Psyllid ID: psy2203

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70----
Protein Sequence
MYPPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATLV
Secondary Structure (PSIPRED)
ccccccccccccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccHHHccccccHHHEEEHHcccHHHHccHHHHHHHHHHHHHHHHHccEEEEEEEcccccccccccccEEEEc
Coil and Loop (DISEMBL)
myppwdrlvpplRFSVLCLLnmvtpdelkdedeYEDICEDIKEECNKYGivrsleiprpienvdvpgcgkatlv
Flexible Loop (DISEMBL)
myppwdrlvppLRFSVLCLLNMVtpdelkdedEYEDICEDIKEECNKYGIVrsleiprpienvdvpgcgkatlv
Low Complexity Region (SEG)
MYPPWDRLVPPLRFSVLCLLNMVTPDELkdedeyedicedikeecNKYGIVRSLEIPRPIENVDVPGCGKATLV
Disordered region (IsUnstruct)
****WDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDV*********
Disordered Region (DISOPRED)
*********PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATLV
Disordered Region (DISEMBL)
MYPPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATLV
Disordered Region (DISPRO)
MYPPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MYPPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATLV
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	74	2.2.26 [Sep-21-2011]
Q24562	416	Splicing factor U2AF 50 k	yes	N/A	0.797	0.141	0.803	6e-23
P90978	496	Splicing factor U2AF 65 k	no	N/A	0.743	0.110	0.709	2e-17
P90727	488	Splicing factor U2AF 65 k	N/A	N/A	0.743	0.112	0.654	2e-16
P26369	475	Splicing factor U2AF 65 k	no	N/A	0.743	0.115	0.654	1e-12
P26368	475	Splicing factor U2AF 65 k	yes	N/A	0.743	0.115	0.654	1e-12
Q9ZR39	555	Splicing factor U2af larg	N/A	N/A	0.837	0.111	0.507	2e-10
Q63285	419	Serine/threonine-protein	no	N/A	0.675	0.119	0.563	2e-08
P97343	419	Serine/threonine-protein	no	N/A	0.675	0.119	0.563	2e-08
O23212	573	Splicing factor U2af larg	yes	N/A	0.797	0.102	0.466	2e-08
Q2R0Q1	574	Splicing factor U2af larg	yes	N/A	0.783	0.101	0.457	5e-08

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

 Score =  105 bits (263), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 49/61 (80%), Positives = 54/61 (88%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDEL+DE+EYEDI EDIKEEC KYG+VRS+EIPRPIE V+VPGCG
Sbjct: 315 PPTE--VLCLLNMVTPDELRDEEEYEDILEDIKEECTKYGVVRSVEIPRPIEGVEVPGCG 372

Query: 70  K 70
           K
Sbjct: 373 K 373

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

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

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/55 (70%), Positives = 48/55 (87%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           +LCL+NMVT DELK +DEYE+I ED+++EC+KYGIVRSLEIPRP E+  VPG GK
Sbjct: 399 ILCLMNMVTEDELKADDEYEEILEDVRDECSKYGIVRSLEIPRPYEDHPVPGVGK 453

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

Caenorhabditis elegans (taxid: 6239)

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

 Score = 84.0 bits (206), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 36/55 (65%), Positives = 48/55 (87%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           +LCL+NMVT DEL+ +++YE+I ED++EEC+KYGIVRSLEIPRP ++  VPG GK
Sbjct: 390 ILCLMNMVTEDELRSDEDYEEILEDVREECSKYGIVRSLEIPRPYDDHPVPGVGK 444

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

Caenorhabditis briggsae (taxid: 6238)

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

 Score = 72.0 bits (175), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 36/55 (65%), Positives = 51/55 (92%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL D++EYE+I ED+++EC+KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 431

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

Mus musculus (taxid: 10090)

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

 Score = 71.6 bits (174), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 36/55 (65%), Positives = 51/55 (92%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL D++EYE+I ED+++EC+KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 431

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

Homo sapiens (taxid: 9606)

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

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/63 (50%), Positives = 42/63 (66%), Gaps = 1/63 (1%)

Query: 12  LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN-VDVPGCGK 70
           L   VLCL  +VT DEL D+D+Y+DI ED++ EC K+G + ++ IPRP  N V  PG GK
Sbjct: 451 LATKVLCLTEVVTVDELNDDDDYQDILEDMRTECEKFGALVNVVIPRPNPNGVPTPGLGK 510

Query: 71  ATL 73
             L
Sbjct: 511 VFL 513

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

Nicotiana plumbaginifolia (taxid: 4092)

>sp|Q63285|UHMK1_RAT Serine/threonine-protein kinase Kist OS=Rattus norvegicus GN=Uhmk1 PE=1 SV=1

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/55 (56%), Positives = 40/55 (72%), Gaps = 5/55 (9%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           VL LLN++  D L++EDEYED+ ED+KEEC KYG V SL +P+  EN   PG G+
Sbjct: 322 VLRLLNVLDDDYLENEDEYEDVVEDVKEECQKYGPVVSLLVPK--EN---PGRGQ 371

Upon serum stimulation, phosphorylates CDKN1B/p27Kip1, thus controlling CDKN1B subcellular location and cell cycle progression in G1 phase. May be involved in trafficking and/or processing of RNA.

Rattus norvegicus (taxid: 10116)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|P97343|UHMK1_MOUSE Serine/threonine-protein kinase Kist OS=Mus musculus GN=Uhmk1 PE=1 SV=3

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/55 (56%), Positives = 40/55 (72%), Gaps = 5/55 (9%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           VL LLN++  D L++EDEYED+ ED+KEEC KYG V SL +P+  EN   PG G+
Sbjct: 322 VLRLLNVLDDDYLENEDEYEDVVEDVKEECQKYGPVVSLLVPK--EN---PGRGQ 371

Upon serum stimulation, phosphorylates CDKN1B/p27Kip1, thus controlling CDKN1B subcellular location and cell cycle progression in G1 phase. May be involved in trafficking and/or processing of RNA.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|O23212|U2A2A_ARATH Splicing factor U2af large subunit A OS=Arabidopsis thaliana GN=U2AF65A PE=2 SV=2

 Score = 57.4 bits (137), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/60 (46%), Positives = 42/60 (70%), Gaps = 1/60 (1%)

Query: 15  SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVD-VPGCGKATL 73
           +V+CL  +VT DEL+D++EY DI ED+++E  K+G + ++ IPRP  N + V G GK  L
Sbjct: 472 TVVCLTQVVTEDELRDDEEYGDIMEDMRQEGGKFGALTNVVIPRPSPNGEPVAGLGKVFL 531

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 56.6 bits (135), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 27/59 (45%), Positives = 40/59 (67%), Gaps = 1/59 (1%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP-IENVDVPGCGKATL 73
           V+CL  +V+PDEL+D++EYEDI +D++EE  +YG +  + IPRP      V G G+  L
Sbjct: 474 VVCLTQVVSPDELRDDEEYEDIVQDMREEGCRYGNLVKVVIPRPDPSGAPVAGVGRVFL 532

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	74
157132061	418	splicing factor u2af large subunit [Aede	0.797	0.141	0.852	7e-23
328721670	416	PREDICTED: splicing factor U2AF 50 kDa s	0.797	0.141	0.836	7e-23
193629757	446	PREDICTED: splicing factor U2AF 50 kDa s	0.797	0.132	0.836	8e-23
328721668	451	PREDICTED: splicing factor U2AF 50 kDa s	0.797	0.130	0.836	9e-23
170054347	438	splicing factor u2af large subunit [Cule	0.797	0.134	0.852	1e-22
347968827	446	AGAP002908-PA [Anopheles gambiae str. PE	0.797	0.132	0.836	1e-22
289741197	423	splicing factor U2AF large subunit [Glos	0.797	0.139	0.836	1e-22
347968829	250	AGAP002908-PC [Anopheles gambiae str. PE	0.797	0.236	0.836	2e-22
357623461	350	U2 small nuclear ribonucleoprotein auxil	0.743	0.157	0.872	2e-22
114052735	417	U2 small nuclear ribonucleoprotein auxil	0.797	0.141	0.819	2e-22

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

 Score =  110 bits (276), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 52/61 (85%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDIKEECNKYG+VRS+EIPRPIE VDVPGCG
Sbjct: 317 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIKEECNKYGVVRSVEIPRPIEGVDVPGCG 374

Query: 70  K 70
           K
Sbjct: 375 K 375

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328721670|ref|XP_001951521.2| PREDICTED: splicing factor U2AF 50 kDa subunit-like isoform 1 [Acyrthosiphon pisum]

 Score =  110 bits (276), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDI+EECNKYG+VRSLEIPRPIE +DVPGCG
Sbjct: 315 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIREECNKYGVVRSLEIPRPIEGIDVPGCG 372

Query: 70  K 70
           K
Sbjct: 373 K 373

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193629757|ref|XP_001950852.1| PREDICTED: splicing factor U2AF 50 kDa subunit-like [Acyrthosiphon pisum]

 Score =  110 bits (276), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDI+EECNKYG+VRSLEIPRPIE +DVPGCG
Sbjct: 345 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIREECNKYGVVRSLEIPRPIEGIDVPGCG 402

Query: 70  K 70
           K
Sbjct: 403 K 403

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328721668|ref|XP_003247369.1| PREDICTED: splicing factor U2AF 50 kDa subunit-like isoform 2 [Acyrthosiphon pisum]

 Score =  110 bits (276), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDI+EECNKYG+VRSLEIPRPIE +DVPGCG
Sbjct: 350 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIREECNKYGVVRSLEIPRPIEGIDVPGCG 407

Query: 70  K 70
           K
Sbjct: 408 K 408

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170054347|ref|XP_001863087.1| splicing factor u2af large subunit [Culex quinquefasciatus] gi|167874693|gb|EDS38076.1| splicing factor u2af large subunit [Culex quinquefasciatus]

 Score =  110 bits (274), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 52/61 (85%), Positives = 54/61 (88%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDIKEECNKYG+VRS EIPRPIE VDVPGCG
Sbjct: 337 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIKEECNKYGVVRSAEIPRPIEGVDVPGCG 394

Query: 70  K 70
           K
Sbjct: 395 K 395

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  110 bits (274), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDI+EECNKYG+VRS+EIPRPIE VDVPGCG
Sbjct: 345 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIREECNKYGVVRSVEIPRPIEGVDVPGCG 402

Query: 70  K 70
           K
Sbjct: 403 K 403

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289741197|gb|ADD19346.1| splicing factor U2AF large subunit [Glossina morsitans morsitans]

 Score =  110 bits (274), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDEL+DE+EYEDI EDIKEECNKYG+VRS+EIPRPIE VDVPGCG
Sbjct: 322 PPTE--VLCLLNMVTPDELRDEEEYEDILEDIKEECNKYGVVRSVEIPRPIEGVDVPGCG 379

Query: 70  K 70
           K
Sbjct: 380 K 380

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347968829|ref|XP_003436304.1| AGAP002908-PC [Anopheles gambiae str. PEST] gi|333467822|gb|EGK96709.1| AGAP002908-PC [Anopheles gambiae str. PEST]

 Score =  109 bits (273), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 51/61 (83%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDELKDE+EYEDI EDI+EECNKYG+VRS+EIPRPIE VDVPGCG
Sbjct: 149 PPTE--VLCLLNMVTPDELKDEEEYEDILEDIREECNKYGVVRSVEIPRPIEGVDVPGCG 206

Query: 70  K 70
           K
Sbjct: 207 K 207

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357623461|gb|EHJ74600.1| U2 small nuclear ribonucleoprotein auxiliary factor 2 [Danaus plexippus]

 Score =  109 bits (273), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 48/55 (87%), Positives = 52/55 (94%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCLLNMVTPDEL+DE+EYEDI EDIKEECNKYG VRS+EIPRPIE V+VPGCGK
Sbjct: 253 VLCLLNMVTPDELRDEEEYEDILEDIKEECNKYGCVRSIEIPRPIEGVEVPGCGK 307

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|114052735|ref|NP_001040494.1| U2 small nuclear ribonucleoprotein auxiliary factor 2 [Bombyx mori] gi|95103122|gb|ABF51502.1| U2 small nuclear ribonucleoprotein auxiliary factor 2 isoform 1 [Bombyx mori]

 Score =  109 bits (272), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 50/61 (81%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 10  PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG 69
           PP    VLCLLNMVTPDEL+DE+EYEDI EDIKEECNKYG+VRS+EIPRPIE V+VPGCG
Sbjct: 316 PPTE--VLCLLNMVTPDELRDEEEYEDILEDIKEECNKYGVVRSIEIPRPIEGVEVPGCG 373

Query: 70  K 70
           K
Sbjct: 374 K 374

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	74
FB|FBgn0005411	416	U2af50 "U2 small nuclear ribop	0.797	0.141	0.573	1.1e-11
UNIPROTKB|K7ENG2	307	U2AF2 "Splicing factor U2AF 65	0.743	0.179	0.490	8.1e-10
UNIPROTKB|E2R0G3	471	U2AF2 "Uncharacterized protein	0.743	0.116	0.490	2e-09
UNIPROTKB|P26368	475	U2AF2 "Splicing factor U2AF 65	0.743	0.115	0.490	2.1e-09
MGI|MGI:98886	475	U2af2 "U2 small nuclear ribonu	0.743	0.115	0.490	2.1e-09
RGD|1597319	475	LOC690372 "similar to U2 (RNU2	0.743	0.115	0.490	2.1e-09
UNIPROTKB|Q24JZ8	475	U2AF2 "Uncharacterized protein	0.743	0.115	0.490	2.7e-09
WB|WBGene00006697	496	uaf-1 [Caenorhabditis elegans	0.743	0.110	0.527	3.4e-08
ZFIN|ZDB-GENE-050706-131	470	u2af2a "U2 small nuclear RNA a	0.743	0.117	0.454	6.6e-08
ZFIN|ZDB-GENE-040426-1881	475	u2af2b "U2 small nuclear RNA a	0.743	0.115	0.454	6.7e-08

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

 Score = 166 (63.5 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 35/61 (57%), Positives = 38/61 (62%)

Query:    10 PPLRFSVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCG 69
             PP    VLCLLNMVTPDEL                  KYG+VRS+EIPRPIE V+VPGCG
Sbjct:   315 PPTE--VLCLLNMVTPDELRDEEEYEDILEDIKEECTKYGVVRSVEIPRPIEGVEVPGCG 372

Query:    70 K 70
             K
Sbjct:   373 K 373

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

GO:0005686 "U2 snRNP" evidence=TAS

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

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

GO:0000245 "spliceosomal complex assembly" evidence=NAS

GO:0046982 "protein heterodimerization activity" evidence=NAS

GO:0005634 "nucleus" evidence=IC;NAS

GO:0003729 "mRNA binding" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0051168 "nuclear export" evidence=IMP

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

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0071011 "precatalytic spliceosome" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008380 "RNA splicing" evidence=IMP

GO:0003723 "RNA binding" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

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

 Score = 146 (56.5 bits), Expect = 8.1e-10, P = 8.1e-10
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   209 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 263

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 2.0e-09, P = 2.0e-09
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   373 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 427

GO:0006397 "mRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 146 (56.5 bits), Expect = 2.1e-09, P = 2.1e-09
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 431

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0019899 "enzyme binding" evidence=IPI

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

GO:0006397 "mRNA processing" evidence=TAS

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

GO:0005681 "spliceosomal complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

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

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

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

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

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

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

 Score = 146 (56.5 bits), Expect = 2.1e-09, P = 2.1e-09
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 431

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IDA

GO:0016607 "nuclear speck" evidence=TAS

GO:0019899 "enzyme binding" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

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

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

 Score = 146 (56.5 bits), Expect = 2.1e-09, P = 2.1e-09
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 431

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

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

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

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

 Score = 145 (56.1 bits), Expect = 2.7e-09, P = 2.7e-09
 Identities = 27/55 (49%), Positives = 35/55 (63%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                  KYG+V+S+EIPRP++ V+VPGCGK
Sbjct:   377 VLCLMNMVLPEELLDDEEYEEIVEDVRDECGKYGLVKSIEIPRPVDGVEVPGCGK 431

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

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

GO:0019899 "enzyme binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 135 (52.6 bits), Expect = 3.4e-08, P = 3.4e-08
 Identities = 29/55 (52%), Positives = 33/55 (60%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             +LCL+NMVT DEL                 +KYGIVRSLEIPRP E+  VPG GK
Sbjct:   399 ILCLMNMVTEDELKADDEYEEILEDVRDECSKYGIVRSLEIPRPYEDHPVPGVGK 453

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

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

GO:0040007 "growth" evidence=IMP

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

GO:0040020 "regulation of meiosis" evidence=IMP

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

GO:0007281 "germ cell development" evidence=IMP

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

GO:0009790 "embryo development" evidence=IMP

GO:0005681 "spliceosomal complex" evidence=ISS

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

GO:0048589 "developmental growth" evidence=IMP

GO:0010172 "embryonic body morphogenesis" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

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

 Score = 132 (51.5 bits), Expect = 6.6e-08, P = 6.6e-08
 Identities = 25/55 (45%), Positives = 34/55 (61%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG V+S+EIPRP++ +D+PG GK
Sbjct:   372 VLCLMNMVAPEELLDDEEYEEIVEDVRDECSKYGQVKSIEIPRPVDGLDIPGTGK 426

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

 Score = 132 (51.5 bits), Expect = 6.7e-08, P = 6.7e-08
 Identities = 25/55 (45%), Positives = 34/55 (61%)

Query:    16 VLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
             VLCL+NMV P+EL                 +KYG V+S+EIPRP++ +D+PG GK
Sbjct:   377 VLCLMNMVAPEELIDDEEYEEIVEDVKEECSKYGQVKSIEIPRPVDGLDIPGTGK 431

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q24562	U2AF2_DROME	No assigned EC number	0.8032	0.7972	0.1418	yes	N/A
P26368	U2AF2_HUMAN	No assigned EC number	0.6545	0.7432	0.1157	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	74
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	1e-25
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	6e-19
cd12465	88	cd12465, RRM_UHMK1, RNA recognition motif found in	3e-12
cd12285	85	cd12285, RRM3_RBM39_like, RNA recognition motif 3	3e-09
cd12374	85	cd12374, RRM_UHM_SPF45_PUF60, RNA recognition moti	6e-08
cd12647	96	cd12647, RRM_UHM_SPF45, RNA recognition motif in U	8e-06
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	4e-05
cd12282	91	cd12282, RRM2_TatSF1_like, RNA recognition motif 2	5e-05
TIGR01645	612	TIGR01645, half-pint, poly-U binding splicing fact	5e-05
cd12648	98	cd12648, RRM3_UHM_PUF60, RNA recognition motif 3 i	5e-05

>gnl|CDD|240678 cd12232, RRM3_U2AF65, RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 89.5 bits (223), Expect = 1e-25
 Identities = 40/57 (70%), Positives = 47/57 (82%), Gaps = 1/57 (1%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI-ENVDVPGCGKA 71
          VLCLLNMVTP+EL+D++EYE+I ED+KEEC KYG V S+ IPRP  E VDVPG GK 
Sbjct: 3  VLCLLNMVTPEELEDDEEYEEILEDVKEECGKYGKVLSVVIPRPEAEGVDVPGVGKV 59

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

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

 Score = 78.4 bits (193), Expect = 6e-19
 Identities = 27/56 (48%), Positives = 40/56 (71%), Gaps = 1/56 (1%)

Query: 16  VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVD-VPGCGK 70
           V+ L N+VT D+L D++EYE+I ED+K E +KYG + ++ IPRP  + +  PG GK
Sbjct: 411 VVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGK 466

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

>gnl|CDD|240911 cd12465, RRM_UHMK1, RNA recognition motif found in U2AF homology motif kinase 1 (UHMK1) and similar proteins

 Score = 55.8 bits (134), Expect = 3e-12
 Identities = 32/55 (58%), Positives = 39/55 (70%), Gaps = 5/55 (9%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK 70
          VL LLN++    L++E+EYEDI EDIKEEC KYG V SL IP+  EN   PG G+
Sbjct: 5  VLRLLNVLDDAHLQNEEEYEDIIEDIKEECQKYGPVVSLLIPK--EN---PGKGQ 54

This subgroup corresponds to the RRM of UHMK1. UHMK1, also termed kinase interacting with stathmin (KIS) or P-CIP2, is a serine/threonine protein kinase functionally related to RNA metabolism and neurite outgrowth. It contains an N-terminal kinase domain and a C-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), with high homology to the corresponding motif of the mammalian U2 small nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65 or U2AF2). UHMK1 targets two key regulators of cell proliferation and migration, the cyclin-dependent kinase (CDK) inhibitor p27Kip1 and the microtubule-destabilizing protein stathmin. It plays a critical role during vascular wound repair by preventing excessive vascular smooth muscle cell (VSMC) migration into the vascular lesion. Moreover, UHMK1 may control cell migration and neurite outgrowth by interacting with and phosphorylating the splicing factor SF1, thereby probably contributing to the control of protein expression. Furthermore, UHMK1 may be functionally related to microtubule dynamics and axon development. It localizes to RNA granules, interacts with three proteins found in RNA granules (KIF3A, NonO, and eEF1A), and further enhances the local translation. UHMK1 is highly expressed in regions of the brain implicated in schizophrenia and may play a role in susceptibility to schizophrenia. Length = 88

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

 Score = 48.3 bits (116), Expect = 3e-09
 Identities = 14/41 (34%), Positives = 26/41 (63%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEI 56
           + L NM  P E  +++  ++I ED+ EEC+K+G V  +++
Sbjct: 3  CVILKNMFDPAEETEDEWDDEIKEDVLEECSKFGPVEHIKV 43

This subfamily corresponds to the RRM3 of RBM39, also termed hepatocellular carcinoma protein 1, or RNA-binding region-containing protein 2, or splicing factor HCC1, ia nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Based on the specific domain composition, RBM39 has been classified into a family of non-snRNP (small nuclear ribonucleoprotein) splicing factors that are usually not complexed to snRNAs. . Length = 85

>gnl|CDD|240820 cd12374, RRM_UHM_SPF45_PUF60, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 44.5 bits (106), Expect = 6e-08
 Identities = 16/36 (44%), Positives = 24/36 (66%), Gaps = 5/36 (13%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
          +L L NMVTP E+ ++ +     ++I+EEC KYG V
Sbjct: 3  ILVLRNMVTPGEIDEDLK-----DEIEEECEKYGKV 33

This subfamily corresponds to the RRM found in UHM domain of 45 kDa-splicing factor (SPF45 or RBM17), poly(U)-binding-splicing factor PUF60 (FIR or Hfp or RoBP1 or Siah-BP1), and similar proteins. SPF45 is an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RRMs and a C-terminal UHM domain. . Length = 85

>gnl|CDD|241091 cd12647, RRM_UHM_SPF45, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 39.6 bits (93), Expect = 8e-06
 Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 8/47 (17%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSL---EIPRP 59
          V+ L NMV P E+ ++ E E     +KEEC+KYG V  +   EIP  
Sbjct: 4  VVLLRNMVGPGEVDEDLEPE-----VKEECSKYGKVTKVLIFEIPGA 45

This subgroup corresponds to the RRM of SPF45, also termed RNA-binding motif protein 17 (RBM17), an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. . Length = 96

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

 Score = 39.1 bits (91), Expect = 4e-05
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 17  LCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
           L L NM  P   ++ +   +I +D+KEEC+KYG V
Sbjct: 365 LVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGV 399

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

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

 Score = 37.6 bits (88), Expect = 5e-05
 Identities = 12/42 (28%), Positives = 28/42 (66%), Gaps = 1/42 (2%)

Query: 16 VLCLLNMVTPDELKDEDE-YEDICEDIKEECNKYGIVRSLEI 56
          V+ L N+ +P+E +++     ++ +D++EEC K+G V+ + +
Sbjct: 3  VVILKNLFSPEEFEEDPTLINELRDDLREECEKFGQVKKVVV 44

This subfamily corresponds to the RRM2 of Tat-SF1 and CUS2. Tat-SF1 is the cofactor for stimulation of transcriptional elongation by human immunodeficiency virus-type 1 (HIV-1) Tat. It is a substrate of an associated cellular kinase. Tat-SF1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a highly acidic carboxyl-terminal half. The family also includes CUS2, a yeast homolog of human Tat-SF1. CUS2 interacts with U2 RNA in splicing extracts and functions as a splicing factor that aids assembly of the splicing-competent U2 snRNP in vivo. CUS2 also associates with PRP11 that is a subunit of the conserved splicing factor SF3a. Like Tat-SF1, CUS2 contains two RRMs as well. . Length = 91

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

 Score = 38.9 bits (90), Expect = 5e-05
 Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 5/45 (11%)

Query: 7   RLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
           +L+   R +V+ L NMVTP     +D  E +  +I+EEC K+G+V
Sbjct: 507 KLMRTNRSNVIVLRNMVTP-----QDIDEFLEGEIREECGKFGVV 546

The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA. Length = 612

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

 Score = 37.4 bits (87), Expect = 5e-05
 Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 5/36 (13%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV 51
          V+ L NMV P++L D+ E      ++ EEC K+G V
Sbjct: 3  VMVLRNMVGPEDLDDDLE-----GEVTEECGKFGAV 33

This subgroup corresponds to the RRM3 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1), an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. The research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 98

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	74
KOG0120|consensus	500		99.77
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.57
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.56
KOG0147|consensus	549		99.49
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.37
KOG0124|consensus	544		99.26
KOG1548|consensus	382		99.16
KOG1996|consensus	378		98.87
smart00361	70	RRM_1 RNA recognition motif.	98.07
PF15519	73	RBM39linker: linker between RRM2 and RRM3 domains	97.61
KOG2202|consensus	260		95.55
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	95.43
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	93.99
smart00360	71	RRM RNA recognition motif.	93.8
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	93.05
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	92.87
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	92.04
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	90.8
KOG0127|consensus	678		90.4
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	90.23
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	89.49
smart00362	72	RRM_2 RNA recognition motif.	89.49
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	88.61
KOG4207|consensus	256		88.28
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	88.05
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	87.89
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	87.12
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	86.72
KOG0114|consensus	124		86.71
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	85.56
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	85.24
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	85.06
KOG0113|consensus	335		83.67
PLN03120	260	nucleic acid binding protein; Provisional	83.29

>KOG0120|consensus

Probab=99.77  E-value=1.7e-19  Score=139.00  Aligned_cols=66  Identities=55%  Similarity=0.969  Sum_probs=62.1

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC-CCCCCCCceEEEEe
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP-IENVDVPGCGKATL   73 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp-~~~~~~~gvGkVFv   73 (74)
                      ..+..||+|+||+||++++||.++++|+||+|||+.||+|||.|.+|.|||| ..+...+|+|||||
T Consensus       393 q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFV  459 (500)
T KOG0120|consen  393 QMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFV  459 (500)
T ss_pred             ccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEE
Confidence            4567999999999999999999999999999999999999999999999999 55668999999998

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

Probab=99.57  E-value=5.1e-15  Score=110.71  Aligned_cols=64  Identities=44%  Similarity=0.680  Sum_probs=57.7

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC-CCCCceEEEEe
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN-VDVPGCGKATL   73 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~-~~~~gvGkVFv   73 (74)
                      ...||+||+|.||+++++|.++++|++|.+||++||++||.|++|.||++..+ ....|.|++||
T Consensus       405 ~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV  469 (509)
T TIGR01642       405 GGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFL  469 (509)
T ss_pred             cCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEE
Confidence            34689999999999999999999999999999999999999999999998543 35678999998

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

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

Probab=99.56  E-value=5e-15  Score=116.61  Aligned_cols=64  Identities=30%  Similarity=0.435  Sum_probs=54.4

Q ss_pred             ccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCC--CCCceEEEEeC
Q psy2203           6 DRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGKATLV   74 (74)
Q Consensus         6 d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~--~~~gvGkVFv~   74 (74)
                      ++|....+|+||+|.|||+++|+.+     ||++||++||+|||.|.+|.|+.++.+.  +..++|+|||.
T Consensus       506 ~~l~rp~~S~vVvL~NMv~~~elde-----dl~eDV~eEC~K~G~V~~v~I~~~~~~~~~~~~~~g~VfV~  571 (612)
T TIGR01645       506 QKLMRTNRSNVIVLRNMVTPQDIDE-----FLEGEIREECGKFGVVDRVIINFEKQGEEEDAEIIVKIFVE  571 (612)
T ss_pred             HhhcCCCCCCEEEEeCCCChHHhHH-----HHHHHHHHHhhcCceeEEEEEecCCCCccccccceEEEEEE
Confidence            3566677899999999999999853     4999999999999999999999977653  45679999983

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.

>KOG0147|consensus

Probab=99.49  E-value=1.6e-14  Score=112.09  Aligned_cols=55  Identities=27%  Similarity=0.376  Sum_probs=51.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .||+|++|+|||+|.+.+++.|-+||.+||.|||+|||.|.||.|...+       .|.|||
T Consensus       441 i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns-------~g~VYv  495 (549)
T KOG0147|consen  441 IPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNS-------AGCVYV  495 (549)
T ss_pred             CccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCC-------CceEEE
Confidence            8999999999999999999999999999999999999999999999966       367776

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

Probab=99.37  E-value=1.7e-12  Score=96.16  Aligned_cols=57  Identities=33%  Similarity=0.491  Sum_probs=51.7

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ..+++||+|.|||++.+..++.+|+||.+||++||+|||.|++|.|+++.      +.|.+||
T Consensus       359 ~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~------~~G~~fV  415 (457)
T TIGR01622       359 NLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKN------SAGKIYL  415 (457)
T ss_pred             CCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCC------CceeEEE
Confidence            37899999999999999999999999999999999999999999998764      3577886

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

>KOG0124|consensus

Probab=99.26  E-value=5.7e-12  Score=95.94  Aligned_cols=62  Identities=27%  Similarity=0.437  Sum_probs=53.6

Q ss_pred             cCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCC--CCCceEEEEe
Q psy2203           7 RLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGKATL   73 (74)
Q Consensus         7 ~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~--~~~gvGkVFv   73 (74)
                      +|.....|+|++|+||++|+|++++     |+.+|+|||+|||.|.+|.|..-.++.  ..+-+-||||
T Consensus       439 kLmR~~~S~VivLRNMV~P~DiDe~-----LegEi~EECgKfG~V~rViI~nekq~e~edaeiiVKIFV  502 (544)
T KOG0124|consen  439 KLMRKQESTVIVLRNMVDPKDIDED-----LEGEITEECGKFGAVNRVIIYNEKQGEEEDAEIIVKIFV  502 (544)
T ss_pred             HHhccccCcEEEEeccCChhhhhhH-----HHHHHHHHHhcccceeEEEEEecccccccchhhhheeee
Confidence            5666788999999999999999876     999999999999999999999887654  3445788887

>KOG1548|consensus

Probab=99.16  E-value=5.9e-11  Score=88.98  Aligned_cols=58  Identities=31%  Similarity=0.492  Sum_probs=48.4

Q ss_pred             CCcccCCCCCCceEEEeeCCCCCCcCCCh-hHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           3 PPWDRLVPPLRFSVLCLLNMVTPDELKDE-DEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         3 ~~~d~~~~~~ps~vv~L~Nm~~~~el~~~-~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      |-+++-.-....+.|+|+|||+|+++..+ +...||++|+++||+|||.|.+|+|...+
T Consensus       254 pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~h  312 (382)
T KOG1548|consen  254 PDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRH  312 (382)
T ss_pred             CCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccC
Confidence            34445555567788999999999999877 45799999999999999999999998643

>KOG1996|consensus

Probab=98.87  E-value=1e-09  Score=81.63  Aligned_cols=57  Identities=30%  Similarity=0.350  Sum_probs=46.8

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ..|++||.|.|||.+++..++     |.+++++||+|||+|.+|.|+.-+. +...-.-+|||
T Consensus       278 ~~ptkvlllrnmVg~gevd~e-----lede~keEceKyg~V~~viifeip~-~p~deavRiFv  334 (378)
T KOG1996|consen  278 KCPTKVLLLRNMVGAGEVDEE-----LEDETKEECEKYGKVGNVIIFEIPS-QPEDEAVRIFV  334 (378)
T ss_pred             hcchHHHHhhhhcCcccccHH-----HHHHHHHHHHhhcceeeEEEEecCC-Cccchhheeee
Confidence            468999999999999998765     9999999999999999999987632 33334556765

>smart00361 RRM_1 RNA recognition motif

Probab=98.07  E-value=1.2e-05  Score=46.64  Aligned_cols=39  Identities=21%  Similarity=0.221  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHhcCCeEEEE-ecCCCCCCCCCceEEEEe
Q psy2203          35 EDICEDIKEECNKYGIVRSLE-IPRPIENVDVPGCGKATL   73 (74)
Q Consensus        35 ~ei~eDv~eEC~K~G~V~~V~-Iprp~~~~~~~gvGkVFv   73 (74)
                      +||++.+++||++||.|.+|. |..+........-|.+||
T Consensus         3 ~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV   42 (70)
T smart00361        3 EDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYI   42 (70)
T ss_pred             hhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEE
Confidence            479999999999999999985 544433211122355565

>PF15519 RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein; PDB: 3S6E_A 2LQ5_A

Probab=97.61  E-value=3.4e-05  Score=46.42  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=16.7

Q ss_pred             CCCceEEEeeCCCCCCcCCChhH
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDE   33 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~   33 (74)
                      ..+|+|++|+|||+|.+.+++.|
T Consensus        51 ~~aS~C~lLkNMFDP~~Ete~~W   73 (73)
T PF15519_consen   51 PIASRCFLLKNMFDPAEETEPDW   73 (73)
T ss_dssp             S---SEEEEESSS-TTCGGSTTH
T ss_pred             CCCCceeeeecCCCcccccCCCC
Confidence            58899999999999999887765

>KOG2202|consensus

Probab=95.55  E-value=0.0022  Score=46.84  Aligned_cols=59  Identities=20%  Similarity=0.282  Sum_probs=41.8

Q ss_pred             CCceEEEeeCCCCCCcCC-----------Chh----HHHHHHHHHHHHHH-hcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELK-----------DED----EYEDICEDIKEECN-KYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~-----------~~~----~~~ei~eDv~eEC~-K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .-|..|+|.||.--.+..           .|+    .|+|..|||-.|++ |||.|+++.|-.....   .=+|.|||
T Consensus        41 t~s~t~ll~nmyq~P~~~~~~~d~~~~~~~de~~q~~~defyEd~f~E~~~kygEiee~~Vc~Nl~~---hl~GNVYV  115 (260)
T KOG2202|consen   41 TFSQTVLLKNMYQNPENSWERRDAQGQFLTDEELQRHEDEFYEDVFTELEDKYGEIEELNVCDNLGD---HLVGNVYV  115 (260)
T ss_pred             ccchHHHHHHHHhCCCCCchhhhhccccccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccch---hhhhhhhh
Confidence            345677789987544322           222    36899999999998 9999999988886542   23566665

>PF13893 RRM_5: RNA recognition motif

Probab=95.43  E-value=0.021  Score=31.06  Aligned_cols=20  Identities=20%  Similarity=0.365  Sum_probs=16.7

Q ss_pred             HHHHHHhcCCeEEEEecCCC
Q psy2203          41 IKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        41 v~eEC~K~G~V~~V~Iprp~   60 (74)
                      +++.|++||.|.++.+.+..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~   20 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK   20 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS
T ss_pred             ChHHhCCcccEEEEEEEeCC
Confidence            46889999999999998865

(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 ....

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

Probab=93.99  E-value=0.13  Score=33.79  Aligned_cols=49  Identities=12%  Similarity=0.102  Sum_probs=34.0

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .++-|.+.|+-..-.          .+|+++-+++||.|.++.|++...+....|.|.|
T Consensus        33 ~~~~lfVgnL~~~~t----------e~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV   81 (144)
T PLN03134         33 MSTKLFIGGLSWGTD----------DASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFV   81 (144)
T ss_pred             CCCEEEEeCCCCCCC----------HHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEE
Confidence            345577888754322          4688999999999999999887654334455443

>smart00360 RRM RNA recognition motif

Probab=93.80  E-value=0.25  Score=25.86  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=19.7

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCC
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      +|+++-++.||.|..+.+++...
T Consensus        11 ~~l~~~f~~~g~v~~~~i~~~~~   33 (71)
T smart00360       11 EELRELFSKFGKIESVRLVRDKD   33 (71)
T ss_pred             HHHHHHHHhhCCEeEEEEEeCCC
Confidence            57788888999999999998764

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=93.05  E-value=0.52  Score=33.74  Aligned_cols=48  Identities=17%  Similarity=0.249  Sum_probs=33.5

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++|.+.|+-.  +. +       .+|+++-+++||.|.++.|++...+...-|.|.|
T Consensus       269 ~~~lfV~NL~~--~~-~-------e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV  316 (352)
T TIGR01661       269 GYCIFVYNLSP--DT-D-------ETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFV  316 (352)
T ss_pred             CcEEEEeCCCC--CC-C-------HHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEE
Confidence            44788999843  33 2       3567788999999999999986644344555544

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=92.87  E-value=0.38  Score=34.40  Aligned_cols=48  Identities=19%  Similarity=0.248  Sum_probs=32.7

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +.-|.+.|+  |.++.+        +|+++.+++||.|.+|.|.+-..+....|.|.|
T Consensus         3 ~~~l~V~nL--p~~~~e--------~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV   50 (352)
T TIGR01661         3 KTNLIVNYL--PQTMTQ--------EEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFV   50 (352)
T ss_pred             CcEEEEeCC--CCCCCH--------HHHHHHHHccCCEEEEEEEEcCCCCccceEEEE
Confidence            455667887  555543        578899999999999999875443233344443

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

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

Probab=92.04  E-value=0.78  Score=34.19  Aligned_cols=50  Identities=16%  Similarity=0.151  Sum_probs=35.3

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+++.|.+.|+  +.++.        .+||++.+++||.|..|.|++...+...-|.|.|
T Consensus        87 ~~~~~l~V~nl--p~~~~--------~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afV  136 (457)
T TIGR01622        87 RDDRTVFVLQL--ALKAR--------ERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYV  136 (457)
T ss_pred             cCCcEEEEeCC--CCCCC--------HHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEE
Confidence            45778889998  33443        3568889999999999999886543334455554

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.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=90.80  E-value=0.51  Score=35.27  Aligned_cols=33  Identities=18%  Similarity=0.191  Sum_probs=24.3

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++.+++||.|+++.|++...+..+.|.|.|
T Consensus       208 e~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV  240 (346)
T TIGR01659       208 DQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFV  240 (346)
T ss_pred             HHHHHHHHhcCCEEEEEEeecCCCCccceEEEE
Confidence            578888999999999999986543333455444

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).

>KOG0127|consensus

Probab=90.40  E-value=0.51  Score=38.27  Aligned_cols=33  Identities=24%  Similarity=0.368  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKAT   72 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVF   72 (74)
                      .|++.=|++||.|..|+||+..++..+ |.|.|.
T Consensus       132 ~dLk~vFs~~G~V~Ei~IP~k~dgklc-GFaFV~  164 (678)
T KOG0127|consen  132 PDLKNVFSNFGKVVEIVIPRKKDGKLC-GFAFVQ  164 (678)
T ss_pred             HHHHHHHhhcceEEEEEcccCCCCCcc-ceEEEE
Confidence            388899999999999999998877544 555553

>PF14259 RRM_6: RNA recognition motif (a

Probab=90.23  E-value=0.66  Score=25.62  Aligned_cols=32  Identities=19%  Similarity=0.367  Sum_probs=24.8

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      +|+++.++.||.|.++.+.+...+   .+-|..||
T Consensus        13 ~~l~~~f~~~g~v~~v~~~~~~~~---~~~~~a~v   44 (70)
T PF14259_consen   13 EDLRNFFSRFGPVEKVRLIKNKDG---QSRGFAFV   44 (70)
T ss_dssp             HHHHHHCTTSSBEEEEEEEESTTS---SEEEEEEE
T ss_pred             HHHHHHHHhcCCcceEEEEeeecc---ccCCEEEE
Confidence            789999999999999999986542   34555554

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 ....

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

Probab=89.49  E-value=0.84  Score=35.00  Aligned_cols=36  Identities=17%  Similarity=0.145  Sum_probs=29.1

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ||++|.+.|+=..  ..        .+|+++-+++||.|.++.|.+
T Consensus         1 ps~vv~V~nLp~~--~t--------e~~L~~~f~~fG~V~~v~i~~   36 (481)
T TIGR01649         1 PSPVVHVRNLPQD--VV--------EADLVEALIPFGPVSYVMMLP   36 (481)
T ss_pred             CccEEEEcCCCCC--CC--------HHHHHHHHHhcCCeeEEEEEC
Confidence            7999999997543  32        357788899999999999886

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).

>smart00362 RRM_2 RNA recognition motif

Probab=89.49  E-value=1.5  Score=22.89  Aligned_cols=23  Identities=39%  Similarity=0.670  Sum_probs=18.8

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+|+++-.++||.|..+.+.+..
T Consensus        13 ~~~l~~~~~~~g~v~~~~~~~~~   35 (72)
T smart00362       13 EEDLKELFSKFGPIESVKIPKDT   35 (72)
T ss_pred             HHHHHHHHHhcCCEEEEEEecCC
Confidence            35677778899999999988765

>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=88.61  E-value=1.8  Score=22.68  Aligned_cols=25  Identities=36%  Similarity=0.534  Sum_probs=20.8

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      .+|+++-++.||.+.++.+.+...+
T Consensus        13 ~~~i~~~~~~~g~i~~~~~~~~~~~   37 (74)
T cd00590          13 EEDLRELFSKFGKVESVRIVRDKDT   37 (74)
T ss_pred             HHHHHHHHHhcCCEEEEEEeeCCCC
Confidence            4688888999999999999986543

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).

>KOG4207|consensus

Probab=88.28  E-value=0.71  Score=33.53  Aligned_cols=35  Identities=29%  Similarity=0.355  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          37 ICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        37 i~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      --+|++--.+|||.|-.|+||+-..+...-  |..||
T Consensus        26 spd~LrrvFekYG~vgDVyIPrdr~Tr~sR--gFaFV   60 (256)
T KOG4207|consen   26 SPDDLRRVFEKYGRVGDVYIPRDRYTRQSR--GFAFV   60 (256)
T ss_pred             CHHHHHHHHHHhCcccceeccccccccccc--ceeEE
Confidence            345677788999999999999977654444  44454

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

Probab=88.05  E-value=1.9  Score=33.10  Aligned_cols=40  Identities=15%  Similarity=0.122  Sum_probs=30.3

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .++++|.+.|+- .+.+.+        +++++-+++||.|.+|+|.+.+
T Consensus       273 ~~~~~l~v~nL~-~~~vt~--------~~L~~lF~~yG~V~~vki~~~~  312 (481)
T TIGR01649       273 GPGSVLMVSGLH-QEKVNC--------DRLFNLFCVYGNVERVKFMKNK  312 (481)
T ss_pred             CCCCEEEEeCCC-CCCCCH--------HHHHHHHHhcCCeEEEEEEeCC
Confidence            477899999983 222322        4788889999999999998854

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).

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

Probab=87.89  E-value=1.1  Score=34.65  Aligned_cols=48  Identities=17%  Similarity=0.140  Sum_probs=32.0

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+..|.+.|+-.  ++.        .+++++.|++||.|.++.|.+...+ ...|.|.|
T Consensus       284 ~~~~l~V~nl~~--~~~--------~~~L~~~F~~~G~i~~~~i~~d~~g-~~~g~gfV  331 (562)
T TIGR01628       284 QGVNLYVKNLDD--TVT--------DEKLRELFSECGEITSAKVMLDEKG-VSRGFGFV  331 (562)
T ss_pred             CCCEEEEeCCCC--ccC--------HHHHHHHHHhcCCeEEEEEEECCCC-CcCCeEEE
Confidence            344577777632  222        3678999999999999999987433 23455544

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

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

Probab=87.12  E-value=1.3  Score=34.16  Aligned_cols=34  Identities=18%  Similarity=0.179  Sum_probs=25.0

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++-+++||.|.+|.|.+-..+....|.|.|
T Consensus        14 e~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV   47 (562)
T TIGR01628        14 EAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYV   47 (562)
T ss_pred             HHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEE
Confidence            4678888999999999999987654333444443

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

>PF00076 RRM_1: RNA recognition motif

Probab=86.72  E-value=1.9  Score=23.14  Aligned_cols=22  Identities=18%  Similarity=0.501  Sum_probs=19.5

Q ss_pred             HHHHHHHHHhcCCeEEEEecCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .+|+++-.++||.+.++.+.+.
T Consensus        12 ~~~l~~~f~~~g~i~~~~~~~~   33 (70)
T PF00076_consen   12 EEELRDFFSQFGKIESIKVMRN   33 (70)
T ss_dssp             HHHHHHHHHTTSTEEEEEEEEE
T ss_pred             HHHHHHHHHHhhhccccccccc
Confidence            3688899999999999999986

(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 ....

>KOG0114|consensus

Probab=86.71  E-value=2.4  Score=27.88  Aligned_cols=50  Identities=30%  Similarity=0.508  Sum_probs=36.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEeC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATLV   74 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv~   74 (74)
                      ++.-++++.+.|+  |-++..        |+|-+=..|||.|.+|.|--...     .-|..||+
T Consensus        14 ppevnriLyirNL--p~~ITs--------eemydlFGkyg~IrQIRiG~~k~-----TrGTAFVV   63 (124)
T KOG0114|consen   14 PPEVNRILYIRNL--PFKITS--------EEMYDLFGKYGTIRQIRIGNTKE-----TRGTAFVV   63 (124)
T ss_pred             ChhhheeEEEecC--CccccH--------HHHHHHhhcccceEEEEecCccC-----cCceEEEE
Confidence            4456889999997  444443        46777789999999999876443     35777774

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

Probab=85.56  E-value=1.6  Score=35.35  Aligned_cols=34  Identities=21%  Similarity=0.296  Sum_probs=26.7

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKAT   72 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVF   72 (74)
                      +|+++.+++||.|.++.|++...+....|.|.|-
T Consensus       219 edLk~lFs~FG~I~svrl~~D~~tgksKGfGFVe  252 (612)
T TIGR01645       219 TDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIE  252 (612)
T ss_pred             HHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEE
Confidence            5788889999999999999876554556777663

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=85.24  E-value=5  Score=32.30  Aligned_cols=57  Identities=16%  Similarity=0.236  Sum_probs=37.1

Q ss_pred             CCcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           3 PPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         3 ~~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      |.|+...+...+++ .+.|+=.  ++.        .+|+++-+++||.|.++.|.+...+ ..-|.|.|
T Consensus        48 ~~~~~~~p~~~~~l-FVgnLp~--~~t--------Ed~L~~~F~~~G~I~~vrl~~D~sG-~sRGfaFV  104 (578)
T TIGR01648        48 PGWSGVQPGRGCEV-FVGKIPR--DLY--------EDELVPLFEKAGPIYELRLMMDFSG-QNRGYAFV  104 (578)
T ss_pred             CcccCCCCCCCCEE-EeCCCCC--CCC--------HHHHHHHHHhhCCEEEEEEEECCCC-CccceEEE
Confidence            45877776666554 4666532  332        3578889999999999999887333 23344443

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

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

Probab=85.06  E-value=4.1  Score=30.69  Aligned_cols=48  Identities=19%  Similarity=0.266  Sum_probs=32.0

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+.|.+.|+  +..+.+        ++|++-+++||.|..+.|.+...+....|.|.|
T Consensus       295 ~~~l~v~nl--p~~~~~--------~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv  342 (509)
T TIGR01642       295 KDRIYIGNL--PLYLGE--------DQIKELLESFGDLKAFNLIKDIATGLSKGYAFC  342 (509)
T ss_pred             CCEEEEeCC--CCCCCH--------HHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEE
Confidence            456778888  344432        577888899999999998875443233445444

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

>KOG0113|consensus

Probab=83.67  E-value=2  Score=32.46  Aligned_cols=35  Identities=20%  Similarity=0.303  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          37 ICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        37 i~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      -+.+++.|.++||.|++|.+-+...+..+  -|..||
T Consensus       114 ~EskLrreF~~YG~IkrirlV~d~vTgks--kGYAFI  148 (335)
T KOG0113|consen  114 SESKLRREFEKYGPIKRIRLVRDKVTGKS--KGYAFI  148 (335)
T ss_pred             cHHHHHHHHHhcCcceeEEEeeecccCCc--cceEEE
Confidence            35789999999999999999886543333  345554

>PLN03120 nucleic acid binding protein; Provisional

Probab=83.29  E-value=2.8  Score=30.76  Aligned_cols=45  Identities=18%  Similarity=0.078  Sum_probs=31.4

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ++.|.+.|+=..  .        -.+||++-.+.||.|.+|.|++...   ..|.|.|
T Consensus         4 ~rtVfVgNLs~~--t--------TE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFV   48 (260)
T PLN03120          4 VRTVKVSNVSLK--A--------TERDIKEFFSFSGDIEYVEMQSENE---RSQIAYV   48 (260)
T ss_pred             CCEEEEeCCCCC--C--------CHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEE
Confidence            456677776433  1        1468899999999999999988653   2455544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	74
1o0p_A	104	Solution Structure Of The Third Rna Recognition Mot		1e-07
1opi_A	104	Solution Structure Of The Third Rna Recognition Mot		1e-07
3v4m_A	105	Crystal Structure Of A Rna Binding Domain Of A U2 S		1e-06
4fxw_A	106	Structure Of Phosphorylated Sf1 Complex With U2af65		1e-06

>pdb|1O0P|A Chain A, Solution Structure Of The Third Rna Recognition Motif (Rrm) Of U2af65 In Complex With An N-Terminal Sf1 Peptide Length = 104

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 5  EVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 60

>pdb|1OPI|A Chain A, Solution Structure Of The Third Rna Recognition Motif (Rrm) Of U2af65 In Complex With An N-Terminal Sf1 Peptide Length = 104

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 5  EVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 60

>pdb|3V4M|A Chain A, Crystal Structure Of A Rna Binding Domain Of A U2 Small Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af) From Mus Musculus At 1.80 A Resolution Length = 105

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/56 (46%), Positives = 34/56 (60%)
Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL N V P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 6  EVLCLXNXVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 61

>pdb|4FXW|A Chain A, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm Domain Length = 106

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/56 (46%), Positives = 34/56 (60%)
Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL N V P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 7  EVLCLXNXVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 62
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	74
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	2e-20
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	3e-19
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	6e-16
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	2e-15
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	1e-12
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	3e-04

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A Length = 105

 Score = 76.4 bits (188), Expect = 2e-20
 Identities = 36/58 (62%), Positives = 52/58 (89%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL 73
          VLCL+NMV P+EL D++EYE+I ED+++EC+KYG+V+S+EIPRP++ V+VPGCGK  +
Sbjct: 7  VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFV 64

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A Length = 114

 Score = 73.9 bits (182), Expect = 3e-19
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 9  VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDV 65
          V PL      L NM  P   ++     +I +D+ EECNK+G V  + + +     +V
Sbjct: 2  VQPLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNV 58

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} PDB: 3us5_A 2dny_A Length = 118

 Score = 65.5 bits (160), Expect = 6e-16
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 7/57 (12%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGK 70
          V+ L NMV P ++ D     D+  ++ EEC K+G V  + I +  +    D     K
Sbjct: 22 VMVLRNMVDPKDIDD-----DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVK 73

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 112

 Score = 64.3 bits (157), Expect = 2e-15
 Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 16 VLCLLNMVTPDELKDEDE-YEDICEDIKEECNKYGIVRSLEIPRPIENVDV 65
          V+ + NM  P + +D+     +I ED++ EC+K+G +R L +     +   
Sbjct: 17 VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVA 67

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

 Score = 56.8 bits (137), Expect = 1e-12
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 6/58 (10%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL 73
          V+ L NMV   E+ +     D+  + KEEC KYG V    I             +  L
Sbjct: 10 VVLLRNMVGAGEVDE-----DLEVETKEECEKYGKVGKCVIFEI-PGAPDDEAVRIFL 61

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3 Length = 104

 Score = 38.7 bits (90), Expect = 1e-05
 Identities = 10/46 (21%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 18 CLLNMVTPDELKDEDEYEDICEDI-KEECNKYGIVRSLEIPRPIEN 62
           L + V+  E+  ++ Y++  E++  E   KYG V  + +   + +
Sbjct: 22 GLRSAVSDVEM--QEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD 65

>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 = 36.8 bits (84), Expect = 2e-04
 Identities = 15/81 (18%), Positives = 22/81 (27%), Gaps = 36/81 (44%)

Query: 30  DEDEYEDICEDIKEECN------------------------KYGIVR---------SLEI 56
               Y+ +   IK E                          KY + R         +L  
Sbjct: 87  LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146

Query: 57  PRPIENVDV---PGCGKATLV 74
            RP +NV +    G GK  + 
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVA 167

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, alternative splicing, FBP interacting repressor, RRM, electron transport; 2.20A {Escherichia coli O157} Length = 222

 Score = 36.0 bits (83), Expect = 3e-04
 Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 5/42 (11%)

Query: 15  SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEI 56
           +V+ L NMV P ++ D+ E      ++ EEC K+G V  + I
Sbjct: 125 TVMVLRNMVDPKDIDDDLE-----GEVTEECGKFGAVNRVII 161

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	74
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.83
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.77
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.68
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.51
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.28
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.15
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.15
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	97.48
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	97.21
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	97.21
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	96.92
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	96.84
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	96.8
1x4e_A	85	RNA binding motif, single-stranded interacting pro	96.76
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	96.72
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	96.68
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	96.63
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	96.6
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	96.59
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	96.56
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	96.56
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	96.52
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	96.4
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	96.38
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	96.32
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	96.31
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	96.31
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	96.27
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	96.26
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	96.23
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	96.22
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	96.13
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	96.12
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	96.11
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	96.1
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	96.07
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	96.06
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	96.05
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	96.05
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	96.03
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	95.98
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	95.96
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	95.96
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	95.94
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	95.94
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	95.94
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	95.92
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	95.91
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	95.84
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	95.84
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	95.83
2div_A	99	TRNA selenocysteine associated protein; structural	95.8
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	95.79
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	95.79
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	95.76
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	95.74
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	95.74
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	95.73
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	95.68
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	95.68
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	95.64
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	95.61
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	95.6
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	95.59
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	95.58
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	95.57
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	95.57
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	95.57
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	95.53
2dis_A	109	Unnamed protein product; structural genomics, RRM	95.53
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	95.5
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	95.48
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	95.48
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	95.42
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	95.42
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	95.41
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	95.38
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	95.38
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	95.36
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	95.34
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	95.31
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	95.24
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	95.23
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	95.21
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	95.16
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	95.16
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	95.12
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	95.05
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	95.05
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	95.05
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	94.86
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	94.86
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	94.85
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	94.79
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	94.76
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	94.76
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	94.74
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	94.73
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	94.7
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	94.65
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	94.65
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	94.64
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	94.63
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	94.61
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	94.6
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	94.56
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	94.49
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	94.48
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	94.44
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	94.43
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	94.37
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	94.34
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	94.34
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	94.33
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	94.15
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	94.1
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	94.1
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	94.09
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	93.91
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	93.9
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	93.86
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	93.64
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	93.57
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	93.54
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	93.51
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	93.46
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	93.39
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	93.21
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	93.2
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	93.18
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	93.02
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	93.01
1x5p_A	97	Negative elongation factor E; structure genomics,	92.96
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	92.92
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	92.87
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	92.77
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	92.76
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	92.69
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	92.65
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	92.61
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	92.56
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	92.47
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	92.29
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	92.24
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	92.18
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	92.01
1x5o_A	114	RNA binding motif, single-stranded interacting pro	91.42
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	91.36
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	91.25
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	91.16
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	91.12
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	91.11
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	91.09
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	91.07
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	91.06
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	91.06
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	91.01
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	90.94
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	90.66
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	90.51
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	90.41
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	90.22
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	89.96
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	89.44
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	88.93
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	88.88
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	88.78
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	88.7
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	88.4
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	88.13
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	88.05
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	87.09
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	86.84
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	85.91
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	85.8
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	85.53
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	84.73
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	84.39
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	84.08
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	83.82
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	83.07
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	82.63
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	81.26
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	80.89
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	80.49

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=99.83  E-value=1.2e-20  Score=117.26  Aligned_cols=63  Identities=57%  Similarity=1.157  Sum_probs=57.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ..||+||+|+|||+++++.++.+|++|++|+++||+|||.|.+|.||++..+....+.|.+||
T Consensus         2 g~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV   64 (105)
T 3v4m_A            2 GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFV   64 (105)
T ss_dssp             CSCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEE
T ss_pred             CCCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEE
Confidence            579999999999999999999999999999999999999999999999886544456788887

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=99.77  E-value=6.1e-19  Score=111.64  Aligned_cols=58  Identities=28%  Similarity=0.382  Sum_probs=52.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      +..||+||+|+|||+++++.++++|.||++||++||+|||.|.+|.|++++      +-|.+||
T Consensus         3 ~p~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~------~~G~~fV   60 (114)
T 3s6e_A            3 QPLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS------AQGNVYV   60 (114)
T ss_dssp             CCCCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC------TTCCEEE
T ss_pred             CCCCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC------CcEEEEE
Confidence            568999999999999999999999999999999999999999999999864      2455665

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=99.68  E-value=7.1e-18  Score=107.15  Aligned_cols=62  Identities=27%  Similarity=0.450  Sum_probs=52.4

Q ss_pred             cCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCC--CCCceEEEEe
Q psy2203           7 RLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGKATL   73 (74)
Q Consensus         7 ~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~--~~~gvGkVFv   73 (74)
                      ++....||+||+|.|||+++|+.++     |.+||++||+|||.|.+|.|++++.+.  ...+.|++||
T Consensus        13 kl~~~~ps~vl~L~Nm~~~~el~dd-----leedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV   76 (118)
T 3ue2_A           13 KLLRKQESTVMVLRNMVDPKDIDDD-----LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFV   76 (118)
T ss_dssp             HHHHHHSCCEEEEESCSCGGGCCTT-----HHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEE
T ss_pred             HhcCCCCCCEEEEECCCCHHHHHHH-----HHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEE
Confidence            3445569999999999999998765     899999999999999999999987542  3456799998

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

Probab=99.51  E-value=2.8e-14  Score=88.43  Aligned_cols=58  Identities=28%  Similarity=0.280  Sum_probs=45.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ...||+||+|.||++++++.++     +.+|++++|+|||.|.+|.|++.+.+ ...+-|.+||
T Consensus         4 ~~~~s~~l~l~Nm~~~~~l~dd-----~~~dl~~~f~~~G~V~~v~i~~~~~~-~~~~~G~~FV   61 (105)
T 2pe8_A            4 GKCPTKVVLLRNMVGAGEVDED-----LEVETKEECEKYGKVGKCVIFEIPGA-PDDEAVRIFL   61 (105)
T ss_dssp             GGSCCSEEEEESSSCSCCC--------CHHHHHHHGGGGSCEEEEEEEECSSC-CTTTSEEEEE
T ss_pred             CCCCCCEEEEEcCCChHHhhHH-----HHHHHHHHHHhcCCEEEEEEecCCCC-CCCCcEEEEE
Confidence            4578999999999999998654     78999999999999999999986532 1233577776

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.28  E-value=1e-11  Score=76.39  Aligned_cols=57  Identities=21%  Similarity=0.457  Sum_probs=43.3

Q ss_pred             ceEEEeeCCC-CCCcCCC--------------hhHHHHHHHHHHHHH-HhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          14 FSVLCLLNMV-TPDELKD--------------EDEYEDICEDIKEEC-NKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        14 s~vv~L~Nm~-~~~el~~--------------~~~~~ei~eDv~eEC-~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      |++|+|.||| +|+....              .+.|.++.+||++|| ++||.|.+|.|++...+   ..-|.+||
T Consensus         1 s~~~~l~nm~~~p~~~~~~~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~---~~~G~~fV   73 (104)
T 1jmt_A            1 SQTIALLNIYRNPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD---HLVGNVYV   73 (104)
T ss_dssp             CCEEEEEEEEECCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSS---SSEEEEEE
T ss_pred             CcEEEEeeccCCccccccccCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCC---CccEEEEE
Confidence            6899999999 5665432              135789999999999 99999999999986543   34677776

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=99.15  E-value=7.3e-11  Score=79.15  Aligned_cols=58  Identities=28%  Similarity=0.468  Sum_probs=50.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCC--CCCceEEEEe
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENV--DVPGCGKATL   73 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~--~~~gvGkVFv   73 (74)
                      ..+++++.|.||++++++.++     +.+|+++||+|||.|.++.|+++..+.  ...+.|.+||
T Consensus       121 ~~~s~v~~l~n~v~~~e~~~e-----~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv  180 (222)
T 3dxb_A          121 AMESTVMVLRNMVDPKDIDDD-----LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFV  180 (222)
T ss_dssp             CCBCSEEEEESSCCGGGCCTT-----HHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEE
T ss_pred             ccccccchhhcCCCHHHHHHH-----HHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEE
Confidence            456889999999999998875     778999999999999999999987653  4467899998

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.15  E-value=9.7e-11  Score=71.89  Aligned_cols=51  Identities=27%  Similarity=0.424  Sum_probs=44.9

Q ss_pred             CCCCCceEEEeeCCCCCCcCC-ChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELK-DEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~-~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....+|++|+|.||+++.++. ++++|+++++|++++|++||.|.+|.|+.+
T Consensus        10 ~~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~   61 (112)
T 2dit_A           10 SRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR   61 (112)
T ss_dssp             CCCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT
T ss_pred             CCCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecC
Confidence            455789999999999999976 456789999999999999999999999654

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=97.48  E-value=0.00029  Score=43.31  Aligned_cols=46  Identities=13%  Similarity=0.207  Sum_probs=33.1

Q ss_pred             CcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           4 PWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         4 ~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .||+.....|+++|.+.|+=  .+..        .+|+++-+++||.|.+|.+.+.
T Consensus        11 ~~~~~~~~~ps~~l~V~NLp--~~~t--------e~~L~~lF~~fG~V~~v~i~~~   56 (100)
T 3r27_A           11 NYDDPHKTPASPVVHIRGLI--DGVV--------EADLVEALQEFGPISYVVVMPK   56 (100)
T ss_dssp             ------CCCCCSEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEETT
T ss_pred             cccccccCCCCcEEEEeCCC--CCCC--------HHHHHHHHhccCCEEEEEEEcC
Confidence            58999999999999999984  3333        2577899999999999999863

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

Probab=97.21  E-value=0.0019  Score=36.38  Aligned_cols=52  Identities=21%  Similarity=0.183  Sum_probs=36.2

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ++.|.+.|+  |.+.  ++.++..++|+++.+++||.|.++.|++.+ + .+.|.|.|
T Consensus         1 ~~~l~V~nL--p~~~--~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~-g-~~~g~afV   52 (81)
T 2krb_A            1 DSVIVVDNV--PQVG--PDRLEKLKNVIHKIFSKFGKITNDFYPEED-G-KTKGYIFL   52 (81)
T ss_dssp             CCEEEEESC--CCCC--TTTHHHHHHHHHHHHHTTCCEEEEECCCBT-T-BCCCEEEE
T ss_pred             CCEEEEeCC--CCCc--HHHHHHHHHHHHHHHhhcCCeEEEEecCCC-C-cEeEEEEE
Confidence            356778888  3333  334666889999999999999999999422 2 33455544

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

Probab=97.21  E-value=0.0011  Score=39.18  Aligned_cols=56  Identities=11%  Similarity=-0.016  Sum_probs=41.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++|.+.|+=.    .+++.+.-..+++++-+++||.|.+|.|++...+....|.|.|
T Consensus         4 ~~~~~vfV~nLp~----v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV   59 (100)
T 3ns6_A            4 GSDQYIVVNGAPV----IPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFV   59 (100)
T ss_dssp             CGGGEEEEESCCC----CBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEE
T ss_pred             CcCcEEEEeCCCc----CChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEE
Confidence            4467888999843    2344566788999999999999999999987654344566654

>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=96.92  E-value=0.0029  Score=36.65  Aligned_cols=49  Identities=18%  Similarity=0.138  Sum_probs=35.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      |++.|.+.|+=  .+..        .+|+++-+++||.|.++.|++...+....|.|.|
T Consensus         1 P~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   49 (96)
T 2x1f_A            1 PSRVVYLGSIP--YDQT--------EEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFI   49 (96)
T ss_dssp             CCSEEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEE
T ss_pred             CCcEEEEECCC--CCCC--------HHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEE
Confidence            67888899883  3333        3578889999999999999987654334455544

>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=96.84  E-value=0.0024  Score=36.22  Aligned_cols=54  Identities=15%  Similarity=0.064  Sum_probs=36.2

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .....+++.|.+.|+=  .+..        .+|+++-+++||.|.++.+++...+....|.|.|
T Consensus         5 ~~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   58 (87)
T 3s7r_A            5 SKNEEDAGKMFVGGLS--WDTS--------KKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFI   58 (87)
T ss_dssp             --CCSCTTEEEEECCC--TTCC--------HHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             CCCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEeecCCCCccccEEEE
Confidence            3455677888899983  3332        3578888999999999999987653333344433

>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=96.80  E-value=0.0025  Score=35.77  Aligned_cols=51  Identities=16%  Similarity=0.214  Sum_probs=36.0

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+|+++.+++||.|.++.+++...+....|.|.|
T Consensus         4 ~~~~~~l~V~nl~--~~~~--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV   54 (85)
T 3mdf_A            4 ATTKRVLYVGGLA--EEVD--------DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV   54 (85)
T ss_dssp             CCCSSEEEEECCC--TTCC--------HHHHHHHHGGGSCEEEEECCEETTTTEECSEEEE
T ss_pred             CCCCCEEEEECCC--CCCC--------HHHHHHHHhccCCEEEEEEEECCCCCccccEEEE
Confidence            4578889999983  3332        3678889999999999999886543333444443

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=96.76  E-value=0.0036  Score=35.26  Aligned_cols=51  Identities=18%  Similarity=0.177  Sum_probs=36.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+  +.+..        .+|+++-+++||.|.++.|++...+....|.|.|
T Consensus         2 ~~~~~~l~v~nl--p~~~t--------~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV   52 (85)
T 1x4e_A            2 SSGSSGLYIRGL--QPGTT--------DQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFV   52 (85)
T ss_dssp             CCCCCEEEEESC--CTTCC--------HHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEE
T ss_pred             CCCCcEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEE
Confidence            456788889997  33333        2568888999999999999987654444555554

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=96.72  E-value=0.0015  Score=38.14  Aligned_cols=48  Identities=17%  Similarity=0.244  Sum_probs=34.7

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcC-CeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYG-IVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G-~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      |++|.+.|+  |.+..        .+|+++.+++|| .|.+|.|++...+...-|.|.|
T Consensus         1 S~~i~v~nL--p~~~t--------e~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV   49 (91)
T 2lxi_A            1 SNIVMLRML--PQAAT--------EDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFV   49 (91)
T ss_dssp             CCEEEEETC--CSSCC--------HHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEE
T ss_pred             CCEEEEeCC--CCCCC--------HHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEE
Confidence            578888887  33443        358889999999 8999999987654444565554

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

Probab=96.68  E-value=0.0078  Score=34.37  Aligned_cols=51  Identities=20%  Similarity=0.184  Sum_probs=36.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        13 ~~~~~~l~V~nlp--~~~t--------~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV   63 (94)
T 2e5h_A           13 APSKSTVYVSNLP--FSLT--------NNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFI   63 (94)
T ss_dssp             CCCTTSEEEESCC--TTSC--------HHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEE
T ss_pred             CCCCCEEEEECCC--CCCC--------HHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEE
Confidence            4566778899983  3332        3568899999999999999987664444555554

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=96.63  E-value=0.012  Score=35.01  Aligned_cols=53  Identities=13%  Similarity=0.056  Sum_probs=37.1

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ....+++.|.+.|+=  .++.        .+|+++-+++||.|.++.|++...+....|.|.|
T Consensus        35 ~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV   87 (118)
T 2khc_A           35 IEGPEGCNLFIYHLP--QEFT--------DTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFV   87 (118)
T ss_dssp             CCCCCSEEEEEECSC--TTCC--------HHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEE
T ss_pred             CCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEE
Confidence            344567888899983  3332        2578888999999999999987654344455544

>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=96.60  E-value=0.014  Score=33.63  Aligned_cols=52  Identities=17%  Similarity=0.132  Sum_probs=36.7

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++........|.|.|
T Consensus         4 ~~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   55 (99)
T 1whw_A            4 GSSGSGRLFVRNLSY--TSS--------EEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFV   55 (99)
T ss_dssp             CCCSCEEEEEECCCT--TCC--------HHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEE
T ss_pred             CCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEE
Confidence            346788899999842  332        2478889999999999999987644334455544

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=96.59  E-value=0.018  Score=34.22  Aligned_cols=56  Identities=7%  Similarity=0.067  Sum_probs=39.3

Q ss_pred             ccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           6 DRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         6 d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..-....+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus         9 ~~~~~~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   64 (116)
T 2cqd_A            9 HGSQKDTTFTKIFVGGLPY--HTT--------DASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFV   64 (116)
T ss_dssp             CCCCCSCSSSEEEEECCCS--SCC--------HHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEE
T ss_pred             CCCcCCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEE
Confidence            3444556788888999842  332        3578888999999999999997654444455544

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

Probab=96.56  E-value=0.012  Score=34.83  Aligned_cols=54  Identities=19%  Similarity=0.099  Sum_probs=37.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..++.|.+.|+=.  .  .++.++...+|+++-+++||.|.+|.|++.+ + .+.|.|.|
T Consensus        13 ~~~~~l~V~nLp~--~--~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~-g-~~~G~afV   66 (105)
T 2nlw_A           13 GIDSVIVVDNVPQ--V--GPDRLEKLKNVIHKIFSKFGKITNDFYPEED-G-KTKGYIFL   66 (105)
T ss_dssp             SCCSEEEEESCCC--C--CTTTTTHHHHHHHHHHGGGSCEEEEECCCBT-T-BSCCEEEE
T ss_pred             CCCCEEEEeCCCc--c--hhhhhHHHHHHHHHHHhcCCCEEEEEeeCCC-C-CeeeEEEE
Confidence            3467788999753  2  2334556889999999999999999999422 2 33455544

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

Probab=96.56  E-value=0.0075  Score=36.48  Aligned_cols=51  Identities=20%  Similarity=0.325  Sum_probs=35.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..|++.|.+.|+=  .++.        .+|+++.+++||.|.+|.|++...+...-|.|.|
T Consensus         3 ~~p~~~lfV~nL~--~~~t--------e~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV   53 (110)
T 3s8s_A            3 QIPLKEVTFARLN--DNVR--------ETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARV   53 (110)
T ss_dssp             CSCCCEEEEESCC--TTCC--------HHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             CCCCcEEEEECCC--CCCC--------HHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEE
Confidence            4577888899973  2332        3567888999999999999987653333344433

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

Probab=96.52  E-value=0.022  Score=32.43  Aligned_cols=51  Identities=10%  Similarity=0.115  Sum_probs=36.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus         2 ~~~~~~l~v~nlp~--~~t--------~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV   52 (95)
T 2dnz_A            2 SSGSSGLYVGSLHF--NIT--------EDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFI   52 (95)
T ss_dssp             CSCCCEEEEESCCT--TCC--------HHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEE
T ss_pred             CCCCcEEEEeCCCC--CCC--------HHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEE
Confidence            35678888999832  232        3578888999999999999987654344455544

>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=96.40  E-value=0.017  Score=33.62  Aligned_cols=53  Identities=11%  Similarity=0.029  Sum_probs=37.4

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ....+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++........|.|.|
T Consensus        10 ~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   62 (105)
T 1x5u_A           10 SERNQDATVYVGGLD--EKVS--------EPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFV   62 (105)
T ss_dssp             CCCCTTTEEEEECCC--TTCC--------HHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEE
T ss_pred             ccCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEE
Confidence            445677888899983  3333        2568889999999999999987644344455544

>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=96.38  E-value=0.014  Score=34.04  Aligned_cols=52  Identities=15%  Similarity=0.149  Sum_probs=36.9

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++...+...-|.|.|
T Consensus         9 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   60 (106)
T 2dgp_A            9 KDHDAIKLFIGQIP--RNLD--------EKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFL   60 (106)
T ss_dssp             CCTTCEEEEEESCC--TTCC--------HHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEE
T ss_pred             CCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEE
Confidence            44667888899983  3332        2478899999999999999987654334455544

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.32  E-value=0.021  Score=32.93  Aligned_cols=52  Identities=13%  Similarity=0.176  Sum_probs=36.4

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++........|.|.|
T Consensus         6 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   57 (99)
T 2dgs_A            6 SGSKSNKIFVGGIP--HNCG--------ETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFI   57 (99)
T ss_dssp             CCSSCCEEEEESCC--SSCC--------HHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEE
T ss_pred             CCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEE
Confidence            44677888899983  2332        2468888999999999999987654334455544

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=96.31  E-value=0.016  Score=33.56  Aligned_cols=51  Identities=14%  Similarity=0.169  Sum_probs=35.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++........|.|.|
T Consensus         9 ~~~~~~l~v~nLp--~~~t--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV   59 (102)
T 1x5s_A            9 ASDEGKLFVGGLS--FDTN--------EQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFV   59 (102)
T ss_dssp             CCCCSEEEEESCC--TTCC--------HHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEE
T ss_pred             CCCCCEEEEECCC--CCCC--------HHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEE
Confidence            3567788899983  3332        3568888999999999999987654334444443

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=96.31  E-value=0.011  Score=35.28  Aligned_cols=52  Identities=13%  Similarity=0.065  Sum_probs=34.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        21 ~~~~~~~lfV~nLp--~~~t--------e~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV   72 (109)
T 2rs2_A           21 MGSSGCKMFIGGLS--WQTT--------QEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV   72 (109)
T ss_dssp             -----CCEEEESCC--TTCC--------HHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEE
T ss_pred             cCCCCCEEEEeCCC--CCCC--------HHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEE
Confidence            34566778888873  3333        3578889999999999999987654445566655

>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=96.27  E-value=0.019  Score=34.03  Aligned_cols=49  Identities=24%  Similarity=0.473  Sum_probs=35.0

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +..+++.|.+.|+  +.+..        .+|+++-+++||.|.+|.|++...   ..|.|.|
T Consensus         4 ~~~~~~~l~V~nl--p~~~t--------~~~l~~~F~~~G~v~~v~i~~~~~---~~g~afV   52 (115)
T 3lqv_A            4 PPEVNRILYIRNL--PYKIT--------AEEMYDIFGKYGPIRQIRVGNTPE---TRGTAYV   52 (115)
T ss_dssp             CTTCCSEEEEESC--CTTCC--------HHHHHHHHHTTSCEEEEEEECSTT---TTTCEEE
T ss_pred             CCCCCCEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEeeCCC---CCcEEEE
Confidence            4567888999997  33333        356888999999999999987432   2455544

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=96.26  E-value=0.031  Score=33.84  Aligned_cols=52  Identities=15%  Similarity=0.195  Sum_probs=37.0

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        59 ~~~~~~~l~v~nlp~--~~~--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV  110 (140)
T 2ku7_A           59 SATTKRVLYVGGLAE--EVD--------DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV  110 (140)
T ss_dssp             SCSSCCEEEEECCCT--TCC--------HHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEE
T ss_pred             CCCCCcEEEEEeCCC--CCC--------HHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEE
Confidence            345678888999832  332        2678888999999999999987654344555544

>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=96.23  E-value=0.018  Score=34.69  Aligned_cols=51  Identities=16%  Similarity=0.245  Sum_probs=36.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+||++-+++||.|.+|.|++...+....|.|.|
T Consensus        19 ~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   69 (126)
T 3ex7_B           19 SVEGWILFVTGVH--EEAT--------EEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLV   69 (126)
T ss_dssp             CSSSEEEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEE
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEecCCCCccceEEEE
Confidence            3567789999984  2332        3578888999999999999987654344555554

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=96.22  E-value=0.023  Score=33.03  Aligned_cols=53  Identities=15%  Similarity=0.240  Sum_probs=36.3

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC-CCCCCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP-IENVDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp-~~~~~~~gvGkV   71 (74)
                      ....+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++. .......|.|.|
T Consensus        10 ~~~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV   63 (107)
T 2cph_A           10 PKKQTTSKILVRNIPF--QAN--------QREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFV   63 (107)
T ss_dssp             CCSSCCCCEEEESCCT--TCC--------HHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEE
T ss_pred             ccCCCCCEEEEeCCCC--cCC--------HHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEE
Confidence            3446678888999832  332        3578888999999999999987 333334455544

>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=96.13  E-value=0.018  Score=33.49  Aligned_cols=44  Identities=20%  Similarity=0.291  Sum_probs=32.4

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .....+++.|.+.|+  +.++.        .+|+++-+++||.|.+|.|++...
T Consensus         9 ~~~~~~~~~l~v~nl--p~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   52 (103)
T 2cqg_A            9 KRAVQKTSDLIVLGL--PWKTT--------EQDLKEYFSTFGEVLMVQVKKDLK   52 (103)
T ss_dssp             SCCCCCCCCEEEESC--CSSCC--------HHHHHHHHGGGSCEEEEEEEECSS
T ss_pred             CCccCCCCEEEEEcC--CCcCC--------HHHHHHHHHhcCCeEEEEEEecCC
Confidence            344566777889996  33333        357888899999999999998654

>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=96.12  E-value=0.021  Score=31.95  Aligned_cols=41  Identities=7%  Similarity=0.132  Sum_probs=29.5

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+++.|.+.|+=.  +..        .+|+++-+++||.|.++.+++...
T Consensus         3 ~~~~~~l~v~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   43 (87)
T 3bs9_A            3 LGSHFHVFVGDLSP--EIT--------TAAIAAAFAPFGRISDARVVKDMA   43 (87)
T ss_dssp             ---CEEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCceEEEEeCCCC--CCC--------HHHHHHHHHhcCCEeEEEEEecCC
Confidence            34677888998843  232        357888999999999999998654

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

Probab=96.11  E-value=0.028  Score=35.39  Aligned_cols=41  Identities=15%  Similarity=0.247  Sum_probs=32.0

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+++.|.+.|+=.  +..        .+|+++.+++||.|.++.+++...
T Consensus       111 ~~~~~~l~v~nl~~--~~~--------~~~l~~~f~~~G~v~~~~~~~~~~  151 (198)
T 2yh0_A          111 PDSAHKLFIGGLPN--YLN--------DDQVKELLTSFGPLKAFNLVKDSA  151 (198)
T ss_dssp             SCCCCEEEEECCCT--TCC--------HHHHHHHHHTBSCEEEEEEEECTT
T ss_pred             CCCCCEEEEeCCCC--CCC--------HHHHHHHHHHcCCccEEEEeecCC
Confidence            35678888999854  222        467899999999999999998653

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=96.10  E-value=0.012  Score=34.19  Aligned_cols=50  Identities=16%  Similarity=0.218  Sum_probs=35.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK   70 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGk   70 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+....|.|.
T Consensus         9 ~~~~~~l~V~nLp--~~~t--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~af   58 (102)
T 2cqb_A            9 ATTKRVLYVGGLA--EEVD--------DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAF   58 (102)
T ss_dssp             CCCCSCEEEESCC--SSCC--------HHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEE
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHhhccCCEEEEEEEecCCCCCcceEEE
Confidence            3567888899983  3333        367888999999999999988754333344443

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=96.07  E-value=0.036  Score=34.44  Aligned_cols=51  Identities=20%  Similarity=0.215  Sum_probs=36.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++...+...-|.|.|
T Consensus        67 ~~~~~~l~v~nl~--~~~~--------~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV  117 (158)
T 2kn4_A           67 VEGMTSLKVDNLT--YRTS--------PDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV  117 (158)
T ss_dssp             CCBCCEEEEESCC--TTCC--------HHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEE
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEeecCCCCccceEEEE
Confidence            3557788899883  3332        3578889999999999999987644344555544

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

Probab=96.06  E-value=0.026  Score=32.04  Aligned_cols=44  Identities=18%  Similarity=0.217  Sum_probs=33.0

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .....+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.+++...
T Consensus         9 ~~~~~~~~~l~v~nlp~--~~t--------~~~l~~~f~~~G~v~~v~i~~~~~   52 (95)
T 2cqc_A            9 RANPDPNCCLGVFGLSL--YTT--------ERDLREVFSKYGPIADVSIVYDQQ   52 (95)
T ss_dssp             CCSCCGGGCEEEESCCS--SCC--------HHHHHHHHHTTSCEEEEEEEECSS
T ss_pred             CCCCCCCCEEEEECCCC--CCC--------HHHHHHHHHhcCCeeEEEEEEcCC
Confidence            34456788899999832  332        246888999999999999988654

>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=96.05  E-value=0.025  Score=32.22  Aligned_cols=43  Identities=14%  Similarity=0.043  Sum_probs=32.2

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ....+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...
T Consensus        11 ~~~~~~~~l~v~nlp~--~~~--------~~~l~~~F~~~G~i~~v~i~~~~~   53 (95)
T 2ywk_A           11 AQEEADRTVFVGNLEA--RVR--------EEILYELFLQAGPLTKVTICKDRE   53 (95)
T ss_dssp             -CTTGGGEEEEECCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCCCCEEEEECCCC--CCC--------HHHHHHHHHhcCCEEEEEEEECCC
Confidence            3456778899999832  332        357888999999999999998654

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=96.05  E-value=0.026  Score=33.96  Aligned_cols=51  Identities=14%  Similarity=0.072  Sum_probs=35.8

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +..+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++... ....|.|.|
T Consensus        31 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~v~~v~i~~~~~-g~~~g~afV   81 (124)
T 2kt5_A           31 GVETGAKLLVSNLD--FGVS--------DADIQELFAEFGTLKKAAVDYDRS-GRSLGTADV   81 (124)
T ss_dssp             CCSSCEEEEEESCC--SSCC--------HHHHHHHHHTTSCCSEEEEECCSS-SSCCSEEEE
T ss_pred             CCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeeEEEEEECCC-CCEeeEEEE
Confidence            34567888899983  3333        356888899999999999998762 233455544

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

Probab=96.03  E-value=0.023  Score=33.66  Aligned_cols=43  Identities=14%  Similarity=0.236  Sum_probs=32.7

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ....+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++...
T Consensus        10 ~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   52 (115)
T 2dgo_A           10 KDTSNHFHVFVGDLS--PEIT--------TEDIKAAFAPFGRISDARVVKDMA   52 (115)
T ss_dssp             CCSTTCEEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCCCcEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEEcCC
Confidence            345678889999983  3332        357889999999999999998654

>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=95.98  E-value=0.013  Score=35.04  Aligned_cols=43  Identities=9%  Similarity=0.057  Sum_probs=32.5

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+..+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...
T Consensus        21 ~~~~~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~~~   63 (108)
T 2jrs_A           21 KGSAGPMRLYVGSLH--FNIT--------EDMLRGIFEPFGRIESIQLMMDSE   63 (108)
T ss_dssp             CSCSSCEEEEEECCC--SSCC--------HHHHHHHHTTTSCEEEEEEEEETT
T ss_pred             cCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEEcCC
Confidence            345677889999983  3333        356888899999999999998654

>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=95.96  E-value=0.017  Score=34.75  Aligned_cols=40  Identities=13%  Similarity=0.128  Sum_probs=31.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...|+++|.+.|+=  .+..        .+|+++.+++||.|.+|.+.+.
T Consensus        11 ~~~p~~~l~V~nLp--~~~t--------e~~L~~~F~~fG~V~~v~i~~~   50 (104)
T 1wex_A           11 KVSVSPVVHVRGLC--ESVV--------EADLVEALEKFGTICYVMMMPF   50 (104)
T ss_dssp             CCCCCSEEEEESCC--SSCC--------HHHHHHHHTTTSCEEEEEEETT
T ss_pred             cCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEECC
Confidence            45678999999963  3443        2578899999999999999873

>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=95.96  E-value=0.046  Score=31.69  Aligned_cols=44  Identities=11%  Similarity=0.015  Sum_probs=33.4

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .....+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...
T Consensus         9 ~~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   52 (103)
T 2cqi_A            9 MEDDGQPRTLYVGNLS--RDVT--------EVLILQLFSQIGPCKSCKMITEHT   52 (103)
T ss_dssp             CCCSCCCCEEEEESCC--TTCC--------HHHHHHHHHHHSCEEEEEEECCCC
T ss_pred             CCCCCCCCEEEEeCCC--ccCC--------HHHHHHHHHhcCCEeEEEEEecCC
Confidence            3455678889999984  3332        357888899999999999999754

>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=95.94  E-value=0.013  Score=34.77  Aligned_cols=43  Identities=14%  Similarity=0.079  Sum_probs=32.1

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ....+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++...
T Consensus        20 ~~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   62 (115)
T 2cpz_A           20 KEGPEGANLFIYHLP--QEFG--------DQDLLQMFMPFGNVVSAKVFIDKQ   62 (115)
T ss_dssp             CCCSTTCCEEEESCC--SSCC--------HHHHHHHHGGGSCCSEEEEEECSS
T ss_pred             cCCCCCcEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEECCC
Confidence            344566788899984  2332        267888999999999999988654

>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=95.94  E-value=0.018  Score=33.62  Aligned_cols=53  Identities=25%  Similarity=0.340  Sum_probs=32.9

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC-CCCCCCceEEE
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI-ENVDVPGCGKA   71 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~-~~~~~~gvGkV   71 (74)
                      .....+++.|.+.|+  +.+..+        +|+++-+++|| |.+|.|++.. ......|.|.|
T Consensus        13 ~~~~~~~~~l~V~nL--p~~~t~--------~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV   66 (100)
T 2j76_E           13 RLPKSPPYTAFLGNL--PYDVTE--------ESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYA   66 (100)
T ss_dssp             -------CEEEESCC--SSCCSS--------SHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEE
T ss_pred             cCCCCCCcEEEEeCC--CCCCCH--------HHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEE
Confidence            344566778889998  333443        36788899999 9999999876 23344566655

>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=95.94  E-value=0.021  Score=33.36  Aligned_cols=42  Identities=14%  Similarity=0.075  Sum_probs=31.9

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+..+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++..
T Consensus        24 ~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~   65 (107)
T 3ulh_A           24 AGVETGGKLLVSNLD--FGVS--------DADIQELFAEFGTLKKAAVHYDR   65 (107)
T ss_dssp             CCCCCSEEEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEEEEECT
T ss_pred             CCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEECC
Confidence            344678889999973  3332        35678889999999999999876

>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=95.92  E-value=0.04  Score=31.94  Aligned_cols=42  Identities=17%  Similarity=0.219  Sum_probs=31.8

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+++.|.+.|+  +.++.        .+|+++-+++||.|.+|.|++...
T Consensus        11 ~~~~~~~l~V~nl--p~~~t--------~~~l~~~f~~~G~v~~v~i~~~~~   52 (103)
T 2cq3_A           11 SKSTPKRLHVSNI--PFRFR--------DPDLRQMFGQFGKILDVEIIFNER   52 (103)
T ss_dssp             CSCCCCEEEEESC--CTTCC--------HHHHHHHGGGTSCEEEEEEECCTT
T ss_pred             CCCCCCEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEEecCC
Confidence            4466788889998  33333        256888899999999999998654

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

Probab=95.91  E-value=0.013  Score=38.41  Aligned_cols=44  Identities=14%  Similarity=0.195  Sum_probs=29.8

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+..|++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...
T Consensus         9 ~~p~~p~~tlfVgnLp--~~~t--------e~~L~~~F~~~G~I~~v~i~~d~~   52 (213)
T 4f02_A            9 SAPSYPMASLYVGDLH--PDVT--------EAMLYEKFSPAGPILSIRVCRDMI   52 (213)
T ss_dssp             ------CCEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCCCCcEEEEeCCC--CCCC--------HHHHHHHHHhhCCEEEEEEecccC
Confidence            3445677889999983  3333        357888899999999999998554

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=95.84  E-value=0.018  Score=35.19  Aligned_cols=42  Identities=17%  Similarity=0.226  Sum_probs=31.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+++.|.+.|+-  .++.        .+|+++-+++||.|.+|.|++...
T Consensus        38 ~~~~~~~l~V~nLp--~~~~--------~~~l~~~F~~~G~i~~v~i~~~~~   79 (139)
T 1u6f_A           38 EPDVLRNLMVNYIP--TTVD--------EVQLRQLFERYGPIESVKIVCDRE   79 (139)
T ss_dssp             CTTTTSEEEEESCS--TTCC--------HHHHHHHHHHHSCEEEEEEEEETT
T ss_pred             CCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEEcCC
Confidence            34566788899983  3332        357888999999999999988654

>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=95.84  E-value=0.042  Score=31.86  Aligned_cols=42  Identities=14%  Similarity=0.098  Sum_probs=32.0

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ....+++.|.+.|+  +.++.        .+|+++-+++||.|.+|.|++..
T Consensus        10 ~~~~~~~~l~v~nL--p~~~t--------~~~l~~~F~~~G~i~~v~i~~~~   51 (105)
T 2dnh_A           10 SRGGRDRKLFVGML--NKQQS--------EEDVLRLFQPFGVIDECTVLRGP   51 (105)
T ss_dssp             CSCCCCCEEEEESC--CTTCC--------HHHHHHHHTTTSCEEEEEEEECS
T ss_pred             ccCCCCCEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEEECC
Confidence            34456788889998  33333        35688889999999999999865

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=95.83  E-value=0.044  Score=34.15  Aligned_cols=42  Identities=12%  Similarity=0.071  Sum_probs=32.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..|++.|.+.|+=  ..+.    ..+|++.+++-+++||.|.+|.+++
T Consensus        26 ~~p~~~LfV~nL~--~~~~----e~~L~~~L~~~F~~~G~I~~v~i~~   67 (127)
T 2a3j_A           26 TEPSQVVLITNIN--PEVP----KEKLQALLYALASSQGDILDIVVDL   67 (127)
T ss_dssp             CSCCSEEEEESCC--TTSC----HHHHHHHHHHHHHHHSCEEEEEECC
T ss_pred             CCCCCEEEEeCCC--CCCC----HHHHHHHHHHHhccCCCeEEEEecc
Confidence            3567788899884  2232    2358888889999999999999976

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.80  E-value=0.017  Score=33.32  Aligned_cols=42  Identities=14%  Similarity=0.008  Sum_probs=31.7

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeE-EEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVR-SLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~-~V~Iprp~~   61 (74)
                      +..+++.|.+.|+=  .+..        .+|+++-+++||.|. ++.|++...
T Consensus         5 ~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~~v~i~~~~~   47 (99)
T 2div_A            5 SSGMAASLWMGDLE--PYMD--------ENFISRAFATMGETVMSVKIIRNRL   47 (99)
T ss_dssp             CCSSSSEEEECSCC--TTCC--------HHHHHHHHHHTTCCCCEEEEEECSS
T ss_pred             CCCCccEEEEeCCC--CCCC--------HHHHHHHHHHhCCcceEEEEeecCC
Confidence            45677888899983  3332        357888899999999 999988654

>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=95.79  E-value=0.049  Score=31.79  Aligned_cols=52  Identities=13%  Similarity=0.185  Sum_probs=36.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        11 ~~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   62 (111)
T 1x4h_A           11 DVTEGKTVFIRNLSF--DSE--------EEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFA   62 (111)
T ss_dssp             CCCCCCCEEEESCCT--TCC--------HHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEE
T ss_pred             cCCCCCEEEEECCCC--CCC--------HHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEE
Confidence            345678888998843  232        3578888999999999999987654334455544

>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=95.79  E-value=0.015  Score=36.66  Aligned_cols=50  Identities=14%  Similarity=0.218  Sum_probs=34.1

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .+++.|.+.|+  +.+..        .+|+++.+++||.|.+|.|++...+...  -|..||
T Consensus       102 ~~~~~l~V~nL--p~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~--~g~afV  151 (196)
T 1l3k_A          102 LTVKKIFVGGI--KEDTE--------EHHLRDYFEQYGKIEVIEIMTDRGSGKK--RGFAFV  151 (196)
T ss_dssp             -CCSEEEEECC--TTTCC--------HHHHHHHHTTTSCEEEEEEEECTTTCCE--EEEEEE
T ss_pred             CCcceEEEeCC--CCCCC--------HHHHHHHHhcCCCeEEEEEeecCCCCCc--cceEEE
Confidence            45678889997  33332        3678999999999999999986543222  344454

>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=95.76  E-value=0.049  Score=33.57  Aligned_cols=54  Identities=17%  Similarity=0.176  Sum_probs=37.2

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .....+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        40 ~~~~~~~~~l~V~nLp~--~~t--------e~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV   93 (129)
T 2kxn_B           40 RANPDPNCCLGVFGLSL--YTT--------ERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV   93 (129)
T ss_dssp             SSCCCCSSCBCEETCTT--SCC--------HHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEE
T ss_pred             CCCCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCeEEEEEEecCCCCccceEEEE
Confidence            34456778888888733  232        2478888999999999999987654344455544

>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=95.74  E-value=0.065  Score=31.35  Aligned_cols=50  Identities=14%  Similarity=0.206  Sum_probs=35.4

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        24 ~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   73 (110)
T 1oo0_B           24 VEGWILFVTSIHE--EAQ--------EDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALV   73 (110)
T ss_dssp             TTBEEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEE
T ss_pred             CCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEE
Confidence            5577899999843  332        3568889999999999999886544334455544

>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=95.74  E-value=0.038  Score=32.17  Aligned_cols=52  Identities=25%  Similarity=0.290  Sum_probs=36.6

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC-CCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN-VDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~-~~~~gvGkV   71 (74)
                      .+..+++.|.+.|+=  .+..        .+|+++-+++|| |.+|.|++.... ....|.|.|
T Consensus        10 ~~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV   62 (104)
T 1wi8_A           10 LPKSPPYTAFLGNLP--YDVT--------EESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYA   62 (104)
T ss_dssp             CCSSSCEEEEEESCC--SSCC--------HHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEE
T ss_pred             CCCCCCCEEEEeCCC--CcCC--------HHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEE
Confidence            455678889999983  3332        357888999999 999999987653 233455544

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=95.73  E-value=0.014  Score=32.05  Aligned_cols=33  Identities=21%  Similarity=0.277  Sum_probs=24.6

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++.+++...+....|.|.|
T Consensus        15 ~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV   47 (77)
T 1uaw_A           15 EGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV   47 (77)
T ss_dssp             HHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEE
T ss_pred             HHHHHHHHhcCCEEEEEEecCCCCCCcCceEEE
Confidence            468888999999999999987654344455543

>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=95.68  E-value=0.028  Score=35.12  Aligned_cols=40  Identities=18%  Similarity=0.038  Sum_probs=31.3

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+=  .++.        .+||++-+++||.|.+|.|++...
T Consensus        37 ~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   76 (156)
T 1h2v_Z           37 KKSCTLYVGNLS--FYTT--------EEQIYELFSKSGDIKKIIMGLDKM   76 (156)
T ss_dssp             TTCCEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEecCC
Confidence            467889899984  2332        357889999999999999988654

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=95.68  E-value=0.031  Score=32.29  Aligned_cols=44  Identities=9%  Similarity=0.203  Sum_probs=32.7

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEE--------EEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRS--------LEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~--------V~Iprp~~   61 (74)
                      ..+..+++.|.+.|+=  .+..        .+|+++-+++||.|.+        +.|++...
T Consensus         7 ~~~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~   58 (99)
T 2la6_A            7 HHSHSDNNTIFVQGLG--ENVT--------IESVADYFKQIGIIKTNKKTGQPMINLYTDRE   58 (99)
T ss_dssp             CCSCCCCSEEEEECCC--SSCC--------HHHHHHHHTTTSCBCEETTTTEESEEEEECTT
T ss_pred             CCCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHHhCCEeeccccccccEEEEecCC
Confidence            3445667788899983  3332        3678899999999999        99988654

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.64  E-value=0.061  Score=31.13  Aligned_cols=51  Identities=20%  Similarity=0.197  Sum_probs=35.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        10 ~~~~~~l~V~nLp~--~~t--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV   60 (103)
T 2dnm_A           10 VDGMITLKVDNLTY--RTS--------PDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFV   60 (103)
T ss_dssp             CSCCCEEEEESCCT--TCC--------HHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEE
T ss_pred             CCCCeEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEE
Confidence            35678888999843  232        3578889999999999999986653333455544

>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=95.61  E-value=0.08  Score=31.83  Aligned_cols=52  Identities=13%  Similarity=0.039  Sum_probs=36.2

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ....+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++... ....|.|.|
T Consensus         2 ~e~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~-g~~~g~afV   53 (116)
T 2fy1_A            2 VEADHPGKLFIGGLNR--ETN--------EKMLKAVFGKHGPISEVLLIKDRT-SKSRGFAFI   53 (116)
T ss_dssp             CTTCSCCEEEEECCTT--TCC--------HHHHHHHHHTSSCCSEEEEECSTT-TTCCCEEEE
T ss_pred             CCCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEECCC-CCcccEEEE
Confidence            3456677888998843  232        357888899999999999998763 233455544

>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=95.60  E-value=0.044  Score=36.77  Aligned_cols=42  Identities=12%  Similarity=0.040  Sum_probs=32.1

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ....+++.|.+.|+-  .+..        .+|+++.|++||.|.+|.+.+..
T Consensus       202 ~~~~~~~~l~v~nl~--~~~~--------~~~l~~~F~~~G~i~~v~~~~~~  243 (282)
T 3pgw_A          202 SENPPNHILFLTNLP--EETN--------ELMLSMLFNQFPGFKEVRLVPGR  243 (282)
T ss_pred             cCCCCCCEEEEeCCC--CcCC--------HHHHHHHHHhcCCeEEEEEecCC
Confidence            445578899999984  2332        36889999999999999998643

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

Probab=95.59  E-value=0.025  Score=33.81  Aligned_cols=45  Identities=16%  Similarity=0.225  Sum_probs=30.2

Q ss_pred             CCcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEec
Q psy2203           3 PPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIP   57 (74)
Q Consensus         3 ~~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ip   57 (74)
                      |+.....+..+++.|.+.|+  +.+..        .+|+++-+++||.|.++.+.
T Consensus        20 p~~~~~~~~~~~~~l~V~nL--p~~~t--------~~~L~~~F~~~G~i~~v~i~   64 (108)
T 2jvo_A           20 HMHHRQEGELSNTRLFVRPF--PLDVQ--------ESELNEIFGPFGPMKEVKIL   64 (108)
T ss_dssp             --------CCSCSEEEECSS--CTTCC--------HHHHHHHHTTTSCCCEEEEE
T ss_pred             CcccccCCCCCCCEEEEECC--CCCCC--------HHHHHHHHHhcCCEEEEEEE
Confidence            45555666788899999998  33333        35788999999999999998

>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=95.58  E-value=0.035  Score=34.04  Aligned_cols=49  Identities=18%  Similarity=0.215  Sum_probs=34.9

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++.|.+.|+=  .+..        .+|+++-+++||.|.+|.+++...+....|.|.|
T Consensus         2 ~~~~l~v~nLp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   50 (167)
T 2cjk_A            2 ESCKMFIGGLN--WDTT--------EDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFL   50 (167)
T ss_dssp             GGGEEEECSCC--TTCC--------HHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEE
T ss_pred             CCcEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEEECCCCCCccceEEE
Confidence            56778888873  3332        3568888999999999999987654344566655

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=95.57  E-value=0.03  Score=33.41  Aligned_cols=51  Identities=18%  Similarity=0.192  Sum_probs=35.1

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+-..  ..        .+|+++-+++||.|.+|.|++... ...-|.|.|
T Consensus         7 ~~~~~~~lfV~~Lp~~--~t--------e~~L~~~F~~~G~v~~v~i~~d~~-g~~rG~aFV   57 (103)
T 1s79_A            7 NDVKNRSVYIKGFPTD--AT--------LDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFV   57 (103)
T ss_dssp             SCSGGGCEEEECCCTT--CC--------HHHHHHHHHTSSCEEEEEEECCCT-TSCCCEEEE
T ss_pred             ccCCCCEEEEECCCCC--CC--------HHHHHHHHhhcCCEEEEEEEECCC-CCCccEEEE
Confidence            3455677778887432  22        367888999999999999999765 234455544

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

Probab=95.57  E-value=0.032  Score=35.58  Aligned_cols=50  Identities=18%  Similarity=0.281  Sum_probs=34.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .+++.|.+.|+=.  ++.        .+||++.|++||.|.++.|++...+...  -|..||
T Consensus       123 ~~~~~l~v~nlp~--~~t--------~~~l~~~f~~~G~v~~v~i~~~~~~g~~--~g~afV  172 (216)
T 2qfj_A          123 RAFNRIYVASVHQ--DLS--------DDDIKSVFEAFGKIKSATLARDPTTGKH--KGYGFI  172 (216)
T ss_dssp             TTSCEEEEECCCT--TCC--------HHHHHHHHTTSSCEEEEEEEECTTTCCE--EEEEEE
T ss_pred             CCCcEEEEeCCCC--cCC--------HHHHHHHHhccCCeeEEEEEecCCCCCc--CceEEE
Confidence            3557888998742  222        4689999999999999999987543222  344454

>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=95.57  E-value=0.04  Score=33.84  Aligned_cols=40  Identities=15%  Similarity=0.168  Sum_probs=30.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+=  .+..        .+|+++.+++||.|.++.+++...
T Consensus        93 ~~~~~l~v~nl~--~~~t--------~~~l~~~F~~~G~i~~v~~~~~~~  132 (175)
T 3nmr_A           93 VEDRKLFIGMIS--KKCT--------ENDIRVMFSSFGQIEECRILRGPD  132 (175)
T ss_dssp             GGGSEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCeEEEcCCC--CcCC--------HHHHHHHHHhCCCEEEEEEEECCC
Confidence            367788899983  2332        367889999999999999998754

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

Probab=95.53  E-value=0.05  Score=30.95  Aligned_cols=51  Identities=14%  Similarity=0.156  Sum_probs=35.7

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEE-EecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSL-EIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V-~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=.  +..        .+|+++-+++||.|.++ .|++........|.|.|
T Consensus         2 ~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV   53 (96)
T 1x5t_A            2 SSGSSGIFIGNLDP--EID--------EKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFI   53 (96)
T ss_dssp             CSCCCEEEEECCCT--TCC--------HHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEE
T ss_pred             CCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEE
Confidence            35677888898743  232        36788899999999999 99987544344455544

>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=95.53  E-value=0.082  Score=30.78  Aligned_cols=51  Identities=18%  Similarity=0.070  Sum_probs=34.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCC-eEEEEec-CCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGI-VRSLEIP-RPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~-V~~V~Ip-rp~~~~~~~gvGkV   71 (74)
                      ..+++-|.+.|+=  .+..        .+|+++.+++||. |.++.++ +........|.|.|
T Consensus         5 s~~~~~l~V~nLp--~~~t--------~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV   57 (109)
T 2dis_A            5 SSGNCRLFIGGIP--KMKK--------REEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFV   57 (109)
T ss_dssp             CCCSEEEEEECCC--TTSC--------HHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEE
T ss_pred             ccCCCEEEEeCCC--CcCC--------HHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEE
Confidence            4567778889883  2332        3578899999998 9999998 44433234455544

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=95.50  E-value=0.016  Score=31.80  Aligned_cols=34  Identities=21%  Similarity=0.222  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++-+++||.|.++.+++.+.+....|.|.|
T Consensus        13 ~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   46 (75)
T 2mss_A           13 VEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFV   46 (75)
T ss_dssp             HHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEE
T ss_pred             HHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEE
Confidence            3578889999999999999987654334455543

>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=95.48  E-value=0.016  Score=31.68  Aligned_cols=33  Identities=27%  Similarity=0.341  Sum_probs=25.2

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++.+++...+....|.|.|
T Consensus        14 ~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   46 (75)
T 1iqt_A           14 EKIREYFGGFGEVESIELPMDNKTNKRRGFCFI   46 (75)
T ss_dssp             HHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEE
T ss_pred             HHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEE
Confidence            578888999999999999987654444555544

>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=95.48  E-value=0.098  Score=30.12  Aligned_cols=44  Identities=16%  Similarity=0.203  Sum_probs=31.0

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      ..+-|.+.|+=  .+..+    ++|++.+++-+++||.|.+|.|++...+
T Consensus         8 ~~~~l~V~nL~--~~~~~----~~l~~~l~~~F~~~G~v~~v~i~~~~~~   51 (96)
T 2dgx_A            8 NGADVQVSNID--YRLSR----KELQQLLQEAFARHGKVKSVELSPHTDY   51 (96)
T ss_dssp             SCEEEEEESCC--TTSCH----HHHHHHHHHHHHHHSCEEEEEECSCCST
T ss_pred             CCCEEEEECCC--CCCCH----HHHHHHHHHhccccCcEEEEEEEeCCCC
Confidence            44567788873  22322    3466667799999999999999986644

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=95.42  E-value=0.062  Score=31.18  Aligned_cols=40  Identities=18%  Similarity=0.296  Sum_probs=30.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...
T Consensus        21 ~~~~~l~V~nlp~--~~t--------~~~l~~~f~~~G~i~~v~i~~~~~   60 (106)
T 1p27_B           21 VEGWILFVTGVHE--EAT--------EEDIHDKFAEYGEIKNIHLNLDRR   60 (106)
T ss_dssp             TTBEEEEEECCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCEEEEeCCCC--CCC--------HHHHHHHHhccCCeEEEEEEecCC
Confidence            4567888998843  332        256888899999999999988654

>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=95.42  E-value=0.016  Score=34.21  Aligned_cols=37  Identities=16%  Similarity=0.303  Sum_probs=27.7

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      +-|.+.|+  |.+..+        +|+++-+++||.|.++.|++...
T Consensus        20 t~lfV~nL--p~~~te--------~~L~~~F~~~G~I~~v~i~~d~~   56 (99)
T 4fxv_A           20 TNLIVNYL--PQNMTQ--------DELRSLFSSIGEVESAKLIRDKV   56 (99)
T ss_dssp             SEEEEESC--CTTCCH--------HHHHHHHHTTSCEEEEEEEECSS
T ss_pred             CEEEEeCC--CCCCCH--------HHHHHHHHhcCCEEEeEeeecCC
Confidence            34778888  444432        47888899999999999998654

>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=95.41  E-value=0.046  Score=40.44  Aligned_cols=52  Identities=12%  Similarity=0.160  Sum_probs=35.8

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+-  .++.        .++|++.+++||.|++|.|+....+...-|.|.|
T Consensus        98 ~~~~~~~lfV~nL~--~~~t--------e~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV  149 (437)
T 3pgw_S           98 QGDAFKTLFVARVN--YDTT--------ESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI  149 (437)
T ss_pred             cCCCCCEEEEeCCC--CCCC--------HHHHHHHHHHcCCeeEEEeeccCCCCCccceEEE
Confidence            34567789999973  2332        3578888999999999999886543334455544

>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=95.38  E-value=0.11  Score=30.36  Aligned_cols=41  Identities=17%  Similarity=0.336  Sum_probs=31.0

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.|++.
T Consensus        17 ~~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~v~~~~i~~~   57 (109)
T 1x4a_A           17 PAGNNDCRIYVGNLP--PDIR--------TKDIEDVFYKYGAIRDIDLKNR   57 (109)
T ss_dssp             CCCCCSSEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEECCS
T ss_pred             CCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEEC
Confidence            344567888899983  3443        2578899999999999999764

>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=95.38  E-value=0.02  Score=31.99  Aligned_cols=38  Identities=13%  Similarity=0.265  Sum_probs=28.2

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ++.|.+.|+  +.+..        .+|+++.+++||.|.++.|++...
T Consensus         4 ~~~l~V~nl--p~~~t--------~~~l~~~F~~~G~i~~~~i~~~~~   41 (88)
T 4a8x_A            4 PTKVHIGRL--TRNVT--------KDHIMEIFSTYGKIKMIDMPVERM   41 (88)
T ss_dssp             CCEEEEECC--CTTCC--------HHHHHHHHHTTSCEEEEECCEETT
T ss_pred             CCEEEEeCC--CCCCC--------HHHHHHHHHhCCCEEEEEEEeCCC
Confidence            456778887  33332        357888999999999999988654

>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=95.36  E-value=0.032  Score=31.30  Aligned_cols=48  Identities=13%  Similarity=0.058  Sum_probs=32.9

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ++.|.+.|+  +.+..        .+|+++-+++||.|.++.+++........|.|.|
T Consensus         6 ~~~l~V~nl--p~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   53 (89)
T 3ucg_A            6 ARSIYVGNV--DYGAT--------AEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYI   53 (89)
T ss_dssp             HTEEEEESC--CTTCC--------HHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEE
T ss_pred             CCEEEEeCC--CCCCC--------HHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEE
Confidence            466778887  23332        3578888999999999999986543334455544

>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=95.34  E-value=0.018  Score=31.99  Aligned_cols=38  Identities=8%  Similarity=0.064  Sum_probs=27.1

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      .-|.+.|+  +.+..        .+|+++.+++||.|.++.+++....
T Consensus         2 ~~l~V~nl--p~~~t--------~~~l~~~f~~~G~i~~~~i~~~~~~   39 (83)
T 3md1_A            2 FNLFVGDL--NVNVD--------DETLRNAFKDFPSYLSGHVMWDMQT   39 (83)
T ss_dssp             EEEEEECC--CTTCC--------HHHHHHHHTTSTTEEEEEEEECTTT
T ss_pred             eEEEEeCC--CCCCC--------HHHHHHHHHhcCCeeEEEEEEcCCC
Confidence            34567776  23332        3578889999999999999886543

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

Probab=95.31  E-value=0.039  Score=32.00  Aligned_cols=42  Identities=10%  Similarity=0.200  Sum_probs=32.1

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++...
T Consensus        11 ~~~~~~~l~V~nlp~--~~t--------~~~l~~~f~~~G~i~~v~i~~~~~   52 (103)
T 2cq0_A           11 RADDNATIRVTNLSE--DTR--------ETDLQELFRPFGSISRIYLAKDKT   52 (103)
T ss_dssp             CCSSSEEEEEESCCT--TCC--------HHHHHTTSTTTCCEEEEEEEECSS
T ss_pred             CCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhCCCeEEEEEeecCC
Confidence            456788899999843  232        357888899999999999998654

>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=95.24  E-value=0.046  Score=31.19  Aligned_cols=43  Identities=9%  Similarity=0.312  Sum_probs=31.7

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ...|++.|.+.|+=  .+..+    ++|++.+.+-+++||.|.+|.+++
T Consensus         4 ~~~~~~~l~V~nLp--~~~~~----~~l~~~l~~~f~~~G~i~~v~i~~   46 (97)
T 1nu4_A            4 ETRPNHTIYINNLN--EKIKK----DELKKSLHAIFSRFGQILDILVSR   46 (97)
T ss_dssp             --CCCSEEEEESCC--TTSCH----HHHHHHHHHHHGGGSCEEEEECCH
T ss_pred             CCCCCCEEEEeCCC--CCCCH----HHHHHHHHHHHHhCCCEEEEEEEc
Confidence            34678889999963  33332    357777779999999999999984

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=95.23  E-value=0.06  Score=32.95  Aligned_cols=39  Identities=10%  Similarity=0.156  Sum_probs=30.0

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+++.|.+.|+=  .+..+        +|+++-+++||.|.+|.|.+.
T Consensus        13 ~~~~~~LfV~nLp--~~vte--------~dL~~lF~~fG~V~~v~i~~~   51 (105)
T 1sjq_A           13 GVPSRVIHIRKLP--IDVTE--------GEVISLGLPFGKVTNLLMLKG   51 (105)
T ss_dssp             CCCCCEEEECSCC--TTSCH--------HHHHHHHHHHCCEEEEEEETT
T ss_pred             CCCCCEEEEeCCC--CCCCH--------HHHHHHHHhcCCEEEEEEEcC
Confidence            4567888899873  34432        467888999999999999873

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=95.21  E-value=0.047  Score=31.72  Aligned_cols=43  Identities=16%  Similarity=0.105  Sum_probs=32.4

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+..+++.|.+.|+=  .+..        .+|+++-+++|| |.+|.|++...
T Consensus         9 ~~~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~g-i~~v~i~~~~~   51 (103)
T 2dng_A            9 ELPTEPPYTAYVGNLP--FNTV--------QGDIDAIFKDLS-IRSVRLVRDKD   51 (103)
T ss_dssp             CCCSSSCEEEEEESCC--TTCC--------HHHHHHHTTTSC-EEEEEEEECSS
T ss_pred             CCCCCCCeEEEEeCCC--CCCC--------HHHHHHHHHhCC-ceEEEEeecCC
Confidence            3456778899999983  3332        357888899998 99999998764

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=95.16  E-value=0.085  Score=29.72  Aligned_cols=39  Identities=15%  Similarity=0.142  Sum_probs=30.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      +..+++.|.+.|+=  .+..        .+|+++-+++||.|.++.|++
T Consensus         4 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~f~~~G~v~~~~i~~   42 (92)
T 2dgv_A            4 GSSGACQIFVRNLP--FDFT--------WKMLKDKFNECGHVLYADIKM   42 (92)
T ss_dssp             SSSSCCEEEECSCC--TTCC--------HHHHHHHHHTTSCEEEEEEEE
T ss_pred             CCCCCcEEEEeCCC--CCCC--------HHHHHHHHHhcCCEEEEEEEc
Confidence            44667888899984  2332        357888999999999999997

>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=95.16  E-value=0.083  Score=31.57  Aligned_cols=41  Identities=12%  Similarity=0.118  Sum_probs=31.8

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....|+++|.+.|+=.  +..        .+|+++-+++||.|.+|.+++.
T Consensus        10 ~~~~p~~~l~V~nLp~--~~t--------e~~L~~~F~~fG~v~~v~i~~~   50 (101)
T 2cq1_A           10 MDGAPSRVLHIRKLPG--EVT--------ETEVIALGLPFGKVTNILMLKG   50 (101)
T ss_dssp             CCSSCCSEEEEESCCT--TCC--------HHHHHHTTTTTSCEEEEEEETT
T ss_pred             ccCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEECC
Confidence            3456889999999853  332        2477889999999999999873

>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=95.12  E-value=0.061  Score=32.85  Aligned_cols=40  Identities=18%  Similarity=0.243  Sum_probs=31.3

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+-.  ++.        .+|+++.+++||.|.++.+++...
T Consensus        87 ~~~~~l~v~nl~~--~~t--------~~~l~~~f~~~G~i~~~~i~~~~~  126 (168)
T 1b7f_A           87 IKDTNLYVTNLPR--TIT--------DDQLDTIFGKYGSIVQKNILRDKL  126 (168)
T ss_dssp             TTTCEEEEESCCT--TCC--------HHHHHHHHTSSSCEEEEEEEECTT
T ss_pred             CCCCCEEEeCCCC--CCC--------HHHHHHhhhcCCcEEEEEEEEcCC
Confidence            4677888999853  222        367899999999999999998764

>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=95.05  E-value=0.076  Score=32.62  Aligned_cols=40  Identities=13%  Similarity=0.198  Sum_probs=30.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+-.  +..        .+|+++.+++||.|.++.+++...
T Consensus        92 ~~~~~l~v~nlp~--~~t--------~~~l~~~f~~~G~v~~v~i~~~~~  131 (172)
T 2g4b_A           92 PGAHKLFIGGLPN--YLN--------DDQVKELLTSFGPLKAFNLVKDSA  131 (172)
T ss_dssp             TTTTCEEEECCCT--TCC--------HHHHHHHHHTTSCEEEEEEEECTT
T ss_pred             CCCCEEEEEcCCC--cCC--------HHHHHHHHHhcCCceEEEEEecCC
Confidence            3467788888843  332        468899999999999999988753

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

Probab=95.05  E-value=0.11  Score=31.51  Aligned_cols=43  Identities=7%  Similarity=0.002  Sum_probs=32.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      ...+++.|.+.|+=  .+..        .+|+++.+++||.|.++.+++...+
T Consensus        83 ~~~~~~~l~v~nl~--~~~t--------~~~l~~~f~~~G~i~~~~i~~~~~~  125 (166)
T 3md3_A           83 SSDDTFNLFVGDLN--VNVD--------DETLRNAFKDFPSYLSGHVMWDMQT  125 (166)
T ss_dssp             CCTTCEEEEEESCC--TTCC--------HHHHHHHHTTSTTEEEEEEEECTTT
T ss_pred             CCCCCceEEECCCC--CCCC--------HHHHHHHHhccCCeeEEEEEecCCC
Confidence            44667889999973  2232        2678889999999999999986543

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=95.05  E-value=0.073  Score=32.46  Aligned_cols=53  Identities=11%  Similarity=0.070  Sum_probs=37.3

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEE--EEecCCCCCCCCCceEEE
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRS--LEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~--V~Iprp~~~~~~~gvGkV   71 (74)
                      ....+++-|.+.|+=  .+..+        +|+++.+++||.|..  |.|++...+....|.|.|
T Consensus        18 ~~~~~~~~lfV~nL~--~~~te--------~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV   72 (131)
T 2m2b_A           18 SSENANDTIILRNLN--PHSTM--------DSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFI   72 (131)
T ss_dssp             CCSCCCCEEEECSCC--TTCCS--------HHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEE
T ss_pred             CCCCCCCEEEEeCCC--CCCCH--------HHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEE
Confidence            344667788899973  33333        578888999999976  999887654445566665

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

Probab=94.86  E-value=0.092  Score=30.17  Aligned_cols=41  Identities=20%  Similarity=0.280  Sum_probs=31.2

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ...+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++..
T Consensus        13 ~~~~~~~l~v~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~   53 (100)
T 2do4_A           13 TSLEKHKLFISGLPF--SCT--------KEELEEICKAHGTVKDLRLVTNR   53 (100)
T ss_dssp             SCCCCSCEEEESCCT--TCC--------HHHHHHHHTTTSCEEEEEEEECT
T ss_pred             cCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhCCCeEEEEEEECC
Confidence            445677888999843  332        35688899999999999998865

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=94.86  E-value=0.069  Score=31.63  Aligned_cols=50  Identities=16%  Similarity=0.178  Sum_probs=34.9

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+  ..|.|.|
T Consensus        25 ~~~~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~~~~--~kg~afV   74 (109)
T 2err_A           25 NKSQPKRLHVSNIP--FRFR--------DPDLRQMFGQFGKILDVEIIFNERG--SKGFGFV   74 (109)
T ss_dssp             CTTCCCEEEEESCC--TTCC--------HHHHHHHGGGTCCCSCEEECCBTTB--CTTEEEE
T ss_pred             CCCCCCEEEEECCC--CcCC--------HHHHHHHHHhcCCEEEEEEEECCCC--CceEEEE
Confidence            34567788899983  3332        3568889999999999999986432  3455544

>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=94.85  E-value=0.04  Score=33.69  Aligned_cols=49  Identities=10%  Similarity=0.054  Sum_probs=33.4

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++.|.+.|+=  .+..        .+|+++-+++||.|.++.+.+...+....|.|.|
T Consensus         2 ~~~~l~v~nlp--~~~~--------~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV   50 (168)
T 1b7f_A            2 SNTNLIVNYLP--QDMT--------DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFV   50 (168)
T ss_dssp             CCSEEEEECCC--TTCC--------HHHHHHHHHTTSCEEEEECCEETTTTEECSEEEE
T ss_pred             CccEEEEeCCC--CCCC--------HHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEE
Confidence            56778888883  3333        3568888999999999999886543223344433

>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=94.79  E-value=0.064  Score=32.35  Aligned_cols=40  Identities=8%  Similarity=0.133  Sum_probs=31.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..|+++|.+.|+=. .+.        -.+|+++-+++||.|.+|.|.+.
T Consensus        12 ~~p~~~l~V~nLp~-~~~--------te~dL~~lF~~fG~V~~v~i~~~   51 (102)
T 1x4d_A           12 VETRRVVHIMDFQR-GKN--------LRYQLLQLVEPFGVISNHLILNK   51 (102)
T ss_dssp             CCCCCEEEEESCCC-SSS--------HHHHHHTTTGGGSCEEEEEECSS
T ss_pred             CCCCCEEEEeCCCC-CcC--------CHHHHHHHHHhcCCEEEEEEEcC
Confidence            45889999999754 122        24578889999999999999874

>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=94.76  E-value=0.073  Score=35.16  Aligned_cols=40  Identities=15%  Similarity=0.099  Sum_probs=28.3

Q ss_pred             CCCCCceEEE--eeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203           9 VPPLRFSVLC--LLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus         9 ~~~~ps~vv~--L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .+..|++++.  +.|+-  ..+.+        +|+++-+++||.|.+|.|+.
T Consensus        39 ~~~~ps~vl~l~VgNL~--~~vte--------d~L~~~Fs~fG~V~~V~i~~   80 (164)
T 1sjr_A           39 AMAGQSPVLRIIVENLF--YPVTL--------DVLHQIFSKFGTVLKIITFT   80 (164)
T ss_dssp             -CCCCCCEEEEEECSCC--SCCCH--------HHHHHHHHHHSCEEEEEEEE
T ss_pred             CCCCCCceEEEEEeCcC--CCCCH--------HHHHHHHHhcCCEEEEEEEe
Confidence            3456777765  67884  23332        46788899999999999974

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

Probab=94.76  E-value=0.19  Score=29.40  Aligned_cols=42  Identities=17%  Similarity=0.128  Sum_probs=31.7

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++...
T Consensus        11 ~~~~~~~l~V~nlp~--~~~--------~~~l~~~f~~~G~i~~~~i~~~~~   52 (114)
T 2do0_A           11 AGRLGSTVFVANLDY--KVG--------WKKLKEVFSMAGVVVRADILEDKD   52 (114)
T ss_dssp             CCCCCSCEEEESCCT--TCC--------HHHHHHHHTTTSCEEEEEEEECTT
T ss_pred             cCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCeEEEEEEECCC
Confidence            446678888999843  332        356888899999999999998653

>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=94.74  E-value=0.055  Score=30.53  Aligned_cols=39  Identities=21%  Similarity=0.338  Sum_probs=29.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+++-|.+.|+  +.++.        .+|+++-+++||.|.++.|++.+
T Consensus         3 ~~~~~l~V~nL--p~~~t--------e~~l~~~F~~~G~i~~v~i~~~~   41 (88)
T 1wf0_A            3 SGSSGVFVGRC--TGDMT--------EDELREFFSQYGDVMDVFIPKPF   41 (88)
T ss_dssp             SCCCEEEEESC--CSSSC--------HHHHHHHSTTTSCCCEEECCSSC
T ss_pred             CCCcEEEEeCC--CCCCC--------HHHHHHHHHHcCCeeEEEEecCC
Confidence            45677888888  34443        35788899999999999999753

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=94.73  E-value=0.027  Score=32.33  Aligned_cols=40  Identities=23%  Similarity=0.164  Sum_probs=30.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...
T Consensus         3 ~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   42 (98)
T 2cpf_A            3 SGSSGLFIKNLN--FSTT--------EETLKGVFSKVGAIKSCTISKKKN   42 (98)
T ss_dssp             CCCCCEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEEEEEEEC
T ss_pred             CCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEEecCC
Confidence            467788899883  2332        357888899999999999997543

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

Probab=94.70  E-value=0.092  Score=30.33  Aligned_cols=41  Identities=12%  Similarity=0.254  Sum_probs=31.1

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....+++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++.
T Consensus        10 ~~~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~   50 (103)
T 2d9p_A           10 ITRYQVVNLYVKNLDD--GID--------DERLRKAFSPFGTITSAKVMME   50 (103)
T ss_dssp             CCCSSCCCEEEECCCT--TCC--------HHHHHHTTTTTSCEEEEEEEEC
T ss_pred             cCCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEcC
Confidence            3455777888999832  332        2578888999999999999986

>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=94.65  E-value=0.073  Score=31.39  Aligned_cols=49  Identities=12%  Similarity=0.188  Sum_probs=34.4

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        24 ~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   72 (114)
T 2cq4_A           24 DARTVFCMQLA--ARIR--------PRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYV   72 (114)
T ss_dssp             HHTEEEEESCC--TTCC--------HHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEE
T ss_pred             CCCEEEEeCCC--CCCC--------HHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEE
Confidence            35678888883  3332        2568888999999999999987654344555554

>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=94.65  E-value=0.064  Score=33.65  Aligned_cols=43  Identities=14%  Similarity=0.206  Sum_probs=32.1

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ....+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|.+...
T Consensus         8 ~~~~~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~~~   50 (196)
T 1l3k_A            8 KEPEQLRKLFIGGLS--FETT--------DESLRSHFEQWGTLTDCVVMRDPN   50 (196)
T ss_dssp             CCCGGGGEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEEEcCC
Confidence            344567888899983  3443        357888899999999999988654

>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=94.64  E-value=0.051  Score=31.29  Aligned_cols=40  Identities=20%  Similarity=0.304  Sum_probs=27.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      +..++..|.+.|+=.  +..        .+|+++.+++||.|.++.|++.
T Consensus         7 ~~~~~~~l~V~~Lp~--~~t--------e~~L~~~F~~~G~i~~v~i~~~   46 (89)
T 3d2w_A            7 HHHHGSKVFVGRCTE--DMT--------AEELQQFFCQYGEVVDVFIPKP   46 (89)
T ss_dssp             ----CCEEEEESCCT--TCC--------HHHHHHHHTTTSCEEEEECCSS
T ss_pred             CCCCCCEEEEeCCCC--CCC--------HHHHHHHHhccCCEEEEEEeeC
Confidence            345566677777633  222        3678999999999999999984

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=94.63  E-value=0.12  Score=33.60  Aligned_cols=50  Identities=14%  Similarity=0.099  Sum_probs=35.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+  +.++.        .+|+++-+++||.|.+|.|++... ....|.|.|
T Consensus        85 ~~~~~~l~V~nL--p~~~t--------e~~L~~~F~~~G~I~~v~i~~d~~-g~~kG~afV  134 (177)
T 2f3j_A           85 VETGAKLLVSNL--DFGVS--------DADIQELFAEFGTLKKAAVDYDRS-GRSLGTADV  134 (177)
T ss_dssp             CTTCEEEEEECC--CSCCC--------HHHHHHHHHHTSCCSEEEECCCTT-SSCSCCEEE
T ss_pred             CCCCCEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEEECCC-CCEeeEEEE
Confidence            345678889998  33332        356888899999999999998762 234455544

>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=94.61  E-value=0.13  Score=34.43  Aligned_cols=42  Identities=10%  Similarity=0.293  Sum_probs=32.5

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..+++.|.+.|+=  .++.+    ++|+..+.+-+++||.|.+|.|.+
T Consensus         6 ~~~~~~l~V~nlp--~~~~~----~~l~~~L~~~F~~~G~i~~v~~~~   47 (282)
T 3pgw_A            6 TRPNHTIYINNLN--EKIKK----DELKKSLYAIFSQFGQILDILVSR   47 (282)
T ss_pred             CCCCCEEEEeCCC--CCCCH----HHHHHHHHHHHhccCCeEEEEEcC
Confidence            4678899999984  33333    356666778899999999999998

>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=94.60  E-value=0.025  Score=31.96  Aligned_cols=34  Identities=24%  Similarity=0.315  Sum_probs=24.6

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++-+++||.|.++.+++...+....|.|.|
T Consensus        15 ~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   48 (90)
T 2ki2_A           15 SEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFV   48 (90)
T ss_dssp             HHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEE
T ss_pred             HHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEE
Confidence            3567888899999999999987654334444443

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=94.56  E-value=0.057  Score=31.99  Aligned_cols=49  Identities=16%  Similarity=0.210  Sum_probs=34.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        26 ~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV   74 (116)
T 1x4b_A           26 QFRKLFIGGLS--FETT--------EESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV   74 (116)
T ss_dssp             HHTEEEEECCT--TCCC--------HHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEE
T ss_pred             CCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEE
Confidence            35678888873  3333        2568888999999999999987654344455544

>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=94.49  E-value=0.081  Score=35.62  Aligned_cols=41  Identities=20%  Similarity=0.339  Sum_probs=31.6

Q ss_pred             CCCceEEEeeCCCCCCc-CCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          11 PLRFSVLCLLNMVTPDE-LKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~e-l~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+++.|.+.|+=  .+ ..        .+|+++.+++||.|.+|.|++...
T Consensus       207 ~~~~~~l~v~nlp--~~~~t--------~~~l~~~F~~~G~v~~v~i~~~~~  248 (292)
T 2ghp_A          207 TLEGREIMIRNLS--TELLD--------ENLLRESFEGFGSIEKINIPAGQK  248 (292)
T ss_dssp             CCTTTEEEEEEEC--TTTCC--------HHHHHHHHGGGSCEEEEECCSCCC
T ss_pred             CCCCceEEEECCC--cccCC--------HHHHHHHHhccCCeeEEEEEecCC
Confidence            4567889999973  23 22        368999999999999999998654

>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=94.48  E-value=0.27  Score=30.29  Aligned_cols=40  Identities=15%  Similarity=0.169  Sum_probs=30.6

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...+++.|.+.|+  +.+..+        +|+++-+++||.|.+|.|++.
T Consensus        69 ~~~~~~~l~V~nl--~~~~t~--------~~l~~~F~~~G~i~~v~i~~~  108 (150)
T 2i2y_A           69 SCPLDCKVYVGNL--GNNGNK--------TELERAFGYYGPLRSVWVARN  108 (150)
T ss_dssp             SSTTSCEEEEESC--CSCCSC--------HHHHHHHHHHSCEEEEEECSS
T ss_pred             CCCCCCEEEEeCC--CCCCCH--------HHHHHHHHhhCCEEEEEEeeC
Confidence            3456778889998  334443        467888899999999999985

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

Probab=94.44  E-value=0.071  Score=30.67  Aligned_cols=42  Identities=19%  Similarity=0.183  Sum_probs=28.6

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      +....+++.|.+.|+=. .+..        .+|+++-+++||.|.++.|++
T Consensus         4 ~~~~~~~~~l~V~nlp~-~~~t--------~~~l~~~F~~~G~v~~v~i~~   45 (96)
T 2kvi_A            4 MHNIPPKSRLFIGNLPL-KNVS--------KEDLFRIFSPYGHIMQINIKN   45 (96)
T ss_dssp             -----CCEEEEEESSTT-SCCC--------HHHHHHHHTTTCCCCEEEEET
T ss_pred             cccCCCCCEEEEeCCCc-ccCC--------HHHHHHHHHhcCCEEEEEEeC
Confidence            34456788899999842 1332        357888999999999999974

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.43  E-value=0.15  Score=29.33  Aligned_cols=41  Identities=12%  Similarity=-0.032  Sum_probs=30.8

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHh-cCCeEEEEecCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNK-YGIVRSLEIPRPI   60 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K-~G~V~~V~Iprp~   60 (74)
                      ...+++.|.+.|+=.  ++.        .+|+++-+++ ||.|.+|.|++..
T Consensus         5 ~~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~~G~v~~v~i~~~~   46 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTP--DVD--------DGMLYEFFVKVYPSCRGGKVVLDQ   46 (104)
T ss_dssp             CSSCCCCEEEECCCT--TCC--------HHHHHHHHHHHCTTEEEEEEEECT
T ss_pred             CCCCCcEEEEeCCCC--CCC--------HHHHHHHHHHhCCCeEEEEEEECC
Confidence            345677788898743  232        2578888999 9999999999865

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.37  E-value=0.11  Score=29.38  Aligned_cols=39  Identities=15%  Similarity=0.236  Sum_probs=30.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ...+++.|.+.|+  +.+..        .+|+++-+++||.|.++.+++
T Consensus         6 ~~~~~~~l~V~nL--p~~~t--------~~~l~~~F~~~G~v~~v~~~~   44 (92)
T 2dgt_A            6 SGKASTKLHVGNI--SPTCT--------NQELRAKFEEYGPVIECDIVK   44 (92)
T ss_dssp             CCCSSEEEEEESC--CSSCC--------HHHHHHHHHTTSCCCEEEECS
T ss_pred             CCCCCCEEEEeCC--CCCCC--------HHHHHHHHHhcCCeEEEEEEC
Confidence            4567788889998  33443        357888999999999999986

>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=94.34  E-value=0.09  Score=32.70  Aligned_cols=40  Identities=10%  Similarity=0.105  Sum_probs=31.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...|+++|.+.|+=..  ..        .+|+++-+++||.|.+|.|++.
T Consensus        27 ~~~ps~~LfVgNLp~~--vt--------e~dL~~lF~~fG~V~~v~i~~~   66 (119)
T 2ad9_A           27 AGVPSRVIHIRKLPID--VT--------EGEVISLGLPFGKVTNLLMLKG   66 (119)
T ss_dssp             CSSCCSEEEEESCCTT--CC--------HHHHHHHHTTTSCCCEEEEEGG
T ss_pred             cCCCCCEEEEeCCCCC--CC--------HHHHHHHHHhcCCEEEEEEeCC
Confidence            4567899999997542  32        3578899999999999999873

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=94.34  E-value=0.14  Score=32.02  Aligned_cols=37  Identities=24%  Similarity=0.322  Sum_probs=27.6

Q ss_pred             CCceEEE--eeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLC--LLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~--L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .|++++.  +.|+-..  +.        .+++++-+++||.|.+|.|++
T Consensus        21 ~ps~vl~l~V~NL~~~--vt--------~~~L~~~Fs~yG~V~~v~i~~   59 (124)
T 2e5i_A           21 GGNKVLLLSIQNPLYP--IT--------VDVLYTVCNPVGKVQRIVIFK   59 (124)
T ss_dssp             CCCSEEEEEEESCCSC--CC--------HHHHHHHHTTTSCEEEEEEEE
T ss_pred             CCCcEEEEEEcCcCCC--CC--------HHHHHHHHHhcCCEEEEEEEe
Confidence            5788875  4786532  32        247889999999999999976

>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=94.33  E-value=0.043  Score=33.85  Aligned_cols=40  Identities=18%  Similarity=0.203  Sum_probs=31.0

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..|+++|.+.|+=.. ...+        +|+++.|++||.|.+|.|.+.
T Consensus        22 ~~p~~~l~V~NLp~~-~~te--------~~L~~lF~~fG~V~~v~i~~~   61 (112)
T 1x4f_A           22 QELGRVIHLSNLPHS-GYSD--------SAVLKLAEPYGKIKNYILMRM   61 (112)
T ss_dssp             SCCCCEEEEESCCCS-SCCS--------HHHHTTTTTTSCCSEEEEETT
T ss_pred             CCCCCEEEEeCCCCc-cCCH--------HHHHHHHHhcCCEEEEEEecC
Confidence            457899999998642 1333        478899999999999999864

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.15  E-value=0.055  Score=31.45  Aligned_cols=42  Identities=14%  Similarity=0.057  Sum_probs=31.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...
T Consensus        12 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~v~~v~i~~~~~   53 (105)
T 2dh8_A           12 GADEIGKLFVGGLD--WSTT--------QETLRSYFSQYGEVVDCVIMKDKT   53 (105)
T ss_dssp             CSSSSSEECCBSCC--TTCC--------HHHHHHHHHTTSCEEEEEEEECSS
T ss_pred             CCCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCeEEEEEeeCCC
Confidence            44667788888873  2232        357888899999999999998654

>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=94.10  E-value=0.19  Score=31.71  Aligned_cols=40  Identities=15%  Similarity=0.292  Sum_probs=29.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+-.  +..        .+|+++-+++||.|.+|.|++...
T Consensus        70 ~~~~~l~V~nLp~--~~t--------~~~L~~~F~~~G~i~~v~i~~~~~  109 (165)
T 1rk8_A           70 VEGWILFVTSIHE--EAQ--------EDEIQEKFCDYGEIKNIHLNLDRR  109 (165)
T ss_dssp             C-CEEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCEEEEeCCCC--CCC--------HHHHHHHhhcCCCEEEEEEEecCC
Confidence            4566788999843  332        357888899999999999998654

>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=94.10  E-value=0.068  Score=32.69  Aligned_cols=49  Identities=8%  Similarity=0.173  Sum_probs=33.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++.|.+.|+=.  +..        .+|+++.+++||.|.++.+++...+..+.|.|.|
T Consensus        86 ~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV  134 (167)
T 2cjk_A           86 KTGKIFVGGIGP--DVR--------PKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFV  134 (167)
T ss_dssp             HCEEEEEEEECT--TCC--------HHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEE
T ss_pred             CCCeEEECCCCC--CCC--------HHHHHHHHHhCccEEEEEEEEcCCCCccceEEEE
Confidence            356777888632  222        3678889999999999999987543334444433

>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=94.09  E-value=0.12  Score=34.60  Aligned_cols=50  Identities=14%  Similarity=0.121  Sum_probs=35.3

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .+++.|.+.|+=  .++.+       .+|+++.+++||.|.++.|++...+   ..-|..||
T Consensus       182 ~~~~~l~v~nlp--~~~~~-------~~~l~~~f~~~G~i~~v~i~~~~~g---~~~g~afV  231 (284)
T 3smz_A          182 LHSRCLCVDRLP--PGFND-------VDALCRALSAVHSPTFCQLACGQDG---QLKGFAVL  231 (284)
T ss_dssp             TSCSEEEEECCC--TTCCC-------HHHHHHHTCSSSCCSEEEEEECSSC---CEEEEEEE
T ss_pred             CCccEEEEecCC--cccCC-------HHHHHHHhhCCCCeEEEEEEECCCC---CcccEEEE
Confidence            567888899973  33322       3688999999999999999986533   22455554

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=93.91  E-value=0.12  Score=30.34  Aligned_cols=52  Identities=15%  Similarity=0.197  Sum_probs=35.0

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeE--------EEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVR--------SLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~--------~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+++.|.+.|+=  .+..        .+|+++-+++||.|.        +|.|++........|.|.|
T Consensus        11 ~~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV   70 (113)
T 2cpe_A           11 EDSDNSAIYVQGLN--DSVT--------LDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATV   70 (113)
T ss_dssp             CCCCCCEEEEECCC--TTCC--------HHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEE
T ss_pred             cCCCCCEEEEcCCC--CCCC--------HHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEE
Confidence            34567788899984  3332        357888999999999        6999886543333444443

>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=93.90  E-value=0.065  Score=32.51  Aligned_cols=40  Identities=13%  Similarity=0.194  Sum_probs=30.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+-.  +..        .+|+++.+++||.|.++.+++...
T Consensus        86 ~~~~~l~v~nl~~--~~t--------~~~l~~~f~~~G~i~~~~i~~~~~  125 (167)
T 1fxl_A           86 IRDANLYVSGLPK--TMT--------QKELEQLFSQYGRIITSRILVDQV  125 (167)
T ss_dssp             GTTCEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCCcEEECCCCC--cCC--------HHHHHHHHHhcCCEeEEEEEecCC
Confidence            3456788888743  222        367999999999999999988653

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=93.86  E-value=0.067  Score=31.96  Aligned_cols=38  Identities=11%  Similarity=0.051  Sum_probs=28.1

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ++.|.+.|+-  .+..        .+|+++-+++||.|.+|.|++...
T Consensus        36 ~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~~   73 (124)
T 2jwn_A           36 KRSVYVGNVD--YGST--------AQDLEAHFSSCGSINRITILCDKF   73 (124)
T ss_dssp             HTEEEEEEEC--TTCC--------HHHHHHHHHTTSCEEEEEEEEECT
T ss_pred             CCEEEEeCCC--CCCC--------HHHHHHHHHhcCCEEEEEEEecCC
Confidence            4667788873  2332        357888899999999999988654

>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=93.64  E-value=0.046  Score=31.14  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=19.8

Q ss_pred             HHHHHHHHhcC--CeEEEEecCCCC
Q psy2203          39 EDIKEECNKYG--IVRSLEIPRPIE   61 (74)
Q Consensus        39 eDv~eEC~K~G--~V~~V~Iprp~~   61 (74)
                      +|+++-+++||  .|.++.|++...
T Consensus        16 ~~l~~~F~~~G~~~v~~v~i~~~~~   40 (90)
T 3p5t_L           16 EDLTEAVHSLGVNDILEIKFFENRA   40 (90)
T ss_dssp             HHHHHHHHTTTCCCCCCEEEEECTT
T ss_pred             HHHHHHHHHhCCCceEEEEEEecCC
Confidence            57888899999  999999988654

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=93.57  E-value=0.083  Score=30.48  Aligned_cols=40  Identities=13%  Similarity=0.177  Sum_probs=30.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.++.|++..
T Consensus         6 ~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~   45 (102)
T 2xs2_A            6 KIMPNTVFVGGID--VRMD--------ETEIRSFFARYGSVKEVKIITDR   45 (102)
T ss_dssp             EEEEEEEEEECCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECT
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHhCCCeEEEEEEECC
Confidence            3456778888873  3332        35678889999999999999875

>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=93.54  E-value=0.23  Score=30.01  Aligned_cols=39  Identities=13%  Similarity=0.125  Sum_probs=28.7

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      +++.|.+.|+=.  +..        .+|+++-+++||.|.++.+.+...
T Consensus         1 s~~~l~v~nlp~--~~~--------~~~l~~~f~~~G~i~~v~~~~~~~   39 (167)
T 1fxl_A            1 SKTNLIVNYLPQ--NMT--------QEEFRSLFGSIGEIESCKLVRDKI   39 (167)
T ss_dssp             CCSEEEEESCCT--TCC--------HHHHHHHHHTTSCEEEEEEEECTT
T ss_pred             CcceEEEcCCCC--CCC--------HHHHHHHHHhcCCeEEEEEEeCCC
Confidence            356777888743  332        356888899999999999988653

>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=93.51  E-value=0.037  Score=31.99  Aligned_cols=40  Identities=20%  Similarity=0.163  Sum_probs=29.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+++.|.+.|+=.  +..        .+|+++-+++||.|.++.|++...
T Consensus         6 ~~~~~l~V~nlp~--~~~--------~~~l~~~f~~~G~i~~~~i~~~~~   45 (104)
T 1p1t_A            6 RSLRSVFVGNIPY--EAT--------EEQLKDIFSEVGPVVSFRLVYDRE   45 (104)
T ss_dssp             HHHSCEEEESCCT--TSC--------HHHHHHHHHTTSCCSEEEEEEETT
T ss_pred             CCccEEEEeCCCC--cCC--------HHHHHHHHHhcCCeeEEEEEeCCC
Confidence            3567788888742  222        357889999999999999987653

>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=93.46  E-value=0.038  Score=31.67  Aligned_cols=42  Identities=12%  Similarity=0.090  Sum_probs=29.5

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ....+++.|.+.|+  +.+..        .+|+++-+++||.|.++.+++..
T Consensus        10 ~~~~~~~~l~v~nL--p~~~t--------~~~l~~~F~~~G~v~~~~~~~~~   51 (98)
T 2cqp_A           10 SGKPGPTIIKVQNM--PFTVS--------IDEILDFFYGYQVIPGSVCLKYN   51 (98)
T ss_dssp             CCCCSSEEEEEESC--CTTCC--------HHHHHHHTTTSCCCTTTCEEEEC
T ss_pred             CCCCCCCEEEEeCC--CCCCC--------HHHHHHHHHHcCCccceEEEEEC
Confidence            34556778889998  33333        35788889999999877666543

>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=93.39  E-value=0.4  Score=27.69  Aligned_cols=41  Identities=20%  Similarity=0.171  Sum_probs=28.9

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ....+++.|.+.|+=.. +..        .+|+++-+++||.|.++.|++
T Consensus        17 ~~~~~~~~l~V~nLp~~-~~t--------~~~L~~~F~~~G~v~~v~i~~   57 (97)
T 2xnq_A           17 RGSHMKSRLFIGNLPLK-NVS--------KEDLFRIFSPYGHIMQINIKN   57 (97)
T ss_dssp             --CCTTCEEEEESCCSS-CCC--------HHHHHHHHGGGSCEEEEEECS
T ss_pred             CCCCCCCEEEEeCCCcc-cCC--------HHHHHHHHHhcCCEEEEEEeC
Confidence            34456788889998421 232        357888999999999999953

>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=93.21  E-value=0.16  Score=36.87  Aligned_cols=43  Identities=16%  Similarity=0.161  Sum_probs=32.7

Q ss_pred             cCCCCCCceEEEeeCC-CCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203           7 RLVPPLRFSVLCLLNM-VTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus         7 ~~~~~~ps~vv~L~Nm-~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      -..+..||+.|.+.|. ++-. .+        .+|+++.+++||.|.+|.+++
T Consensus        11 v~~~~~ps~~l~VgN~gl~~~-~t--------e~~L~~~F~~~G~V~~v~~~~   54 (345)
T 3tht_A           11 IETVSYATQSLVVANGGLGNG-VS--------RNQLLPVLEKCGLVDALLMPP   54 (345)
T ss_dssp             CCCCSSCCSEEEEETCSGGGT-CC--------HHHHHHHHHTTSCEEEEECCT
T ss_pred             ceecCCCCCEEEEEcCCCCCC-CC--------HHHHHHHHHhcCCeEEEEEeC
Confidence            3456789999999996 2222 22        357899999999999999986

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=93.20  E-value=0.11  Score=32.13  Aligned_cols=50  Identities=20%  Similarity=0.218  Sum_probs=35.0

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+++.|.+.|+=  .+.        -.+|+++-+++||.|.+|.|++...+....|.|.|
T Consensus        45 ~~~~~l~V~nLp--~~~--------te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV   94 (135)
T 2lea_A           45 EGMTSLKVDNLT--YRT--------SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV   94 (135)
T ss_dssp             GGCCCEEEECCC--SSC--------HHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEE
T ss_pred             CCCCEEEEeCCC--CCC--------CHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEE
Confidence            446678889883  233        24678889999999999999987654344555544

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

Probab=93.18  E-value=0.2  Score=31.74  Aligned_cols=49  Identities=14%  Similarity=0.233  Sum_probs=32.8

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +++.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++........|.|.|
T Consensus        27 ~~~~l~V~nLp~--~~t--------~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV   75 (216)
T 2qfj_A           27 IMSRVYVGSIYY--ELG--------EDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV   75 (216)
T ss_dssp             HHTEEEEECCCT--TCC--------HHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEE
T ss_pred             cCCEEEEECCCC--CCC--------HHHHHHHHHhCCCEEEEEEeecCCCCccCceEEE
Confidence            356677888733  332        3568888999999999999886543334555554

>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=93.02  E-value=0.13  Score=31.49  Aligned_cols=50  Identities=14%  Similarity=0.155  Sum_probs=32.7

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ++-|.+.|+=  .+..        .+|+++-+++||.|.++.|++...+.....-|..||
T Consensus         3 ~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV   52 (175)
T 3nmr_A            3 AIKMFVGQVP--RTWS--------EKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV   52 (175)
T ss_dssp             CEEEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEE
T ss_pred             ceEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEE
Confidence            5667788873  2332        346788899999999999998665421122344554

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=93.01  E-value=0.17  Score=32.07  Aligned_cols=41  Identities=17%  Similarity=0.165  Sum_probs=28.2

Q ss_pred             CCCCCceEEE--eeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLC--LLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~--L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .+..|++|+.  +.|+-.+  +.+        +++++-+++||.|.+|.|++.
T Consensus        21 ~~~~ps~VL~I~V~NL~~~--vte--------~~L~~lFs~yG~V~~V~i~~~   63 (130)
T 3zzy_A           21 AMAGQSPVLRIIVENLFYP--VTL--------DVLHQIFSKFGTVLKIITFTK   63 (130)
T ss_dssp             ----CCSEEEEEEESCCSC--CCH--------HHHHHHHTTSSCEEEEEEEEE
T ss_pred             ccCCCCceEEEEECCCCCC--CCH--------HHHHHHHhCcCCEEEEEEEcC
Confidence            4456788887  8888533  332        357778999999999999863

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=92.96  E-value=0.26  Score=28.16  Aligned_cols=36  Identities=11%  Similarity=0.236  Sum_probs=27.5

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..+++.|.+.|+    ++.        .+|+++-+++||.|.+|.|++
T Consensus        12 ~~~~~~l~V~n~----~~t--------~~~l~~~F~~~G~i~~v~i~~   47 (97)
T 1x5p_A           12 PRKGNTLYVYGE----DMT--------PTLLRGAFSPFGNIIDLSMDP   47 (97)
T ss_dssp             CCCCSEEEEECS----SCC--------HHHHHHHHTTTSCEEEEEEET
T ss_pred             CCCCCEEEEcCC----CCC--------HHHHHHHHhhCCCEEEEEecC
Confidence            346677888993    222        367888999999999999975

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.92  E-value=0.28  Score=27.59  Aligned_cols=39  Identities=21%  Similarity=0.252  Sum_probs=29.6

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      +..+++.|.+.|+=  .+..        .+|+++-+++||.|.++.+++
T Consensus         4 ~~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~~~~   42 (90)
T 2dnq_A            4 GSSGMVKLFIGNLP--REAT--------EQEIRSLFEQYGKVLECDIIK   42 (90)
T ss_dssp             CSSCCEEEEEESCC--SSCC--------HHHHHHHHHTSSCEEEEEEET
T ss_pred             CCCCCeEEEEeCCC--CCCC--------HHHHHHHHHhCCCEEEEEEEC
Confidence            34567888899983  3333        256888899999999999984

>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=92.87  E-value=0.14  Score=30.01  Aligned_cols=39  Identities=13%  Similarity=0.090  Sum_probs=29.2

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+...|.+.|+=  .+..        .+|+++-+++||.|.++.|++.
T Consensus        12 ~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~~~i~~~   50 (108)
T 1x4c_A           12 RRSENRVVVSGLP--PSGS--------WQDLKDHMREAGDVCYADVYRD   50 (108)
T ss_dssp             CSCCCEEEEESCC--SSCC--------HHHHHHHHGGGSCEEEEEEETT
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCEeEEEEecC
Confidence            3456677788874  3332        3578889999999999999884

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.77  E-value=0.2  Score=30.02  Aligned_cols=42  Identities=17%  Similarity=0.071  Sum_probs=27.9

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ++.+.|.--....+..++.   --.+|+++-+++||.|.+|.|++
T Consensus        10 ~~~~~v~w~~~~~~~~~~~---~te~~L~~~F~~~G~V~~v~i~~   51 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGG---YSKDVLLRLLQKYGEVLNLVLSS   51 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCS---CCHHHHHHHHHTTSCEEEEEEES
T ss_pred             cceEEEeeeccCccCcCCC---CCHHHHHHHHHhcCCEEEEEEcc
Confidence            5566666655443322111   12567889999999999999995

>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=92.76  E-value=0.29  Score=27.98  Aligned_cols=39  Identities=21%  Similarity=0.244  Sum_probs=29.9

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+++.|.+.|+=  .++.        .+|+++-+++||.|.+|.+++.
T Consensus        12 ~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~v~~~~~   50 (99)
T 2cpj_A           12 FTQRSRLFVGNLP--PDIT--------EEEMRKLFEKYGKAGEVFIHKD   50 (99)
T ss_dssp             CCCTTEEEEESCC--TTCC--------HHHHHHHTSTTCCCSEEEEETT
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHhhcCCeEEEEEecC
Confidence            4567788899983  3333        3568889999999999999974

>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=92.69  E-value=0.59  Score=26.55  Aligned_cols=39  Identities=10%  Similarity=0.209  Sum_probs=29.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+++.|.+.|+-.  ++.        .+|+++-+++||.|.+|.+.+.
T Consensus        14 ~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~v~~v~~~~~   52 (97)
T 1why_A           14 ANPTTRLWVGGLGP--NTS--------LAALAREFDRFGSIRTIDHVKG   52 (97)
T ss_dssp             CCCCSCEEEECCCS--SCC--------HHHHHHHHHTTSCEEEEEECSS
T ss_pred             CCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCeeEEEEeCC
Confidence            34567888898843  332        2578888999999999999874

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

Probab=92.65  E-value=0.21  Score=28.16  Aligned_cols=39  Identities=8%  Similarity=0.091  Sum_probs=29.4

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+++.|.+.|+=.  +..        .+|+++-+++||.|.++.+++.
T Consensus         6 ~~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~v~~~~~~~~   44 (90)
T 2dnp_A            6 SGNTWKIFVGNVSA--ACT--------SQELRSLFERRGRVIECDVVKD   44 (90)
T ss_dssp             SCCSCCEEEESCCT--TCC--------HHHHHHHHHHHSCEEEEEECSS
T ss_pred             CCCCCEEEEeCCCC--CCC--------HHHHHHHHHcCCCEEEEEEECC
Confidence            45677788998843  332        3578888999999999999863

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

Probab=92.61  E-value=0.31  Score=29.34  Aligned_cols=25  Identities=16%  Similarity=0.103  Sum_probs=20.4

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      .+|+++-+++||.|.+|.+.+...+
T Consensus        14 ~~~l~~~f~~~G~i~~v~i~~~~~~   38 (166)
T 3md3_A           14 EDILKQYFQVGGPIANIKIMIDKNN   38 (166)
T ss_dssp             HHHHHHHHGGGSCEEEEEEECCCC-
T ss_pred             HHHHHHHHHhcCCeEEEEEEECCCC
Confidence            3578888999999999999987643

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=92.56  E-value=0.081  Score=31.22  Aligned_cols=49  Identities=12%  Similarity=0.205  Sum_probs=33.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCC--eEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGI--VRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~--V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .-..|.+.|+=  .+.+        .+|+++.+++||.  +.+|.|++.+.+..+-|.|.|
T Consensus         8 ~m~tlfV~nL~--~~~t--------ee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV   58 (95)
T 2lkz_A            8 HMDTIILRNIA--PHTV--------VDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFV   58 (95)
T ss_dssp             CCCEEEEESCC--TTCC--------HHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEE
T ss_pred             ccCEEEEeCCC--CcCC--------HHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEE
Confidence            34457788873  2332        3588889999995  779999987654445566655

>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=92.47  E-value=0.14  Score=30.52  Aligned_cols=37  Identities=8%  Similarity=0.160  Sum_probs=27.6

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ++-|.+.|+  +.+..        .+|+++-+++||.|.+|.|++..
T Consensus         5 ~~~lfV~nL--p~~~t--------e~~L~~~F~~~G~v~~v~i~~d~   41 (115)
T 4f25_A            5 SGNIFIKNL--DKSID--------NKALYDTFSAFGNILSCKVVCDE   41 (115)
T ss_dssp             CCEEEEESC--CTTCC--------HHHHHHHHGGGSCEEEEEEEEET
T ss_pred             CCEEEECCC--CCCCC--------HHHHHHHHhccCCEEEEEEeecC
Confidence            445778888  33333        25788889999999999999854

>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=92.29  E-value=0.041  Score=31.28  Aligned_cols=40  Identities=13%  Similarity=0.041  Sum_probs=27.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.++.+++..
T Consensus        12 ~~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~i~~~~~~~~~   51 (95)
T 2ek1_A           12 KPGPTVIKVQNMP--FTVS--------IDEILDFFYGYQVIPGSVCLKYN   51 (95)
T ss_dssp             ---CEEEEEECCC--TTCC--------HHHHHHHTTTSCBCTTCCEEEEC
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCccceEEEEeC
Confidence            4456888899983  3332        35788889999999877776643

>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=92.24  E-value=0.17  Score=29.87  Aligned_cols=40  Identities=15%  Similarity=0.357  Sum_probs=27.8

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHH---HHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIK---EECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~---eEC~K~G~V~~V~Iprp~~   61 (74)
                      .+.+.|.+.|+=  .+..++        |++   +.+++||.|.+|.|++...
T Consensus        13 ~~~~~l~V~nLp--~~~~~~--------~l~~~~~~F~~~G~i~~v~i~~~~~   55 (111)
T 2cpi_A           13 VQKNLVFVVGLS--QRLADP--------EVLKRPEYFGKFGKIHKVVINNSTS   55 (111)
T ss_dssp             CCSSCEEEEEEC--TTTCCH--------HHHHSTTTTTTTSCEEEEEEECCSS
T ss_pred             cCCCEEEEECCC--CCCCHH--------HHHHHHHHhhccCCEEEEEEecCCC
Confidence            345566677763  334333        455   8899999999999988664

>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=92.18  E-value=0.19  Score=33.74  Aligned_cols=39  Identities=13%  Similarity=0.115  Sum_probs=29.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+++.|.+.|+=  ....        .+|+++.+++||.|.+|.|++..
T Consensus        94 ~~~~~l~v~nl~--~~~t--------~~~l~~~F~~~G~i~~v~i~~~~  132 (261)
T 3sde_A           94 THGAALTVKNLS--PVVS--------NELLEQAFSQFGPVEKAVVVVDD  132 (261)
T ss_dssp             CCSSEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEEET
T ss_pred             ccCCcccccCCC--CCCC--------HHHHHHHHHhcCCeEEEEeeeCC
Confidence            356778889883  3332        35788999999999999998864

>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=92.01  E-value=0.54  Score=25.84  Aligned_cols=40  Identities=10%  Similarity=0.280  Sum_probs=30.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...+++.|.+.|+=..  ..        .+|+++-+++||.|.++.+++.
T Consensus         8 ~~~~~~~l~V~~l~~~--~t--------~~~l~~~f~~~G~i~~~~~~~~   47 (85)
T 2ytc_A            8 EDKTITTLYVGGLGDT--IT--------ETDLRNHFYQFGEIRTITVVQR   47 (85)
T ss_dssp             SCSSCCCEEEECCTTT--SC--------HHHHHHHHHTTSCEEEEEEEGG
T ss_pred             CCCCccEEEEcCCCCC--CC--------HHHHHHHHHhCCCEeEEEEECC
Confidence            3456778888988532  22        3578888999999999999973

>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=91.42  E-value=0.12  Score=30.28  Aligned_cols=39  Identities=18%  Similarity=0.205  Sum_probs=29.1

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+++.|.+.|+-.  +..        .+|+++-+++||.|.++.|++..
T Consensus        23 ~~~~~l~V~nlp~--~~t--------~~~l~~~F~~~G~i~~~~i~~~~   61 (114)
T 1x5o_A           23 QDPTNLYISNLPL--SMD--------EQELENMLKPFGQVISTRILRDS   61 (114)
T ss_dssp             CCTTEEEEESCCT--TCC--------HHHHHHTTTTTSCEEEEEEEECS
T ss_pred             CCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEECC
Confidence            4556677888832  332        25688889999999999999865

>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=91.36  E-value=0.71  Score=26.54  Aligned_cols=39  Identities=13%  Similarity=0.253  Sum_probs=29.6

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ...+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|++
T Consensus         7 ~~~~~~~l~V~nl~~--~~t--------~~~l~~~F~~~G~i~~v~~~~   45 (103)
T 2dgu_A            7 GMAKVKVLFVRNLAN--TVT--------EEILEKAFSQFGKLERVKKLK   45 (103)
T ss_dssp             CCCCCCCEEEECCCT--TCC--------HHHHHHHHHHHSCEEEEEECS
T ss_pred             CCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCEEEEEEEC
Confidence            345678888999843  232        257888899999999999986

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=91.25  E-value=0.25  Score=28.28  Aligned_cols=21  Identities=24%  Similarity=0.472  Sum_probs=18.9

Q ss_pred             HHHHHHHHhcCCeEEEEecCC
Q psy2203          39 EDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      +|+++-+++||.|.+|.+++.
T Consensus        15 ~~l~~~F~~~G~i~~v~i~~~   35 (101)
T 2hvz_A           15 GELERAFSYYGPLRTVWIARN   35 (101)
T ss_dssp             HHHHHHHHHHCCCSEEEEESS
T ss_pred             HHHHHHHHhcCCeEEEEEeeC
Confidence            578889999999999999985

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=91.16  E-value=0.23  Score=31.56  Aligned_cols=48  Identities=10%  Similarity=0.014  Sum_probs=31.2

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcC--CeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYG--IVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G--~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ++.|.+.|+=  .+..        .+|+++-+++||  .|.+|.|++...+...-|.|.|
T Consensus        55 ~~~lfVgnLp--~~~t--------e~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV  104 (156)
T 3n9u_C           55 RAAVYVGSFS--WWTT--------DQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEV  104 (156)
T ss_dssp             -CEEEEECCC--TTCC--------HHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEE
T ss_pred             CCEEEEeCCC--CCCC--------HHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEE
Confidence            4567788872  2332        357888899999  9999999876543233344444

>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=91.12  E-value=0.33  Score=31.94  Aligned_cols=48  Identities=21%  Similarity=0.270  Sum_probs=33.4

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCe--EEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV--RSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V--~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .|++.|.+.|+=  .+..        .+|+++-+++||.|  .++.+.+.. + ...|.|.|
T Consensus       121 ~p~~~l~v~NLp--~~~t--------~~~L~~~F~~~G~v~~~~v~~~~~~-~-~~~g~gfV  170 (205)
T 3tyt_A          121 HPSNVLHFFNAP--LEVT--------EENFFEICDELGVKRPTSVKVFSGK-S-ERSSSGLL  170 (205)
T ss_dssp             CCCSEEEEEEEC--TTCC--------HHHHHHHHHHHTCCCCSEEEECSCC-S-SSSEEEEE
T ss_pred             CCcceEEEeCCC--CCCC--------HHHHHHHHHhcCCcceEEEEEEcCC-C-CCceEEEE
Confidence            467889999983  3333        35788899999999  899988754 2 12355554

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

Probab=91.11  E-value=0.43  Score=26.93  Aligned_cols=39  Identities=23%  Similarity=0.305  Sum_probs=28.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEE-EecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSL-EIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V-~Iprp~   60 (74)
                      ..++.|.+.|+=  .+..        .+|+++-+++||.|.++ .|++..
T Consensus        13 ~~~~~l~V~nlp--~~~t--------~~~l~~~F~~~G~v~~~~~i~~~~   52 (96)
T 2e44_A           13 QRIRKLQIRNIP--PHLQ--------WEVLDSLLVQYGVVESCEQVNTDS   52 (96)
T ss_dssp             CSCCCEEEEEEC--SSSC--------HHHHHHHHHHHSCEEEEEEECCSS
T ss_pred             CCCCEEEEEcCC--CCCC--------HHHHHHHHHhcCCeEEEEEeecCC
Confidence            346678888883  3333        35788889999999999 588754

>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=91.09  E-value=0.31  Score=28.90  Aligned_cols=36  Identities=17%  Similarity=0.325  Sum_probs=28.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .++.|.+.|+-  .+..        .+|+++-+++||.|.+|.|++
T Consensus         9 ~~~~l~V~nLp--~~~t--------e~~L~~~F~~~G~i~~v~i~~   44 (111)
T 1whx_A            9 SKTVILAKNLP--AGTL--------AAEIQETFSRFGSLGRVLLPE   44 (111)
T ss_dssp             EEEEEEEESCC--TTCC--------HHHHHHHHHTTSCEEEEECCS
T ss_pred             CCCEEEEeCCC--CCCC--------HHHHHHHHHhcCCEEEEEEeC
Confidence            46788899884  2332        467899999999999999986

>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=91.07  E-value=0.24  Score=29.56  Aligned_cols=37  Identities=14%  Similarity=0.085  Sum_probs=26.2

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....|.+.|+=  .+..+        +|+++-+++||.|.++.|++.
T Consensus        15 ~~~~l~V~nLp--~~~t~--------~~l~~~F~~~G~v~~~~i~~~   51 (115)
T 3beg_B           15 SENRVVVSGLP--PSGSW--------QDLKDHMREAGDVCYADVYRD   51 (115)
T ss_dssp             --CCEEEEECC--SSCCT--------THHHHHHGGGSCEEEEEECTT
T ss_pred             CCcEEEEeCCC--CCCCH--------HHHHHHHHhcCCeEEEEEecC
Confidence            34566788873  44433        367778999999999999874

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

Probab=91.06  E-value=1.3  Score=25.17  Aligned_cols=39  Identities=23%  Similarity=0.265  Sum_probs=29.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhc--CCeEEEEecC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKY--GIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~--G~V~~V~Ipr   58 (74)
                      ...+++.|.+.|+=.  ++.        .+|+++-+++|  |.|.++.+++
T Consensus        11 ~~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~g~g~v~~~~~~~   51 (99)
T 2cpd_A           11 TMSSVKILYVRNLML--STS--------EEMIEKEFNNIKPGAVERVKKIR   51 (99)
T ss_dssp             CSSCCCEEEEESCCT--TCC--------HHHHHHHHHTTSTTCEEEEEECS
T ss_pred             ccCCcCEEEEeCCCC--CCC--------HHHHHHHHHhcCCcceEEEEEeC
Confidence            345678899999843  332        25688889999  9999999875

>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=91.01  E-value=0.34  Score=31.70  Aligned_cols=47  Identities=19%  Similarity=0.222  Sum_probs=32.8

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      ++.|.+.|+=.  +.        -.+|+++-+++||.|.+|.|++...+   ..-|..||
T Consensus       109 ~~~l~V~nLp~--~~--------t~~~L~~~F~~~G~v~~v~i~~~~~~---~~kG~aFV  155 (193)
T 2voo_A          109 NRSVYIKGFPT--DA--------TLDDIKEWLEDKGQVLNIQMRRTLHK---AFKGSIFV  155 (193)
T ss_dssp             HTEEEEECCCT--TC--------CHHHHHHHHTTSCCEEEEEEEECTTC---CEEEEEEE
T ss_pred             cCEEEecCCCC--cC--------CHHHHHHHHhcCCCEEEEEEEECCCC---CcccEEEE
Confidence            46777888732  22        13788899999999999999986542   22355555

>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=90.94  E-value=1.3  Score=25.66  Aligned_cols=38  Identities=24%  Similarity=0.198  Sum_probs=27.4

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEec
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIP   57 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ip   57 (74)
                      ..+++.|.+.|+-... +.        .+|+++-+++||.|.+|.|+
T Consensus        24 ~~~~~~l~V~nl~~~~-~t--------~~~l~~~F~~~G~v~~v~i~   61 (110)
T 1wf1_A           24 KSINSRVFIGNLNTAL-VK--------KSDVETIFSKYGRVAGCSVH   61 (110)
T ss_dssp             TTCSSEEEECSCCCSS-CC--------HHHHHHHHGGGSCCSEEEEE
T ss_pred             CCCCcEEEEeCCCccc-CC--------HHHHHHHHHhCCCeEEEEEe
Confidence            3455788888873320 22        36788889999999999994

>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=90.66  E-value=0.58  Score=27.24  Aligned_cols=45  Identities=16%  Similarity=0.183  Sum_probs=31.3

Q ss_pred             CCcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCe----EEEEec
Q psy2203           3 PPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV----RSLEIP   57 (74)
Q Consensus         3 ~~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V----~~V~Ip   57 (74)
                      |.++...+..+++.|.+.|+=  .+..        .+|+++-+++||.|    ..+.+.
T Consensus        14 ~~~~~~~~~~~~~~l~V~nLp--~~~t--------~~~l~~~f~~~G~v~~~~~~~~~~   62 (115)
T 2cpx_A           14 PMFSSYNPGEPNKVLYLKNLS--PRVT--------ERDLVSLFARFQEKKGPPIQFRMM   62 (115)
T ss_dssp             SCCCCCCCCSCCSEEEEECCC--TTCC--------HHHHHHHTHHHHHSSSSCCEEEEE
T ss_pred             ccccccCCCCCCCEEEEeCCC--CCCC--------HHHHHHHHHHhCCccceEEEEEcC
Confidence            445566666788999999973  3332        25678888999998    455544

>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=90.51  E-value=0.72  Score=27.19  Aligned_cols=50  Identities=6%  Similarity=-0.082  Sum_probs=34.4

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCe-EEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIV-RSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V-~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.| .+|.|++...+ ...|.|.|
T Consensus        12 ~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~g~v~~~v~i~~d~~g-~~~G~afV   62 (114)
T 2cpy_A           12 NSAKVCAHITNIP--FSIT--------KMDVLQFLEGIPVDENAVHVLVDNNG-QGLGQALV   62 (114)
T ss_dssp             CSCCCEEEEESCC--TTSC--------HHHHHHHTTTSCCCSTTEEECCCTTS-SCSSCEEE
T ss_pred             CCCccEEEEeCcC--CcCC--------HHHHHHHHHhCCCcCCeEEEEECCCC-CcceEEEE
Confidence            4567788899983  2332        35688889999999 88999886632 34455544

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=90.41  E-value=0.95  Score=28.45  Aligned_cols=37  Identities=22%  Similarity=0.271  Sum_probs=29.0

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcC-CeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYG-IVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G-~V~~V~Ipr   58 (74)
                      .|++.|.+.|+-.  +..        .+|+++.+++|| .|.++.+.+
T Consensus       118 ~~~~~l~v~nl~~--~~~--------~~~l~~~f~~~G~~v~~v~i~~  155 (198)
T 1qm9_A          118 PPSATLHLSNIPP--SVS--------EEDLKVLFSSNGGVVKGFKFFQ  155 (198)
T ss_dssp             CCCCEEEECCCCT--TCC--------HHHHHHHHHHTTSCCCEEEESS
T ss_pred             CCccEEEEeCCCC--CCC--------HHHHHHHHHHcCCCceEEEEEe
Confidence            4688899999843  222        368999999999 999999954

>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=90.22  E-value=0.35  Score=28.16  Aligned_cols=49  Identities=14%  Similarity=0.105  Sum_probs=32.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEE-EEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRS-LEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~-V~Iprp~~~~~~~gvGkV   71 (74)
                      .+.+.|.+.|+=..  ..        .+|+++-+++||.|.+ |.|++...+ ...|.|.|
T Consensus        13 ~~~~~l~V~nLp~~--~t--------e~~l~~~F~~~G~v~~~v~i~~~~~g-~~~G~afV   62 (104)
T 1wg5_A           13 ANDGFVRLRGLPFG--CS--------KEEIVQFFSGLEIVPNGMTLPVDFQG-RSTGEAFV   62 (104)
T ss_dssp             SCCCEEEEESCCTT--CC--------HHHHHHHTTTCCEEEEEEECCBCSSS-CBCSEEEE
T ss_pred             CCCCEEEEeCCCCC--CC--------HHHHHHHHHhcCCcceeEEEEECCCC-CcceEEEE
Confidence            44667778887432  22        3688899999999998 888876322 33455544

>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=89.96  E-value=0.47  Score=29.31  Aligned_cols=39  Identities=18%  Similarity=0.245  Sum_probs=28.7

Q ss_pred             CCCCceEEEeeC--CCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          10 PPLRFSVLCLLN--MVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        10 ~~~ps~vv~L~N--m~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ...||+.|.+.|  +-.  +..        .+|+++.+++||.|.+|.|+.
T Consensus        21 ~~~pt~~L~V~Ng~L~~--~~t--------e~~L~~~F~~fG~v~~v~i~~   61 (114)
T 2cq2_A           21 VSYATQSLVVANGGLGN--GVS--------RNQLLPVLEKCGLVDALLMPP   61 (114)
T ss_dssp             CSSCCSEEEEETCTGGG--TCC--------HHHHHHHHHHHSCEEEEECCT
T ss_pred             CCCCCCEEEEECCCCCC--CCC--------HHHHHHHHHhcCCeEEEEEeC
Confidence            346788888865  421  221        268899999999999999975

>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=89.44  E-value=0.61  Score=27.10  Aligned_cols=38  Identities=5%  Similarity=0.124  Sum_probs=28.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .+.+.|.+.|+=.  ++.        .+|+++-+++||.|.+|.|++.
T Consensus        23 ~~~~~l~V~nl~~--~~t--------~~~l~~~F~~~G~i~~v~i~~~   60 (109)
T 1x4g_A           23 PKNCTVYCGGIAS--GLT--------DQLMRQTFSPFGQIMEIRVFPE   60 (109)
T ss_dssp             SSCCEEEEECCSS--CCC--------HHHHHHHHHHHSCEEEEEEETT
T ss_pred             CCCcEEEEeCCCC--CCC--------HHHHHHHHHhcCCeEEEEEeCC
Confidence            4566777888743  232        2578888999999999999985

>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=88.93  E-value=1.6  Score=28.54  Aligned_cols=40  Identities=13%  Similarity=0.178  Sum_probs=29.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .++++|.+.|+= +.++.+        +|+++-+++||.|.+|.|++.+
T Consensus         2 ~~~~~l~V~nL~-~~~~~~--------~~L~~~F~~~G~v~~v~i~~~~   41 (205)
T 3tyt_A            2 ADSPVLMVYGLD-QSKMNC--------DRVFNVFCLYGNVEKVKFMKSK   41 (205)
T ss_dssp             CCCSEEEEECCC-TTTCCH--------HHHHHHHTTTSCEEEEEECTTS
T ss_pred             CCCCEEEEeCCC-cccCCH--------HHHHHHHHhcCCeEEEEEecCC
Confidence            357788889874 223332        3688889999999999998754

>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=88.88  E-value=0.41  Score=32.12  Aligned_cols=48  Identities=17%  Similarity=0.086  Sum_probs=30.7

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcC--CeEEEEecCCCCCCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYG--IVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G--~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ++.|.+.|+=  .+..        .+||++-+++||  .|.+|.|++...+...-|.|.|
T Consensus        68 ~~~lfVgnL~--~~~t--------e~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV  117 (229)
T 3q2s_C           68 RIALYIGNLT--WWTT--------DEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV  117 (229)
T ss_dssp             -CEEEEESCC--TTCC--------HHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEE
T ss_pred             ccEEEEeCCC--CCCC--------HHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEE
Confidence            3457788873  2222        357888899999  9999999986543223344443

>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=88.78  E-value=1.7  Score=28.38  Aligned_cols=41  Identities=20%  Similarity=0.126  Sum_probs=30.6

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+++.|.+.|+=. .+..        .+|+++-+++||.|.+|.|.+..
T Consensus        31 ~~~~~~l~V~nLp~-~~~t--------e~~L~~~F~~~G~i~~v~i~~~~   71 (229)
T 2adc_A           31 GAGNSVLLVSNLNP-ERVT--------PQSLFILFGVYGDVQRVKILFNK   71 (229)
T ss_dssp             CCCCSEEEEESCCT-TTCC--------HHHHHHHHHHHTCEEEEEECCTT
T ss_pred             CCCCCEEEEeCCCc-ccCC--------HHHHHHHHHhCCCeEEEEEEECC
Confidence            45678898999832 1222        26788889999999999999854

>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=88.70  E-value=0.45  Score=31.75  Aligned_cols=39  Identities=15%  Similarity=0.253  Sum_probs=28.9

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      +.+.|.+.|+=  .+..        .+|+++-+++||.|.++.+++...
T Consensus        94 ~~~~l~v~nlp--~~~t--------~~~l~~~f~~~G~i~~~~i~~~~~  132 (284)
T 3smz_A           94 TDALLCVANLP--PSLT--------QQQFEELVRPFGSLERCFLVYSER  132 (284)
T ss_dssp             CSCEEEEESCC--TTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCCEEEEcCCC--CcCC--------HHHHHHHHHhcCCeeEEEEEeeCC
Confidence            45677788873  2332        357889999999999999987654

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=88.40  E-value=0.72  Score=27.68  Aligned_cols=37  Identities=19%  Similarity=0.151  Sum_probs=28.4

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .|..|.+.|+-..-+  +        +++++=|.+||.|.++.+..+
T Consensus         6 ~~~wL~VgNL~~~~t--e--------~~L~~lF~q~G~V~~~~l~~~   42 (89)
T 2wbr_A            6 GSSWLLLKNLTAQID--G--------PTLRTLCMQHGPLVSFHPYLN   42 (89)
T ss_dssp             CCCEEEEECCCTTCC--C--------HHHHHHHHHHSCEEEEEEETT
T ss_pred             ccceEEEeCCCccCC--H--------HHHHHHHHhhCCEEEEEEcCC
Confidence            466777888754322  2        688999999999999999773

>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=88.13  E-value=1.3  Score=29.51  Aligned_cols=43  Identities=5%  Similarity=0.170  Sum_probs=29.1

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      ...+++.|.+.|+=.  +..        .+|+++-+++||.|.+|.|.+...+
T Consensus        37 ~~~~~~~l~V~nLp~--~~t--------~~~l~~~F~~~G~i~~v~i~~~~~~   79 (292)
T 2ghp_A           37 RNRELTTVLVKNLPK--SYN--------QNKVYKYFKHCGPIIHVDVADSLKK   79 (292)
T ss_dssp             -----CEEEEEEECT--TCC--------HHHHHHHHGGGSCEEEEEEEECTTS
T ss_pred             cCCCCCEEEEeCCCC--CCC--------HHHHHHHHHhcCCeEEEEEEECCCC
Confidence            346678888999743  332        3568888999999999999886543

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

Probab=88.05  E-value=0.47  Score=27.09  Aligned_cols=37  Identities=11%  Similarity=0.116  Sum_probs=27.8

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .++.|.+.|+=.  +..        .+|+++-+++||.|.++.+.+.
T Consensus        26 ~~~~l~V~nlp~--~~~--------~~~l~~~f~~~G~i~~~~~~~~   62 (101)
T 2la4_A           26 RVTTAYIGNIPH--FAT--------EADLIPLFQNFGFILDFKHYPE   62 (101)
T ss_dssp             SCCEEEEESCCT--TCC--------HHHHHHHHHTTSCCSEEEEETT
T ss_pred             CCCEEEEcCCCc--ccC--------HHHHHHHHHhCCCEEEEEEecC
Confidence            356788888843  332        3678889999999999999853

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.09  E-value=0.74  Score=27.13  Aligned_cols=39  Identities=10%  Similarity=0.243  Sum_probs=27.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..++-|.+.|+=  .+..        .+|+++-+++||.|. +.+++...
T Consensus         6 ~~~~~lfVgnLp--~~~t--------e~~L~~~F~~~G~i~-~~~~~~~~   44 (114)
T 2dnl_A            6 SGSRKVFVGGLP--PDID--------EDEITASFRRFGPLV-VDWPHKAE   44 (114)
T ss_dssp             SCCCCEEEECCC--TTCC--------HHHHHHHTTTTCCCC-EECTTSSS
T ss_pred             CCCCEEEEcCCC--CCCC--------HHHHHHHHHhcCCEE-EEEeecCC
Confidence            456667788873  3332        357888899999999 77777654

>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=86.84  E-value=2.8  Score=27.28  Aligned_cols=37  Identities=22%  Similarity=0.271  Sum_probs=28.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcC-CeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYG-IVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G-~V~~V~Ipr   58 (74)
                      .|++.|.+.|+-.  +..        .+|+++.+++|| .|.+|.+.+
T Consensus       149 ~~~~~l~V~nlp~--~~t--------~~~l~~~f~~~G~~i~~v~i~~  186 (229)
T 2adc_A          149 PPSATLHLSNIPP--SVS--------EEDLKVLFSSNGGVVKGFKFFQ  186 (229)
T ss_dssp             CSCSEEEEECCCT--TCC--------HHHHHHHHHTTSCCEEEEEECS
T ss_pred             CCCCEEEEeCCCc--cCC--------HHHHHHHHHHcCCCeeEEEEEE
Confidence            4578899999832  332        368899999999 999999943

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=85.91  E-value=0.63  Score=30.19  Aligned_cols=49  Identities=12%  Similarity=0.005  Sum_probs=33.3

Q ss_pred             EEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          17 LCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        17 v~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      |+..|+.+.....-.      ..+|++=.+.||.|.++.+..-+.+..+-|+|.|
T Consensus         5 I~VgnL~~~~~~~tt------e~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfV   53 (136)
T 2j8a_A            5 IVVYPAQDSTTTNIQ------DISIKNYFKKYGEISHFEAFNDPNSALPLHVYLI   53 (136)
T ss_dssp             EEEEESSSSCCCCCC------HHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEE
T ss_pred             EEEeCCCCCCCCCCC------HHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEE
Confidence            447777444433322      3578888999999999999887765445566554

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.80  E-value=4.1  Score=24.47  Aligned_cols=25  Identities=8%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          35 EDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        35 ~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .++..++.+..+.||.|..+.+...
T Consensus        26 ~~l~~~L~~~F~~~G~Vi~vr~~~d   50 (91)
T 2dnr_A           26 DALIDELLQQFASFGEVILIRFVED   50 (91)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEecC
Confidence            4799999999999999999999884

>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=85.53  E-value=1.7  Score=26.37  Aligned_cols=42  Identities=14%  Similarity=0.124  Sum_probs=30.7

Q ss_pred             CCcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEE
Q psy2203           3 PPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSL   54 (74)
Q Consensus         3 ~~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V   54 (74)
                      |.+....+..+++.|.+.|+=.  +..        .+|+++-+++||.|.++
T Consensus        34 ~~~~~~~~~~~~~~l~V~nLp~--~~t--------e~~L~~~F~~~G~i~~~   75 (143)
T 3egn_A           34 SVFRSYEPGEPNCRIYVKNLAK--HVQ--------EKDLKYIFGRYVDFSSE   75 (143)
T ss_dssp             GGGTTCCCCSCCSEEEEEEECT--TCC--------HHHHHHHHGGGCCTTCH
T ss_pred             ccccccCCCCCCCEEEEeCCCC--CCC--------HHHHHHHHHHhCCcccc
Confidence            4556666778889999999842  232        35788889999998763

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

Probab=84.73  E-value=1  Score=29.08  Aligned_cols=37  Identities=8%  Similarity=0.162  Sum_probs=26.9

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ++.|.+.|+-.  ++.        .+|+++-+++||.|.++.|++..
T Consensus       103 ~~~l~v~nl~~--~~t--------~~~l~~~F~~~G~i~~~~i~~d~  139 (213)
T 4f02_A          103 VGNIFIKNLDK--SID--------NKALYDTFSAFGNILSCKVVCDE  139 (213)
T ss_dssp             TTEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEEEEEET
T ss_pred             cccceECCccc--ccH--------HHHHHHHHhhcCCeEEEEeeccC
Confidence            44567787732  232        35788899999999999998753

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.39  E-value=3.6  Score=22.71  Aligned_cols=40  Identities=10%  Similarity=-0.028  Sum_probs=29.6

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      +....+.|.+.|+=  .+..        .+|+++-+++| .|.+|.|++..
T Consensus         6 ~~~~~~~l~v~nLp--~~~t--------~~~l~~~F~~~-~i~~v~i~~~~   45 (91)
T 2dgw_A            6 SGTTCHTVKLRGAP--FNVT--------EKNVMEFLAPL-KPVAIRIVRNA   45 (91)
T ss_dssp             CCCCCCEEEEECCC--SSCC--------HHHHHHHHTTS-CCSEEEEEECT
T ss_pred             CCCCccEEEEECCC--CCCC--------HHHHHHHHhhC-CceEEEEEECC
Confidence            34566788899883  3332        35788889999 99999999873

>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=84.08  E-value=1.6  Score=29.03  Aligned_cols=38  Identities=24%  Similarity=0.273  Sum_probs=28.6

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .+++.|.+.|+=  .+..        .+|+++-+++||.|.+|.+.+.
T Consensus        20 ~~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~~   57 (261)
T 3sde_A           20 TQRCRLFVGNLP--TDIT--------EEDFKRLFERYGEPSEVFINRD   57 (261)
T ss_dssp             CGGGEEEEESCC--TTCC--------HHHHHHHTGGGCCCSEEEEETT
T ss_pred             CCCCEEEEECCC--CCCC--------HHHHHHHHHhcCCEEEEEEeCC
Confidence            455678899983  3332        3578888999999999999874

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=83.82  E-value=0.23  Score=29.32  Aligned_cols=40  Identities=10%  Similarity=0.261  Sum_probs=28.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEE--------EEecCCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRS--------LEIPRPIE   61 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~--------V~Iprp~~   61 (74)
                      .+++.|.+.|+=  .+..        .+|+++-+++||.|.+        |.|++...
T Consensus         5 ~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~   52 (116)
T 2lcw_A            5 SDNNTIFVQGLG--ENVT--------IESVADYFKQIGIIKTNKKTGQPMINLYTDRE   52 (116)
Confidence            456777788872  2222        3467888999999998        88887644

>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=83.07  E-value=1  Score=28.28  Aligned_cols=48  Identities=10%  Similarity=-0.001  Sum_probs=31.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+.+.|.+.|+=..  ..        .+||++-+++|| +++|.|++...+ .+.|.|.|
T Consensus        44 ~~~~~lfV~nLp~~--~t--------e~dL~~~F~~~G-i~~v~i~~d~~g-~srGfaFV   91 (139)
T 2hgn_A           44 TTGHCVHMRGLPYK--AT--------ENDIYNFFSPLN-PVRVHIEIGPDG-RVTGEADV   91 (139)
T ss_dssp             -CCCCEECCSCCTT--CC--------HHHHHHHHCSCC-CSEEECCCSSSS-CSSCCCEE
T ss_pred             CCCCEEEEeCCCCC--CC--------HHHHHHHHHhcC-CeEEEEEECCCC-CCceEEEE
Confidence            44567778886432  22        468889999999 779999986553 33455544

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=82.63  E-value=1.4  Score=24.71  Aligned_cols=38  Identities=13%  Similarity=0.014  Sum_probs=26.9

Q ss_pred             cCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEE
Q psy2203           7 RLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSL   54 (74)
Q Consensus         7 ~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V   54 (74)
                      ......+++.|.+.|+=  .+..        .+|+++-+++||.|..+
T Consensus         9 ~~~~~~~~~~l~V~nL~--~~~t--------~~~l~~~F~~~g~v~~~   46 (96)
T 1fjc_A            9 TSKKVRAARTLLAKNLS--FNIT--------EDELKEVFEDALEIRLV   46 (96)
T ss_dssp             TTSTTTGGGEEEEESCC--SSCC--------HHHHHHHHCSEEEECCE
T ss_pred             ccccCCCCCEEEEeCCC--CCCC--------HHHHHHHHhhCCcEEEe
Confidence            33445678889999983  3332        35688889999988776

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=81.26  E-value=1.7  Score=29.95  Aligned_cols=45  Identities=11%  Similarity=0.079  Sum_probs=30.7

Q ss_pred             CCceEEEeeCCCCCCcCCCh-hHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDE-DEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~-~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..++.|.+.|+-..  +.+. -......+++++..++||.|.+|.|.+
T Consensus       132 ~~~rtLfVgnL~~~--~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~  177 (240)
T 3u1l_A          132 KKNKTLYVGGIDGA--LNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE  177 (240)
T ss_dssp             CCCCEEEEECTTGG--GTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG
T ss_pred             cCCceeecCCCChh--hhcccccccCcHHHHHHHHHccCCEEEEEEEC
Confidence            45677878877322  1100 012346889999999999999999986

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=80.89  E-value=0.66  Score=26.44  Aligned_cols=50  Identities=8%  Similarity=-0.081  Sum_probs=30.7

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+++.|.+.|+=  .+..        .+|+++-+++||.|.+ .+.+........|.|.|
T Consensus        14 ~~~~~~l~V~nLp--~~~t--------~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV   63 (101)
T 1fj7_A           14 STTPFNLFIGNLN--PNKS--------VAELKVAISELFAKND-LAVVDVRTGTNRKFGYV   63 (101)
T ss_dssp             CSCSEEEEEECCC--TTSC--------HHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEE
T ss_pred             CCCCCEEEEeCCC--CCCC--------HHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEE
Confidence            3467788899983  3332        3578888999999888 44443222233455544

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=80.49  E-value=3.4  Score=23.11  Aligned_cols=37  Identities=11%  Similarity=0.172  Sum_probs=26.0

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..++-|.+.|+=  .+..        .+|+++-+++||.|.+|...+
T Consensus         6 ~~~~~l~V~nl~--~~~t--------~~~l~~~F~~~G~v~~v~~~~   42 (94)
T 2e5g_A            6 SGLRSVFVSGFP--RGVD--------SAQLSEYFLAFGPVASVVMDK   42 (94)
T ss_dssp             TTCCEEEEECCC--TTCC--------HHHHHHHGGGTSCEEEEEECS
T ss_pred             CCCCEEEEECCC--CCCC--------HHHHHHHHHhcCCeEEEEEcC
Confidence            456677788873  2332        367888999999999984433

---

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	74
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-14
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	9e-08

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.8 bits (142), Expect = 5e-14
 Identities = 36/57 (63%), Positives = 51/57 (89%)

Query: 16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKAT 72
          VLCL+NMV P+EL D++EYE+I ED+++EC+KYG+V+S+EIPRP++ V+VPGCGK  
Sbjct: 6  VLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIF 62

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 9e-08
 Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 16 VLCLLNMVTPDELKDEDE-YEDICEDIKEECNKYGIVRSLEIPRP 59
          V+ + NM  P + +D+     +I ED++ EC+K+G +R L +   
Sbjct: 10 VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR 54

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	74
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.85
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.52
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	98.39
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	97.28
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	97.12
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	96.91
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	96.89
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	96.86
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	96.85
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	96.71
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	96.66
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	96.63
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	96.56
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	96.48
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	96.42
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	96.32
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	96.25
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	96.24
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	96.23
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	96.18
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	96.08
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	96.07
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	96.06
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	96.05
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	96.02
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	95.96
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	95.95
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	95.94
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	95.88
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	95.79
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	95.76
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	95.74
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	95.7
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	95.64
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	95.55
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	95.52
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	95.51
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	95.5
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	95.45
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	95.37
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	95.37
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	95.25
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	95.23
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	95.15
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	95.12
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	95.1
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	94.9
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	94.77
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	94.73
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	94.72
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	94.66
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	94.18
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	93.72
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	93.67
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	93.44
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	93.31
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	93.1
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	92.72
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	92.55
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	92.29
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	92.17
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	92.14
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	92.04
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	91.9
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	91.18
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	90.79
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	90.21
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	90.06
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	89.54
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	88.63
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	88.24
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	87.93
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	87.72
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	85.45
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	85.32
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	82.89
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	81.5
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	81.05

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=2.1e-21  Score=119.05  Aligned_cols=62  Identities=58%  Similarity=1.184  Sum_probs=58.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .||+||+|.|||++++|.++.+|++|.+||++||+|||.|++|.||+++.+....+.|.|||
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV   63 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFV   63 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEE
T ss_pred             CCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEE
Confidence            68999999999999999999999999999999999999999999999988777778899997

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.1e-14  Score=88.17  Aligned_cols=52  Identities=27%  Similarity=0.402  Sum_probs=46.3

Q ss_pred             CCCCCceEEEeeCCCCCCcCC-ChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELK-DEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~-~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ....++++|+|.|||+++++. +++.+.+|++||++||++||.|.+|.+++++
T Consensus         3 ~~~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~   55 (99)
T d2dita1           3 SRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRH   55 (99)
T ss_dssp             CCCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC
T ss_pred             CCCCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCC
Confidence            345789999999999999986 4566899999999999999999999999875

>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=98.39  E-value=2.3e-07  Score=55.64  Aligned_cols=57  Identities=21%  Similarity=0.413  Sum_probs=38.9

Q ss_pred             ceEEEeeCCCCCCcC----CC-----------hhHHHHHHHHHHHHH-HhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          14 FSVLCLLNMVTPDEL----KD-----------EDEYEDICEDIKEEC-NKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        14 s~vv~L~Nm~~~~el----~~-----------~~~~~ei~eDv~eEC-~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      |++|+|.||+.--.-    .+           .+.+.++.+|+..|| +|||.|.+|.|+++..+   ..-|.+||
T Consensus         1 s~~~~~~n~y~nP~~~~~~~~~~~~~~~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~---~~~G~~fV   73 (104)
T d1jmta_           1 SQTIALLNIYRNPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD---HLVGNVYV   73 (104)
T ss_dssp             CCEEEEEEEEECCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSS---SSEEEEEE
T ss_pred             CCEEEEEcccCCccccccccCCcccccchHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCC---CEeeEEEE
Confidence            688999999543321    11           123567777777777 89999999999987644   23566776

>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=97.28  E-value=0.00019  Score=40.90  Aligned_cols=41  Identities=10%  Similarity=0.341  Sum_probs=33.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .|++.|.+.|+  +.++.++    ||++.+++-+++||.|.+|.+++
T Consensus         1 ~P~~tl~V~nL--p~~~t~~----dl~~~l~~~f~~~G~i~~i~~~~   41 (91)
T d1nu4a_           1 RPNHTIYINNL--NEKIKKD----ELKKSLHAIFSRFGQILDILVSR   41 (91)
T ss_dssp             CCCSEEEEESC--CTTSCHH----HHHHHHHHHHGGGSCEEEEECCH
T ss_pred             CCCCEEEEeCC--CCCCCHH----HHHHHHHHHhcccccccceEEee
Confidence            47889999997  5555444    68899999999999999999976

>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=97.12  E-value=0.00036  Score=38.86  Aligned_cols=51  Identities=18%  Similarity=0.234  Sum_probs=36.0

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..|++.|.+.|+  +.+..+        +|+++-+++||.|.++.|++...+..+.|.|.|
T Consensus         6 p~~~~~l~V~nL--~~~~te--------~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV   56 (83)
T d2cqca1           6 PDPNCCLGVFGL--SLYTTE--------RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV   56 (83)
T ss_dssp             CCGGGCEEEESC--CSSCCH--------HHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEE
T ss_pred             CCCCCEEEEeCC--CCCCCH--------HHHHHHHHHhCCCccccccccccccccccceEE
Confidence            357888999998  344433        578888999999999999886654333344433

>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=96.91  E-value=0.0013  Score=38.34  Aligned_cols=49  Identities=24%  Similarity=0.473  Sum_probs=35.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +..++++|.+.|+  +.++.        .+|+++-+++||.|.+|.+++...   .-|.|.|
T Consensus         3 pp~~~r~l~V~nL--p~~~t--------e~~l~~~F~~~G~v~~i~~~~~~~---~kG~afV   51 (114)
T d2f9da1           3 PPEVNRILYIRNL--PYKIT--------AEEMYDIFGKYGPIRQIRVGNTPE---TRGTAYV   51 (114)
T ss_dssp             CTTCCSEEEEESC--CTTCC--------HHHHHHHHHTTSCEEEEEEECSTT---TTTEEEE
T ss_pred             ccCCCCEEEEECC--CCCCC--------HHHHHHHHhhcCCeEeecccccCC---cCCeEEE
Confidence            4456789999999  44443        357889999999999999987432   2455543

>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=96.89  E-value=0.00085  Score=38.92  Aligned_cols=40  Identities=13%  Similarity=0.137  Sum_probs=32.7

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..||++|.+.|+  +.++.+        +|+++-+++||.|.++.+.+..
T Consensus        12 ~~ps~~l~v~nl--p~~~te--------~~l~~~F~~fG~I~~~~~~~~k   51 (104)
T d1wexa_          12 VSVSPVVHVRGL--CESVVE--------ADLVEALEKFGTICYVMMMPFK   51 (104)
T ss_dssp             CCCCSEEEEESC--CSSCCH--------HHHHHHHTTTSCEEEEEEETTT
T ss_pred             CCCCCEEEEeCC--CCCCCH--------HHHHHhhhhcccceEEEEEecc
Confidence            368999999998  455543        4799999999999999998753

>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=96.86  E-value=0.00096  Score=37.61  Aligned_cols=49  Identities=16%  Similarity=0.231  Sum_probs=35.4

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .++.|.+.|+  +.+..        .+|+++-+++||.|.++.|++...+...-|.|.|
T Consensus         4 ~~~tlfV~nL--p~~~t--------e~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV   52 (89)
T d2cqba1           4 TKRVLYVGGL--AEEVD--------DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFV   52 (89)
T ss_dssp             CCSCEEEESC--CSSCC--------HHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEE
T ss_pred             CCcEEEEeCC--CCcCC--------HHHHHHHHhhCCeEEecccccccccccccceeEE
Confidence            4678889988  33333        2478889999999999999987664444565544

>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=96.85  E-value=0.00098  Score=36.93  Aligned_cols=34  Identities=26%  Similarity=0.302  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++.+++||.|.+|.|++.+.+..+-|.|.|
T Consensus        13 e~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV   46 (75)
T d1x0fa1          13 EEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI   46 (75)
T ss_dssp             HHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEE
T ss_pred             HHHHHHHHHHhCCcccccccccccccccccEEEE
Confidence            3688999999999999999998765555666665

>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=96.71  E-value=0.0034  Score=35.66  Aligned_cols=50  Identities=18%  Similarity=0.369  Sum_probs=34.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC-CCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE-NVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~-~~~~~gvGkV   71 (74)
                      .+++.|.+.|+  |.+..+        +|+++-+++||.|.+|.|++... ....-|.|.|
T Consensus         6 ~~~~~l~V~nL--p~~~~e--------~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV   56 (94)
T d2cpha1           6 QTTSKILVRNI--PFQANQ--------REIRELFSTFGELKTVRLPKKMTGTGAHRGFGFV   56 (94)
T ss_dssp             SCCCCEEEESC--CTTCCH--------HHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEE
T ss_pred             CCCCEEEEeCC--CCCCCH--------HHHHHHHHHhCCceEEEEEeccccCCCcccEEEE
Confidence            45566889998  445443        46888999999999999987543 2234456554

>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=96.66  E-value=0.0013  Score=36.22  Aligned_cols=46  Identities=15%  Similarity=0.205  Sum_probs=31.8

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEE
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK   70 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGk   70 (74)
                      +.|.+.|+  |.++++        +|+++-+++||.|.++.|++.......-|.|.
T Consensus         3 t~l~V~nL--p~~~t~--------~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~af   48 (82)
T d1b7fa1           3 TNLIVNYL--PQDMTD--------RELYALFRAIGPINTCRIMRDYKTGYSYGYAF   48 (82)
T ss_dssp             SEEEEECC--CTTCCH--------HHHHHHHHTTSCEEEEECCEETTTTEECSEEE
T ss_pred             CEEEEeCC--CCCCCH--------HHHHHHHHHhCCcceeeeeeecccCCccccce
Confidence            34778888  455543        46889999999999999998654333334443

>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=96.63  E-value=0.00022  Score=40.95  Aligned_cols=60  Identities=15%  Similarity=0.164  Sum_probs=43.2

Q ss_pred             CCCcccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203           2 YPPWDRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus         2 ~~~~d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .|.|..-.+..|++.|.+.|+  +.++.+        +||++-+++||.|.++.+.....+...-|.|.|
T Consensus         6 ~p~~~~~~~~~ps~tl~V~nL--p~~~t~--------~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV   65 (102)
T d2cpxa1           6 IPMFSSYNPGEPNKVLYLKNL--SPRVTE--------RDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFI   65 (102)
T ss_dssp             CSCCCCCCCCSCCSEEEEECC--CTTCCH--------HHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEE
T ss_pred             CCCCCCCCCCCCCCEEEEeCC--CCCCCH--------HHHHHHHhhccceeeEEeecccccccccccceE
Confidence            377777778889999999999  444443        578888999999999888764433333455543

>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=96.56  E-value=0.005  Score=34.53  Aligned_cols=42  Identities=12%  Similarity=0.020  Sum_probs=32.3

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ...+.+.|.+.|+  +.+..        .+|+++-+++||.|.++.|++...
T Consensus         4 d~~~~~tl~V~nL--p~~~t--------e~~l~~~F~~~G~i~~v~i~~d~~   45 (90)
T d2cqia1           4 DDGQPRTLYVGNL--SRDVT--------EVLILQLFSQIGPCKSCKMITEHT   45 (90)
T ss_dssp             CSCCCCEEEEESC--CTTCC--------HHHHHHHHHHHSCEEEEEEECCCC
T ss_pred             CCCCCCEEEEECC--CCCCC--------HHHHHHHHHhcCCceeeeeecccC
Confidence            3456778999998  44443        357888899999999999988654

>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=96.48  E-value=0.0025  Score=36.58  Aligned_cols=38  Identities=24%  Similarity=0.279  Sum_probs=30.1

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      +++|.+.|+ +++.+.+        +|+++-+++||.|.+|.|.+.+
T Consensus         2 ~~~l~V~nL-~p~~~te--------~~L~~~F~~fG~I~~v~i~~~~   39 (109)
T d2adca1           2 NSVLLVSNL-NPERVTP--------QSLFILFGVYGDVQRVKILFNK   39 (109)
T ss_dssp             CSEEEEESC-CTTTCCH--------HHHHHHHHHHTCEEEEEECCTT
T ss_pred             CCEEEEeCC-CcccCCH--------HHHHHHHhhccccceEEEEecc
Confidence            678899998 4444432        4889999999999999998754

>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=96.42  E-value=0.0024  Score=37.05  Aligned_cols=40  Identities=10%  Similarity=0.041  Sum_probs=29.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      +..|+..|.+.|+  +.+++        .+|+++-+++||.|.++.|.+.
T Consensus         3 ~~s~~~~v~V~NL--~~~vt--------e~~L~~~F~~~G~i~~~~i~~~   42 (108)
T d2adba1           3 GQSPVLRIIVENL--FYPVT--------LDVLHQIFSKFGTVLKIITFTK   42 (108)
T ss_dssp             CCCCEEEEESCSC--CSTTH--------HHHHHHHHTTTSCEEEEEEEEE
T ss_pred             CCCCeEEEEEeCc--CCCCC--------HHHHHHHHccCCcEEEEEEEee
Confidence            3455666667888  44443        3588999999999999999864

>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=96.32  E-value=0.0037  Score=34.87  Aligned_cols=45  Identities=18%  Similarity=0.338  Sum_probs=31.5

Q ss_pred             EEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          17 LCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        17 v~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      |.+.|+  |.+.++        +|+++.+++||.|.++.|++.+.+...-|.|.|
T Consensus         4 lfV~nl--p~~~te--------~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV   48 (85)
T d2u2fa_           4 LFIGGL--PNYLND--------DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFC   48 (85)
T ss_dssp             EEEETC--CSSCCS--------HHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEE
T ss_pred             EEEECC--CCCCCH--------HHHHHHHHhcCccceEEeeccccccccceeEEE
Confidence            446666  444444        478889999999999999987654344555554

>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=96.25  E-value=0.004  Score=33.97  Aligned_cols=33  Identities=21%  Similarity=0.231  Sum_probs=26.0

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++.+++||.|.++.|++.+.....-|.|.|
T Consensus        14 ~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV   46 (75)
T d1hd0a_          14 KDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV   46 (75)
T ss_dssp             HHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEE
T ss_pred             HHHHHHHHhhccccccccccCCCCCCcCceEEE
Confidence            688999999999999999986654444566655

>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=96.24  E-value=0.011  Score=33.00  Aligned_cols=49  Identities=12%  Similarity=0.181  Sum_probs=33.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK   70 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGk   70 (74)
                      ..+++|.+.|+=..  .+        .+|+++-+++||.|.+|.+++...+...-|.|.
T Consensus         5 ~~~~~l~V~nL~~~--~t--------~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~af   53 (88)
T d1rk8a_           5 VEGWILFVTSIHEE--AQ--------EDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYAL   53 (88)
T ss_dssp             C-CEEEEEESCCTT--CC--------HHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEE
T ss_pred             CCCCEEEEeCCCCC--CC--------HHHHHHHHHHcCCccccccccccccccccccee
Confidence            45678999998433  22        357888899999999999987554323334443

>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=96.23  E-value=0.0025  Score=35.14  Aligned_cols=33  Identities=15%  Similarity=0.106  Sum_probs=24.3

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGK   70 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGk   70 (74)
                      .+|+++-+++||.|.+|.|++...+....|.|.
T Consensus        14 e~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aF   46 (80)
T d1cvja1          14 EAMLYEKFSPAGPILSIRVCRDMITRRSLGYAY   46 (80)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEE
T ss_pred             HHHHHHHHHHhCCEeEEEEEecccccCCCCceE
Confidence            358889999999999999998665433334443

>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=96.18  E-value=0.0072  Score=33.33  Aligned_cols=42  Identities=14%  Similarity=0.188  Sum_probs=33.2

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+.|+++|.+.|+  +.+..+        +++++-.++||.|.++.+.+..
T Consensus         3 ~~~pP~~tl~V~nL--p~~~t~--------~~l~~~f~~~G~i~~v~~~~~~   44 (83)
T d2b0ga1           3 TEQPPNQILFLTNL--PEETNE--------MMLSMLFNQFPGFKEVRLVPNR   44 (83)
T ss_dssp             CCCSCCSEEEEESC--CTTCCH--------HHHHHHHTTSTTEEEEEECTTT
T ss_pred             CCCCCCCEEEEECC--CCCCCH--------HHHHhhhccCccEEEeeeeccc
Confidence            45678999999999  444433        4688888999999999998754

>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=96.08  E-value=0.0032  Score=34.44  Aligned_cols=36  Identities=17%  Similarity=0.304  Sum_probs=27.3

Q ss_pred             EEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          17 LCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        17 v~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      |.+.|+  |.+..+        +|+++-+++||.|.++.+++....
T Consensus         5 l~V~nL--p~~~te--------~~l~~~f~~~G~v~~v~i~~~~~~   40 (82)
T d1fxla1           5 LIVNYL--PQNMTQ--------EEFRSLFGSIGEIESCKLVRDKIT   40 (82)
T ss_dssp             EEEESC--CTTCCH--------HHHHHHHHTTSCEEEEEEEECTTT
T ss_pred             EEEECC--CCCCCH--------HHHHHHHHHhCCcccccceeeccC
Confidence            778887  444433        478889999999999999875543

>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=96.07  E-value=0.0032  Score=35.07  Aligned_cols=36  Identities=14%  Similarity=0.268  Sum_probs=27.4

Q ss_pred             EEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        16 vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      -|.+.|+  |.+..        .+|+++-+++||.|.++.|++.+.
T Consensus         8 ~lfV~nL--p~~~t--------e~~L~~~F~~~G~v~~v~i~~d~~   43 (85)
T d1fxla2           8 NLYVSGL--PKTMT--------QKELEQLFSQYGRIITSRILVDQV   43 (85)
T ss_dssp             EEEEESC--CTTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             EEEEeCC--CCCCC--------HHHHHHHHHHhCCccccccccccc
Confidence            3667887  34443        357899999999999999988554

>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=96.06  E-value=0.0065  Score=34.27  Aligned_cols=41  Identities=7%  Similarity=0.135  Sum_probs=33.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...+||||.+.|+-....         ..+|+++-|++||.|.++.+.+.
T Consensus         4 ~~~~sr~v~v~nl~~~~~---------t~~eL~~lF~~fG~I~~i~i~~~   44 (89)
T d1x4da1           4 RVETRRVVHIMDFQRGKN---------LRYQLLQLVEPFGVISNHLILNK   44 (89)
T ss_dssp             CCCCCCEEEEESCCCSSS---------HHHHHHTTTGGGSCEEEEEECSS
T ss_pred             CCCCCcEEEEECCCCCcC---------CHHHHHHHHHhhCCeEEEEeecc
Confidence            457899999999943222         57889999999999999999764

>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=96.05  E-value=0.0067  Score=34.43  Aligned_cols=50  Identities=18%  Similarity=0.177  Sum_probs=34.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..++-|.+.|+=  .+..+        +|+++.+++||.|.++.|++...+...-|.|.|
T Consensus         6 ~~~~~lfV~nL~--~~~t~--------~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV   55 (99)
T d1whwa_           6 SGSGRLFVRNLS--YTSSE--------EDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFV   55 (99)
T ss_dssp             CSCEEEEEECCC--TTCCH--------HHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEE
T ss_pred             CCCCEEEEECCC--CcCCH--------HHHHHHHHhcCCceeeeecccccccccCcceEE
Confidence            345557789983  33332        478899999999999999986554444566554

>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=96.02  E-value=0.0045  Score=35.97  Aligned_cols=47  Identities=15%  Similarity=0.169  Sum_probs=33.9

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +-|.+.|+  +.+..        .+|+++-+++||.|.++.|++...+...-|.|.|
T Consensus        21 ~~lfVgnL--p~~~t--------e~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV   67 (103)
T d1x4ba1          21 RKLFIGGL--SFETT--------EESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV   67 (103)
T ss_dssp             TEEEEECC--TTCCC--------HHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEE
T ss_pred             CEEEEeCC--CCcCC--------HHHHHHHHHhhCcccceeecccccCCCccCeEEE
Confidence            45677887  34443        3589999999999999999997665444455544

>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=95.96  E-value=0.0042  Score=34.21  Aligned_cols=33  Identities=21%  Similarity=0.277  Sum_probs=25.5

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++.|++.+.+..+-|.|.|
T Consensus        15 ~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV   47 (77)
T d1uawa_          15 EGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV   47 (77)
T ss_dssp             HHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEE
T ss_pred             HHHHHHHHHhCCcceeeeecccCCCCccceEEE
Confidence            478889999999999999997664444566544

>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=95.95  E-value=0.004  Score=34.73  Aligned_cols=33  Identities=15%  Similarity=0.298  Sum_probs=24.8

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++.|++...+..+-|.|.|
T Consensus        21 ~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV   53 (84)
T d1l3ka1          21 ESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV   53 (84)
T ss_dssp             HHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             HHHHHHHHhhccccceeecccccCCCcccEEEE
Confidence            688999999999999999986654333444443

>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=95.94  E-value=0.0037  Score=35.50  Aligned_cols=49  Identities=20%  Similarity=0.282  Sum_probs=31.7

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .++-|.+.|+=  .+..        .+|+++-+++||.|.+|.|++...+...-|.|.|
T Consensus         7 ~~~~lfV~nLp--~~~t--------e~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV   55 (90)
T d2cqga1           7 KTSDLIVLGLP--WKTT--------EQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFV   55 (90)
T ss_dssp             CCCCEEEESCC--SSCC--------HHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEE
T ss_pred             CCCeEEEECCC--CCCC--------HHHHHHHHHhhcccceeeeccCCCCcccCCEEEE
Confidence            34446678753  2222        3589999999999999999986543222344443

>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=95.88  E-value=0.013  Score=32.48  Aligned_cols=42  Identities=12%  Similarity=0.099  Sum_probs=32.7

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ....||++|.+.|+=.  ++.        .+|+++-+++||.|.++.+.+..
T Consensus         3 ~~~~Ps~~l~V~nLp~--~~t--------~~~L~~~f~~~G~i~~v~~~~~~   44 (88)
T d2cq1a1           3 MDGAPSRVLHIRKLPG--EVT--------ETEVIALGLPFGKVTNILMLKGK   44 (88)
T ss_dssp             CCSSCCSEEEEESCCT--TCC--------HHHHHHTTTTTSCEEEEEEETTT
T ss_pred             CCCCCCCEEEEeCCCC--CCC--------HHHHHHHHhcccccccccccccc
Confidence            3467999999999753  343        35778889999999999988643

>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=95.79  E-value=0.0042  Score=34.44  Aligned_cols=47  Identities=21%  Similarity=0.308  Sum_probs=32.3

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +-|.+.|+  |.++.+        +|+++-+++||.|.++.+++......+-|.|.|
T Consensus         7 t~lfV~nl--p~~~te--------~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV   53 (85)
T d1b7fa2           7 TNLYVTNL--PRTITD--------DQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV   53 (85)
T ss_dssp             CEEEEESC--CTTCCH--------HHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             CEEEEeCC--CCCCCH--------HHHHHHHHhhCCEeeeeeecccccccCceeEEE
Confidence            34778888  344433        478899999999999999986543333344443

>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=95.76  E-value=0.014  Score=32.26  Aligned_cols=39  Identities=23%  Similarity=0.039  Sum_probs=30.0

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .||++|.+.|+  |.+..        .+|+++-+++||.|.++.+..+.
T Consensus         8 pPs~tL~V~NL--p~~~t--------e~~l~~~F~~~G~v~~~~~~~~~   46 (88)
T d2adca2           8 PPSATLHLSNI--PPSVS--------EEDLKVLFSSNGGVVKGFKFFQK   46 (88)
T ss_dssp             CSCSEEEEECC--CTTCC--------HHHHHHHHHTTSCCEEEEEECSS
T ss_pred             CCCCEEEEECC--CCCCC--------HHHHHHHhhccCCEEEEEEeeec
Confidence            47899999999  44444        35788889999999988776543

>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=95.74  E-value=0.0085  Score=33.28  Aligned_cols=33  Identities=18%  Similarity=0.358  Sum_probs=26.1

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +||++-+++||.|.++.+.+...+..+.|.|.|
T Consensus        20 ~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV   52 (90)
T d1x5sa1          20 QSLEQVFSKYGQISEVVVVKDRETQRSRGFGFV   52 (90)
T ss_dssp             HHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEE
T ss_pred             HHHHHhhhccccccceeeccccccccccceEEE
Confidence            588888999999999999887765555666654

>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=95.70  E-value=0.0069  Score=32.37  Aligned_cols=34  Identities=21%  Similarity=0.222  Sum_probs=26.6

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++-+++||.+.++.+++...+....|.|.|
T Consensus        13 e~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV   46 (75)
T d2msta_          13 VEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFV   46 (75)
T ss_dssp             HHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEE
T ss_pred             HHHHHHHHHHhCCcceeeeeeeccccccCceeEE
Confidence            3579999999999999999888765555555544

>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=95.64  E-value=0.0089  Score=33.92  Aligned_cols=39  Identities=10%  Similarity=0.203  Sum_probs=31.1

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..||+.|.+.|+-  .++.        .+|+++-+++||.|.++.+.+.
T Consensus        14 ~~Ps~tl~V~nLp--~~~t--------~~~l~~~f~~~G~i~~~~~~~~   52 (97)
T d1whya_          14 ANPTTRLWVGGLG--PNTS--------LAALAREFDRFGSIRTIDHVKG   52 (97)
T ss_dssp             CCCCSCEEEECCC--SSCC--------HHHHHHHHHTTSCEEEEEECSS
T ss_pred             CCCCCEEEEcCCC--CCCC--------HHHHHHHHHhhcccceEeeecc
Confidence            3678999999993  3443        2578999999999999999764

>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=95.55  E-value=0.011  Score=32.92  Aligned_cols=41  Identities=10%  Similarity=0.212  Sum_probs=30.3

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+++.|.+.|+=.  ++.        .+|+++-+++||.|.++.|++...
T Consensus         5 ~~~~~~i~V~nLp~--~~t--------~~~l~~~f~~~G~v~~v~i~~d~~   45 (90)
T d2cq0a1           5 ADDNATIRVTNLSE--DTR--------ETDLQELFRPFGSISRIYLAKDKT   45 (90)
T ss_dssp             CSSSEEEEEESCCT--TCC--------HHHHHTTSTTTCCEEEEEEEECSS
T ss_pred             CCCCCEEEEECCCC--CCC--------HHHHHHHHHHhccccccccccccc
Confidence            34567788999632  232        247888999999999999998554

>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=95.52  E-value=0.0072  Score=32.28  Aligned_cols=33  Identities=21%  Similarity=0.327  Sum_probs=26.3

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++.+.+.+.+....|.|.|
T Consensus        13 ~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV   45 (72)
T d1x4ea1          13 QDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFV   45 (72)
T ss_dssp             HHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEE
T ss_pred             HHHHHHHhhhccccccccccccccccccceeEE
Confidence            478899999999999999987765555666654

>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=95.51  E-value=0.016  Score=33.14  Aligned_cols=46  Identities=11%  Similarity=0.189  Sum_probs=32.6

Q ss_pred             EEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        16 vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      =|.+.|+  +.++.+        +|+++-+++||.|.+|.|++...+...-|.|.|
T Consensus        12 ~lfV~nL--p~~~te--------~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV   57 (103)
T d2cqda1          12 KIFVGGL--PYHTTD--------ASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFV   57 (103)
T ss_dssp             EEEEECC--CSSCCH--------HHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEE
T ss_pred             EEEEeCC--CCcCcH--------HHHHHHHhhcccccceeccccccccccCCeEEE
Confidence            3668888  444443        477888999999999999986654344555554

>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=95.50  E-value=0.0074  Score=34.08  Aligned_cols=48  Identities=17%  Similarity=0.047  Sum_probs=32.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCG   69 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvG   69 (74)
                      .+|..|.+.|+=.  +..        .+|+++-+++||.|.+|.|++...+...-|.|
T Consensus         5 ~~s~tlfV~nlp~--~~t--------e~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~a   52 (93)
T d1h2vz_           5 KKSCTLYVGNLSF--YTT--------EEQIYELFSKSGDIKKIIMGLDKMKKTACGFC   52 (93)
T ss_dssp             TTCCEEEEESCCT--TCC--------HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEE
T ss_pred             CCCCEEEEeCCCC--CCC--------HHHHHHHHHHHCCcceeccccccccccccceE
Confidence            3566788898743  222        36788889999999999998866543333333

>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=95.45  E-value=0.036  Score=30.94  Aligned_cols=48  Identities=19%  Similarity=0.249  Sum_probs=33.6

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ...+.|.+.|+  |.+..        .+|+++-+++||.|.+|.+.+...+  ..|.|.|
T Consensus         9 ~~~~~l~v~nL--p~~~t--------~~~L~~~F~~~G~v~~v~~~~~~~~--~kg~afV   56 (93)
T d2cq3a1           9 STPKRLHVSNI--PFRFR--------DPDLRQMFGQFGKILDVEIIFNERG--SKGFGFV   56 (93)
T ss_dssp             CCCCEEEEESC--CTTCC--------HHHHHHHGGGTSCEEEEEEECCTTT--TCCEEEE
T ss_pred             CCCCEEEEECC--CCCCC--------HHHHHHHHhhcceeeeccccccccC--CcceeEE
Confidence            33445789998  34443        2588899999999999999886543  3455543

>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=95.37  E-value=0.019  Score=31.25  Aligned_cols=33  Identities=15%  Similarity=0.241  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .+|+++-+++||.|.++.|++...+ ...|.|.|
T Consensus        14 ~~~l~~~F~~~G~v~~~~i~~~~~g-~~~g~afV   46 (78)
T d1no8a_          14 DADIQELFAEFGTLKKAAVHYDRSG-RSLGTADV   46 (78)
T ss_dssp             HHHHHHHHHHHSCEEEEEESCSSCC-CSCCEEEE
T ss_pred             HHHHHHHHHHhCCCeEEEEEEeecc-ccceeEEE
Confidence            3688889999999999999987644 33455544

>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=95.37  E-value=0.018  Score=32.83  Aligned_cols=41  Identities=17%  Similarity=0.201  Sum_probs=31.5

Q ss_pred             CCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          10 PPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        10 ~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ...++++|.+.|+=... .++        +|+++-+++||.|.++.+.++
T Consensus        14 ~~~~~~~l~v~nLp~~~-~te--------~~l~~~F~~fG~V~~v~~~~~   54 (99)
T d1x4fa1          14 KQELGRVIHLSNLPHSG-YSD--------SAVLKLAEPYGKIKNYILMRM   54 (99)
T ss_dssp             SSCCCCEEEEESCCCSS-CCS--------HHHHTTTTTTSCCSEEEEETT
T ss_pred             CCCCCCEEEEeCCcCCc-cCH--------HHHHhhhccccceeEEEEeec
Confidence            34678999999995422 222        478889999999999999875

>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=95.25  E-value=0.013  Score=32.54  Aligned_cols=39  Identities=21%  Similarity=0.291  Sum_probs=28.4

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      ++.|.+.|+=.  +..        .+|+++-|++||.|.+|.++++..+
T Consensus         6 ~rtvfV~nlp~--~~t--------e~~l~~~F~~~G~v~~v~l~~~~~~   44 (85)
T d1zh5a2           6 NRSVYIKGFPT--DAT--------LDDIKEWLEDKGQVLNIQMRRTLHK   44 (85)
T ss_dssp             TTEEEEECCCT--TCC--------HHHHHHHHTTSCCEEEEEEEECTTC
T ss_pred             cCEEEEECCCC--CCC--------HHHHHHHHHHhcccccceeeeeccC
Confidence            45667777633  222        3678899999999999999987643

>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=95.23  E-value=0.0094  Score=32.25  Aligned_cols=33  Identities=15%  Similarity=0.256  Sum_probs=24.6

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.+.++.++..+.+...-|.|.|
T Consensus        17 ~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV   49 (79)
T d1l3ka2          17 HHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV   49 (79)
T ss_dssp             HHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             HHHHHHHHHhccccccccccCCCCcccccEEEE
Confidence            689999999999999999886654333344443

>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=95.15  E-value=0.019  Score=31.81  Aligned_cols=49  Identities=22%  Similarity=0.320  Sum_probs=30.1

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC-CCCCCceEEE
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE-NVDVPGCGKA   71 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~-~~~~~gvGkV   71 (74)
                      .+-|.+.|+=.  +..++       +++++-+++||.|.++.|++... +...-|.|.|
T Consensus         4 ~~~l~V~nLp~--~~t~e-------d~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV   53 (86)
T d2ghpa3           4 GREIMIRNLST--ELLDE-------NLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFM   53 (86)
T ss_dssp             TTEEEEEEECT--TTCCH-------HHHHHHHGGGSCEEEEECCSCCC---CCCEEEEE
T ss_pred             CCEEEEECCCC--CcccH-------HHHHHHHHhhhhccceeeecccCCccccceeeeE
Confidence            45677787621  22221       34788899999999999987532 2233455544

>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=95.12  E-value=0.018  Score=32.05  Aligned_cols=49  Identities=14%  Similarity=0.216  Sum_probs=35.5

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+.|.+.|+  +.+..        .+|+++-+++||.|.++.+.+...+....|.|.|
T Consensus         7 ~~~tlfV~nL--p~~~t--------e~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV   55 (98)
T d1x4ha1           7 EGKTVFIRNL--SFDSE--------EEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFA   55 (98)
T ss_dssp             CCCCEEEESC--CTTCC--------HHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEE
T ss_pred             CCCEEEEcCC--CCcCC--------HHHHHHHHhccccceeeeeccccccccccceEEE
Confidence            3567888888  44443        3578999999999999999887665444555554

>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=95.10  E-value=0.016  Score=32.57  Aligned_cols=49  Identities=12%  Similarity=0.036  Sum_probs=33.1

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      +.+.|.+.|+=..  ++        .+|+++-+++||.|.++.|++...+...-|.|.|
T Consensus         8 ~~~tlfV~nLp~~--~t--------~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV   56 (93)
T d1x5ua1           8 QDATVYVGGLDEK--VS--------EPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFV   56 (93)
T ss_dssp             TTTEEEEECCCTT--CC--------HHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEE
T ss_pred             CCCEEEEeCCCCc--CC--------HHHHHHHHHHhCCccccceeecccccccccceEE
Confidence            3456778887332  22        2578889999999999999886554334455444

>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=94.90  E-value=0.011  Score=32.48  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=20.5

Q ss_pred             HHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          39 EDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      +|+++-+++||.|.++.|++...+
T Consensus        13 ~~l~~~F~~~G~v~~v~i~~~~~~   36 (85)
T d2cpfa1          13 ETLKGVFSKVGAIKSCTISKKKNK   36 (85)
T ss_dssp             HHHHHHHHTTSCEEEEEEEEEECT
T ss_pred             HHHHHHHHHhCCccccceeccccc
Confidence            678899999999999999886543

>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=94.77  E-value=0.02  Score=31.76  Aligned_cols=41  Identities=20%  Similarity=0.328  Sum_probs=31.5

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..+++-|.+.|+  +.+..        .+|+++-+++||.|.+|.+++.+.
T Consensus         2 s~~s~~lfV~nL--p~~~t--------e~~L~~~F~~~G~v~~v~~~~~~~   42 (88)
T d1wf0a_           2 SSGSSGVFVGRC--TGDMT--------EDELREFFSQYGDVMDVFIPKPFR   42 (88)
T ss_dssp             CSCCCEEEEESC--CSSSC--------HHHHHHHSTTTSCCCEEECCSSCC
T ss_pred             CCCCCEEEEeCC--CCCCC--------HHHHHHHHHHcCCceEEEEeeccC
Confidence            346777888998  44444        358889999999999999987654

>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=94.73  E-value=0.032  Score=31.97  Aligned_cols=49  Identities=12%  Similarity=0.190  Sum_probs=35.4

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .++.|.+.|+  +.+..        .+||++-.+.||.|.+|.|++...+...-|.|.|
T Consensus        17 ~~~tifV~nL--~~~~t--------e~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV   65 (101)
T d2cq4a1          17 DARTVFCMQL--AARIR--------PRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYV   65 (101)
T ss_dssp             HHTEEEEESC--CTTCC--------HHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEE
T ss_pred             CCCEEEEECC--CCCCC--------HHHHHHHHcCCCeEEEEEeeecCCCccccceEEE
Confidence            3567888888  33333        2577888899999999999997664455677655

>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=94.72  E-value=0.055  Score=30.52  Aligned_cols=36  Identities=6%  Similarity=0.120  Sum_probs=28.3

Q ss_pred             ceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          14 FSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        14 s~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ++.|.+.|+  +.++.        .+|+++-+++||.|.+|.|++.
T Consensus        18 ~~~l~v~nL--~~~~t--------e~~L~~~F~~fG~i~~v~i~~~   53 (96)
T d1x4ga1          18 NCTVYCGGI--ASGLT--------DQLMRQTFSPFGQIMEIRVFPE   53 (96)
T ss_dssp             CCEEEEECC--SSCCC--------HHHHHHHHHHHSCEEEEEEETT
T ss_pred             CCEEEEcCC--CCCCC--------HHHHHHHHHHhCCceEEEEEec
Confidence            456889999  44443        3568888999999999999974

>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=94.66  E-value=0.014  Score=32.64  Aligned_cols=32  Identities=16%  Similarity=0.182  Sum_probs=22.5

Q ss_pred             HHHHHhcCCeEEEEecCCCCCC-CCCceEEEEe
Q psy2203          42 KEECNKYGIVRSLEIPRPIENV-DVPGCGKATL   73 (74)
Q Consensus        42 ~eEC~K~G~V~~V~Iprp~~~~-~~~gvGkVFv   73 (74)
                      ++..++||.|.+|.|++...+. ....-|..||
T Consensus        29 ~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV   61 (89)
T d2cpia1          29 PEYFGKFGKIHKVVINNSTSYAGSQGPSASAYV   61 (89)
T ss_dssp             TTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEE
T ss_pred             HHHhcccCCceEEEEeeccCcCCCCCcceEEEE
Confidence            5678999999999999876543 2233455665

>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=94.18  E-value=0.066  Score=32.24  Aligned_cols=51  Identities=12%  Similarity=0.201  Sum_probs=34.9

Q ss_pred             CCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          11 PLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        11 ~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+.+.|.+.|+  +..+.        .+++++-+++||.|..+.|.+...+....|.|.|
T Consensus        94 ~~~~~~i~V~~l--p~~~t--------e~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV  144 (183)
T d1u1qa_          94 HLTVKKIFVGGI--KEDTE--------EHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV  144 (183)
T ss_dssp             TCCCSEEEEECC--CTTCC--------HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             ccccceeEEccC--CCcCC--------HHHHhhhhccCCceeeeeeecccccCccceeEEE
Confidence            355677889988  33433        2578899999999999999886553333344443

>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=93.72  E-value=0.033  Score=30.09  Aligned_cols=46  Identities=11%  Similarity=0.091  Sum_probs=27.1

Q ss_pred             EEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        16 vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      .|.+.|+  |.+.++        +|+++-+++||.|.++.+.+.......-|.|.|
T Consensus         3 tl~v~nL--p~~~t~--------~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV   48 (81)
T d2ghpa1           3 TLWMTNF--PPSYTQ--------RNIRDLLQDINVVALSIRLPSLRFNTSRRFAYI   48 (81)
T ss_dssp             EEEEECC--CTTCCH--------HHHHHHHHHTTCCCCEEECC-------CCEEEE
T ss_pred             EEEEECC--CCcCCH--------HHHHHHHHHhCcEEeeeeecccccccccceeEE
Confidence            3567777  444443        578888999999998887665543334455543

>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=93.67  E-value=0.035  Score=30.14  Aligned_cols=37  Identities=11%  Similarity=0.184  Sum_probs=28.0

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..++.|.+.|+ +   +.        .+|+++-+++||.|.++.+.++.
T Consensus         3 ~~~~ti~V~~~-~---~t--------e~~L~~~F~~~G~I~~v~~~~~~   39 (79)
T d2bz2a1           3 RKGNTLYVYGE-D---MT--------PTLLRGAFSPFGNIIDLSMDPPR   39 (79)
T ss_dssp             CCCCEEEEECS-S---CC--------HHHHHHHHSTTCCCSCEEEETTT
T ss_pred             CCCCEEEEECC-C---CC--------HHHHHHHHhccCccceeeeccCC
Confidence            34567778884 2   32        25789999999999999998753

>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=93.44  E-value=0.018  Score=32.76  Aligned_cols=39  Identities=23%  Similarity=0.258  Sum_probs=28.8

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      ..|.|.+.|+  +.+++        .+|+++-+++||.|.+|.|++...
T Consensus         7 ~~rtl~V~nL--p~~~t--------e~~l~~~f~~~G~i~~v~i~~~~~   45 (104)
T d1p1ta_           7 SLRSVFVGNI--PYEAT--------EEQLKDIFSEVGPVVSFRLVYDRE   45 (104)
T ss_dssp             HHSCEEEESC--CTTSC--------HHHHHHHHHTTSCCSEEEEEEETT
T ss_pred             CCCEEEEECC--CCcCC--------HHHHHHhhhccccccccccccccc
Confidence            3566788888  23343        257888899999999999987544

>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=93.31  E-value=0.14  Score=28.85  Aligned_cols=37  Identities=14%  Similarity=0.112  Sum_probs=28.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .+.+.|.+.|+  |.++..        +|+++-+++||.|+++.|.+
T Consensus        13 ~~~~~i~V~Nl--p~~~~~--------~~L~~~F~~~G~v~~~~i~~   49 (98)
T d1wg4a_          13 RSDFRVLVSGL--PPSGSW--------QDLKDHMREAGDVCYADVQK   49 (98)
T ss_dssp             SCSCEEEEECC--CSSCCH--------HHHHHHHTTSSCEEEEEEET
T ss_pred             CCCCEEEEECC--CCCCCH--------HHHHHHHHhhcccccccccc
Confidence            44557889999  555543        47888899999999999976

>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=93.10  E-value=0.17  Score=28.24  Aligned_cols=42  Identities=24%  Similarity=0.336  Sum_probs=30.1

Q ss_pred             CCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203           8 LVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus         8 ~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+..|+..|.+.|+  +.+.++        +||++-.++|| ++++.+++..
T Consensus         9 ~~p~~p~~~v~V~nL--p~~~te--------~~l~~~f~~~g-~~~~~~~~~~   50 (104)
T d1wi8a_           9 RLPKSPPYTAFLGNL--PYDVTE--------ESIKEFFRGLN-ISAVRLPREP   50 (104)
T ss_dssp             CCCSSSCEEEEEESC--CSSCCH--------HHHHHHTTTSC-EEEEECCBCS
T ss_pred             CCCCCCCCEEEEeCC--CCcCCH--------HHHHHHHHHhc-cccceeeeee
Confidence            346678889999998  444433        57778889999 7777776543

>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=92.72  E-value=0.16  Score=29.09  Aligned_cols=42  Identities=7%  Similarity=-0.035  Sum_probs=29.9

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      .+++-|.+.|+=..- ..+|    ++++++++-|++||.|+++.+.+
T Consensus         3 ~~~~~L~v~nl~~~v-~~~d----~~k~~l~~lF~~~G~i~~~~~~k   44 (104)
T d1weya_           3 SGSSGLIACVANDDV-FSES----ETRAKFESLFRTYDKDTTFQYFK   44 (104)
T ss_dssp             SCCCEEEEECCCGGG-GSTT----THHHHHHHHHHTTCSSCEEEEET
T ss_pred             CCCceEEEEeCCchh-cCcH----HHHHHHHHHhcccccceEEEEec
Confidence            346667788764321 1222    37788899999999999999986

>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=92.55  E-value=0.049  Score=30.89  Aligned_cols=38  Identities=18%  Similarity=0.179  Sum_probs=26.6

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      ..++.|.+.|+-. ... +       .+|+++-+++||.|+++.|+|
T Consensus        13 ~~~~~lfV~nL~~-~~~-~-------~~~L~~~F~~~G~i~~~~i~r   50 (98)
T d1wf2a_          13 SMNSRVFIGNLNT-LVV-K-------KSDVEAIFSKYGKIVGCSVHK   50 (98)
T ss_dssp             SCCCCEEEEEECT-TTC-C-------HHHHHHSSTTSSCEEEEEEET
T ss_pred             CCCcEEEEeCCCc-ccC-C-------HHHHHHHHhhcCCEEEEEEeC
Confidence            3344578888831 111 1       247888999999999999965

>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=92.29  E-value=0.12  Score=28.30  Aligned_cols=44  Identities=11%  Similarity=0.222  Sum_probs=30.4

Q ss_pred             EEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        16 vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      -|.+.|+  +.+..        .+|+++-+++||.|.++.|++...+  .-|.|.|
T Consensus        10 ~l~V~nL--p~~~t--------~~~l~~~F~~~G~v~~~~i~~~~~~--~kg~afV   53 (89)
T d1cvja2          10 NIFIKNL--DKSID--------NKALYDTFSAFGNILSCKVVCDENG--SKGYGFV   53 (89)
T ss_dssp             EEEEESC--CSSCC--------HHHHHHHHHTTSCEEEEEECCBTTB--CCSCEEE
T ss_pred             EEEEeCC--CCCCC--------HHHHHHHHHhcCCceEEEEEeecCC--CcceeEE
Confidence            3678888  33333        2567888999999999999886543  2355544

>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=92.17  E-value=0.041  Score=32.61  Aligned_cols=39  Identities=18%  Similarity=0.238  Sum_probs=28.3

Q ss_pred             CceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          13 RFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        13 ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      .++.|.+.|+=.  +.+        .+|+++-+++||.|.+|.|.+...
T Consensus        41 ~~~~l~V~nLp~--~~t--------e~~l~~~F~~~G~i~~v~i~~d~~   79 (139)
T d1u6fa1          41 VLRNLMVNYIPT--TVD--------EVQLRQLFERYGPIESVKIVCDRE   79 (139)
T ss_dssp             TTSEEEEESCST--TCC--------HHHHHHHHHHHSCEEEEEEEEETT
T ss_pred             CCCEEEEeCCCC--CCC--------HHHHHHHHHhhccccccccccccc
Confidence            346788998632  232        357888899999999999987544

>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=92.14  E-value=0.076  Score=28.67  Aligned_cols=33  Identities=12%  Similarity=0.224  Sum_probs=23.4

Q ss_pred             HHHHHHHHhcCCeEEE-EecCCCCCCCCCceEEE
Q psy2203          39 EDIKEECNKYGIVRSL-EIPRPIENVDVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V-~Iprp~~~~~~~gvGkV   71 (74)
                      +|+++-+++||.|.++ .|++...+....|.|.|
T Consensus        13 ~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV   46 (83)
T d1x5ta1          13 KLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFI   46 (83)
T ss_dssp             HHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEE
T ss_pred             HHHHHHHHHhCceeeeEEEEeeccccccCceEEE
Confidence            5788999999999775 67765544344566655

>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=92.04  E-value=0.13  Score=29.30  Aligned_cols=43  Identities=16%  Similarity=0.158  Sum_probs=31.4

Q ss_pred             CCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203           9 VPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus         9 ~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ....||+.+.+.|-==+.++.        .+|+++-+++||.|.++.+.+.
T Consensus        13 ~~~~pt~~l~V~ng~L~~~vt--------e~~L~~~F~~~G~i~~i~~~~~   55 (101)
T d2cq2a1          13 TVSYATQSLVVANGGLGNGVS--------RNQLLPVLEKCGLVDALLMPPN   55 (101)
T ss_dssp             CCSSCCSEEEEETCTGGGTCC--------HHHHHHHHHHHSCEEEEECCTT
T ss_pred             cCCCCCceEEEECCCCCCCCC--------HHHHHHHHHhhCcccEEeeccC
Confidence            456788999888722223333        3578888999999999998874

>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=91.90  E-value=0.15  Score=27.27  Aligned_cols=25  Identities=4%  Similarity=0.214  Sum_probs=20.9

Q ss_pred             HHHHHHHHHhcCCeEEEEecCCCCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRPIEN   62 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp~~~   62 (74)
                      .+||++-.+.||.|.+|.+++...+
T Consensus        14 ~~~l~~~F~~~G~I~~v~~~~~~~~   38 (75)
T d2ghpa2          14 QNKVYKYFKHCGPIIHVDVADSLKK   38 (75)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTS
T ss_pred             HHHHHHHHhcCCceEEEEEEeeccc
Confidence            3688899999999999999876543

>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=91.18  E-value=0.081  Score=29.93  Aligned_cols=50  Identities=12%  Similarity=0.016  Sum_probs=33.8

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .+++.|.+.|+=  .+..        .+|+++-+++||.+.++.+.+...+.  ..-|..||
T Consensus        16 p~~~~l~V~nLp--~~~t--------e~~l~~~F~~~G~i~~~~~~~~~~~g--~~kG~afV   65 (102)
T d2cpza1          16 PEGANLFIYHLP--QEFG--------DQDLLQMFMPFGNVVSAKVFIDKQTN--LSKCFGFV   65 (102)
T ss_dssp             STTCCEEEESCC--SSCC--------HHHHHHHHGGGSCCSEEEEEECSSSC--SEEEEEEE
T ss_pred             CCCCEEEEeCCC--CCCC--------HHHHHHHHHhhccccccceeeecccC--CCccceEE
Confidence            456678899874  3332        35788999999999999988755432  22344554

>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=90.79  E-value=0.12  Score=29.83  Aligned_cols=22  Identities=18%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             HHHHHHHHHhcCCeEEEEecCC
Q psy2203          38 CEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        38 ~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      .+|+++-+++||.|.+|.|++.
T Consensus        25 ee~Lk~~F~~fG~V~~v~i~~~   46 (113)
T d1owxa_          25 REDLHILFSNHGEIKWIDFVRG   46 (113)
T ss_dssp             HHHHHHHTCSSCCEEEEECCTT
T ss_pred             HHHHHHHHHhcCChheEEEecC
Confidence            4688999999999999999975

>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=90.21  E-value=0.66  Score=25.39  Aligned_cols=39  Identities=21%  Similarity=0.444  Sum_probs=28.4

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      .+.+.|.+.|+  |.+..+        +|+++-+++||.|..+.+.+..
T Consensus        12 ~~~~~l~V~nL--p~~~t~--------~~l~~~F~~~G~v~~~~~~~~~   50 (95)
T d1x4aa1          12 NNDCRIYVGNL--PPDIRT--------KDIEDVFYKYGAIRDIDLKNRR   50 (95)
T ss_dssp             CCSSEEEEESC--CTTCCH--------HHHHHHHGGGSCEEEEEECCSS
T ss_pred             CCCCEEEEECC--CCCCCH--------HHHHHHHhcCCceEEEEecccc
Confidence            33445779998  344432        5678889999999999998754

>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=90.06  E-value=0.16  Score=30.43  Aligned_cols=37  Identities=14%  Similarity=0.196  Sum_probs=26.8

Q ss_pred             eEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCC
Q psy2203          15 SVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIE   61 (74)
Q Consensus        15 ~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~   61 (74)
                      |-|.+.|+  |.+..        .+|+++-+++||.|.++.+++...
T Consensus         7 r~lfV~nL--p~~~t--------e~~L~~~F~~~G~v~~~~~~~~~~   43 (183)
T d1u1qa_           7 RKLFIGGL--SFETT--------DESLRSHFEQWGTLTDCVVMRDPN   43 (183)
T ss_dssp             HEEEEESC--CTTCC--------HHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CEEEEECC--CCCCC--------HHHHHHHHHHcCCEEEEEeeeccc
Confidence            44667886  33333        357888899999999999987554

>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=89.54  E-value=0.16  Score=28.45  Aligned_cols=38  Identities=16%  Similarity=0.283  Sum_probs=28.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..++.|.+.|+=.  ++.        .+|+++-|++||.|.+|.|++.
T Consensus         8 r~~~~l~V~nLp~--~~t--------~~~L~~~F~~fG~I~~v~l~~~   45 (111)
T d1whxa_           8 RSKTVILAKNLPA--GTL--------AAEIQETFSRFGSLGRVLLPEG   45 (111)
T ss_dssp             EEEEEEEEESCCT--TCC--------HHHHHHHHHTTSCEEEEECCSS
T ss_pred             CCCCEEEEECCCC--CCC--------HHHHHhhhhccCCccEEEeecc
Confidence            3456788888742  232        2578889999999999999763

>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=88.63  E-value=0.33  Score=26.15  Aligned_cols=38  Identities=16%  Similarity=0.101  Sum_probs=28.7

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      ..+++|.+.|+  |.+..+        +|+++-|++||.+..+.+.++
T Consensus         6 ~~~k~l~V~nL--p~~~te--------~~l~~~F~~~g~i~~~~~~~~   43 (86)
T d2cpda1           6 SSVKILYVRNL--MLSTSE--------EMIEKEFNNIKPGAVERVKKI   43 (86)
T ss_dssp             SCCCEEEEESC--CTTCCH--------HHHHHHHHTTSTTCEEEEEEC
T ss_pred             cCCCEEEEcCC--CCCCCH--------HHHHHhhcccceeeeEEEccc
Confidence            34688999998  344443        578889999999988888664

>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=88.24  E-value=0.51  Score=25.90  Aligned_cols=33  Identities=21%  Similarity=0.134  Sum_probs=22.9

Q ss_pred             HHHHHHHHhcCC-eEEEEecCCCCCC-CCCceEEE
Q psy2203          39 EDIKEECNKYGI-VRSLEIPRPIENV-DVPGCGKA   71 (74)
Q Consensus        39 eDv~eEC~K~G~-V~~V~Iprp~~~~-~~~gvGkV   71 (74)
                      +|+++-.++||. |.+|.+++...+. ...|.|.|
T Consensus        16 ~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV   50 (96)
T d2disa1          16 EEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFV   50 (96)
T ss_dssp             HHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEE
T ss_pred             HHHHHHHHHhCCcceEEEEeeeccccccCCCeEEE
Confidence            578888999995 9999998765321 23444443

>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=87.93  E-value=0.14  Score=28.01  Aligned_cols=34  Identities=21%  Similarity=0.332  Sum_probs=26.1

Q ss_pred             EEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCC
Q psy2203          16 VLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRP   59 (74)
Q Consensus        16 vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp   59 (74)
                      -|.+.|+=.  ++.        .+|+++-|+.||.|.+|.+.+.
T Consensus        10 ~l~V~nLp~--~~~--------~~~l~~~F~~~G~i~~i~~~~~   43 (86)
T d2cpja1          10 RLFVGNLPP--DIT--------EEEMRKLFEKYGKAGEVFIHKD   43 (86)
T ss_dssp             EEEEESCCT--TCC--------HHHHHHHTSTTCCCSEEEEETT
T ss_pred             EEEEECCCC--CCC--------HHHHHHHHHHhCCceEeeeecc
Confidence            377888753  333        2578899999999999999874

>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=87.72  E-value=0.35  Score=26.24  Aligned_cols=20  Identities=25%  Similarity=0.371  Sum_probs=17.5

Q ss_pred             HHHHHHHHhcCCeEEEEecC
Q psy2203          39 EDIKEECNKYGIVRSLEIPR   58 (74)
Q Consensus        39 eDv~eEC~K~G~V~~V~Ipr   58 (74)
                      +|+++-.++||.|.++.|.+
T Consensus        15 ~~l~~~F~~~G~v~~~~i~~   34 (87)
T d3begb1          15 QDLKDHMREAGDVCYADVYR   34 (87)
T ss_dssp             THHHHHHGGGSCEEEEEECT
T ss_pred             HHHHHHHhhhcccccccccc
Confidence            36888889999999999976

>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=85.45  E-value=0.46  Score=26.43  Aligned_cols=54  Identities=15%  Similarity=0.148  Sum_probs=33.7

Q ss_pred             ccCCCCCCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEEEe
Q psy2203           6 DRLVPPLRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKATL   73 (74)
Q Consensus         6 d~~~~~~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkVFv   73 (74)
                      .+.....+++ |.+.|+=..  ..        .+|+++-.++||.|..+.+.+...+   ..-|..||
T Consensus        11 ~~~~~~~~~~-lfV~nLp~~--~t--------e~~L~~~F~~~G~i~~~~~~~~~~~---~~~g~afV   64 (101)
T d1x5oa1          11 AKQQEQDPTN-LYISNLPLS--MD--------EQELENMLKPFGQVISTRILRDSSG---TSRGVGFA   64 (101)
T ss_dssp             CSCCCCCTTE-EEEESCCTT--CC--------HHHHHHTTTTTSCEEEEEEEECSSS---CEEEEEEE
T ss_pred             hccccCCCCE-EEEeCCCCC--CC--------HHHHHHHHhhcccccceeeeccccc---ccccceeE
Confidence            3444444444 668887433  22        3577888999999999988775432   23455554

>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=85.32  E-value=0.48  Score=26.29  Aligned_cols=49  Identities=8%  Similarity=-0.014  Sum_probs=31.4

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEE-EEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRS-LEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~-V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+.+|.+.|+  |.+.+        .+||++-.+.||.+.. +.++....+ ...|.|.|
T Consensus         6 ~~~~~v~v~nL--p~~~t--------~~~l~~~F~~~g~i~~~~~~~~~~~g-~~~G~afV   55 (103)
T d2cpya1           6 SAKVCAHITNI--PFSIT--------KMDVLQFLEGIPVDENAVHVLVDNNG-QGLGQALV   55 (103)
T ss_dssp             SCCCEEEEESC--CTTSC--------HHHHHHHTTTSCCCSTTEEECCCTTS-SCSSCEEE
T ss_pred             CCceEEEEeCC--CCCCC--------HHHHhhhhcccceEEEEEEEEeCCCC-CcCccEEE
Confidence            34568999998  44443        3578888899999876 455554433 23444443

>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=82.89  E-value=0.1  Score=29.02  Aligned_cols=49  Identities=10%  Similarity=-0.019  Sum_probs=32.5

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..++.|.+.|+  +.++.        .+|+++-+++||.|.++.|.++..+ ..-|.|.|
T Consensus        11 ~~~~~ifV~nL--~~~~t--------e~~l~~~F~~~G~i~~~~v~~~~~g-~~kg~afv   59 (91)
T d1fjeb1          11 TTPFNLFIGNL--NPNKS--------VAELKVAISELFAKNDLAVVDVRTG-TNRKFGYV   59 (91)
T ss_dssp             SSSEEEEEECC--CTTSC--------HHHHHHHHHHHHHHHTCCCCEEEEE-TTTTEEEE
T ss_pred             CCCcEEEEeCc--cCcch--------HHHHHHHHhcCCcEEEeeeeecCCC-CccEEeEE
Confidence            34557888998  44443        3578888999999999888654333 33455554

>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=81.50  E-value=0.67  Score=25.25  Aligned_cols=24  Identities=13%  Similarity=0.070  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHhcCCeEEEEecCCC
Q psy2203          37 ICEDIKEECNKYGIVRSLEIPRPI   60 (74)
Q Consensus        37 i~eDv~eEC~K~G~V~~V~Iprp~   60 (74)
                      ..+++.+..++||.|.++.++++.
T Consensus        16 ~~~~il~~F~~~G~I~~~~~~~~~   39 (81)
T d1wwha1          16 SASYILLQFAQYGNILKHVMSNTG   39 (81)
T ss_dssp             GHHHHHHHHHTTSCEEEEEECSSS
T ss_pred             HHHHHHHHHHhhhhhheEEecCCC
Confidence            345677789999999999998753

>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=81.05  E-value=2.9  Score=22.92  Aligned_cols=50  Identities=12%  Similarity=-0.135  Sum_probs=33.2

Q ss_pred             CCceEEEeeCCCCCCcCCChhHHHHHHHHHHHHHHhcCCeEEEEecCCCCCCCCCceEEE
Q psy2203          12 LRFSVLCLLNMVTPDELKDEDEYEDICEDIKEECNKYGIVRSLEIPRPIENVDVPGCGKA   71 (74)
Q Consensus        12 ~ps~vv~L~Nm~~~~el~~~~~~~ei~eDv~eEC~K~G~V~~V~Iprp~~~~~~~gvGkV   71 (74)
                      ..+.+|.|.||=--  .+        .+||++-++.||.+....+.........-|.|.|
T Consensus        13 ~~~~~v~v~nLP~~--~t--------e~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV   62 (104)
T d1wg5a_          13 ANDGFVRLRGLPFG--CS--------KEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFV   62 (104)
T ss_dssp             SCCCEEEEESCCTT--CC--------HHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEE
T ss_pred             CCCcEEEEeCCCCC--CC--------HHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEE
Confidence            44568899998432  22        3688999999999988666555443344455544