q ss_pred             hheeccCC----CCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecC----HHH-
Q 015730          289 RIVVAENL----PEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYES----VEL-  359 (401)
Q Consensus       289 rtVyV~nL----P~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes----~E~-  359 (401)
                      ..|||+||    ++++++++|+++|+.||+|..++++.++.++.                 .+|||||+|.+    .++ 
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~-----------------slGfgfVef~d~~g~~d~a   65 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSAL-----------------PLHVYLIKYASSDGKINDA   65 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCC-----------------EEEEEEEECC------CCH
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc-----------------eeeEEEEEECCCCCCcchH
Confidence            57999999    99999999999999999999999998876653                 28999999996    333 


Q ss_pred             ---HHHHHH--HhcccccccccceEEEeecc
Q 015730          360 ---AEKAVS--HLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       360 ---A~kAv~--~ln~~~~~~~~~~~~~~~~~  385 (401)
                         |.+|++  .+|+..+..  ..+.+.+..
T Consensus        66 ~kAA~kAi~~~~lng~~I~G--r~irV~ln~   94 (136)
T 2j8a_A           66 AKAAFSAVRKHESSGCFIMG--FKFEVILNK   94 (136)
T ss_dssp             HHHHHHHHHHTTTTCEEETT--EEEEEEECC
T ss_pred             HHHHHHHHHHhhhcCCeecC--cEEEEEECc
Confidence               889988  566666554  356655543

>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=99.16  E-value=8e-11  Score=111.54  Aligned_cols=68  Identities=22%  Similarity=0.251  Sum_probs=58.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..|+|+++. ++                 ..+|||||+|++.++|.+|++.|
T Consensus        96 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-----------------~~~g~afV~f~~~~~A~~A~~~l  157 (261)
T 3sde_A           96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDD-RG-----------------RATGKGFVEFAAKPPARKALERC  157 (261)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEET-TS-----------------CEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCC-CC-----------------CcCcEEEEEeCCHHHHHHHHHHh
Confidence            5789999999999999999999999999999998752 11                 13899999999999999999999


Q ss_pred             cccccc
Q 015730          368 HFMIML  373 (401)
Q Consensus       368 n~~~~~  373 (401)
                      |+....
T Consensus       158 ~~~~~~  163 (261)
T 3sde_A          158 GDGAFL  163 (261)
T ss_dssp             HHSCEE
T ss_pred             cCCeEE
Confidence            654443

>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=99.15  E-value=5.1e-11  Score=110.61  Aligned_cols=66  Identities=23%  Similarity=0.292  Sum_probs=59.5

Q ss_pred             hhhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||. ++++++|+++|++||.|..|+|++++                      +|||||+|.+.++|++|++
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~----------------------~g~afV~F~~~~~A~~Ai~   90 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK----------------------KENALVQMADGNQAQLAMS   90 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT----------------------SCCEEEEESCHHHHHHHHH
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC----------------------CCEEEEEECCHHHHHHHHH
Confidence            478999999999 99999999999999999999997531                      6899999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .|++..+..
T Consensus        91 ~l~g~~~~g   99 (229)
T 2adc_A           91 HLNGHKLHG   99 (229)
T ss_dssp             HHTTCBCSS
T ss_pred             HhCCCeECC
Confidence            999876654

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.14  E-value=3.5e-11  Score=108.15  Aligned_cols=66  Identities=23%  Similarity=0.292  Sum_probs=59.1

Q ss_pred             hhhheeccCCCC-cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPE-DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~-d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      +.++|||+|||. ++++++|+++|+.||.|..|++++++                      +|||||+|.+.++|++|++
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~----------------------~g~afV~f~~~~~a~~A~~   59 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK----------------------KENALVQMADGNQAQLAMS   59 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC----------------------SSCCEEECTTTHHHHHHHH
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC----------------------CCEEEEEECCHHHHHHHHH
Confidence            368999999999 99999999999999999999986431                      6899999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .|++..+..
T Consensus        60 ~l~~~~~~g   68 (198)
T 1qm9_A           60 HLNGHKLHG   68 (198)
T ss_dssp             HHTTCCCSS
T ss_pred             HhCCCeecC
Confidence            999877654

>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=99.12  E-value=3.8e-10  Score=107.14  Aligned_cols=70  Identities=21%  Similarity=0.244  Sum_probs=61.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..|+++++..++.                 ++|||||+|.+.++|.+|++.|
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~A~~~l  157 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQ-----------------SKGYGFAEYMKKDSAARAKSDL  157 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCc-----------------cceEEEEEECCHHHHHHHHHHh
Confidence            57999999999999999999999999999999987643221                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus       158 ~~~~~~g  164 (284)
T 3smz_A          158 LGKPLGP  164 (284)
T ss_dssp             TTCEETT
T ss_pred             CCCEeCC
Confidence            9876544

>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=99.11  E-value=1.1e-10  Score=110.78  Aligned_cols=76  Identities=20%  Similarity=0.253  Sum_probs=62.5

Q ss_pred             hhhheeccCCCCcccHHHHH----HHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLM----KIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~----~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..++|||+|||.++|+++|+    ++|+.||.|..|++++.             +       ..+|||||+|++.++|++
T Consensus         8 ~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~-------------~-------~~~g~afV~f~~~~~a~~   67 (282)
T 3pgw_A            8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRS-------------L-------KMRGQAFVIFKEVSSATN   67 (282)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCC-------------C-------CcceEEEEEECCHHHHHH
Confidence            47899999999999999977    89999999999998641             1       138999999999999999


Q ss_pred             HHHHhcccccccccceEEEeec
Q 015730          363 AVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~~  384 (401)
                      |++.||+..+..  ..+.+.+.
T Consensus        68 A~~~l~g~~~~g--~~l~v~~a   87 (282)
T 3pgw_A           68 ALRSMQGFPFYD--KPMRIQYA   87 (282)
T ss_pred             HHHHhcCCeeCC--cEEEEEEe
Confidence            999999876554  34444443

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

Probab=99.11  E-value=1.2e-10  Score=110.26  Aligned_cols=65  Identities=25%  Similarity=0.300  Sum_probs=58.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..|++.+                       .+|||||+|.+.++|++|++.
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~-----------------------~kg~afV~f~~~~~A~~A~~~   77 (261)
T 3sde_A           21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR-----------------------DRGFGFIRLESRTLAEIAKAE   77 (261)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET-----------------------TTTEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC-----------------------CCcEEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999853                       278999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus        78 l~g~~i~g   85 (261)
T 3sde_A           78 LDGTILKS   85 (261)
T ss_dssp             HTTCEETT
T ss_pred             cCCcEECC
Confidence            98876544

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

Probab=99.09  E-value=1.9e-10  Score=95.69  Aligned_cols=80  Identities=19%  Similarity=0.149  Sum_probs=61.2

Q ss_pred             hhhheeccCCCC-----cccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          287 QSRIVVAENLPE-----DHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       287 ~~rtVyV~nLP~-----d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      ..++|++.|+-.     +.++++|++.|++||.|..|+|+++..+++                ..+|||||+|++.++|.
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~----------------~~~G~~FV~f~~~~~A~   70 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPD----------------DEAVRIFLEFERVESAI   70 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCT----------------TTSEEEEEEESSHHHHH
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCC----------------CCcEEEEEEECCHHHHH
Confidence            367899999952     236899999999999999999987532110                13899999999999999


Q ss_pred             HHHHHhcccccccccceEEEeec
Q 015730          362 KAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       362 kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +|++.||+.....  ..+.+.+.
T Consensus        71 ~Ai~~lnG~~~~G--r~i~v~~a   91 (105)
T 2pe8_A           71 KAVVDLNGRYFGG--RVVKACFY   91 (105)
T ss_dssp             HHHHHHTTCEETT--EECEEEEC
T ss_pred             HHHHHHCCCEECC--cEEEEEEc
Confidence            9999999887544  34454443

>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=99.07  E-value=1.5e-10  Score=115.52  Aligned_cols=63  Identities=21%  Similarity=0.289  Sum_probs=56.5

Q ss_pred             hhheeccC--CCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAEN--LPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~n--LP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+|  |+.++|+++|+++|++||+|+.|+|..                       .||||||+|++.++|++|++
T Consensus        18 s~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~-----------------------~kgfaFV~f~~~~~A~~Ai~   74 (345)
T 3tht_A           18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-----------------------NKPYSFARYRTTEESKRAYV   74 (345)
T ss_dssp             CSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT-----------------------TCSEEEEEESSHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-----------------------CCCEEEEEECCHHHHHHHHH
Confidence            67999999  578999999999999999999988731                       28999999999999999999


Q ss_pred             Hhcccccc
Q 015730          366 HLHFMIML  373 (401)
Q Consensus       366 ~ln~~~~~  373 (401)
                      .||+..++
T Consensus        75 ~lnG~~~~   82 (345)
T 3tht_A           75 TLNGKEVV   82 (345)
T ss_dssp             HTTTCEEE
T ss_pred             HhCCCccc
Confidence            99998775

>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=99.05  E-value=3.3e-10  Score=98.82  Aligned_cols=64  Identities=25%  Similarity=0.375  Sum_probs=55.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhcc----C-------CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEec
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAV----G-------SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYE  355 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~f----G-------~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFe  355 (401)
                      +.++|||+|||.++|+++|+++|++|    |       .|..+++.+                       .+|||||+|.
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~-----------------------~~g~afV~f~   59 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-----------------------DKNFAFLEFR   59 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET-----------------------TTTEEEEEES
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC-----------------------CCCEEEEEeC
Confidence            47899999999999999999999999    6       677776642                       2899999999


Q ss_pred             CHHHHHHHHHHhccccccc
Q 015730          356 SVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       356 s~E~A~kAv~~ln~~~~~~  374 (401)
                      +.++|++|+ .|++..+..
T Consensus        60 ~~~~A~~A~-~~~~~~~~g   77 (172)
T 2g4b_A           60 SVDETTQAM-AFDGIIFQG   77 (172)
T ss_dssp             SHHHHHHHG-GGTTCEETT
T ss_pred             CHHHHHHHH-HhCCcEecC
Confidence            999999999 888776544

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.03  E-value=6.3e-10  Score=95.50  Aligned_cols=91  Identities=12%  Similarity=0.095  Sum_probs=67.2

Q ss_pred             hhhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecC-HHHHHHHH
Q 015730          287 QSRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYES-VELAEKAV  364 (401)
Q Consensus       287 ~~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes-~E~A~kAv  364 (401)
                      ..++|||+||+.+ ++.++|+++|+.||.|..|.+.+.                       ...|||+|.+ .++|.+|+
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g-----------------------~~tgfVrf~~~~~~A~~av   73 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG-----------------------AKEGIILFKEKAKEALGKA   73 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT-----------------------CSEEEEEESSCHHHHHHHH
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecC-----------------------CCEEEEEECCChHHHHHHH
Confidence            4789999999999 999999999999999999998643                       2359999999 89999999


Q ss_pred             HHhcccccccccceEEEeecccCHHH--HHHHHHHHhh
Q 015730          365 SHLHFMIMLFFFSAFCLMFVTQTNEI--RTSFLADCRA  400 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~~~~~e~--R~~~~~~~~~  400 (401)
                      +.||+...........+.+-....|.  =+.+++|+.+
T Consensus        74 ~~ln~~~~~i~g~~~~~evL~GeeE~~yw~Ki~ed~~~  111 (121)
T 1owx_A           74 KDANNGNLQLRNKEVTWEVLEGEVEKEALKKIIEDQQE  111 (121)
T ss_dssp             HHTTTSCBCTTSSSEEEEECCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcCCcEEeCcEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            99976655553344444333322222  3455555543

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.99  E-value=4.3e-10  Score=92.68  Aligned_cols=66  Identities=18%  Similarity=0.260  Sum_probs=54.3

Q ss_pred             heeccCCCCcccHHH----HHHHHhcc-CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          290 IVVAENLPEDHCHQN----LMKIFSAV-GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       290 tVyV~nLP~d~t~ed----L~~lFs~f-G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +|||.|||++++.++    |.++|+.| |+|..|.                           .|+|||+|++.++|++|+
T Consensus        11 ~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt---------------------------gG~AfV~F~~~esA~~A~   63 (96)
T 2diu_A           11 LLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT---------------------------GCSAILRFINQDSAERAQ   63 (96)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC---------------------------TTCEEEEESSHHHHHHHH
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe---------------------------cCEEEEEECCHHHHHHHH
Confidence            499999999999887    55899999 5998881                           378999999999999999


Q ss_pred             HHhcccccccccceEEEeec
Q 015730          365 SHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +.|++..+..  +.+.+.+.
T Consensus        64 ~~l~G~~l~g--r~i~v~~A   81 (96)
T 2diu_A           64 KRMENEDVFG--NRIIVSFT   81 (96)
T ss_dssp             HHHTTCCSSS--SCCEEESS
T ss_pred             HHhcCCccCC--ceEEEEec
Confidence            9999887555  34444443

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

Probab=98.99  E-value=8.6e-10  Score=105.07  Aligned_cols=69  Identities=16%  Similarity=0.175  Sum_probs=58.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccC-CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVG-SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG-~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+|||.++++++|+++|+.|| .|..|++++++.           +       ..+|||||+|.+.++|.+|++.
T Consensus       117 ~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~-----------~-------~~~g~afV~f~~~~~a~~A~~~  178 (292)
T 2ghp_A          117 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF-----------N-------TSRRFAYIDVTSKEDARYCVEK  178 (292)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------------------------CCEEEEECSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCC-----------C-------CcceEEEEEECCHHHHHHHHHH
Confidence            68999999999999999999999999 999999975432           1       1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus       179 l~g~~~~g  186 (292)
T 2ghp_A          179 LNGLKIEG  186 (292)
T ss_dssp             HTTCEETT
T ss_pred             hCCCEeCC
Confidence            99877654

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

Probab=98.97  E-value=5.7e-10  Score=99.48  Aligned_cols=64  Identities=25%  Similarity=0.369  Sum_probs=53.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhcc----C-------CeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEec
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAV----G-------SVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYE  355 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~f----G-------~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFe  355 (401)
                      ..|+|||+|||.++|+++|+++|+.|    |       .|..+++.+                       .+|||||+|.
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~-----------------------~~g~afV~F~   59 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-----------------------DKNFAFLEFR   59 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET-----------------------TTTEEEEEES
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecC-----------------------CCCEEEEEeC
Confidence            36899999999999999999999999    4       555555521                       3899999999


Q ss_pred             CHHHHHHHHHHhccccccc
Q 015730          356 SVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       356 s~E~A~kAv~~ln~~~~~~  374 (401)
                      +.++|++|+ .|++..+..
T Consensus        60 ~~~~A~~Al-~l~g~~~~g   77 (198)
T 2yh0_A           60 SVDETTQAM-AFDGIIFQG   77 (198)
T ss_dssp             CSHHHHHHG-GGTTEEETT
T ss_pred             CHHHHHHHH-HhcCCEEcC
Confidence            999999999 888776543

>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=98.95  E-value=1.6e-09  Score=90.09  Aligned_cols=73  Identities=15%  Similarity=0.100  Sum_probs=57.0

Q ss_pred             hhheeccCCCCcc-----------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecC
Q 015730          288 SRIVVAENLPEDH-----------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYES  356 (401)
Q Consensus       288 ~rtVyV~nLP~d~-----------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes  356 (401)
                      .++|+|.||-...           ++++|+++|++||.|..|.|. ++                    ..+|||||+|++
T Consensus        15 s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~-~~--------------------~~~G~afV~f~~   73 (112)
T 2dit_A           15 ERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLF-DR--------------------HPDGVASVSFRD   73 (112)
T ss_dssp             CCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEE-TT--------------------CTTCEEEEECSC
T ss_pred             ceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEe-cC--------------------CCCEEEEEEECC
Confidence            6899999993322           257999999999999999763 21                    028999999999


Q ss_pred             HHHHHHHHHHhcccccccccceEEEee
Q 015730          357 VELAEKAVSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       357 ~E~A~kAv~~ln~~~~~~~~~~~~~~~  383 (401)
                      .++|++|++.||+..+..  ..+.+.+
T Consensus        74 ~~~A~~Ai~~lng~~~~g--r~l~v~~   98 (112)
T 2dit_A           74 PEEADYCIQTLDGRWFGG--RQITAQA   98 (112)
T ss_dssp             HHHHHHHHHHSTTCEETT--EECEEEE
T ss_pred             HHHHHHHHHHcCCCEECC--cEEEEEE
Confidence            999999999999877553  3444444

>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=98.93  E-value=1.5e-09  Score=90.19  Aligned_cols=80  Identities=21%  Similarity=0.198  Sum_probs=58.2

Q ss_pred             hhheeccCC--CCcc--------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH
Q 015730          288 SRIVVAENL--PEDH--------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV  357 (401)
Q Consensus       288 ~rtVyV~nL--P~d~--------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~  357 (401)
                      ++.|++.|+  +.+.        ..++|++.|++||.|..|+|.++.....        .       ..+|||||+|++.
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~--------~-------~~~G~~fV~f~~~   69 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE--------V-------PGCGKIFVEFTSV   69 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBC--------C-------TTTTEEEEEESSH
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCC--------c-------CCcEEEEEEECCH
Confidence            456677776  3222        3579999999999999999976542110        0       1389999999999


Q ss_pred             HHHHHHHHHhcccccccccceEEEeec
Q 015730          358 ELAEKAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      ++|++|++.||+.....  ..+.+.+.
T Consensus        70 ~~A~~Ai~~lnG~~f~G--R~i~v~~~   94 (105)
T 3v4m_A           70 FDCQKAMQGLTGRKFAN--RVVVTKYC   94 (105)
T ss_dssp             HHHHHHHHHHTTCEETT--EECEEEEE
T ss_pred             HHHHHHHHHhCCCEeCC--CEEEEEEe
Confidence            99999999999887544  34444443

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

Probab=98.92  E-value=3e-10  Score=99.71  Aligned_cols=69  Identities=20%  Similarity=0.221  Sum_probs=54.8

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|+.||.|..+.++ +.          +.+       ..+|||||+|.+.++|++|+ +
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~-~~----------~~~-------~~~g~afV~f~~~~~a~~A~-~   72 (175)
T 1fje_B           12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DV----------RTG-------TNRKFGYVDFESAEDLEKAL-E   72 (175)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCC-EE----------EEE-------TTTTEEEEEESSHHHHHHHH-H
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEE-EC----------CCC-------ccccEEEEEECCHHHHHHHH-h
Confidence            47899999999999999999999999987653222 11          111       23899999999999999999 5


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus        73 l~g~~~~g   80 (175)
T 1fje_B           73 LTGLKVFG   80 (175)
T ss_dssp             GGGEEETT
T ss_pred             cCCCEeCC
Confidence            98776554

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=5.8e-09  Score=86.29  Aligned_cols=50  Identities=22%  Similarity=0.214  Sum_probs=44.2

Q ss_pred             CcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          298 EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       298 ~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .++++++|+++|++||.|..|+|+.                      ..+|||||||++.++|++|++.+++
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~----------------------~~rGfaFVeF~~~~~A~~Ai~~~~~   76 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS----------------------KKPGTAVVEFATVKAAELAVQNEVG   76 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES----------------------SSSSEEEEEESCHHHHHHHHHTCCB
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc----------------------CCCCEEEEEECCHHHHHHHHHhcCC
Confidence            5689999999999999999999962                      1289999999999999999998654

>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=98.87  E-value=1.4e-09  Score=90.15  Aligned_cols=54  Identities=20%  Similarity=0.198  Sum_probs=42.8

Q ss_pred             HHHHHHH-hccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          303 QNLMKIF-SAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       303 edL~~lF-s~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      ++|++.| ++||.|..|+|+++..           +       ..+|||||+|++.++|++|++.||+.....
T Consensus        41 edl~~~f~~~~G~V~~v~i~~~~~-----------~-------~~~G~~fV~f~~~~~A~~A~~~lng~~~~G   95 (104)
T 1jmt_A           41 EEVFTEMEEKYGEVEEMNVCDNLG-----------D-------HLVGNVYVKFRREEDAEKAVIDLNNRWFNG   95 (104)
T ss_dssp             HHHHHHHHHHTCCEEEEEECCSSS-----------S-------SSEEEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             HHHHHHhhccCCceEEEEEEeCCC-----------C-------CccEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            4445555 9999999999976431           1       138999999999999999999999877544

>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=98.79  E-value=5.6e-09  Score=88.80  Aligned_cols=83  Identities=16%  Similarity=0.161  Sum_probs=59.4

Q ss_pred             hhhheeccCCC--Cc---ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          287 QSRIVVAENLP--ED---HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       287 ~~rtVyV~nLP--~d---~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      .+++|++.|+-  .+   -.+++|++.|++||.|..|+|.++..+...      .+       ..+||+||+|++.++|.
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~------~~-------~~~G~~FV~F~~~e~A~   85 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEE------DA-------EIIVKIFVEFSIASETH   85 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSST------TC-------EEEEEEEEEESSHHHHH
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCccc------CC-------cceEEEEEEECCHHHHH
Confidence            46778888873  22   236899999999999999999876421000      00       12799999999999999


Q ss_pred             HHHHHhcccccccccceEEEeec
Q 015730          362 KAVSHLHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       362 kAv~~ln~~~~~~~~~~~~~~~~  384 (401)
                      +|++.||+.....  ..+.+.+.
T Consensus        86 ~Ai~~LnGr~f~G--R~i~v~~~  106 (118)
T 3ue2_A           86 KAIQALNGRWFAG--RKVVAEVY  106 (118)
T ss_dssp             HHHHHHTTCEETT--EECEEEEE
T ss_pred             HHHHHHCCCEECC--cEEEEEEc
Confidence            9999999876443  34444443

>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=98.64  E-value=3.9e-08  Score=83.13  Aligned_cols=60  Identities=18%  Similarity=0.155  Sum_probs=48.3

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEE
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCL  381 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~  381 (401)
                      .++|++.|++||.|..|+|.++.                     .+|||||+|++.++|++|++.||+.....  ..+.+
T Consensus        31 ~edl~~~f~kfG~V~~v~i~~~~---------------------~~G~~fV~f~~~e~A~~Ai~~lnG~~f~G--R~i~v   87 (114)
T 3s6e_A           31 KDDVIEECNKHGGVIHIYVDKNS---------------------AQGNVYVKCPSIAAAIAAVNALHGRWFAG--KMITA   87 (114)
T ss_dssp             HHHHHHHHTTTTCCSEEEECTTC---------------------TTCCEEEECSSHHHHHHHHHHHTTCEETT--EECEE
T ss_pred             HHHHHHHHhccCCEEEEEEecCC---------------------CcEEEEEEECCHHHHHHHHHHhCCCEECC--EEEEE
Confidence            57899999999999999985421                     28999999999999999999999887544  34444


Q ss_pred             eec
Q 015730          382 MFV  384 (401)
Q Consensus       382 ~~~  384 (401)
                      .+.
T Consensus        88 ~~~   90 (114)
T 3s6e_A           88 AYV   90 (114)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            443

>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=98.10  E-value=4e-06  Score=77.07  Aligned_cols=71  Identities=11%  Similarity=0.074  Sum_probs=52.9

Q ss_pred             ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceE
Q 015730          300 HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAF  379 (401)
Q Consensus       300 ~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~  379 (401)
                      ...++|.+.|++||.|..|.|+++...++       ...      ..+|++||+|++.++|++|++.||+.....  ..+
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~-------~~~------~~~G~~fv~f~~~~~a~~a~~~l~gr~~~g--r~i  205 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEE-------EDA------EIIVKIFVEFSIASETHKAIQALNGRWFAG--RKV  205 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSS-------TTC------CEEEEEEEEESSHHHHHHHHHHHTTCBSSS--SBC
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcc-------cCc------CceeEEEEEECCHHHHHHHHHHhcCceECC--eEE
Confidence            35679999999999999999987643221       110      138999999999999999999999876444  445


Q ss_pred             EEeecc
Q 015730          380 CLMFVT  385 (401)
Q Consensus       380 ~~~~~~  385 (401)
                      .+.+..
T Consensus       206 ~~~~~~  211 (222)
T 3dxb_A          206 VAEVYD  211 (222)
T ss_dssp             EEEECC
T ss_pred             EEEEcC
Confidence            555443

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.99  E-value=8.5e-06  Score=66.42  Aligned_cols=55  Identities=20%  Similarity=0.204  Sum_probs=44.0

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEE
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCL  381 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~  381 (401)
                      ..+|...|+.||+|..||+..                         +.+||+|++.++|.+|++ ||+..+..  +.+.+
T Consensus        29 ~~~L~~~F~~~G~Vi~vr~~~-------------------------d~~fVtF~d~~sAlaAi~-mnG~~v~G--r~LkV   80 (91)
T 2dnr_A           29 IDELLQQFASFGEVILIRFVE-------------------------DKMWVTFLEGSSALNVLS-LNGKELLN--RTITI   80 (91)
T ss_dssp             HHHHHHHHHTTCCEEEEEECS-------------------------SSEEEEESSHHHHHHGGG-GTTCEETT--EEEEE
T ss_pred             HHHHHHHHHhCCCeEEEEEec-------------------------CCEEEEECChHHHHHHHh-cCCeEeCC--eEEEE
Confidence            467999999999999999963                         238999999999999998 99887655  34444


Q ss_pred             eec
Q 015730          382 MFV  384 (401)
Q Consensus       382 ~~~  384 (401)
                      .++
T Consensus        81 ~lk   83 (91)
T 2dnr_A           81 ALK   83 (91)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            443

>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=97.65  E-value=4.9e-05  Score=62.32  Aligned_cols=61  Identities=15%  Similarity=0.163  Sum_probs=47.9

Q ss_pred             hhheeccCCCCc-----c----cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHH
Q 015730          288 SRIVVAENLPED-----H----CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVE  358 (401)
Q Consensus       288 ~rtVyV~nLP~d-----~----t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E  358 (401)
                      ..||+|.-++.+     .    -..+|.+.|+.||+|..||+..+                       +  +||+|.+.+
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d-----------------------~--~fVtF~d~~   69 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG-----------------------Q--MLVTFADSH   69 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT-----------------------E--EEEECSCSH
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecC-----------------------c--EEEEEcChH
Confidence            457777665421     1    13579999999999999999742                       2  899999999


Q ss_pred             HHHHHHHHhccccccc
Q 015730          359 LAEKAVSHLHFMIMLF  374 (401)
Q Consensus       359 ~A~kAv~~ln~~~~~~  374 (401)
                      +|.+|++ ||+..+..
T Consensus        70 sAl~AI~-ldG~~v~G   84 (95)
T 1ufw_A           70 SALSVLD-VDGMKVKG   84 (95)
T ss_dssp             HHHHHHH-GGGSEETT
T ss_pred             HHHHHHh-cCCeeeCC
Confidence            9999998 99887766

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.07  E-value=0.0025  Score=53.71  Aligned_cols=65  Identities=9%  Similarity=0.037  Sum_probs=56.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhcc-----CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAV-----GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAE  361 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~f-----G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~  361 (401)
                      ..|+|-+-|||..++...|+.+.+.+     |.|+.|-++-+                       -+-|+|||++...|-
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pD-----------------------H~GAivef~d~~~Ag   76 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSD-----------------------FNGAIIIFRDSKFAA   76 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETT-----------------------TTEEEEECSCHHHHH
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecC-----------------------CCceEEEEccchhhH
Confidence            36899999999999999999999999     99999988632                       345999999999999


Q ss_pred             HHHHHhccccccc
Q 015730          362 KAVSHLHFMIMLF  374 (401)
Q Consensus       362 kAv~~ln~~~~~~  374 (401)
                      ||.-.|++.....
T Consensus        77 KasLaL~G~ef~g   89 (117)
T 2l9w_A           77 KMLMILNGSQFQG   89 (117)
T ss_dssp             HHHHHHSSEEETT
T ss_pred             HHHhhcCCeeecC
Confidence            9999999887664

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=96.13  E-value=0.0071  Score=49.77  Aligned_cols=53  Identities=23%  Similarity=0.392  Sum_probs=43.1

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .+++ +||......||+++|+.||-|.--.|                         +...|||.|.+++.|..|++.++
T Consensus        18 Vf~l-~FP~ewKt~DI~~lFs~fggv~I~Wi-------------------------dDTsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           18 VLHV-TFPKEWKTSDLYQLFSAFGNIQISWI-------------------------DDTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             EEEE-ECCTTCCHHHHHHHHTTTCSCCCEEE-------------------------ETTEEEEECSCHHHHHHHHHHHH
T ss_pred             EEEE-eCChhhhhHHHHHHhhccCCEEEEEE-------------------------cCCeEEEEecCHHHHHHHHHhcc
Confidence            3455 99999999999999999996543233                         14579999999999999999874

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.09  E-value=0.013  Score=48.67  Aligned_cols=54  Identities=17%  Similarity=0.182  Sum_probs=46.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhc-c----CCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSA-V----GSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~-f----G~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      .++|.|+|||.+++++.|+-+|+. -    |.|..|...                         .+.|+|+|.+.+.|++
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~-------------------------~~~AvItF~d~~va~r   62 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRL-------------------------GCGGVLTFREPADAER   62 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEE-------------------------TTEEEEEESSHHHHHH
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEc-------------------------CCcEEEEEcChHHHHH
Confidence            568999999999999999999987 2    688888763                         2459999999999999


Q ss_pred             HHHH
Q 015730          363 AVSH  366 (401)
Q Consensus       363 Av~~  366 (401)
                      .++.
T Consensus        63 VL~k   66 (104)
T 2dhx_A           63 VLAQ   66 (104)
T ss_dssp             HHTC
T ss_pred             HhcC
Confidence            9886

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.80  E-value=0.0038  Score=64.42  Aligned_cols=57  Identities=21%  Similarity=0.209  Sum_probs=41.9

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...|+|+|. ++...++.+|.++|++||.|.++-+-..                      ...||+|||.+.+++..++.
T Consensus        51 qa~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~----------------------~g~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           51 QAQRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYES----------------------FGLYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HHHTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECS----------------------SSEEEEEECC---CCHHHHS
T ss_pred             HhcceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEcc----------------------CCeEEEEEeCCHHHHHHHHh
Confidence            346899997 7999999999999999999999987321                      14589999999999988763

>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=95.75  E-value=0.0038  Score=51.53  Aligned_cols=53  Identities=23%  Similarity=0.389  Sum_probs=42.7

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .+++ +||.+....||+.+|+.||-|.--.|                         +...|||.|.+++.|..|++.++
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fggv~I~Wi-------------------------dDTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFGNIQISWI-------------------------DDTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSEEEEEEEE-------------------------ETTEEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccCCEEEEEE-------------------------cCCeEEEEecCHHHHHHHHHhcc
Confidence            3455 99999999999999999994432222                         14579999999999999999874

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=95.16  E-value=0.052  Score=46.11  Aligned_cols=61  Identities=18%  Similarity=0.207  Sum_probs=48.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+.|.|-+||... ...|.+.|++||+|.....  +.                     +..+..|.|+++.+|++||..
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~--~~---------------------~~NWihI~Y~s~~~A~rAL~k   78 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVM--SN---------------------TGNWMHIRYQSKLQARKALSK   78 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEE--CS---------------------SSSEEEEEESSHHHHHHHHTT
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHhhCcEEEecc--CC---------------------CCCeEEEEeCCHHHHHHHHHh
Confidence            46788888998885 6677888999999988875  21                     145789999999999999985


Q ss_pred             hccccc
Q 015730          367 LHFMIM  372 (401)
Q Consensus       367 ln~~~~  372 (401)
                       |+.++
T Consensus        79 -NG~ii   83 (119)
T 1wwh_A           79 -DGRIF   83 (119)
T ss_dssp             -TTCEE
T ss_pred             -CCeEe
Confidence             55544

>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=94.96  E-value=0.049  Score=44.06  Aligned_cols=70  Identities=14%  Similarity=0.086  Sum_probs=54.1

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|+|.+||.++|++++.+.++..+++...+.+..+.+.+         .   ..   -.-|||.|.+.|++....+.+++
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~---------~---~~---~SRaYi~f~~~e~v~~f~~~~~g   67 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLY---------P---HM---YARAYINFKNQEDIILFRDRFDG   67 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSST---------T---CC---CEEEEEEESSSHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCC---------C---Cc---ceEEEEEeCCHHHHHHHHHHhCC
Confidence            588999999999999999999999888877653221110         0   00   23499999999999999999988


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      .....
T Consensus        68 ~~F~D   72 (91)
T 1uw4_A           68 YVFLD   72 (91)
T ss_dssp             CEEEC
T ss_pred             cEEEc
Confidence            76555

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=93.14  E-value=0.068  Score=45.71  Aligned_cols=23  Identities=22%  Similarity=0.049  Sum_probs=21.4

Q ss_pred             cceEEEEecCHHHHHHHHHHhcc
Q 015730          347 KLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       347 KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||||+|.+.++|++|++.+++
T Consensus        13 ~G~~fV~f~~~~~A~~al~~~~~   35 (158)
T 2kn4_A           13 KGETTTEAVDAATAEKVFKQYAN   35 (158)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHhHHHHHHhhcc
Confidence            89999999999999999998864

>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=92.99  E-value=0.15  Score=42.26  Aligned_cols=64  Identities=17%  Similarity=0.056  Sum_probs=49.4

Q ss_pred             hheeccCCCCcc----cH-HHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          289 RIVVAENLPEDH----CH-QNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       289 rtVyV~nLP~d~----t~-edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .+|+|.||+.++    .. +.++++|..|+.+.....++                      +.+ =..|.|.+.++|.+|
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lk----------------------SFR-Rirv~F~~~~~A~~A   62 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----------------------SFK-RVRINFSNPLSAADA   62 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----------------------TTT-EEEEECSSTTHHHHH
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecC----------------------cce-EEEEEeCChHHHHHH
Confidence            579999998765    22 67899999999987766542                      012 267999999999999


Q ss_pred             HHHhcccccccc
Q 015730          364 VSHLHFMIMLFF  375 (401)
Q Consensus       364 v~~ln~~~~~~~  375 (401)
                      -.+|++...+..
T Consensus        63 R~~Lh~~~f~g~   74 (104)
T 1wey_A           63 RLRLHKTEFLGK   74 (104)
T ss_dssp             HHTSTTSEETTE
T ss_pred             HHHhccceecCc
Confidence            999988776553

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=92.19  E-value=0.28  Score=40.10  Aligned_cols=72  Identities=15%  Similarity=0.134  Sum_probs=49.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      +-.|+|..||.++|++++.+.++.+=.+.+.+.+..+.+          .+.  ..   -.-|||.|.+.|+.....+.+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s----------~~~--~~---~SRAYI~F~~~edv~~F~~~f   73 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLS----------LYP--HL---YSRAYINFRNPDDILLFRDRF   73 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSS----------SCC--SC---CCCCEEEESCHHHHHHHHHHS
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccC----------CCC--Cc---ceEEEEEeCCHHHHHHHHHHc
Confidence            346899999999999998887776555544333211100          110  11   123899999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++.....
T Consensus        74 ~g~~F~D   80 (97)
T 2l08_A           74 DGYIFLD   80 (97)
T ss_dssp             TTEEEEC
T ss_pred             CCcEEEe
Confidence            8887665

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=85.95  E-value=0.52  Score=40.62  Aligned_cols=77  Identities=12%  Similarity=0.136  Sum_probs=43.3

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..|.|=++|.+.+. .|-+.|++||.|.. +.+.++.. ... ......++.  +.|.+..+..|.|++..+|.+||.+ 
T Consensus         8 ~~VtVFGFp~~~~~-~VI~~Fs~~G~IlE~~~~~~~~~-~~~-~~~~~~k~y--P~f~g~NWikItYds~~~A~rAL~~-   81 (132)
T 3p3d_A            8 LAILVFGYPETMAN-QVIAYFQEFGTILEDFEVLRKPQ-AMT-VGLQDRQFV--PIFSGNSWTKITYDNPASAVDALLE-   81 (132)
T ss_dssp             CEEEEECCCGGGHH-HHHHHHGGGSCBCSCCGGGCCC-------------CC--CCCEETTEEEEEBSSHHHHHHHHTT-
T ss_pred             eEEEEEecCHHHHH-HHHHHHHhhceEeeecccccccc-ccc-ccccccccc--CccCCCcEEEEEcCCHHHHHHHHHh-
Confidence            34566689777655 45568999999854 22211100 000 000001111  2233467889999999999999984 


Q ss_pred             cccc
Q 015730          368 HFMI  371 (401)
Q Consensus       368 n~~~  371 (401)
                      |+.+
T Consensus        82 NG~i   85 (132)
T 3p3d_A           82 NGAV   85 (132)
T ss_dssp             TTCE
T ss_pred             CCeE
Confidence            4444

>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=84.96  E-value=1.3  Score=45.88  Aligned_cols=55  Identities=24%  Similarity=0.402  Sum_probs=43.4

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      ||+-.++..+...+|+++|+.||.|.-.++                         +..+|||.|.+.+.|..+++.++..
T Consensus       442 vl~v~f~~~~~~~~i~~~fs~fg~v~V~wi-------------------------ddt~a~V~~~~~~~a~~~l~~~~~~  496 (507)
T 3d45_A          442 VLHVTFPKEWKTSDLYQLFSAFGNIQISWI-------------------------DDTSAFVSLSQPEQVQIAVNTSKYA  496 (507)
T ss_dssp             EEEEECCTTCCHHHHHHHGGGGCCCEEEEC-------------------------SSSEEEEECSCHHHHHHHHHHHTTC
T ss_pred             EEEEeCCCCCCHHHHHHHHHhcCCEEEEEE-------------------------cCCeEEEEECCHHHHHHHHHHHHhC
Confidence            444459888889999999999996543333                         1457999999999999999998643

>2l4h_A Calcium and integrin-binding protein 1; metal binding protei; NMR {Homo sapiens} PDB: 2l4i_A 2lm5_A

Probab=83.15  E-value=0.27  Score=44.24  Aligned_cols=46  Identities=13%  Similarity=0.210  Sum_probs=23.8

Q ss_pred             CCChHHHHHHhhcccccccCCCcCcCHHHHHhhcc-----CC-C--Cceecccccc
Q 015730          192 GLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILK-----DP-E--GYVPISTVAS  239 (401)
Q Consensus       192 ~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~-----~~-e--G~Vpi~~i~s  239 (401)
                      .++.+.++.+.+..  .|+...+..=..++..+..     +. +  |+|...-+..
T Consensus        30 ~l~~e~l~~l~~~t--~~s~~ei~~l~~~F~~~D~~~~~~d~~~~dG~I~~~E~~~   83 (214)
T 2l4h_A           30 RLSKELLAEYQDLT--FLTKQEILLAHRRFCELLPQEQRSVESSLRAQVPFEQILS   83 (214)
T ss_dssp             -CCHHHHHHHHSCC--SCCHHHHHHHHHHHHHHSCGGGCCHHHHTTSEECHHHHTT
T ss_pred             CCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHhCcccccccccccCCcCCHHHHHH
Confidence            36777777776553  3444333321222333322     23 5  9998877766

>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=82.71  E-value=0.45  Score=40.32  Aligned_cols=24  Identities=21%  Similarity=0.025  Sum_probs=21.7

Q ss_pred             cceEEEEecCHHHHHHHHHHh-ccc
Q 015730          347 KLHAFVEYESVELAEKAVSHL-HFM  370 (401)
Q Consensus       347 KG~AFVEFes~E~A~kAv~~l-n~~  370 (401)
                      +|+++|||.+.++|++|++++ |+.
T Consensus        13 ~G~~~ve~~~~~~A~~a~~~~~ng~   37 (150)
T 2i2y_A           13 KGETTTEAVDAATAEKVFKQYANDN   37 (150)
T ss_dssp             CEEEEEECSSHHHHTTTHHHHHHHH
T ss_pred             cccceeeecCHHHHHHHHHHHhcCC
Confidence            899999999999999999999 443

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=80.51  E-value=0.78  Score=50.83  Aligned_cols=89  Identities=25%  Similarity=0.359  Sum_probs=65.3

Q ss_pred             CCChHHHHHHhhcccccccCCCcCcCH----HHHHhhccC--CCCceecccccchh-hHHhhhcC------------HHH
Q 015730          192 GLNDESIQKVLNQVEYYFSDLNLATTD----HLIRFILKD--PEGYVPISTVASFK-KIKAIISS------------HSH  252 (401)
Q Consensus       192 ~~~~e~~~kI~~QvEfYFSd~NL~~D~----fL~~~i~~~--~eG~Vpi~~i~sFk-KvK~lt~d------------~e~  252 (401)
                      ..++|..+.|+..|+|.|||+=|.-..    +|+--+.++  ..|.||+.+|+.+. |+..+++-            +..
T Consensus       102 ~~~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~~~~~~  181 (950)
T 3htx_A          102 LTVDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPFLAISY  181 (950)
T ss_dssp             CCHHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChHHHHHH
Confidence            335778899999999999998776654    444444454  45899999999996 77777752            245


Q ss_pred             HHHhhhcCcceEEeccccccccCCCCCcc
Q 015730          253 LASVLRKSSKLVVSEDGKKIKRQNPLTES  281 (401)
Q Consensus       253 I~eALk~S~~LEVsedg~kVRRk~Pl~e~  281 (401)
                      |..|...+..+.+++.+ -|+|..|++.+
T Consensus       182 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~~  209 (950)
T 3htx_A          182 VMKAAAKLADYIVASPH-GLRRKNAYPSE  209 (950)
T ss_dssp             HHHHHHHCCSSEEEETT-EEEESSCCCHH
T ss_pred             HHHHhhcCCCcEEeCCc-ccccCCCCCHH
Confidence            66666666555577666 99999999864

---

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	401
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	8e-32
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	1e-27
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	1e-25
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	8e-05
d1lzla_	317	c.69.1.2 (A:) Heroin esterase {Rhodococcus sp. [Ta	4e-04
d1nsja_	205	c.1.2.4 (A:) N-(5'phosphoribosyl)antranilate isome	9e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	0.001
d1jvra_	137	a.61.1.2 (A:) HTLV-II matrix protein {Human T-cell	0.003
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	0.003
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	0.004

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

 Score =  113 bits (285), Expect = 8e-32
 Identities = 31/86 (36%), Positives = 56/86 (65%)

Query: 193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSH 252
           L+ E+ QK+  QVE+YFSD+N+     L   + ++ EG+V + T+ +FK++ ++ +    
Sbjct: 6   LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKE 65

Query: 253 LASVLRKSSKLVVSEDGKKIKRQNPL 278
           +   +R S KLV+SEDG  ++R++PL
Sbjct: 66  VVEAIRPSEKLVLSEDGLMVRRRDPL 91

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  102 bits (257), Expect = 1e-27
 Identities = 24/80 (30%), Positives = 46/80 (57%), Gaps = 2/80 (2%)

Query: 195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLA 254
           ++  + +  Q+E+ FS  NL+   +LI  +  D + ++PI TVA+ ++IK + +    + 
Sbjct: 5   EDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDPDLIL 62

Query: 255 SVLRKSSKLVVSEDGKKIKR 274
            VLR S  + V E G+K++ 
Sbjct: 63  EVLRSSPMVQVDEKGEKVRP 82

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 97.6 bits (243), Expect = 1e-25
 Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 5/90 (5%)

Query: 199 QKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLR 258
            K+ +Q+EYYF D NL     L +  +K  EG+VP+  +  F ++  + +  + +   L 
Sbjct: 11  AKICHQIEYYFGDFNLPRDKFL-KEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALS 69

Query: 259 KSSK--LVVSEDGKKIKRQN--PLTESDLE 284
           KS    + +SED  KI+R    PL E   E
Sbjct: 70  KSKAELMEISEDKTKIRRSPSKPLPEVTDE 99

>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 = 38.8 bits (90), Expect = 8e-05
 Identities = 19/89 (21%), Positives = 31/89 (34%), Gaps = 17/89 (19%)

Query: 284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGML 343
           E ++   +   NLP       L  IF   GS+        + +                 
Sbjct: 2   ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT----------------- 44

Query: 344 FSNKLHAFVEYESVELAEKAVSHLHFMIM 372
              +  AFV Y   E A++A+S L+ +I 
Sbjct: 45  GRPRGVAFVRYNKREEAQEAISALNNVIP 73

>d1lzla_ c.69.1.2 (A:) Heroin esterase {Rhodococcus sp. [TaxId: 1831]} Length = 317

class: Alpha and beta proteins (a/b)
fold: alpha/beta-Hydrolases
superfamily: alpha/beta-Hydrolases
family: Carboxylesterase
domain: Heroin esterase
species: Rhodococcus sp. [TaxId: 1831]

 Score = 39.8 bits (91), Expect = 4e-04
 Identities = 7/139 (5%), Positives = 24/139 (17%), Gaps = 1/139 (0%)

Query: 35  SSFSRLNAKAPEFVPTRNPQSTQSKPQVQVQVQQPPQRVMMPPPPPPAAAMVHPHPPPP- 93
           ++F  L+ +    +           P  +         ++        +      P    
Sbjct: 1   TTFPTLDPELAAALTMLPKVDFADLPNARATYDALIGAMLADLSFDGVSLRELSAPGLDG 60

Query: 94  HPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHHQQHQQHQHHRNHNHHHHRHQN 153
            P        P  T     + +            ++      +  +       +      
Sbjct: 61  DPEVKIRFVTPDNTAGPVPVLLWIHGGGFAIGTAESSDPFCVEVARELGFAVANVEYRLA 120

Query: 154 HHHNNNNSHHQNNQYEDQQ 172
                    +         
Sbjct: 121 PETTFPGPVNDCYAALLYI 139

>d1nsja_ c.1.2.4 (A:) N-(5'phosphoribosyl)antranilate isomerase, PRAI {Thermotoga maritima [TaxId: 2336]} Length = 205

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: N-(5'phosphoribosyl)antranilate isomerase, PRAI
species: Thermotoga maritima [TaxId: 2336]

 Score = 38.0 bits (87), Expect = 9e-04
 Identities = 16/152 (10%), Positives = 36/152 (23%), Gaps = 11/152 (7%)

Query: 73  VMMPPPPPPAAAMVHPHPPPPHPPSPHHVYPPHGTGAFHVIPVHHQMHHQHHVPVQNYHH 132
           V  P      +           PP    V          ++ V   +             
Sbjct: 29  VFYPKSKRYISPEDARRISVELPPFVFRVGVFVNEEPEKILDVASYVQLNAVQLHGEEPI 88

Query: 133 QQHQQHQHHRNHNHHHHRHQNHHHNNNNSHHQNNQYEDQQEGEVPGVKDKKEKKDHQH-- 190
           +  ++                       ++ +     D +  E  G     +        
Sbjct: 89  ELCRKIAERILVIKAVGVSNERDMERALNYREFPILLDTKTPEYGGSGKTFDWSLILPYR 148

Query: 191 ---------GGLNDESIQKVLNQVEYYFSDLN 213
                    GGLN E+++  ++ V  +  D++
Sbjct: 149 DRFRYLVLSGGLNPENVRSAIDVVRPFAVDVS 180

>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 = 35.3 bits (81), Expect = 0.001
 Identities = 12/84 (14%), Positives = 31/84 (36%), Gaps = 19/84 (22%)

Query: 289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKL 348
           +++V+ NL       ++ ++F+  G++K       ++                    +  
Sbjct: 2   KLLVS-NLDFGVSDADIQELFAEFGTLKKAAVHYDRS------------------GRSLG 42

Query: 349 HAFVEYESVELAEKAVSHLHFMIM 372
            A V +E    A KA+   + + +
Sbjct: 43  TADVHFERKADALKAMKQYNGVPL 66

>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 = 34.2 bits (78), Expect = 0.003
 Identities = 11/78 (14%), Positives = 20/78 (25%), Gaps = 17/78 (21%)

Query: 295 NLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEY 354
            L      + L + F   G VK         +           +S G         FV +
Sbjct: 7   GLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK----------RSRG-------FGFVTF 49

Query: 355 ESVELAEKAVSHLHFMIM 372
                 +K ++     + 
Sbjct: 50  MDQAGVDKVLAQSRHELD 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 = 34.6 bits (79), Expect = 0.004
 Identities = 19/85 (22%), Positives = 30/85 (35%), Gaps = 20/85 (23%)

Query: 288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNK 347
           +RI+   NLP     + +  IF   G ++ IR      + G                   
Sbjct: 7   NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRG------------------- 47

Query: 348 LHAFVEYESVELAEKAVSHLHFMIM 372
             A+V YE +  A+ A  HL    +
Sbjct: 48  -TAYVVYEDIFDAKNACDHLSGFNV 71

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	401
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.94
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.89
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.89
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.62
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.61
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.59
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.58
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.57
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.56
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.55
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.55
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.55
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.54
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.54
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.54
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.54
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.54
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.54
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.53
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.53
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.52
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.51
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.5
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.5
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.5
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.5
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.5
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.49
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.49
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.49
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.49
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.49
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.48
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.48
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.48
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.48
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.48
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.47
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.47
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.47
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.47
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.46
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.46
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.46
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.45
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.45
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.45
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.45
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.45
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.44
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.44
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.43
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.42
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.42
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.41
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.41
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.41
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.4
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.4
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.4
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.39
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.39
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.39
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.39
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.38
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.36
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.36
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.34
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.34
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.34
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.32
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.32
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.31
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.3
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.3
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.29
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.29
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.28
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.27
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.27
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.25
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.23
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.15
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.15
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.1
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.09
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	99.08
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.9
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.74
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	95.23
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	92.96
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	92.12
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	90.04

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.94  E-value=2.1e-28  Score=199.01  Aligned_cols=91  Identities=35%  Similarity=0.619  Sum_probs=87.3

Q ss_pred             CCCCCChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecc
Q 015730          189 QHGGLNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSED  268 (401)
Q Consensus       189 ~~~~~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsed  268 (401)
                      ++..+++|..++|++||||||||+||.+|.||+++|.++.+|||+|++|++|+|||+++.+.+.|++||+.|..|||++|
T Consensus         2 s~~p~~~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed   81 (92)
T d1s29a_           2 SHMPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSED   81 (92)
T ss_dssp             TTSCCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTT
T ss_pred             CCCCCCHHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCCeEEEeCC
Confidence            45567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCCCC
Q 015730          269 GKKIKRQNPLT  279 (401)
Q Consensus       269 g~kVRRk~Pl~  279 (401)
                      |++|||+.||+
T Consensus        82 ~~~VRRk~plP   92 (92)
T d1s29a_          82 GLMVRRRDPLP   92 (92)
T ss_dssp             SSEEEESSCCC
T ss_pred             CCEEeeCCCCC
Confidence            99999999885

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=2.5e-24  Score=177.09  Aligned_cols=85  Identities=34%  Similarity=0.591  Sum_probs=77.4

Q ss_pred             hHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCc--ceEEecccccc
Q 015730          195 DESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSS--KLVVSEDGKKI  272 (401)
Q Consensus       195 ~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~--~LEVsedg~kV  272 (401)
                      .++.++|++||||||||+||.+|.||+++|..+ +|||+|++|++|+|||+++.+.+.|++||+.|.  .|+|++||++|
T Consensus         7 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~-eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~~~~lev~~d~~~v   85 (99)
T d1zh5a1           7 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKI   85 (99)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTT-TTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSSEE
T ss_pred             HHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcC-CCcccHHHHhcchHHHHHcCCHHHHHHHHHhCCCCeEEEcCCCcee
Confidence            456799999999999999999999999998655 899999999999999999999999999999987  59999999999


Q ss_pred             ccCC--CCCc
Q 015730          273 KRQN--PLTE  280 (401)
Q Consensus       273 RRk~--Pl~e  280 (401)
                      ||+.  |+++
T Consensus        86 RR~~~~plpe   95 (99)
T d1zh5a1          86 RRSPSKPLPE   95 (99)
T ss_dssp             EECTTSCCCC
T ss_pred             CCCCCCCCCC
Confidence            9974  5554

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=6.1e-25  Score=177.09  Aligned_cols=82  Identities=29%  Similarity=0.465  Sum_probs=77.7

Q ss_pred             CChHHHHHHhhcccccccCCCcCcCHHHHHhhccCCCCceecccccchhhHHhhhcCHHHHHHhhhcCcceEEecccccc
Q 015730          193 LNDESIQKVLNQVEYYFSDLNLATTDHLIRFILKDPEGYVPISTVASFKKIKAIISSHSHLASVLRKSSKLVVSEDGKKI  272 (401)
Q Consensus       193 ~~~e~~~kI~~QvEfYFSd~NL~~D~fL~~~i~~~~eG~Vpi~~i~sFkKvK~lt~d~e~I~eALk~S~~LEVsedg~kV  272 (401)
                      .++++.++|++||||||||+||.+|.||+++|  +.+|||+|++|++|+||++++.+.+.|++||++|..|||++||++|
T Consensus         3 ~~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m--~~~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~~S~~lev~~d~~~V   80 (88)
T d2cqka1           3 STEDLKECLKKQLEFCFSRENLSKDLYLISQM--DSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEKV   80 (88)
T ss_dssp             CHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHS--CTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSSEE
T ss_pred             ChHHHHHHHHHHHHhhCCHhhhCcCHHHHHhh--cCCCCEEhHHHhcChHHHHHcCCHHHHHHHHhcCCeEEEeCCCCEe
Confidence            35788899999999999999999999999985  6799999999999999999999999999999999999999999999


Q ss_pred             ccCC
Q 015730          273 KRQN  276 (401)
Q Consensus       273 RRk~  276 (401)
                      ||+.
T Consensus        81 Rr~~   84 (88)
T d2cqka1          81 RPSH   84 (88)
T ss_dssp             EECC
T ss_pred             ccCC
Confidence            9975

>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=99.62  E-value=6e-16  Score=122.18  Aligned_cols=81  Identities=20%  Similarity=0.257  Sum_probs=67.4

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ++.++|||+|||.++|+++|+++|++||.|..|++++++.++.                 ++|||||+|++.++|++|++
T Consensus         4 ~k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~-----------------~kg~afV~f~~~~~a~~Ai~   66 (85)
T d1fxla2           4 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV-----------------SRGVGFIRFDKRIEAEEAIK   66 (85)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccccccccc-----------------CCCeeEEEEcCHHHHHHHHH
Confidence            3467899999999999999999999999999999987643321                 38999999999999999999


Q ss_pred             HhcccccccccceEEEee
Q 015730          366 HLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~  383 (401)
                      .||+..+.....++.+.|
T Consensus        67 ~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2          67 GLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             HHTTCCCTTCSSCCEEEE
T ss_pred             HhCCCEeCCCCEEEEEEe
Confidence            999987665444555443

>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=99.61  E-value=6.7e-16  Score=121.65  Aligned_cols=80  Identities=24%  Similarity=0.250  Sum_probs=66.8

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .+.++|||+|||.++++++|+++|++||.|..|++++++.++.                 ++|||||+|++.++|++|++
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~-----------------~~g~afV~f~~~~~A~~Ai~   66 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGR-----------------PRGVAFVRYNKREEAQEAIS   66 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeeccccccc-----------------CceeEEEEECCHHHHHHHHH
Confidence            3467899999999999999999999999999999987653321                 38999999999999999999


Q ss_pred             HhcccccccccceEEEe
Q 015730          366 HLHFMIMLFFFSAFCLM  382 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~  382 (401)
                      .||+........++.+.
T Consensus        67 ~l~g~~~~g~~~~l~V~   83 (85)
T d1b7fa2          67 ALNNVIPEGGSQPLSVR   83 (85)
T ss_dssp             HHTTCCCTTCSSCCEEE
T ss_pred             HHCCCEeCCCCeEEEEE
Confidence            99998766543445544

>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=99.59  E-value=9.7e-16  Score=124.97  Aligned_cols=79  Identities=28%  Similarity=0.303  Sum_probs=66.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..|+|||+|||.++|+++|+++|++||+|..|+|++++.++.                 ++|||||+|.+.++|++|++.
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~-----------------~~g~afV~f~~~~~a~~ai~~   69 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGK-----------------PKGYGFCEYQDQETALSAMRN   69 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTE-----------------EEEEEEEECSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccccccccccceec-----------------cCCceEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987654321                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        70 l~~~~~~g--~~i~V~~a   85 (104)
T d1p1ta_          70 LNGREFSG--RALRVDNA   85 (104)
T ss_dssp             SSSBSCSS--SCBEEEET
T ss_pred             cCCCEECC--EEEEEEEC
Confidence            99877554  34555554

>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=99.58  E-value=1e-15  Score=122.93  Aligned_cols=82  Identities=21%  Similarity=0.131  Sum_probs=68.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++||||+|||.++|+++|+++|++||.|.+|++++++.++.                 .+|||||+|.+.++|++|++.
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~kg~afV~f~~~~~A~~Ai~~   68 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT-----------------ACGFCFVEYYSRADAENAMRY   68 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceecccccccccc-----------------ccceEEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeecccC
Q 015730          367 LHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      ||+..+..  ..+.+.+....
T Consensus        69 l~g~~~~g--r~i~V~~a~~~   87 (93)
T d1h2vz_          69 INGTRLDD--RIIRTDWDAGF   87 (93)
T ss_dssp             TTTSEETT--EECEEEEESCC
T ss_pred             hCCCEECC--EEEEEEEcCCC
Confidence            99887654  45556665433

>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=99.57  E-value=1.9e-15  Score=123.44  Aligned_cols=79  Identities=27%  Similarity=0.296  Sum_probs=65.0

Q ss_pred             hhhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          284 EELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       284 ~e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .+.+.+||||+|||.++|+++|+++|+.||.|..|+|++++.++.                 +||||||+|++.|+|++|
T Consensus        14 ~~~~~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~-----------------~kG~afV~F~~~e~a~~A   76 (101)
T d2cq4a1          14 EERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR-----------------SKGIAYVEFCEIQSVPLA   76 (101)
T ss_dssp             THHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSS-----------------CCCCEEEEESCGGGHHHH
T ss_pred             cccCCCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCcc-----------------ccceEEEEECCHHHHHHH
Confidence            444578999999999999999999999999999999987654332                 389999999999999999


Q ss_pred             HHHhcccccccccceEEEe
Q 015730          364 VSHLHFMIMLFFFSAFCLM  382 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~  382 (401)
                      ++ ||+..+..  ..+.+.
T Consensus        77 ~~-l~g~~~~G--~~l~V~   92 (101)
T d2cq4a1          77 IG-LTGQRLLG--VPIIVQ   92 (101)
T ss_dssp             HH-HTTEEETT--EEEEEE
T ss_pred             HH-HCCCEECC--EEEEEE
Confidence            95 98876543  344433

>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=99.56  E-value=1.3e-15  Score=121.04  Aligned_cols=77  Identities=21%  Similarity=0.267  Sum_probs=65.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+||||+|||.++|+++|+++|++||.|..|++++++.++.                 ++|||||+|++.++|++|++.|
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~-----------------~kg~afV~f~~~~~A~~ai~~l   67 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK-----------------HRGFAFVEFELAEDAAAAIDNM   67 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCC-----------------CSSEEEECCSSHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEeccccccccccc-----------------ccceeEEEECCHHHHHHHHHHc
Confidence            58999999999999999999999999999999987654321                 3899999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus        68 ~~~~i~g--~~l~v~~   81 (89)
T d2cqba1          68 NESELFG--RTIRVNL   81 (89)
T ss_dssp             TTEEETT--EEEEEEE
T ss_pred             CCCEECC--EEEEEEE
Confidence            9876554  3444444

>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=99.55  E-value=3.7e-15  Score=118.27  Aligned_cols=78  Identities=22%  Similarity=0.261  Sum_probs=64.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|+.||.|..|++++++.++.                 ++|||||+|++.++|++|++.
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------~~g~afV~f~~~~~A~~A~~~   68 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF-----------------SKGYALVEYETHKQALAAKEA   68 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSS-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccc-----------------cccceeEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999987643321                 389999999999999999999


Q ss_pred             hcccccccccceEEEee
Q 015730          367 LHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~  383 (401)
                      ||+..+..  ..+.+.+
T Consensus        69 lng~~l~g--~~l~V~~   83 (88)
T d1rk8a_          69 LNGAEIMG--QTIQVDW   83 (88)
T ss_dssp             HTTCEETT--EECEEEE
T ss_pred             cCCCEECC--EEEEEEE
Confidence            99876544  3444444

>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=99.55  E-value=3.2e-15  Score=116.52  Aligned_cols=70  Identities=23%  Similarity=0.341  Sum_probs=61.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|+|++++.++                 ..+|||||+|++.++|++|++.|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g-----------------~~~g~afV~f~~~~~A~~ai~~l   64 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTG-----------------YSYGYAFVDFTSEMDSQRAIKVL   64 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTT-----------------EECSEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccC-----------------CccccceEEECCHHHHHHHHHHh
Confidence            4689999999999999999999999999999998764322                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        65 ng~~~~g   71 (82)
T d1b7fa1          65 NGITVRN   71 (82)
T ss_dssp             TTCEETT
T ss_pred             CCCEECC
Confidence            9876544

>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=4.8e-15  Score=118.91  Aligned_cols=70  Identities=21%  Similarity=0.236  Sum_probs=62.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|.+.++|++|++.|
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~-----------------~kg~afV~f~~~~~A~~Ai~~l   71 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQ-----------------HQGYGFVEFLSEEDADYAIKIM   71 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCS-----------------BCSCEEEEESSHHHHHHHHHHS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccc-----------------cccceEEEECCHHHHHHHHHHc
Confidence            57999999999999999999999999999999987654321                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        72 ~g~~~~g   78 (93)
T d1x5ua1          72 DMIKLYG   78 (93)
T ss_dssp             SSCBCSS
T ss_pred             CCCEECC
Confidence            9887655

>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=99.54  E-value=6.1e-15  Score=114.75  Aligned_cols=69  Identities=19%  Similarity=0.352  Sum_probs=60.3

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      ++|||+|||.++++++|+++|++||.|..|+++++...+                 ..+|||||+|.+.++|++|++.||
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~-----------------~~~g~afv~f~~~~~a~~a~~~l~   65 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITG-----------------QSLGYGFVNYIDPKDAEKAINTLN   65 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTC-----------------CEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCC-----------------CceeeEEEEECCHHHHHHHHHHhC
Confidence            469999999999999999999999999999998754322                 138999999999999999999999


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +..+..
T Consensus        66 g~~~~g   71 (82)
T d1fxla1          66 GLRLQT   71 (82)
T ss_dssp             TCEETT
T ss_pred             CCEECC
Confidence            876554

>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=99.54  E-value=2.3e-15  Score=119.47  Aligned_cols=81  Identities=15%  Similarity=0.168  Sum_probs=66.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|+.||.|..|.++++..++.                 .+|||||+|++.++|++|++.
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~-----------------~~g~afV~f~~~~~a~~Ai~~   66 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQR-----------------SRGFGFVTFENIDDAKDAMMA   66 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCS-----------------CCSEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeecccccccc-----------------ccceEEEEECCHHHHHHHHHH
Confidence            367899999999999999999999999999999876543221                 389999999999999999999


Q ss_pred             hcccccccccceEEEeeccc
Q 015730          367 LHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~  386 (401)
                      |++..+..  ..+.+.+...
T Consensus        67 l~~~~~~g--~~l~V~~a~~   84 (90)
T d1x5sa1          67 MNGKSVDG--RQIRVDQAGK   84 (90)
T ss_dssp             HTTCCTTS--CCCEEEEEEC
T ss_pred             cCCCEECC--EEEEEEEcCC
Confidence            99876544  3455554433

>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=99.54  E-value=3.4e-15  Score=118.84  Aligned_cols=77  Identities=23%  Similarity=0.289  Sum_probs=64.7

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.+||||+|||.++|+++|+++|+.||.|..|++++++.                   ..+|||||+|++.++|++|++.
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~-------------------~~~~~afV~f~~~~~A~~A~~~   67 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT-------------------SNDPYCFVEFYEHRDAAAALAA   67 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCC-------------------SSCCEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccC-------------------ccceeeEEEECCHHHHHHHHHH
Confidence            468999999999999999999999999999999976532                   1278999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        68 l~~~~~~g--~~i~v~~a   83 (90)
T d2cqia1          68 MNGRKILG--KEVKVNWA   83 (90)
T ss_dssp             HTTEEETT--EEEEEEEC
T ss_pred             cCCCEECC--EEEEEEEc
Confidence            99887654  34444443

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=6.7e-15  Score=115.17  Aligned_cols=70  Identities=21%  Similarity=0.195  Sum_probs=61.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|.+|+|++++.++.                 ++|||||+|++.++|++|++.|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~-----------------~~g~afV~f~~~~~A~~Ai~~l   71 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR-----------------SRGFAFVYFENVDDAKEAKERA   71 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSS-----------------EEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccc-----------------cccceEEEECCHHHHHHHHHHc
Confidence            67999999999999999999999999999999987643221                 3899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        72 ~g~~~~g   78 (83)
T d2cqca1          72 NGMELDG   78 (83)
T ss_dssp             TTEEETT
T ss_pred             CCCEECC
Confidence            9876543

>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=99.54  E-value=7.3e-15  Score=118.78  Aligned_cols=81  Identities=22%  Similarity=0.201  Sum_probs=66.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|++.++|++|++.|
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~-----------------~~g~afV~f~~~~~a~~A~~~l   70 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKK-----------------PKGFAFVTFMFPEHAVKAYAEV   70 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCC-----------------CCSEEEEEESSHHHHHHHHHHT
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccc-----------------cCcceEEEECCHHHHHHHHHHc
Confidence            56799999999999999999999999999999976543321                 3899999999999999999999


Q ss_pred             cccccccccceEEEeecccC
Q 015730          368 HFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~~~  387 (401)
                      |+..+..  ..+.+.+...+
T Consensus        71 ~g~~~~g--r~i~V~~a~~~   88 (99)
T d1whwa_          71 DGQVFQG--RMLHVLPSTIK   88 (99)
T ss_dssp             TTEESSS--CEEEEEECCCC
T ss_pred             CCCEECC--EEEEEEECCCC
Confidence            9876544  45555555443

>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=99.54  E-value=5.9e-15  Score=114.94  Aligned_cols=75  Identities=21%  Similarity=0.329  Sum_probs=63.6

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|.+.++|++|++.|++
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------~~g~aFV~f~~~~~a~~ai~~l~g   64 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRR-----------------SLGYAYVNFQQPADAERALDTMNF   64 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHTTSTT
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccC-----------------CCCceEEEECCHHHHHHHHHHcCC
Confidence            699999999999999999999999999999987654332                 389999999999999999999998


Q ss_pred             cccccccceEEEee
Q 015730          370 MIMLFFFSAFCLMF  383 (401)
Q Consensus       370 ~~~~~~~~~~~~~~  383 (401)
                      ..+..  ..+.+.+
T Consensus        65 ~~~~g--r~i~v~~   76 (80)
T d1cvja1          65 DVIKG--KPVRIMW   76 (80)
T ss_dssp             CEETT--EECEEEE
T ss_pred             CEECC--EEEEEEE
Confidence            87654  3444443

>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=99.53  E-value=4.9e-15  Score=122.37  Aligned_cols=74  Identities=24%  Similarity=0.377  Sum_probs=62.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .|+|||+|||.++|+++|+++|++||.|..|++....                    ..+|||||+|.+.++|.+|++.|
T Consensus         7 ~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~--------------------~~kG~afV~f~~~~~A~~Ai~~l   66 (114)
T d2f9da1           7 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP--------------------ETRGTAYVVYEDIFDAKNACDHL   66 (114)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST--------------------TTTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccC--------------------CcCCeEEEEECCHHHHHHHHHHh
Confidence            6899999999999999999999999999999986421                    13899999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus        67 ~g~~~~g--r~l~V~~   80 (114)
T d2f9da1          67 SGFNVCN--RYLVVLY   80 (114)
T ss_dssp             TTCEETT--EECEEEE
T ss_pred             CCCEECC--EEEEEEE
Confidence            9887655  3444444

>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=99.53  E-value=3.4e-15  Score=121.77  Aligned_cols=81  Identities=16%  Similarity=0.298  Sum_probs=66.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..++++++..++.                 +||||||+|++.++|++|++.|
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~-----------------~kG~afV~f~~~~~A~~Ai~~l   80 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL-----------------SKCFGFVSYDNPVSAQAAIQSM   80 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCS-----------------EEEEEEEECSSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCC-----------------CccceEEEeCCHHHHHHHHHHh
Confidence            57899999999999999999999999999999987643221                 3899999999999999999999


Q ss_pred             cccccccccceEEEeecccC
Q 015730          368 HFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~~~  387 (401)
                      |+..+..  ..+.+.+...+
T Consensus        81 ng~~~~g--~~i~V~~a~~k   98 (102)
T d2cpza1          81 NGFQIGM--KRLKVQLKRSK   98 (102)
T ss_dssp             TTCEETT--EECEEECCCCS
T ss_pred             CCCEECC--EEEEEEEeCCC
Confidence            9877554  45555554443

>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=99.52  E-value=9.5e-15  Score=124.81  Aligned_cols=79  Identities=15%  Similarity=0.266  Sum_probs=66.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|.+.++|++|++.
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~-----------------~rg~afV~f~~~~~A~~Ai~~  103 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ-----------------SRGYGFVKFQSGSSAQQAIAG  103 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTE-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccccccccccccccc-----------------ccceeeEEECCHHHHHHHHHH
Confidence            357899999999999999999999999999999987654321                 389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus       104 lng~~~~g--r~l~V~~a  119 (139)
T d1u6fa1         104 LNGFNILN--KRLKVALA  119 (139)
T ss_dssp             TTTEECSS--CEEEEEES
T ss_pred             hCCCEECC--EEEEEEEc
Confidence            99887654  45555554

>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=99.51  E-value=1.1e-14  Score=115.62  Aligned_cols=77  Identities=21%  Similarity=0.270  Sum_probs=63.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||.++|+++|+++|+.||.|..++|+.++.                   .++|||||+|++.++|++|++.|
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~-------------------~~kg~afV~f~~~~~A~~Ai~~l   68 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN-------------------GSKGYGFVHFETQEAAERAIEKM   68 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTT-------------------BCCSCEEEEESCHHHHHHHTTSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecC-------------------CCcceeEEEECCHHHHHHHHHHc
Confidence            45799999999999999999999999999999975421                   13899999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      |+..+..  ..+.+.+..
T Consensus        69 ~g~~~~g--~~i~V~~a~   84 (89)
T d1cvja2          69 NGMLLND--RKVFVGRFK   84 (89)
T ss_dssp             SEEEETT--EEEEEEECC
T ss_pred             CCCEECC--EEEEEEECC
Confidence            9877554  345554443

>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=99.51  E-value=1.8e-14  Score=113.49  Aligned_cols=68  Identities=18%  Similarity=0.204  Sum_probs=58.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|.+.++|++|++ 
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------~kG~afV~f~~~~~a~~ai~-   66 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR-----------------SRGFGFVTYATVEEVDAAMN-   66 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCC-----------------cccEEEEEEcCHHHHHHHHH-
Confidence            357999999999999999999999999999999987654332                 38999999999999999997 


Q ss_pred             hccccc
Q 015730          367 LHFMIM  372 (401)
Q Consensus       367 ln~~~~  372 (401)
                      +++..+
T Consensus        67 ~~~~~i   72 (84)
T d1l3ka1          67 ARPHKV   72 (84)
T ss_dssp             TCSCEE
T ss_pred             hCCCEE
Confidence            455543

>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=99.50  E-value=1.9e-14  Score=113.41  Aligned_cols=68  Identities=19%  Similarity=0.291  Sum_probs=60.9

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||.++|+++|+++|++||.|..|+|++++.++.                 .+|||||+|.+.++|++|++.|++
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~-----------------~rg~aFV~f~~~~~A~~a~~~l~~   65 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGL-----------------SKGYAFCEYVDINVTDQAIAGLNG   65 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSC-----------------CCCEEEEEESSSHHHHHHHHTSSS
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccc-----------------cceeEEEEECCHHHHHHHHHHhCC
Confidence            599999999999999999999999999999988654332                 389999999999999999999998


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+..
T Consensus        66 ~~l~g   70 (85)
T d2u2fa_          66 MQLGD   70 (85)
T ss_dssp             CCCSS
T ss_pred             CEECC
Confidence            77665

>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=99.50  E-value=1.5e-14  Score=115.71  Aligned_cols=64  Identities=25%  Similarity=0.337  Sum_probs=56.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|.+.++|++|++.+
T Consensus         8 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------srG~aFV~f~~~~~a~~al~~~   70 (90)
T d2cqga1           8 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGH-----------------SKGFGFVRFTEYETQVKVMSQR   70 (90)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCS-----------------EEEEEEEEESSHHHHHHHHHSC
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcc-----------------cCCEEEEEECCHHHHHHHHhcC
Confidence            57899999999999999999999999999999988754332                 3899999999999999999864


Q ss_pred             c
Q 015730          368 H  368 (401)
Q Consensus       368 n  368 (401)
                      +
T Consensus        71 ~   71 (90)
T d2cqga1          71 H   71 (90)
T ss_dssp             E
T ss_pred             C
Confidence            3

>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=99.50  E-value=1.3e-14  Score=115.37  Aligned_cols=71  Identities=24%  Similarity=0.324  Sum_probs=62.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++++++|+++|++||.|..|+|.+++.++.                 ++|||||+|++.++|++|++.
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~-----------------~rg~afV~f~~~~~A~~Ai~~   69 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ-----------------SKGFAFISFHRREDAARAIAG   69 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCS-----------------EEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccc-----------------cccceeEEECCHHHHHHHHHH
Confidence            357899999999999999999999999999999987653321                 389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      |++..+..
T Consensus        70 l~g~~~~g   77 (90)
T d2cq0a1          70 VSGFGYDH   77 (90)
T ss_dssp             TTTCEETT
T ss_pred             hCCCEECC
Confidence            99876544

>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=99.50  E-value=1.4e-14  Score=112.76  Aligned_cols=69  Identities=14%  Similarity=0.132  Sum_probs=57.2

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      +||||+|||.++|+++|+++|++||.|..+.+++....+                 .++|||||+|.+.++|++|++.||
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~-----------------~~~g~afV~f~~~e~A~~Ai~~l~   64 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFN-----------------TSRRFAYIDVTSKEDARYCVEKLN   64 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC------------------------CCEEEEECSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccc-----------------cccceeEEEECCHHHHHHHHHHhC
Confidence            799999999999999999999999999888776543211                 138999999999999999999999


Q ss_pred             cccccc
Q 015730          369 FMIMLF  374 (401)
Q Consensus       369 ~~~~~~  374 (401)
                      +..+..
T Consensus        65 g~~~~g   70 (81)
T d2ghpa1          65 GLKIEG   70 (81)
T ss_dssp             TCEETT
T ss_pred             CCEECC
Confidence            886554

>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=99.50  E-value=2.5e-14  Score=112.89  Aligned_cols=78  Identities=21%  Similarity=0.255  Sum_probs=62.1

Q ss_pred             hhhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHH
Q 015730          285 ELQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAV  364 (401)
Q Consensus       285 e~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv  364 (401)
                      +...|+|||+|||.++|+++|+++|+.||.|..|+|+++.+           +       ..||||||+|++.|+|++|+
T Consensus         3 ~~~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~-----------~-------~~kG~afV~f~~~e~a~~al   64 (85)
T d1zh5a2           3 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-----------K-------AFKGSIFVVFDSIESAKKFV   64 (85)
T ss_dssp             HHHTTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-----------C-------CEEEEEEEEESCHHHHHHHH
T ss_pred             CCCcCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeecc-----------C-------CcceEEEEEEcCHHHHHHHH
Confidence            45689999999999999999999999999999999976431           1       13899999999999999999


Q ss_pred             HHhcccccccccceEEEee
Q 015730          365 SHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       365 ~~ln~~~~~~~~~~~~~~~  383 (401)
                      + +++.....  ..+.+++
T Consensus        65 ~-~~~~~~~g--~~l~v~~   80 (85)
T d1zh5a2          65 E-TPGQKYKE--TDLLILF   80 (85)
T ss_dssp             T-CCCCEETT--EECEEEE
T ss_pred             H-HCCCEECC--EEEEEEE
Confidence            6 56544333  3444444

>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=99.49  E-value=2.9e-14  Score=114.42  Aligned_cols=81  Identities=21%  Similarity=0.332  Sum_probs=64.2

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|+|.++....         +       .++|||||+|.+.++|++|++.
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~---------g-------~~rg~afV~f~~~~~A~~Ai~~   70 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGT---------G-------AHRGFGFVDFITKQDAKKAFNA   70 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSS---------C-------SSCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccC---------C-------CcccEEEEEECCHHHHHHHHHH
Confidence            36789999999999999999999999999999997543210         1       1389999999999999999999


Q ss_pred             h-cccccccccceEEEeecc
Q 015730          367 L-HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 l-n~~~~~~~~~~~~~~~~~  385 (401)
                      | |+..+.  +..+.+.+..
T Consensus        71 l~~~~~~~--Gr~l~V~~A~   88 (94)
T d2cpha1          71 LCHSTHLY--GRRLVLEWAD   88 (94)
T ss_dssp             HHTCCBSS--SCBCEEEECC
T ss_pred             ccCCcEEC--CEEEEEEEcC
Confidence            8 554433  3456666553

>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=99.49  E-value=1.7e-14  Score=109.69  Aligned_cols=67  Identities=24%  Similarity=0.314  Sum_probs=58.8

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+|||.++|+++|+++|++||.|..+++.+...++                 ..+|||||+|++.++|++|++.||+.
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~-----------------~~~g~afV~f~~~~~A~~Ai~~lng~   63 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTN-----------------KCKGYGFVDFDSPSAAQKAVTALKAS   63 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSC-----------------SCCSEEEEEESCHHHHHHHHHHHHHH
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccc-----------------cccceeEEEECCHHHHHHHHHHhCCC
Confidence            7999999999999999999999999999998654322                 13899999999999999999999987


Q ss_pred             cccc
Q 015730          371 IMLF  374 (401)
Q Consensus       371 ~~~~  374 (401)
                      .+..
T Consensus        64 ~~~G   67 (72)
T d1x4ea1          64 GVQA   67 (72)
T ss_dssp             TCCE
T ss_pred             EECC
Confidence            7554

>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=99.49  E-value=2.8e-14  Score=114.26  Aligned_cols=68  Identities=22%  Similarity=0.324  Sum_probs=58.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|++||.|..+++++....+                 .++|||||+|.+.++|++|++.
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~-----------------~~~g~afV~F~~~~~a~~ai~~   69 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTE-----------------HSKGCAFAQFMTQEAAQKCLAA   69 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC-----------------CBCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccc-----------------cccceEEEEEcCHHHHHHHHHH
Confidence            36899999999999999999999999999999987654321                 1389999999999999999999


Q ss_pred             hcccc
Q 015730          367 LHFMI  371 (401)
Q Consensus       367 ln~~~  371 (401)
                      |+...
T Consensus        70 l~~~~   74 (98)
T d1x4ha1          70 ASLEA   74 (98)
T ss_dssp             HCTTT
T ss_pred             ccccc
Confidence            98554

>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=99.49  E-value=1.5e-14  Score=118.04  Aligned_cols=66  Identities=18%  Similarity=0.244  Sum_probs=58.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||.|.+|+|++++.++.                 ++|||||+|++.++|++|++.+
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------~kg~afV~f~~~~~A~~Ai~~~   72 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGK-----------------SRGYGFVTMADRAAAERACKDP   72 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCC-----------------CCSEEEEEESSHHHHHHHHTCS
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccc-----------------cCCeEEEEECCHHHHHHHHHHC
Confidence            46799999999999999999999999999999987654322                 3899999999999999999998


Q ss_pred             ccc
Q 015730          368 HFM  370 (401)
Q Consensus       368 n~~  370 (401)
                      |..
T Consensus        73 ~~~   75 (103)
T d2cqda1          73 NPI   75 (103)
T ss_dssp             SCE
T ss_pred             CCc
Confidence            763

>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=2.8e-14  Score=111.91  Aligned_cols=77  Identities=23%  Similarity=0.295  Sum_probs=62.8

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+|||.++|+++|+++|++||.|.+|+|.+++.++.              ....||||||+|++.++|++|++.||+.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~--------------~~~~kG~afV~f~~~~~A~~A~~~~~~~   66 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAG--------------VLLSMGFGFVEYKKPEQAQKALKQLQGH   66 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTC--------------CEEEEEEEEEEESSHHHHHHHHHHSTTC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceeccccccc--------------ccccceEEEEEECCHHHHHHHHHHhCCC
Confidence            79999999999999999999999999999987643221              0123899999999999999999999987


Q ss_pred             ccccccceEEEee
Q 015730          371 IMLFFFSAFCLMF  383 (401)
Q Consensus       371 ~~~~~~~~~~~~~  383 (401)
                      .+..  ..+.+.+
T Consensus        67 ~~~g--~~i~V~~   77 (85)
T d2cpfa1          67 TVDG--HKLEVRI   77 (85)
T ss_dssp             EETT--EECEEEC
T ss_pred             EECC--EEEEEEE
Confidence            6544  3555554

>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=99.48  E-value=1.5e-14  Score=112.25  Aligned_cols=67  Identities=13%  Similarity=0.103  Sum_probs=57.8

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      |.|||+|||.++|+++|+++|++||.|..++|.+++.++.                 +||||||+|+++++|++|++ +|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~-----------------~kG~aFV~f~~~~~a~~al~-~~   62 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR-----------------SRGFGFVTFMDQAGVDKVLA-QS   62 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSS-----------------CSSEEEECCCCTTHHHHHHH-TT
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCC-----------------ccceEEEEECCHHHHHHHHH-cC
Confidence            5799999999999999999999999999999987654332                 38999999999999999997 56


Q ss_pred             ccccc
Q 015730          369 FMIML  373 (401)
Q Consensus       369 ~~~~~  373 (401)
                      +..+.
T Consensus        63 ~~~i~   67 (77)
T d1uawa_          63 RHELD   67 (77)
T ss_dssp             TCCCS
T ss_pred             CCEEC
Confidence            65543

>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=99.48  E-value=2.6e-14  Score=117.31  Aligned_cols=75  Identities=24%  Similarity=0.219  Sum_probs=62.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...|||+||++++|+++|+++|++||.|..|+|++.+                     .+|||||+|++.++|++|++.|
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~---------------------~~g~aFV~f~~~e~A~~Ai~~l   65 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---------------------NQFQALLQYADPVSAQHAKLSL   65 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET---------------------TEEEEEEEESCHHHHHHHHHHH
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC---------------------CCCeEEEEECCHHHHHHHHHHH
Confidence            4679999999999999999999999999999987531                     2789999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+......+.+.+
T Consensus        66 n~~~l~~~~~~l~v~~   81 (108)
T d2adba1          66 DGQNIYNACCTLRIDF   81 (108)
T ss_dssp             HSCCSSTTCCCCEEEE
T ss_pred             CCCEeccCCcEEEEEe
Confidence            9987754333444433

>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=99.48  E-value=5.8e-14  Score=112.32  Aligned_cols=77  Identities=17%  Similarity=0.244  Sum_probs=64.3

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|++||.|..|++++++.                   +.+|||||+|++.++|++|++.
T Consensus        10 ~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~-------------------~~kg~afV~f~~~~~a~~Ai~~   70 (93)
T d2cq3a1          10 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER-------------------GSKGFGFVTFENSADADRAREK   70 (93)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT-------------------TTCCEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcceeeecccccccc-------------------CCcceeEEEECCHHHHHHHHHH
Confidence            357899999999999999999999999999999986431                   1389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        71 l~~~~~~g--~~l~V~~A   86 (93)
T d2cq3a1          71 LHGTVVEG--RKIEVNNA   86 (93)
T ss_dssp             HTTCEETT--EECEEEEC
T ss_pred             cCCCEECC--EEEEEEec
Confidence            99876554  34554443

>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=99.48  E-value=5.7e-14  Score=108.82  Aligned_cols=67  Identities=16%  Similarity=0.156  Sum_probs=58.7

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||.++++++|+++|++||.|..|+|+++++           ++       .+|||||+|++.++|++|++.||+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~-----------g~-------~~g~afV~f~~~~~A~~Ai~~l~g   63 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRS-----------GR-------SLGTADVHFERKADALKAMKQYNG   63 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSC-----------CC-------SCCEEEEEESCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeec-----------cc-------cceeEEEEECCHHHHHHHHHHhCC
Confidence            389999999999999999999999999999976531           11       389999999999999999999998


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+..
T Consensus        64 ~~l~g   68 (78)
T d1no8a_          64 VPLDG   68 (78)
T ss_dssp             CEETT
T ss_pred             CEECC
Confidence            76554

>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=99.48  E-value=3.8e-14  Score=109.14  Aligned_cols=65  Identities=20%  Similarity=0.246  Sum_probs=55.8

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||.++|+++|+++|++||.|..|+|++++.+++                 .+|||||+|.+.++|++|++ +++
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~-----------------~kg~afV~f~~~~~a~~Al~-~~~   62 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGR-----------------SRGFGFVLFKESESVDKVMD-QKE   62 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTB-----------------CCSEEEEEESSHHHHHHHHH-TCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCC-----------------cCceEEEEECCHHHHHHHHh-cCC
Confidence            389999999999999999999999999999987644321                 38999999999999999997 565


Q ss_pred             ccc
Q 015730          370 MIM  372 (401)
Q Consensus       370 ~~~  372 (401)
                      ..+
T Consensus        63 ~~l   65 (75)
T d1hd0a_          63 HKL   65 (75)
T ss_dssp             CCB
T ss_pred             CEE
Confidence            543

>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=99.47  E-value=3.7e-14  Score=116.09  Aligned_cols=69  Identities=14%  Similarity=0.159  Sum_probs=58.7

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|++||.|..++|.+++.++                 .++|||||+|.+.++|++|++
T Consensus        18 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~-----------------~~kg~aFV~f~~~~~a~~al~   80 (103)
T d1x4ba1          18 EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK-----------------RSRGFGFVTFSSMAEVDAAMA   80 (103)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTS-----------------SCCSEEEEECSSHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCC-----------------CccCeEEEEECCHHHHHHHHH
Confidence            346899999999999999999999999999999998764322                 248999999999999999996


Q ss_pred             Hhccccc
Q 015730          366 HLHFMIM  372 (401)
Q Consensus       366 ~ln~~~~  372 (401)
                       +++..+
T Consensus        81 -~~~~~l   86 (103)
T d1x4ba1          81 -ARPHSI   86 (103)
T ss_dssp             -SCSEEE
T ss_pred             -hCCCeE
Confidence             566543

>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=99.47  E-value=3.6e-14  Score=115.23  Aligned_cols=70  Identities=20%  Similarity=0.252  Sum_probs=61.0

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|+.||.|..+++..+.+           +       ..+|||||+|++.++|++|++.
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~-----------~-------~~~g~afV~f~~~~~A~~Ai~~   78 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSS-----------G-------TSRGVGFARMESTEKCEAVIGH   78 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSS-----------S-------CEEEEEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccc-----------c-------ccccceeEEeCCHHHHHHHHHH
Confidence            357899999999999999999999999999999875421           1       1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        79 lng~~i~g   86 (101)
T d1x5oa1          79 FNGKFIKT   86 (101)
T ss_dssp             HBTCCCCC
T ss_pred             hCCCEECC
Confidence            99987665

>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=99.47  E-value=6.2e-14  Score=109.78  Aligned_cols=65  Identities=23%  Similarity=0.262  Sum_probs=58.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .+||||+|||.++|+++|+++|+.||.|..|++++.                      .+|||||+|++.++|++|++.|
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~----------------------~~g~afV~f~~~~~A~~A~~~l   65 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN----------------------RHDIAFVEFTTELQSNAAKEAL   65 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT----------------------TCSCEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc----------------------cceeEEEecCCHHHHHHHHHHh
Confidence            689999999999999999999999999999999642                      1789999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        66 ~g~~~~~   72 (83)
T d2b0ga1          66 QGFKITP   72 (83)
T ss_dssp             TTCBSST
T ss_pred             CCcEeCC
Confidence            9876543

>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=99.47  E-value=4.1e-14  Score=114.20  Aligned_cols=72  Identities=18%  Similarity=0.167  Sum_probs=62.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|.+|+|+++                       ||||||+|++.++|++|+..|
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~-----------------------kg~afV~f~~~~~A~~Ai~~l   74 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-----------------------KGYSFVRFSTHESAAHAIVSV   74 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-----------------------TTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec-----------------------ceEEEEEECCHHHHHHHHHHh
Confidence            568999999999999999999999999999999742                       789999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      ++..+..  ..+.+.+.
T Consensus        75 ~~~~i~g--~~l~v~~a   89 (96)
T d1x4ga1          75 NGTTIEG--HVVKCYWG   89 (96)
T ss_dssp             TTCEETT--EECEEECC
T ss_pred             CCCEECC--EEEEEEEc
Confidence            9887655  34444443

>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=99.46  E-value=6.3e-14  Score=112.94  Aligned_cols=74  Identities=19%  Similarity=0.230  Sum_probs=64.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..|++.+                       .++||||+|++.++|++|++.|
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~-----------------------~~~~afV~f~~~~~A~~A~~~l   73 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK-----------------------GDSFAYIQYESLDAAQAACAKM   73 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS-----------------------SSCCEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeec-----------------------cccEEEeccCCHHHHHHHHHHh
Confidence            58999999999999999999999999999999853                       2789999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+......+.+.+.
T Consensus        74 ~~~~i~g~~~~l~v~~a   90 (97)
T d1whya_          74 RGFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             TTCBCSSSSCBCEEEEC
T ss_pred             CCCEeCCCceEEEEEeC
Confidence            99876654445555554

>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=99.46  E-value=5.6e-14  Score=114.73  Aligned_cols=66  Identities=24%  Similarity=0.301  Sum_probs=58.3

Q ss_pred             hhheeccCCC-CcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLP-EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP-~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+||+ ..+|+++|+++|+.||.|..|+|++++                      +|||||+|++.++|++|++.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~----------------------kg~afV~f~~~~~A~~ai~~   59 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK----------------------KENALVQMADGNQAQLAMSH   59 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT----------------------SCCEEEEESCHHHHHHHHHH
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc----------------------cceEEEEECCHHHHHHHHHH
Confidence            4689999995 569999999999999999999997531                      78999999999999999999


Q ss_pred             hcccccccc
Q 015730          367 LHFMIMLFF  375 (401)
Q Consensus       367 ln~~~~~~~  375 (401)
                      ||+..+...
T Consensus        60 lng~~l~g~   68 (109)
T d2adca1          60 LNGHKLHGK   68 (109)
T ss_dssp             HTTCBCSSS
T ss_pred             hCCCEECCE
Confidence            998876653

>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=99.46  E-value=4e-14  Score=111.72  Aligned_cols=80  Identities=20%  Similarity=0.289  Sum_probs=61.0

Q ss_pred             hhhheeccCCCCcccH-HHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCH-QNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~-edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      +.++|||+|||.++|. ++|+++|++||.|+.|+|......         .+       .++|||||+|++.++|++|++
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~---------~~-------~~kg~afV~f~~~~~a~~Al~   66 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKE---------HS-------FNNCCAFMVFENKDSAERALQ   66 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-------------------CCCEEEEEEESSHHHHHHHGG
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCC---------cc-------ccceeeeEEECCHHHHHHHHh
Confidence            4789999999999865 569999999999999998643110         01       248999999999999999995


Q ss_pred             HhcccccccccceEEEeecc
Q 015730          366 HLHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~  385 (401)
                       ||+..+..  ..+.+.+..
T Consensus        67 -~n~~~~~g--r~l~V~~a~   83 (86)
T d2ghpa3          67 -MNRSLLGN--REISVSLAD   83 (86)
T ss_dssp             -GTTEEETT--EEEEEEECC
T ss_pred             -cCCCEECC--EEEEEEEcC
Confidence             88776543  455555443

>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=99.45  E-value=2.5e-14  Score=113.84  Aligned_cols=74  Identities=18%  Similarity=0.236  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHH---HHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNL---MKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL---~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      +.++|||+|||.++++++|   .++|++||.|..|+|.+++.++.       .+       ..+|||||+|++.++|++|
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~-------~~-------~~~g~aFV~f~~~~~A~~A   72 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAG-------SQ-------GPSASAYVTYIRSEDALRA   72 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCS-------SS-------CCCEEEEEEESSHHHHHHH
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCC-------CC-------CcceEEEEecccchhHHHH
Confidence            4678999999999999999   67899999999999987654321       11       2378999999999999999


Q ss_pred             HHHhccccccc
Q 015730          364 VSHLHFMIMLF  374 (401)
Q Consensus       364 v~~ln~~~~~~  374 (401)
                      ++.||+.....
T Consensus        73 i~~lng~~~~g   83 (89)
T d2cpia1          73 IQCVNNVVVDG   83 (89)
T ss_dssp             HHHHTTEEETT
T ss_pred             HHHhCCCEECC
Confidence            99999877544

>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=99.45  E-value=6.2e-14  Score=110.82  Aligned_cols=76  Identities=18%  Similarity=0.210  Sum_probs=62.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .+++|||+|||.++++++|+++|+.||.|..|++.+                       .+|||||+|++.++|++|++.
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~-----------------------~~~~afV~f~~~e~A~~a~~~   63 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK-----------------------GKNQAFLELATEEAAITMVNY   63 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccc-----------------------cceEEEEEeCCHHHHHHHHHH
Confidence            478999999999999999999999999999999863                       278999999999999999998


Q ss_pred             hcccccccccceEEEeecc
Q 015730          367 LHFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~  385 (401)
                      ++.......+..+.+.+..
T Consensus        64 ~~~~~~~~~g~~l~v~~sk   82 (88)
T d2cq1a1          64 YSAVTPHLRNQPIYIQYSN   82 (88)
T ss_dssp             HHHSCCEETTEECEEEECS
T ss_pred             HccCCCccCCCEEEEEECC
Confidence            8755444444555555543

>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=99.45  E-value=7.6e-14  Score=113.84  Aligned_cols=74  Identities=18%  Similarity=0.208  Sum_probs=62.6

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|.++|+.||.|+.|++.+.                       ||+|||||++.|+|++|++.|
T Consensus        15 s~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~-----------------------k~~AfV~f~~~e~A~~ai~~~   71 (104)
T d1wexa_          15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF-----------------------KRQALVEFENIDSAKECVTFA   71 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT-----------------------TTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec-----------------------ceeEEEEeCCHHHHHHHHHHH
Confidence            679999999999999999999999999999998632                       789999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      +...+......+.+.+.
T Consensus        72 ~~~~~~~~g~~l~v~~s   88 (104)
T d1wexa_          72 ADVPVYIAGQQAFFNYS   88 (104)
T ss_dssp             HHSCCBSSSSBCEEEEC
T ss_pred             cCCCcEEeeEEEEEEEc
Confidence            76554444455555554

>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=99.45  E-value=5e-14  Score=109.95  Aligned_cols=75  Identities=17%  Similarity=0.255  Sum_probs=60.1

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      |||+|||.++|+++|+++|++||.|.. +++++++.++.                 ++|||||+|++.++|++|++.|++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~-----------------~~g~afV~f~~~~~a~~Ai~~~~g   63 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGN-----------------SKGYAFINFASFDASDAAIEAMNG   63 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCS-----------------CCSEEEEEBSSHHHHHHHHHTTTT
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccc-----------------cCceEEEEECCHHHHHHHHHhCCC
Confidence            799999999999999999999999865 47765543221                 389999999999999999999998


Q ss_pred             cccccccceEEEeec
Q 015730          370 MIMLFFFSAFCLMFV  384 (401)
Q Consensus       370 ~~~~~~~~~~~~~~~  384 (401)
                      ..+...  .+.+.+.
T Consensus        64 ~~~~gr--~l~v~~a   76 (83)
T d1x5ta1          64 QYLCNR--PITVSYA   76 (83)
T ss_dssp             CEETTE--ECEEEES
T ss_pred             cEECCE--EEEEEEe
Confidence            766543  4444443

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=7.6e-14  Score=114.12  Aligned_cols=65  Identities=25%  Similarity=0.337  Sum_probs=58.5

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++++++|+++|+.||+|..|+|..                       .+|||||+|++.++|++|++.
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~-----------------------~kg~afV~f~~~~~A~~A~~~   65 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-----------------------GGITAIVEFLEPLEARKAFRH   65 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-----------------------SSSCEEEEESCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec-----------------------cCceEEEEEcCHHHHHHHHHH
Confidence            357899999999999999999999999999998731                       278999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        66 lng~~~~g   73 (111)
T d1whxa_          66 LAYSKFHH   73 (111)
T ss_dssp             HTTCBSSS
T ss_pred             HcCCccCC
Confidence            99887665

>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=99.44  E-value=3.3e-14  Score=109.99  Aligned_cols=62  Identities=15%  Similarity=0.280  Sum_probs=54.2

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .|||+|||.++|+++|+++|++||.|..|+|++++.++.                 ++|||||+|++.++|++|++..+
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~-----------------~rG~~FV~f~~~~~a~~al~~~~   62 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNK-----------------RRGFCFITFKEEEPVKKIMEKKY   62 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCC-----------------TTCCEEEEESSSHHHHHHTTCSS
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccc-----------------cccEEEEEECCHHHHHHHHhhCC
Confidence            389999999999999999999999999999987654332                 38999999999999999997533

>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=99.44  E-value=7.7e-14  Score=112.03  Aligned_cols=81  Identities=17%  Similarity=0.178  Sum_probs=65.5

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCC-eeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGS-VKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~-V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      |.|||+|||.++|+++|+++|++||. |..|+|+++....         +       .++|||||+|++.++|.+|++.|
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~---------~-------~~rg~aFV~F~~~~~A~~Ai~~l   65 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADK---------M-------KNRGFAFVEYESHRAAAMARRKL   65 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTT---------T-------TTCCEEEEEESSHHHHHHHHTTT
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeecccc---------c-------cCCCeEEEEEcCHHHHHHHHHHH
Confidence            57999999999999999999999996 8999987542110         0       14899999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      ++......+..+.+.+..
T Consensus        66 ~~~~~~~~g~~i~V~~A~   83 (96)
T d2disa1          66 MPGRIQLWGHQIAVDWAE   83 (96)
T ss_dssp             TTCCSCBTTBCCEEEESC
T ss_pred             cCCCeEECCEEEEEEEcC
Confidence            876665555666666653

>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=99.43  E-value=1.7e-13  Score=108.18  Aligned_cols=74  Identities=23%  Similarity=0.237  Sum_probs=61.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..++++..+                     ++|||||+|++.++|.+|+..|
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~---------------------~~~~afV~f~~~~~A~~A~~~l   68 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK---------------------DRKMALIQMGSVEEAVQALIDL   68 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS---------------------STTCEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeec---------------------ccceeEEEECCHHHHHHHHHhc
Confidence            5799999999999999999999999999888775321                     2789999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      ++..+... ..+.+.|
T Consensus        69 ~~~~i~~g-~~l~v~~   83 (88)
T d2adca2          69 HNHDLGEN-HHLRVSF   83 (88)
T ss_dssp             TTCBSSSS-CBCEEEE
T ss_pred             cCCEecCC-CEEEEEe
Confidence            98765432 3344444

>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=99.42  E-value=9.1e-14  Score=109.85  Aligned_cols=61  Identities=23%  Similarity=0.148  Sum_probs=56.2

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||.++++++|+++|++||.|..+++.+                        +|||||+|++.++|++||+.|++
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~------------------------~g~afV~f~~~~~a~~Ai~~l~g   57 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR------------------------DGTGVVEFVRKEDMTYAVRKLDN   57 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT------------------------TSEEEEEESSHHHHHHHHHHHTT
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhcccccccccc------------------------cceeeEEeCCHHHHHHHHHHhCC
Confidence            599999999999999999999999999999842                        68999999999999999999998


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+..
T Consensus        58 ~~~~g   62 (87)
T d3begb1          58 TKFRS   62 (87)
T ss_dssp             CBCCC
T ss_pred             CEECC
Confidence            88665

>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=99.42  E-value=1.6e-13  Score=105.85  Aligned_cols=69  Identities=19%  Similarity=0.299  Sum_probs=58.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .|+|||+|||.++|+++|+++|++||.|..+.++.++.++.                 .+|||||+|.+.|+|++|++ +
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~-----------------~~g~afV~f~~~e~~~~al~-~   63 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK-----------------KRGFAFVTFDDHDSVDKIVI-Q   63 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHH-C
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcc-----------------cccEEEEEEcCHHHHHHHHH-h
Confidence            47899999999999999999999999999999987643221                 38999999999999999985 7


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        64 ~~~~l~G   70 (79)
T d1l3ka2          64 KYHTVNG   70 (79)
T ss_dssp             SCCEETT
T ss_pred             CCCEECC
Confidence            7665433

>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=99.41  E-value=1.3e-13  Score=108.81  Aligned_cols=71  Identities=24%  Similarity=0.287  Sum_probs=61.2

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..|++.+                       .+|||||+|++.++|++|++.|
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~-----------------------~k~~afV~f~~~~~A~~A~~~l   64 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK-----------------------DKGFGFIRLETRTLAEIAKVEL   64 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET-----------------------TTTEEEEECSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeec-----------------------ccceEEEEECCHHHHHHHHHHh
Confidence            45799999999999999999999999999999863                       2789999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus        65 ~g~~i~g--~~l~V~~   78 (86)
T d2cpja1          65 DNMPLRG--KQLRVRF   78 (86)
T ss_dssp             TTCCBTT--BCCEEEE
T ss_pred             CCCEECC--EEEEEEE
Confidence            9887655  3444443

>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=99.41  E-value=7.3e-14  Score=113.28  Aligned_cols=78  Identities=22%  Similarity=0.223  Sum_probs=62.1

Q ss_pred             hhhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ..++|||+|||.+ +|+++|.++|+.||.|..|+++++                       +|||||+|++.++|.+|++
T Consensus        17 ~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~-----------------------k~~afV~f~~~~~A~~Ai~   73 (99)
T d1x4fa1          17 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM-----------------------KSQAFIEMETREDAMAMVD   73 (99)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT-----------------------TTEEEEECSSHHHHHHHHH
T ss_pred             CCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec-----------------------CCcEEEEecchHHHHHHHH
Confidence            4689999999986 899999999999999999999642                       7899999999999999999


Q ss_pred             HhcccccccccceEEEeecccC
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQT  387 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~~  387 (401)
                      .++.....+.+..+.+.+..++
T Consensus        74 ~~~~~~~~~~gr~l~V~~s~~~   95 (99)
T d1x4fa1          74 HCLKKALWFQGRCVKVDLSEKY   95 (99)
T ss_dssp             HHHHSCCCSSSSCCEEEEECSC
T ss_pred             HHhcCCceECCEEEEEEEcCCc
Confidence            6654443444455555555443

>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=99.41  E-value=2.2e-13  Score=103.87  Aligned_cols=67  Identities=19%  Similarity=0.331  Sum_probs=57.2

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|||+|||.++|+++|+++|+.||.|..+.+++++.++.                 .+|||||+|++.++|++|++ +|+
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~-----------------~~~~afV~F~~~~~a~~al~-~~~   62 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR-----------------HRGFGFVTFESEDIVEKVCE-IHF   62 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTT-----------------SCCEEEEECSCHHHHHHHHH-CSS
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccc-----------------cCceeEEEECCHHHHHHHHh-cCC
Confidence            389999999999999999999999999999876543221                 38999999999999999996 887


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      ..+..
T Consensus        63 ~~l~g   67 (75)
T d2msta_          63 HEINN   67 (75)
T ss_dssp             CCBTT
T ss_pred             CEECC
Confidence            76544

>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=99.40  E-value=1.8e-13  Score=106.19  Aligned_cols=71  Identities=20%  Similarity=0.179  Sum_probs=59.9

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+||||+||+  +|+++|+++|++||.|..|++.+                       .+|||||+|++.++|.+|+++
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~-----------------------~~~~afV~f~~~~~A~~Ai~~   58 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP-----------------------PRNCAFVTYEKMESADQAVAE   58 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEET-----------------------TTTEEEEECSSHHHHHHHHHH
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeecc-----------------------CCCEEEEEEcccHHHHHHHHH
Confidence            36799999985  89999999999999999999853                       278999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+...  .+.+.+.
T Consensus        59 lng~~~~g~--~l~V~~a   74 (79)
T d2bz2a1          59 LNGTQVESV--QLKVNIA   74 (79)
T ss_dssp             HTTCBCSSC--BCEEEEC
T ss_pred             hCCCEECCE--EEEEEEe
Confidence            998876553  4444444

>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=99.40  E-value=2.9e-13  Score=109.53  Aligned_cols=63  Identities=22%  Similarity=0.127  Sum_probs=58.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++||+|+.++|.+                        +|||||+|.+.++|++||+.|
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~------------------------~g~afV~f~~~~~a~~Ai~~l   70 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK------------------------DGMGMVEYLRKEDMEYALRKL   70 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET------------------------TTEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhcccccccccc------------------------cceEEEEECCHHHHHHHHHHh
Confidence            56899999999999999999999999999999842                        689999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        71 ng~~~~g   77 (98)
T d1wg4a_          71 DDTKFRS   77 (98)
T ss_dssp             SSEEEEC
T ss_pred             CCCEeCC
Confidence            9887666

>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=99.40  E-value=1.6e-13  Score=105.82  Aligned_cols=64  Identities=19%  Similarity=0.268  Sum_probs=55.2

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhc
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLH  368 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln  368 (401)
                      .||||+|||.++++++|+++|+.||.|..|+|++++.                   +.++||||+|++.++|++|++ ++
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~-------------------~~~~~afV~F~~~~~a~~Al~-~~   60 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK-------------------KNFRFARIEFARYDGALAAIT-KT   60 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTT-------------------SSSEEEEEEESSHHHHHHHHT-TT
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeecc-------------------ccceEEEEEEcchHHhHHHHH-hc
Confidence            3799999999999999999999999999999986532                   126799999999999999985 77


Q ss_pred             cccc
Q 015730          369 FMIM  372 (401)
Q Consensus       369 ~~~~  372 (401)
                      +..+
T Consensus        61 ~~~i   64 (75)
T d2ghpa2          61 HKVV   64 (75)
T ss_dssp             TCEE
T ss_pred             CcEE
Confidence            6653

>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=99.39  E-value=6.7e-14  Score=109.03  Aligned_cols=71  Identities=18%  Similarity=0.147  Sum_probs=58.4

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      +|||+|||.++|+++|+++|++||.|..+++..                       .+|||||+|.+.++|++|++.||+
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~-----------------------~rg~aFV~f~~~~~A~~Ai~~lng   59 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-----------------------KSGYAFVDYPDQNWAIRAIETLSG   59 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-----------------------ETTEEEECCSCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec-----------------------ccceEEEEECCHHHHHHHHHHhCC
Confidence            699999999999999999999999987666542                       278999999999999999999998


Q ss_pred             cccccccceEEEeec
Q 015730          370 MIMLFFFSAFCLMFV  384 (401)
Q Consensus       370 ~~~~~~~~~~~~~~~  384 (401)
                      ..... +..+.+.+.
T Consensus        60 ~~~~~-G~~i~V~~a   73 (80)
T d2cqha1          60 KVELH-GKIMEVDYS   73 (80)
T ss_dssp             TCEET-TEECEEEEC
T ss_pred             CeEEC-CEEEEEEEc
Confidence            64333 345555553

>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=99.39  E-value=3.3e-13  Score=108.14  Aligned_cols=74  Identities=23%  Similarity=0.205  Sum_probs=62.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..+++.+..                    ..+|||||+|++.++|++|++.|
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~--------------------~~~g~afV~f~~~e~a~~Ai~~l   73 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR--------------------GGPPFAFVEFEDPRDAEDAVYGR   73 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS--------------------SSSCCEEEEESCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc--------------------cccceEEEEECCHHHHHHHHHHh
Confidence            5789999999999999999999999999999885321                    13889999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      ++..+..  ..+.+.+
T Consensus        74 ~g~~~~g--~~l~V~~   87 (95)
T d1x4aa1          74 DGYDYDG--YRLRVEF   87 (95)
T ss_dssp             TTCEETT--EECEEEC
T ss_pred             CCCEECC--EEEEEEe
Confidence            9887654  3444444

>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=99.39  E-value=3.5e-14  Score=114.73  Aligned_cols=79  Identities=15%  Similarity=0.228  Sum_probs=64.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|+.||.|..+++.++..++                 ..+|||||+|.+.++|++|++.|
T Consensus        18 s~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g-----------------~~~g~~fV~f~~~~~A~~Ai~~l   80 (102)
T d2cpxa1          18 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTG-----------------RMRGQAFITFPNKEIAWQALHLV   80 (102)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECS-----------------SSCSEEEEECSSHHHHHHHHHHS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccc-----------------cccccceEEeccHHHHHHHHHHh
Confidence            6799999999999999999999999999988876543221                 13899999999999999999999


Q ss_pred             cccccccccceEEEeecc
Q 015730          368 HFMIMLFFFSAFCLMFVT  385 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~  385 (401)
                      |+..+..  ..+.+.+..
T Consensus        81 ~g~~~~g--~~l~V~~ak   96 (102)
T d2cpxa1          81 NGYKLYG--KILVIEFGK   96 (102)
T ss_dssp             TTCBCSS--CBCEEEECC
T ss_pred             CCCEECC--EEEEEEeCC
Confidence            9876543  456655544

>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=99.39  E-value=2.3e-13  Score=109.54  Aligned_cols=87  Identities=17%  Similarity=0.121  Sum_probs=61.6

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.++|||+|||.++|+++|+++|+.||.|..+.+......  ....+...+       ..+|||||+|++.++|.+||+.
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~--~~~~d~~~~-------~~~g~afV~f~~~~~a~~Ai~~   77 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMI--HIYLDKETG-------KPKGDATVSYEDPPTAKAAVEW   77 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSE--ECCBCTTTC-------SBCSEEEEEBSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeeccccee--EEeeccccc-------cccceeeEEecCHHHHHHHHHH
Confidence            4679999999999999999999999999865433221100  000000011       2389999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      |++..+..  ..+.+.+.
T Consensus        78 l~g~~~~g--r~i~V~~a   93 (101)
T d2cpea1          78 FDGKDFQG--SKLKVSLA   93 (101)
T ss_dssp             HTTCEETT--EECEEECS
T ss_pred             hCCCEECC--EEEEEEEc
Confidence            99876543  45555554

>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=99.38  E-value=1.9e-13  Score=108.73  Aligned_cols=77  Identities=17%  Similarity=0.183  Sum_probs=64.2

Q ss_pred             hhhheeccCCCCc-ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          287 QSRIVVAENLPED-HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       287 ~~rtVyV~nLP~d-~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .+|+|||+|||.. +|.++|.++|+.||.|..|++++.                       +++|||+|++.++|++|++
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~-----------------------k~~afV~f~~~~~A~~A~~   63 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK-----------------------INEAFIEMATTEDAQAAVD   63 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS-----------------------SSCEEEEESSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc-----------------------ceEEEEEEcchhhHHHHHH
Confidence            3789999999986 789999999999999999999632                       6789999999999999999


Q ss_pred             HhcccccccccceEEEeeccc
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~  386 (401)
                      .|+.......+..+.+.+...
T Consensus        64 ~l~~~~~~~~gr~l~V~~s~~   84 (89)
T d1x4da1          64 YYTTTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             HHHHSCCEETTEECEEEEECC
T ss_pred             HHhhCCCccCCceEEEEECCC
Confidence            987665555556666666543

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=6.9e-13  Score=109.90  Aligned_cols=88  Identities=13%  Similarity=0.151  Sum_probs=65.7

Q ss_pred             hheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH-HHHHHHHHHh
Q 015730          289 RIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV-ELAEKAVSHL  367 (401)
Q Consensus       289 rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~-E~A~kAv~~l  367 (401)
                      .++||+||+.++|+++|+++|++||.|..|+|++                       .+|||||+|++. ++|..|+..+
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~-----------------------~kg~gfV~F~~~~~~A~~a~~~~   68 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR-----------------------GAKEGIILFKEKAKEALGKAKDA   68 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT-----------------------TCSEEEEEESSCHHHHHHHHHHT
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChheEEEec-----------------------CCceEEEEecCcHHHHHHHHHHh
Confidence            4679999999999999999999999999999963                       278999999995 7899999999


Q ss_pred             cccccccccceEEEeecc--cCHHHHHHHHHHHh
Q 015730          368 HFMIMLFFFSAFCLMFVT--QTNEIRTSFLADCR  399 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~--~~~e~R~~~~~~~~  399 (401)
                      ++..+......+.+.+..  .+++.++.+++++.
T Consensus        69 ~~~~l~~~~~~v~~~~~~~~~e~~~~~k~~~~~q  102 (113)
T d1owxa_          69 NNGNLQLRNKEVTWEVLEGEVEKEALKKIIEDQQ  102 (113)
T ss_dssp             TTSCBCTTSSSEEEEECCHHHHHHHHHHHHHHHH
T ss_pred             cCCceecCceEEEEeeccchhhHHHHHHHHHHHH
Confidence            987766543444433322  22223445555443

>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=99.36  E-value=3.8e-13  Score=108.86  Aligned_cols=70  Identities=21%  Similarity=0.143  Sum_probs=59.6

Q ss_pred             hhheeccCCC-CcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLP-EDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP-~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      .++|||+||+ ..+++++|+++|++||.|..|+|.                         ||||||+|++.++|++||+.
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~-------------------------rg~aFV~f~~~~~A~~Ai~~   69 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH-------------------------KGFAFVQYVNERNARAAVAG   69 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE-------------------------TEEEEEEESSHHHHHHHHHT
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe-------------------------CCeEEEEECCHHHHHHHHHH
Confidence            4679999996 577888999999999999999882                         78999999999999999999


Q ss_pred             hcccccccccceEEEeec
Q 015730          367 LHFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~  384 (401)
                      ||+..+..  ..+.+.+.
T Consensus        70 lng~~~~g--~~l~V~~a   85 (98)
T d1wf2a_          70 EDGRMIAG--QVLDINLA   85 (98)
T ss_dssp             TTTCEETT--EECEEEET
T ss_pred             cCCCEECC--EEEEEEEC
Confidence            99887654  34555554

>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=99.34  E-value=2.2e-13  Score=109.37  Aligned_cols=76  Identities=18%  Similarity=0.233  Sum_probs=62.1

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..++|||+|||.++|+++|+++|++||.|..++..               +       .++|||||+|++.++|++|++.
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~---------------~-------~~~~~afV~f~~~~~A~~A~~~   72 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVSQD---------------G-------KSKGIAYIEFKSEADAEKNLEE   72 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEET---------------T-------EEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcccceeeeec---------------C-------ccccEEEEEeCCHHHHHHHHHH
Confidence            47899999999999999999999999998776541               1       1389999999999999999999


Q ss_pred             hcccccccccceEEEeeccc
Q 015730          367 LHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       367 ln~~~~~~~~~~~~~~~~~~  386 (401)
                      ||+..+..  ..+.+.+...
T Consensus        73 l~~~~~~g--r~i~V~~a~~   90 (96)
T d1fjca_          73 KQGAEIDG--RSVSLYYTGE   90 (96)
T ss_dssp             TTEEEETT--EEEEEEECSS
T ss_pred             cCCCEECC--EEEEEEEeCC
Confidence            99877655  4555555443

>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=99.34  E-value=8.9e-13  Score=103.47  Aligned_cols=71  Identities=20%  Similarity=0.139  Sum_probs=60.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|++||.|..+++..                       ++|||||+|.+.++|.+|++.|
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~-----------------------~rg~afV~f~~~~~A~~Ai~~l   64 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK-----------------------IRDYAFVHFSNREDAVEAMKAL   64 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE-----------------------CSSEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc-----------------------ccEEEEEEeCCHHHHHHHHHHc
Confidence            47899999999999999999999999998887632                       2889999999999999999999


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      ++..+..  ..+.+.+
T Consensus        65 ~~~~i~g--~~i~V~~   78 (86)
T d2cpda1          65 NGKVLDG--SPIEVTL   78 (86)
T ss_dssp             SSEEETT--EEEEEEC
T ss_pred             CCCEECC--EEEEEEe
Confidence            9877654  3455544

>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=99.34  E-value=5.9e-13  Score=105.47  Aligned_cols=71  Identities=23%  Similarity=0.237  Sum_probs=57.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++++++|+++|++|| +..+.+.                       ..||||||+|++.++|++|++.|
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~-----------------------~~kg~afV~f~~~~~A~~Ai~~l   60 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVD-----------------------RNKRTAFVTLLNGEQAQNAIQMF   60 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEE-----------------------GGGTEEEECCSCHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC-ceeeeee-----------------------ccCCceEEEECCHHHHHHHHHHh
Confidence            56899999999999999999999999 3333331                       12899999999999999999999


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+..  ..+.+.+.
T Consensus        61 n~~~~~G--~~l~V~~a   75 (88)
T d1wg1a_          61 HQYSFRG--KDLIVQLQ   75 (88)
T ss_dssp             TTEEETT--EEEEEEEC
T ss_pred             CCCEECC--EEEEEEEc
Confidence            9887554  45666554

>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=99.32  E-value=1.7e-13  Score=109.39  Aligned_cols=75  Identities=19%  Similarity=0.163  Sum_probs=60.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.||.|..++|+.+.           .+       .++|||||+|++.++|++|++ |
T Consensus        13 ~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~-----------~g-------~~kg~afv~F~~~e~a~~Al~-~   73 (91)
T d1fjeb1          13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVR-----------TG-------TNRKFGYVDFESAEDLEKALE-L   73 (91)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEE-----------EE-------TTTTEEEEEESSHHHHHHHHH-G
T ss_pred             CcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecC-----------CC-------CccEEeEEeeCCHHHHHHHHh-c
Confidence            5689999999999999999999999999988876432           11       248999999999999999995 8


Q ss_pred             cccccccccceEEEee
Q 015730          368 HFMIMLFFFSAFCLMF  383 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~  383 (401)
                      |+..+..  ..+.+.+
T Consensus        74 ~g~~~~g--~~i~V~~   87 (91)
T d1fjeb1          74 TGLKVFG--NEIKLEK   87 (91)
T ss_dssp             GGEEETT--EEEEEEC
T ss_pred             CCcEECC--EEEEEEe
Confidence            8876554  3444443

>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=99.32  E-value=5.8e-13  Score=105.86  Aligned_cols=77  Identities=21%  Similarity=0.265  Sum_probs=61.3

Q ss_pred             hhheeccCCCCcccHHHHHH----HHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMK----IFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKA  363 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~----lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kA  363 (401)
                      .+||||+|||.++++++|++    +|++||+|..|++.+.             +       .++|||||+|++.++|.+|
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~-------------~-------~~~g~afV~F~~~~~A~~A   62 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-------------L-------KMRGQAFVIFKEVSSATNA   62 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-------------H-------HHTTCEEEEESSHHHHHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee-------------c-------cCCCceEEEECCHHHHHHH
Confidence            57999999999999998864    6899999999987421             1       1389999999999999999


Q ss_pred             HHHhcccccccccceEEEeeccc
Q 015730          364 VSHLHFMIMLFFFSAFCLMFVTQ  386 (401)
Q Consensus       364 v~~ln~~~~~~~~~~~~~~~~~~  386 (401)
                      ++.|++.....  ..+.+.+...
T Consensus        63 ~~~~~~~~~~g--~~l~v~~ak~   83 (91)
T d1nu4a_          63 LRSMQGFPFYD--KPMRIQYAKT   83 (91)
T ss_dssp             HHHHTTCEETT--EECEEEECSS
T ss_pred             HHHhCCCEECC--EEEEEEEeCC
Confidence            99999876554  4555555433

>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=99.31  E-value=3.5e-12  Score=98.05  Aligned_cols=68  Identities=22%  Similarity=0.207  Sum_probs=56.4

Q ss_pred             eeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccc
Q 015730          291 VVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFM  370 (401)
Q Consensus       291 VyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~  370 (401)
                      |||+|||.++++++|+++|++|| +..+++.+                       ++|||||+|++.++|++|++.||+.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~-----------------------~~g~afv~f~~~~~A~~Ai~~ln~~   56 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDK-----------------------YKGTAFVTLLNGEQAEAAINTFHQS   56 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEET-----------------------TTTEEEEEESSHHHHHHHHHHHTTE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeecc-----------------------cceeEEEEECCHHHHHHHHHHhCCc
Confidence            79999999999999999999999 55555421                       3899999999999999999999987


Q ss_pred             ccccccceEEEeec
Q 015730          371 IMLFFFSAFCLMFV  384 (401)
Q Consensus       371 ~~~~~~~~~~~~~~  384 (401)
                      .+..  ..+.+.+.
T Consensus        57 ~~~g--~~l~V~~a   68 (75)
T d1wi6a1          57 RLRE--RELSVQLQ   68 (75)
T ss_dssp             ESSS--CEEEEEEC
T ss_pred             cCCC--CEEEEEEe
Confidence            7654  45665554

>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=99.30  E-value=1.9e-12  Score=104.96  Aligned_cols=77  Identities=14%  Similarity=0.170  Sum_probs=58.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      .++|||+|||.++|+++|+++|+.|| |..++++......         +       .++|||||+|++.|+|++|+ .|
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~---------g-------~~~g~afV~f~~~e~a~~~~-~~   76 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNP---------E-------RLKGFGYAEFEDLDSLLSAL-SL   76 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCT---------T-------SBCSCEEEEESSHHHHHHHH-GG
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccC---------C-------CcceeeeEEECCHHHHHHHH-Hc
Confidence            57999999999999999999999999 7777776532110         1       24899999999999998766 58


Q ss_pred             cccccccccceEEEeec
Q 015730          368 HFMIMLFFFSAFCLMFV  384 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~  384 (401)
                      |+..+..  ..+.+.+.
T Consensus        77 ~~~~~~g--r~l~V~~a   91 (104)
T d1wi8a_          77 NEESLGN--KRIRVDVA   91 (104)
T ss_dssp             GTCEETT--EECEEEEC
T ss_pred             CCCEECC--EEEEEEEC
Confidence            8776544  33444443

>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=99.30  E-value=2.7e-12  Score=104.35  Aligned_cols=69  Identities=26%  Similarity=0.281  Sum_probs=55.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||+++|+++|+++|+.||.|..+.+++...++                 ..+|||||+|+++|+|++|++ +
T Consensus        15 ~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~-----------------~~kG~afV~F~~~e~a~~a~~-~   76 (104)
T d1wg5a_          15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQG-----------------RSTGEAFVQFASQEIAEKALK-K   76 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSS-----------------CBCSEEEEEESSHHHHHHHHT-T
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCC-----------------CcceEEEEEeCCHHHHHHHHh-h
Confidence            5579999999999999999999999998876555432211                 138999999999999999985 8


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      ++..+..
T Consensus        77 ~~~~i~g   83 (104)
T d1wg5a_          77 HKERIGH   83 (104)
T ss_dssp             TTCCSSS
T ss_pred             CCCEEcc
Confidence            7765444

>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=99.29  E-value=8.6e-13  Score=104.31  Aligned_cols=56  Identities=23%  Similarity=0.289  Sum_probs=50.5

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|||+|||.++|+++|+++|++||.|..|++...                      .+|||||+|++.++|++|+.
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~----------------------~~gfafV~f~~~~~a~~a~~   60 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP----------------------FRAFAFVTFADDQIAQSLCG   60 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS----------------------CCSCCEEECSCHHHHHHTTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec----------------------cCceEEEEECCHHHHHHHHh
Confidence            679999999999999999999999999999987421                      27899999999999999985

>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=99.29  E-value=9.1e-12  Score=109.06  Aligned_cols=86  Identities=16%  Similarity=0.230  Sum_probs=66.7

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ...++|||+|||.++|+++|+++|+.||.|..++++.+..++.                 ++|||||+|++.++|++|++
T Consensus        95 ~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~-----------------~~g~~fV~f~~~e~A~~Al~  157 (183)
T d1u1qa_          95 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK-----------------KRGFAFVTFDDHDSVDKIVI  157 (183)
T ss_dssp             CCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESCHHHHHHHHT
T ss_pred             cccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCc-----------------cceeEEEEECCHHHHHHHHH
Confidence            3467999999999999999999999999999999987643221                 38999999999999999997


Q ss_pred             HhcccccccccceEEEeecccCHHHHH
Q 015730          366 HLHFMIMLFFFSAFCLMFVTQTNEIRT  392 (401)
Q Consensus       366 ~ln~~~~~~~~~~~~~~~~~~~~e~R~  392 (401)
                       +++..+..  ..+.+. .+..+++|+
T Consensus       158 -~~~~~~~G--~~i~V~-~A~~k~e~~  180 (183)
T d1u1qa_         158 -QKYHTVNG--HNCEVR-KALSKQEMA  180 (183)
T ss_dssp             -SSCEEETT--EEEEEE-ECCCHHHHH
T ss_pred             -hCCCeECC--EEEEEE-ecCCccccc
Confidence             56654333  344443 355566654

>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=99.28  E-value=1.3e-12  Score=105.96  Aligned_cols=68  Identities=12%  Similarity=0.156  Sum_probs=54.4

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+|||+|||+++|+++|+++|+.||.|.. +.++.. ..          ++       .+|||||+|++.++|++|++ 
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~-~~----------g~-------~~G~afV~F~s~~~a~~Al~-   68 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVD-NN----------GQ-------GLGQALVQFKNEDDARKSER-   68 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCC-TT----------SS-------CSSCEEEECSSHHHHHHHGG-
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeC-CC----------CC-------cCccEEEEECCHHHHHHHHh-
Confidence            457999999999999999999999999875 444322 11          11       38999999999999999995 


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        69 ~n~~~i~g   76 (103)
T d2cpya1          69 LHRKKLNG   76 (103)
T ss_dssp             GCSEEETT
T ss_pred             cCCCeECC
Confidence            88765444

>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=99.27  E-value=1.3e-12  Score=102.47  Aligned_cols=69  Identities=19%  Similarity=0.189  Sum_probs=56.9

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeE-EEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKT-IRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~-Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      ..+|||+|||.++++++|+++|+.||.|.. +.++... ++                 .++|+|||+|++.++|++|+++
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~-~g-----------------~~~G~afV~f~~~e~a~~Ai~~   70 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE-KG-----------------MPTGEAMVAFESRDEATAAVID   70 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECS-SS-----------------CEEEEEEEEESCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCC-CC-----------------CcceEEEEEEcCcHHHHHHHHH
Confidence            346999999999999999999999999865 4554321 11                 1389999999999999999999


Q ss_pred             hccccccc
Q 015730          367 LHFMIMLF  374 (401)
Q Consensus       367 ln~~~~~~  374 (401)
                      ||+..+..
T Consensus        71 l~~~~l~g   78 (86)
T d2cqpa1          71 LNDRPIGS   78 (86)
T ss_dssp             TTTCEETT
T ss_pred             cCCCEECC
Confidence            99888655

>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=99.27  E-value=1.7e-12  Score=105.64  Aligned_cols=64  Identities=19%  Similarity=0.240  Sum_probs=56.1

Q ss_pred             hhheec--cCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          288 SRIVVA--ENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       288 ~rtVyV--~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      .++|+|  +||+.++|+++|+++|++||.|+.|+++.                       .+|||||+|++.++|++|++
T Consensus        18 t~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~-----------------------~k~~aFV~f~~~e~A~~A~~   74 (101)
T d2cq2a1          18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-----------------------NKPYSFARYRTTEESKRAYV   74 (101)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT-----------------------TCSCEEEEESSHHHHHHHHH
T ss_pred             CceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeecc-----------------------CccEEEEEECCHHHHHHHHH
Confidence            467777  55999999999999999999999998853                       17899999999999999999


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                      .||+..+..
T Consensus        75 ~lng~~i~~   83 (101)
T d2cq2a1          75 TLNGKEVVD   83 (101)
T ss_dssp             HTTTCEEEC
T ss_pred             HhCCCCCCC
Confidence            999887644

>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=99.25  E-value=1.2e-12  Score=107.96  Aligned_cols=82  Identities=17%  Similarity=0.162  Sum_probs=59.8

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||+++|+++|+++|+.||.|..+.++.....|          +       .+|||||+|.+.++|++|++ |
T Consensus        18 ~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g----------~-------~~G~afVeF~~~e~a~~al~-~   79 (112)
T d1wela1          18 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNG----------K-------ATGEGFVEFRNEADYKAALC-R   79 (112)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTS----------S-------EEEEEEEEBSSSHHHHHHHT-S
T ss_pred             CeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCccc----------c-------eeeEEEEEECCHHHHHHHHH-c
Confidence            5689999999999999999999999998654333322211          1       38999999999999999985 8


Q ss_pred             cccccccccceEEEeecccCHHH
Q 015730          368 HFMIMLFFFSAFCLMFVTQTNEI  390 (401)
Q Consensus       368 n~~~~~~~~~~~~~~~~~~~~e~  390 (401)
                      |+..+..   +.+.+....+.+.
T Consensus        80 ~~~~i~g---R~i~V~~~~~~~~   99 (112)
T d1wela1          80 HKQYMGN---RFIQVHPITKKGM   99 (112)
T ss_dssp             CSBCSTT---SCBEEEEECHHHH
T ss_pred             CCCcCCC---EEEEEEEcChHHH
Confidence            8776544   2333344444444

>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=99.23  E-value=3.6e-12  Score=103.35  Aligned_cols=67  Identities=18%  Similarity=0.154  Sum_probs=55.0

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..+|||+|||+++|+++|+++|+.||. ..|+++++.+           +       ..+|||||||++.++|++|++ +
T Consensus        15 ~~~v~v~nLp~~~te~dl~~~F~~~~~-~~v~~~~~~~-----------g-------~~~G~afVeF~~~~~a~~Al~-~   74 (102)
T d1weza_          15 GHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGPD-----------G-------RVTGEADVEFATHEDAVAAMA-K   74 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESSS-----------S-------CEEEEEEEECSSSHHHHHHHT-T
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHhccCc-ceeeeEEecC-----------C-------cceEEEEEEECCHHHHHHHHH-c
Confidence            568999999999999999999999984 5677765421           1       138999999999999999986 8


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        75 ~~~~i~g   81 (102)
T d1weza_          75 DKANMQH   81 (102)
T ss_dssp             SSCCSSS
T ss_pred             CCCEECC
Confidence            8776555

>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=99.15  E-value=5.2e-13  Score=105.69  Aligned_cols=74  Identities=19%  Similarity=0.241  Sum_probs=57.3

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      +|.|||+|||.++|+++|+++|+.||.|..+.+.....     ..+.+.       ..++|||||+|++.|+|++|++ |
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~-----~~~~~~-------~~~kg~afV~f~~~e~a~~a~~-l   67 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNP-----VLAVQI-------NQDKNFAFLEFRSVDETTQAMA-F   67 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCS-----EEECCE-------ETTTTEEEEEESSCTTTTTGGG-G
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccce-----eeeccc-------CCCceEEEEEeCCHHHHHHHHh-h
Confidence            47899999999999999999999999988776642210     001111       1348999999999999999985 9


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+..+..
T Consensus        68 ~g~~~~G   74 (90)
T d1u2fa_          68 DGIIFQG   74 (90)
T ss_dssp             SSCCSSS
T ss_pred             CCcEECC
Confidence            8887665

>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=99.15  E-value=2.5e-11  Score=106.23  Aligned_cols=68  Identities=18%  Similarity=0.222  Sum_probs=58.4

Q ss_pred             hhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHH
Q 015730          287 QSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSH  366 (401)
Q Consensus       287 ~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~  366 (401)
                      +.|+|||+|||.++|+++|+++|++||.|..++++++..++.                 .+|||||+|.+.++|++|++.
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~-----------------~~g~afv~f~~~~~a~~a~~~   67 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR-----------------SRGFGFVTYATVEEVDAAMNA   67 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC-----------------EEEEEEEEESSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCC-----------------ccCceecccCCHHHHHHHHHh
Confidence            358999999999999999999999999999999987643221                 389999999999999999997


Q ss_pred             hcccc
Q 015730          367 LHFMI  371 (401)
Q Consensus       367 ln~~~  371 (401)
                      ++..+
T Consensus        68 ~~~~~   72 (183)
T d1u1qa_          68 RPHKV   72 (183)
T ss_dssp             CSCEE
T ss_pred             cCCcc
Confidence            75443

>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=99.10  E-value=7e-11  Score=92.45  Aligned_cols=64  Identities=20%  Similarity=0.120  Sum_probs=53.0

Q ss_pred             hhhhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHH
Q 015730          286 LQSRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVS  365 (401)
Q Consensus       286 ~~~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~  365 (401)
                      ++.+.|+|.|||.+.+.+.| +.|++||.|.++++.+                       .+|||||+|+++++|++|++
T Consensus         2 ~~~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~-----------------------~~~~~fV~f~~~~~A~~Al~   57 (81)
T d1wwha1           2 LDDTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSN-----------------------TGNWMHIRYQSKLQARKALS   57 (81)
T ss_dssp             GGGGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECS-----------------------SSSEEEEEESSHHHHHHHHT
T ss_pred             CcccEEEEECCChHHHHHHH-HHHHhhhhhheEEecC-----------------------CCCEEEEEEcccHHHHHHHh
Confidence            35688999999999986555 5799999999998732                       27899999999999999996


Q ss_pred             Hhccccccc
Q 015730          366 HLHFMIMLF  374 (401)
Q Consensus       366 ~ln~~~~~~  374 (401)
                       +|+..+..
T Consensus        58 -~nG~~~~g   65 (81)
T d1wwha1          58 -KDGRIFGE   65 (81)
T ss_dssp             -TTTCEETT
T ss_pred             -cCCCeECC
Confidence             88875433

>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=99.09  E-value=2.4e-11  Score=99.29  Aligned_cols=71  Identities=17%  Similarity=0.093  Sum_probs=58.6

Q ss_pred             hhheeccCCCCcc-c----HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHH
Q 015730          288 SRIVVAENLPEDH-C----HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEK  362 (401)
Q Consensus       288 ~rtVyV~nLP~d~-t----~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~k  362 (401)
                      ..+|||+||+.++ +    .++|+++|+.||.|..+++++                       .++||||+|++.++|.+
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k-----------------------~~~~afV~f~~~~~A~~   61 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK-----------------------SFKRVRINFSNPLSAAD   61 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET-----------------------TTTEEEEECSSTTHHHH
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec-----------------------CCCEEEEEECCHHHHHH
Confidence            5689999999886 3    357999999999999999863                       27899999999999999


Q ss_pred             HHHHhcccccccccceEEEee
Q 015730          363 AVSHLHFMIMLFFFSAFCLMF  383 (401)
Q Consensus       363 Av~~ln~~~~~~~~~~~~~~~  383 (401)
                      |++.||+..+...  .+.+.|
T Consensus        62 Ai~~lng~~~~g~--~l~v~~   80 (104)
T d1weya_          62 ARLRLHKTEFLGK--EMKLYF   80 (104)
T ss_dssp             HHHTSTTSEETTE--ECEEEC
T ss_pred             HHHHhcccccCCC--EeEEee
Confidence            9999999876653  444443

>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=99.08  E-value=2.3e-11  Score=99.38  Aligned_cols=69  Identities=17%  Similarity=0.128  Sum_probs=58.7

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ...++|+++..++++++|+++|++||+|+.|+|+++.+ +                 ..+|||||+|++.++|.+|++.|
T Consensus        27 ~~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~-~-----------------~~~G~~fV~f~~~~~A~~Ai~~l   88 (104)
T d1jmta_          27 VSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG-D-----------------HLVGNVYVKFRREEDAEKAVIDL   88 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS-S-----------------SSEEEEEEEESCHHHHHHHHHHH
T ss_pred             cchHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCC-C-----------------CEeeEEEEEEechhHHHHHHHHH
Confidence            35688899999999999999999999999999975421 1                 13899999999999999999999


Q ss_pred             ccccccc
Q 015730          368 HFMIMLF  374 (401)
Q Consensus       368 n~~~~~~  374 (401)
                      |+.....
T Consensus        89 ng~~~~g   95 (104)
T d1jmta_          89 NNRWFNG   95 (104)
T ss_dssp             TTCEETT
T ss_pred             CCCEECC
Confidence            9887544

>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=98.90  E-value=9.2e-10  Score=88.73  Aligned_cols=67  Identities=19%  Similarity=0.193  Sum_probs=55.4

Q ss_pred             hhhheeccCC--CCcc---------cHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEec
Q 015730          287 QSRIVVAENL--PEDH---------CHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYE  355 (401)
Q Consensus       287 ~~rtVyV~nL--P~d~---------t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFe  355 (401)
                      .+|+|+|+|+  +.++         ..++|++.|++||.|..|++..+.                     .+|||||+|+
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~---------------------~~G~~fV~f~   65 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRH---------------------PDGVASVSFR   65 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC---------------------TTCEEEEECS
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCC---------------------CccEEEEEEC
Confidence            3689999998  6543         236899999999999999986431                     2799999999


Q ss_pred             CHHHHHHHHHHhccccccc
Q 015730          356 SVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       356 s~E~A~kAv~~ln~~~~~~  374 (401)
                      +.++|.+|++.||+.....
T Consensus        66 ~~e~A~~A~~~lng~~~~g   84 (99)
T d2dita1          66 DPEEADYCIQTLDGRWFGG   84 (99)
T ss_dssp             CHHHHHHHHHHSTTCEETT
T ss_pred             CHHHHHHHHHHhCCcEECC
Confidence            9999999999999887655

>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=98.74  E-value=5.4e-09  Score=84.67  Aligned_cols=72  Identities=24%  Similarity=0.219  Sum_probs=54.7

Q ss_pred             hhheeccCC--CCc--------ccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCH
Q 015730          288 SRIVVAENL--PED--------HCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESV  357 (401)
Q Consensus       288 ~rtVyV~nL--P~d--------~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~  357 (401)
                      +++|.+.|+  +.+        ...++|++.|++||.|+.|.|.++.....               ....|++||+|++.
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~---------------~~~~g~vfV~f~~~   68 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE---------------VPGCGKIFVEFTSV   68 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSS---------------CTTCCEEEEEESCH
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCc---------------cCCceEEEEEECCH
Confidence            466777777  333        23578999999999999999866432110               01368999999999


Q ss_pred             HHHHHHHHHhccccccc
Q 015730          358 ELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       358 E~A~kAv~~ln~~~~~~  374 (401)
                      ++|.+|+..|++.....
T Consensus        69 e~A~~A~~~l~Gr~f~g   85 (104)
T d1o0pa_          69 FDCQKAMQGLTGRKFAN   85 (104)
T ss_dssp             HHHHHHHHHHSSCCSSS
T ss_pred             HHHHHHHHHHCCCEECC
Confidence            99999999999977655

>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=95.23  E-value=0.017  Score=44.84  Aligned_cols=70  Identities=14%  Similarity=0.091  Sum_probs=55.1

Q ss_pred             heeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcc
Q 015730          290 IVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHF  369 (401)
Q Consensus       290 tVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~  369 (401)
                      .|+|..||.++|++++.+.++..|++.....+..+.+.+          .  ..   -.-|||.|.+.++.....+.+++
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~----------~--~~---~SRAYi~F~~~~~v~~F~~~f~g   67 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLY----------P--HM---YARAYINFKNQEDIILFRDRFDG   67 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSST----------T--CC---CEEEEEEESSSHHHHHHHHHHTT
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCC----------C--Cc---ceEEEEEeCCHHHHHHHHHHcCC
Confidence            588999999999999999999999999988775432211          0  00   12499999999999999999987


Q ss_pred             ccccc
Q 015730          370 MIMLF  374 (401)
Q Consensus       370 ~~~~~  374 (401)
                      .....
T Consensus        68 ~~F~D   72 (91)
T d1uw4a_          68 YVFLD   72 (91)
T ss_dssp             CEEEC
T ss_pred             cEEEc
Confidence            76555

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.96  E-value=0.069  Score=41.93  Aligned_cols=56  Identities=23%  Similarity=0.321  Sum_probs=47.1

Q ss_pred             hhheeccCCCCcccHHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHh
Q 015730          288 SRIVVAENLPEDHCHQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHL  367 (401)
Q Consensus       288 ~rtVyV~nLP~d~t~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~l  367 (401)
                      ..-||.-.||......||.++|+.||.|.--.|-                         ...|||.....|.|+.+++.+
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswId-------------------------dTSa~V~L~~~e~~~~v~~~~   69 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWID-------------------------DTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEE-------------------------TTEEEEECSCHHHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCCCceEEEEec-------------------------CceEEEEecCHHHHHHHHHHh
Confidence            3469999999999999999999999998655551                         346999999999999888866


Q ss_pred             c
Q 015730          368 H  368 (401)
Q Consensus       368 n  368 (401)
                      +
T Consensus        70 ~   70 (100)
T d1whva_          70 K   70 (100)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=92.12  E-value=0.088  Score=40.79  Aligned_cols=47  Identities=15%  Similarity=0.179  Sum_probs=37.4

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhccccccc
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLF  374 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~  374 (401)
                      ..+|.+.|+.||+|..||++.                         +-..|+|.+-++|.+|++ +++..++.
T Consensus        38 ~~~Llq~l~~~GeViLvRFv~-------------------------d~mwVTF~dG~SAL~al~-l~g~~v~G   84 (95)
T d1ufwa_          38 RTELMQTLGSYGTIVLVRINQ-------------------------GQMLVTFADSHSALSVLD-VDGMKVKG   84 (95)
T ss_dssp             HHHHHHHHHHHSCCSEEEEET-------------------------TEEEEECSCSHHHHHHHH-GGGSEETT
T ss_pred             HHHHHHHHhhCCeEEEEEEeC-------------------------CeEEEEECCcHHHHHHhc-cCCeEEcc
Confidence            677888999999999999963                         236799999999998887 55555444

>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=90.04  E-value=0.59  Score=34.31  Aligned_cols=62  Identities=27%  Similarity=0.290  Sum_probs=47.0

Q ss_pred             HHHHHHHHhccCCeeEEEEecCCCCCCCCCCCCCcccccCccccCcceEEEEecCHHHHHHHHHHhcccccccccceEEE
Q 015730          302 HQNLMKIFSAVGSVKTIRTCLPQTSGGGASSGSRSAKSEGMLFSNKLHAFVEYESVELAEKAVSHLHFMIMLFFFSAFCL  381 (401)
Q Consensus       302 ~edL~~lFs~fG~V~~Vri~~p~~~~~~~p~~~R~~K~~g~~~~~KG~AFVEFes~E~A~kAv~~ln~~~~~~~~~~~~~  381 (401)
                      .+-|.++|+++|.|.++.+.. .+              +|     ...|-|...+..+|..|+..|.-..+.  .+++.+
T Consensus        10 qq~L~~~f~~h~~V~sv~l~~-~~--------------dg-----~~~A~V~v~~~q~A~~~v~~LhR~KiG--~KRI~V   67 (73)
T d2dgxa1          10 QQLLQEAFARHGKVKSVELSP-HT--------------DY-----QLKAVVQMENLQDAIGAVNSLHRYKIG--SKKILV   67 (73)
T ss_dssp             HHHHHHHHHHHSCEEEEEECS-CC--------------ST-----TCCEEEEESSHHHHHHHHHHHTTEEET--TEEEEE
T ss_pred             HHHHHHHHHhheeEEEEEEEe-cc--------------CC-----cEEEEEEcCCHHHHHHHHHHHHHHhcC--CeEEEE
Confidence            356888999999999998853 21              11     345899999999999999999866644  467777


Q ss_pred             eecc
Q 015730          382 MFVT  385 (401)
Q Consensus       382 ~~~~  385 (401)
                      .+.+
T Consensus        68 s~~~   71 (73)
T d2dgxa1          68 SLAT   71 (73)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            6643