Citrus Sinensis ID: 023143

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280------
Protein Sequence
MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRKL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccEEEEEEEEcccccEEEEEEEccHHHHHHHHHHHcccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccEEEEEEEcccccEEEEEEccHHHHHHHHHHHccccccccccccEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHcccccccEEEEEccccccEEEEEEEccHHHHHHHHHHHcccEEccccccEEEEEEEccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHcccccEEEEEEEccccEEEEEEEccHHHHHHHHHHHcccEccccccccEEEEEEccccccc
Coil and Loop (DISEMBL)
mahppydpyylppihpppppvppppyhhqqqdngintlfvsglpddvrAREIHNlfrrkpgfdfcqlkytgrgNQVVAFATFVNHQTAVAALHelngvkfdpqsgsVLHIELARsnsrkkrkpgsgayvvidkrtkteanvqesssadgdsdtdeaspvrnidsadkgdfvttqseratdsgnavapineqsekpyeggvqpcstlfianlgpnctedelkqtlsvypgfnmlkmrarggmpvafaDFEEVEQASIAMEglqdstlpssdrggmhIEYARSKMRKL
Flexible Loop (DISEMBL)
MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELarsnsrkkrkpgsgayvvidkrtkteanvqesssadgdsdtdeaspvrnidsadkgdFVTTqseratdsgnavaPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLqdstlpssdrggmhieyarskmrkl
Low Complexity Region (SEG)
MAhppydpyylppihpppppvppppyhhQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRKL
Disordered region (IsUnstruct)
**********************************INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQ**SVLHI*****************************************************************************************VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE************************************
Disordered Region (DISOPRED)
*************************************LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL**********************************************************KGDFVTTQSERATD***A********EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS*****
Disordered Region (DISEMBL)
MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA************GAYVVIDKRTKT********************PVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRKL
Disordered Region (DISPRO)
***PPYDPYYLPPIHPPPPPVPPP*******DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSR****************************ADGDSDTDEASPVRNI*SA**********************************VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRKL
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	286	2.2.26 [Sep-21-2011]
Q93062	196	RNA-binding protein with	yes	no	0.332	0.484	0.371	1e-12
Q9YGP5	196	RNA-binding protein with	N/A	no	0.297	0.433	0.413	2e-12
Q9WVB0	197	RNA-binding protein with	yes	no	0.332	0.482	0.371	2e-12
Q9W6I1	200	RNA-binding protein with	no	no	0.297	0.425	0.402	6e-12
Q6ZRY4	209	RNA-binding protein with	no	no	0.297	0.406	0.402	1e-11
Q8VC52	206	RNA-binding protein with	no	no	0.297	0.412	0.402	1e-11
Q01617	738	Protein couch potato OS=D	no	no	0.311	0.120	0.408	9e-11
O74452	561	Cell wall integrity prote	yes	no	0.279	0.142	0.341	3e-10
O59784	761	RNA-binding protein mde7	no	no	0.279	0.105	0.317	2e-08
Q07655	649	Protein WHI4 OS=Saccharom	yes	no	0.286	0.126	0.309	3e-07

>sp|Q93062|RBPMS_HUMAN RNA-binding protein with multiple splicing OS=Homo sapiens GN=RBPMS PE=1 SV=1

 Score = 73.9 bits (180), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 36/97 (37%), Positives = 58/97 (59%), Gaps = 2/97 (2%)

Query: 25  PYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVN 84
           P     Q+  + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F +F +
Sbjct: 13  PSEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVSFDS 70

Query: 85  HQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
              A AA + LNG++FDP+    L +E A++N++  +
Sbjct: 71  RSEAEAAKNALNGIRFDPEIPQTLRLEFAKANTKMAK 107

Acts as a coactivator of transcriptional activity. Required to increase TGFB1/Smad-mediated transactivation. Acts through SMAD2, SMAD3 and SMAD4 to increase transcriptional activity. Increases phosphorylation of SMAD2 and SMAD3 on their C-terminal SSXS motif, possibly through recruitment of TGFBR1. Promotes the nuclear accumulation of SMAD2, SMAD3 and SMAD4 proteins. Binds to poly(A) RNA.
Homo sapiens (taxid: 9606)

>sp|Q9YGP5|RBPMS_XENLA RNA-binding protein with multiple splicing OS=Xenopus laevis GN=rbpms PE=2 SV=1

 Score = 73.6 bits (179), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 2/87 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF N   A AA + 
Sbjct: 19  VRTLFVSGLPIDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDNRAGAEAAKNA 76

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKR 121
           LNG++FDP++   L +E A++N++  +
Sbjct: 77  LNGIRFDPENPQTLRLEFAKANTKMAK 103

Acts as a coactivator of transcriptional activity. Binds RNA.

Xenopus laevis (taxid: 8355)

>sp|Q9WVB0|RBPMS_MOUSE RNA-binding protein with multiple splicing OS=Mus musculus GN=Rbpms PE=2 SV=2

 Score = 73.2 bits (178), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/97 (37%), Positives = 58/97 (59%), Gaps = 2/97 (2%)

Query: 25  PYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVN 84
           P     Q+  + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F +F +
Sbjct: 13  PSEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVSFDS 70

Query: 85  HQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
              A AA + LNG++FDP+    L +E A++N++  +
Sbjct: 71  RSEAEAAKNALNGIRFDPEIPQTLRLEFAKANTKMAK 107

Acts as a coactivator of transcriptional activity. Required to increase TGFB1/Smad-mediated transactivation. Acts through SMAD2, SMAD3 and SMAD4 to increase transcriptional activity. Increases phosphorylation of SMAD2 and SMAD3 on their C-terminal SSXS motif, possibly through recruitment of TGFBR1. Promotes the nuclear accumulation of SMAD2, SMAD3 and SMAD4 proteins. Binds to poly(A) RNA.

Mus musculus (taxid: 10090)

>sp|Q9W6I1|RBPMS_CHICK RNA-binding protein with multiple splicing OS=Gallus gallus GN=RBPMS PE=2 SV=1

 Score = 71.6 bits (174), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 56/87 (64%), Gaps = 2/87 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF +   A AA + 
Sbjct: 21  VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDSRAGAEAAKNA 78

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKR 121
           LNG++FDP++   L +E A++N++  +
Sbjct: 79  LNGIRFDPENPQTLRLEFAKANTKMAK 105

Acts as a coactivator of transcriptional activity. Binds RNA.

Gallus gallus (taxid: 9031)

>sp|Q6ZRY4|RBPS2_HUMAN RNA-binding protein with multiple splicing 2 OS=Homo sapiens GN=RBPMS2 PE=2 SV=1

 Score = 70.9 bits (172), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 55/87 (63%), Gaps = 2/87 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T R  Q V F  F +   A AA + 
Sbjct: 30  VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTAR--QPVGFVIFDSRAGAEAAKNA 87

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKR 121
           LNG++FDP++   L +E A++N++  +
Sbjct: 88  LNGIRFDPENPQTLRLEFAKANTKMAK 114

Homo sapiens (taxid: 9606)

>sp|Q8VC52|RBPS2_MOUSE RNA-binding protein with multiple splicing 2 OS=Mus musculus GN=Rbpms2 PE=1 SV=1

 Score = 70.9 bits (172), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 55/87 (63%), Gaps = 2/87 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T R  Q V F  F +   A AA + 
Sbjct: 24  VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTSR--QPVGFVIFDSRAGAEAAKNA 81

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKR 121
           LNG++FDP++   L +E A++N++  +
Sbjct: 82  LNGIRFDPENPQTLRLEFAKANTKMAK 108

Mus musculus (taxid: 10090)

>sp|Q01617|CPO_DROME Protein couch potato OS=Drosophila melanogaster GN=cpo PE=2 SV=3

 Score = 67.8 bits (164), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/93 (40%), Positives = 53/93 (56%), Gaps = 4/93 (4%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV---VAFATFVNHQTAVAA 91
           + TLFVSGLP D + RE++ LFR   G++   LK T +  +    V F TF     A AA
Sbjct: 450 VRTLFVSGLPMDAKPRELYLLFRAYEGYEGSLLKVTSKNGKTASPVGFVTFHTRAGAEAA 509

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSR-KKRKP 123
             +L GV+FDP     + +E A+SN++  K KP
Sbjct: 510 KQDLQGVRFDPDMPQTIRLEFAKSNTKVSKPKP 542

May play a role in the development or function of the peripheral nervous system by regulating the processing of nervous system-specific transcripts.

Drosophila melanogaster (taxid: 7227)

>sp|O74452|SCW1_SCHPO Cell wall integrity protein scw1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=scw1 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/82 (34%), Positives = 50/82 (60%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
           PC+T+++ NL P+ +E+ELK   S   G+  L  R +G  P+ F +FE +  A  A++ L
Sbjct: 424 PCNTIYVGNLPPSTSEEELKVLFSTQVGYKRLCFRTKGNGPMCFVEFENIPYAMEALKNL 483

Query: 262 QDSTLPSSDRGGMHIEYARSKM 283
           Q   L SS +GG+ + ++++ +
Sbjct: 484 QGVCLSSSIKGGIRLSFSKNPL 505

Acts as a negative regulator of cell wall and septum deposition.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|O59784|MDE7_SCHPO RNA-binding protein mde7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mde7 PE=4 SV=1

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 47/82 (57%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
           PC+T+++ NL     E +L+   S   G+  L  + +G  P+ F +FEEV  A+ AME +
Sbjct: 600 PCNTIYVGNLSNPDQEKKLRLAFSKEKGYRRLCFKIKGNSPMCFVEFEEVCHAAKAMEKM 659

Query: 262 QDSTLPSSDRGGMHIEYARSKM 283
           Q + L    +GG+ + Y+++ +
Sbjct: 660 QGAALDDKIKGGIRLSYSKNPL 681

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q07655|WHI4_YEAST Protein WHI4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=WHI4 PE=1 SV=1

 Score = 56.2 bits (134), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/97 (30%), Positives = 51/97 (52%), Gaps = 15/97 (15%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG----------MPVAFADFEEV 251
           PC+TL++ NL P+ TE EL+Q  S   GF  L  R +             P+ F +FE+V
Sbjct: 531 PCNTLYVGNLPPDATEQELRQLFSNQQGFRRLSFRNKMNSHGHGNGHGHGPICFVEFEDV 590

Query: 252 EQASIAMEGLQDSTLPS-----SDRGGMHIEYARSKM 283
             A+ A+  L  S LP      +++GG+ + ++++ +
Sbjct: 591 SFATRALAELYGSQLPHPRPSLNNKGGIRLSFSKNPL 627

Has a partially redundant function to WHI3, a dosage-dependent modulator of cell size.

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

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	286
224134967	281	predicted protein [Populus trichocarpa]	0.958	0.975	0.704	1e-112
225442319	272	PREDICTED: uncharacterized protein LOC10	0.940	0.988	0.696	1e-104
356526031	264	PREDICTED: uncharacterized protein LOC10	0.912	0.988	0.700	1e-104
388496982	268	unknown [Medicago truncatula]	0.895	0.955	0.717	1e-101
449447844	262	PREDICTED: U2 small nuclear ribonucleopr	0.912	0.996	0.673	4e-99
449480586	262	PREDICTED: LOW QUALITY PROTEIN: U2 small	0.912	0.996	0.670	7e-98
363814370	265	uncharacterized protein LOC100810989 [Gl	0.916	0.988	0.682	2e-95
186510039	287	RNA recognition motif-containing protein	0.982	0.979	0.635	2e-94
297834202	287	hypothetical protein ARALYDRAFT_478769 [	0.982	0.979	0.631	5e-92
15231331	296	RNA recognition motif-containing protein	0.954	0.922	0.586	5e-86

>gi|224134967|ref|XP_002327534.1| predicted protein [Populus trichocarpa] gi|222836088|gb|EEE74509.1| predicted protein [Populus trichocarpa]

 Score =  409 bits (1050), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 200/284 (70%), Positives = 231/284 (81%), Gaps = 10/284 (3%)

Query: 3   HPPYDPYY-LPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPG 61
           H PYDPYY LPP    P           + ++GINTLFVSGLPDDV+AREIHN+FRR+PG
Sbjct: 6   HQPYDPYYQLPPAAAAPG---------GEWNSGINTLFVSGLPDDVKAREIHNIFRRRPG 56

Query: 62  FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           FD CQLKYTGRGNQVVAFATF NHQ+A+AALH LNGVKFDPQSGS LHIELARSNSR+KR
Sbjct: 57  FDSCQLKYTGRGNQVVAFATFFNHQSAIAALHSLNGVKFDPQSGSTLHIELARSNSRRKR 116

Query: 122 KPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDS 181
           KPGSGAYVVIDKRTK  ++  E+SS D +SD +E   + N+D+A +GD    +SE A+D 
Sbjct: 117 KPGSGAYVVIDKRTKKPSDAHETSSDDVESDPEEDPEMNNVDTAYQGDSENAKSEAASDP 176

Query: 182 GNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGM 241
            NA   +NE  E+  EGGV+PCSTLFIANLGPNCTEDELKQ LS YPGF++LK+RA+GGM
Sbjct: 177 DNAAVAVNEIGERTAEGGVRPCSTLFIANLGPNCTEDELKQVLSQYPGFHVLKIRAKGGM 236

Query: 242 PVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           PVAFADFEE+EQA+  ME LQ++TLPSSDRGGMHIEYARSKMRK
Sbjct: 237 PVAFADFEEIEQATKVMENLQETTLPSSDRGGMHIEYARSKMRK 280

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442319|ref|XP_002279868.1| PREDICTED: uncharacterized protein LOC100263499 [Vitis vinifera] gi|297743102|emb|CBI35969.3| unnamed protein product [Vitis vinifera]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/287 (69%), Positives = 225/287 (78%), Gaps = 18/287 (6%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQD-NGINTLFVSGLPDDVRAREIHNLFRRK 59
           M+H  YDPYY                HH Q D +GINTLFVSGLPDDV+ REIHNLFRR+
Sbjct: 1   MSHHAYDPYY----------------HHAQGDRSGINTLFVSGLPDDVKPREIHNLFRRR 44

Query: 60  PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRK 119
           PGFD CQLKYTGRGNQVVAFATF NHQTAVAALH LNGVKFDPQ+GS+LHIELARSNSR+
Sbjct: 45  PGFDSCQLKYTGRGNQVVAFATFFNHQTAVAALHALNGVKFDPQTGSILHIELARSNSRR 104

Query: 120 KRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQS-ERA 178
           KR PGSGAYVVIDKR+KT  N  E+SS DGDS++DE +   N DS +  D VT +S E A
Sbjct: 105 KRVPGSGAYVVIDKRSKTSTNAHETSSDDGDSESDEPAKTSNPDSGNNDDLVTAKSGEMA 164

Query: 179 TDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR 238
            D  + +  +NEQ EK  + G+ PCSTLFIANLGP CTEDELKQ LS YPGFN+LKMRA+
Sbjct: 165 VDPDSTLTAVNEQPEKTTDAGLPPCSTLFIANLGPTCTEDELKQVLSQYPGFNVLKMRAK 224

Query: 239 GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           GGMPVAFADFEE+EQA+ AM+ LQ S L SSDRGGMH+EYARSKMRK
Sbjct: 225 GGMPVAFADFEEIEQANKAMDALQGSMLASSDRGGMHLEYARSKMRK 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526031|ref|XP_003531623.1| PREDICTED: uncharacterized protein LOC100783764 [Glycine max]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/287 (70%), Positives = 220/287 (76%), Gaps = 26/287 (9%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKP 60
           MA PP+DP+YL              Y H +Q N INTLFVSGLPDDV+AREIHNLFRR+P
Sbjct: 1   MAQPPFDPFYL--------------YQHDEQSN-INTLFVSGLPDDVKAREIHNLFRRRP 45

Query: 61  GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           GFD CQLKYTGR NQVVAFATF NHQ+A+AALH LNGVKFDPQ+GSVLHIELARSNSR+K
Sbjct: 46  GFDSCQLKYTGRANQVVAFATFFNHQSAMAALHALNGVKFDPQTGSVLHIELARSNSRRK 105

Query: 121 RKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSAD-KGDF-VTTQSERA 178
           RKPGSGAYVVIDKR+K E ++Q SSS DGDSD DE S     DS D +GD  + T  E A
Sbjct: 106 RKPGSGAYVVIDKRSKGEPDLQGSSSEDGDSDPDEPS-----DSGDNQGDLAIMTSDETA 160

Query: 179 TDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR 238
             S NAV+   EQ  K   GG+  CSTLFIANLGPNCTEDELKQ  S Y GFNM+KMR+R
Sbjct: 161 VGSDNAVSV--EQHGKGSTGGL--CSTLFIANLGPNCTEDELKQAFSAYTGFNMVKMRSR 216

Query: 239 GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           GGMPVAF DFEE  QA+  ME LQ S LPSSDRGGMHIEYARSKMRK
Sbjct: 217 GGMPVAFVDFEETHQAAKVMEELQGSLLPSSDRGGMHIEYARSKMRK 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496982|gb|AFK36557.1| unknown [Medicago truncatula]

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 188/262 (71%), Positives = 208/262 (79%), Gaps = 6/262 (2%)

Query: 26  YHHQQQD--NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFV 83
           Y+H QQD  + INTLFVSGLPDDV+AREIHNLFRR+PGFD CQLKYTGR NQVVAFATF 
Sbjct: 9   YYHYQQDERSNINTLFVSGLPDDVKAREIHNLFRRRPGFDSCQLKYTGRANQVVAFATFF 68

Query: 84  NHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQE 143
           NHQ A+ ALH LNGVKFDPQSGSVLHIELARSNSR+KRKPG GAYVVIDKR+K EANVQ 
Sbjct: 69  NHQAAMQALHSLNGVKFDPQSGSVLHIELARSNSRRKRKPGGGAYVVIDKRSKGEANVQG 128

Query: 144 SSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPC 203
           SSS DG+SD DE S     + ++ GD  T QS  A    +   P+         G   PC
Sbjct: 129 SSSDDGESDPDEPSE----NGSNHGDIATAQSGDAVVGSDNHVPVARAQHGKGGGDGGPC 184

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD 263
           STLFIANLGPNCTEDELKQ LSVY GFN++KMR+RGGMPVAFADFEE++QA   ME LQ 
Sbjct: 185 STLFIANLGPNCTEDELKQALSVYAGFNLVKMRSRGGMPVAFADFEEIDQAVKVMEELQG 244

Query: 264 STLPSSDRGGMHIEYARSKMRK 285
           S+LPSSDRGGMHIEYARS+MRK
Sbjct: 245 SSLPSSDRGGMHIEYARSRMRK 266

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447844|ref|XP_004141677.1| PREDICTED: U2 small nuclear ribonucleoprotein B''-like [Cucumis sativus]

 Score =  367 bits (941), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 192/285 (67%), Positives = 212/285 (74%), Gaps = 24/285 (8%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKP 60
           MAH PYDPYYL          P P Y    + + INTLF+SGLPDDV+AREIHNLFRR+P
Sbjct: 1   MAHLPYDPYYLYN-------QPDPTY---SERSNINTLFISGLPDDVKAREIHNLFRRRP 50

Query: 61  GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           GFD CQLKYTGRGNQVVAFATF NHQ+AV ALH LNGVKFDPQSGSVLHIELARSNSR+K
Sbjct: 51  GFDSCQLKYTGRGNQVVAFATFYNHQSAVTALHALNGVKFDPQSGSVLHIELARSNSRRK 110

Query: 121 RKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATD 180
            KPG GAYVVIDKR KT+AN QE+SS DG S+ DE S                 +E    
Sbjct: 111 HKPGGGAYVVIDKRKKTDANSQETSSDDGGSEPDEPSKK-----------AQQSNEAVVT 159

Query: 181 SGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG 240
             NA++   E  EK  +GG  PCSTLFIANLGPNC EDELK+ L  YPGFN+LK+RA+ G
Sbjct: 160 PANAISAPYEHHEKN-DGG--PCSTLFIANLGPNCNEDELKEVLCKYPGFNVLKLRAKSG 216

Query: 241 MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           MPVAFADFE++EQAS  ME LQ S LPSSDRGGMHIEYARSKMRK
Sbjct: 217 MPVAFADFEDIEQASKVMEELQGSVLPSSDRGGMHIEYARSKMRK 261

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449480586|ref|XP_004155937.1| PREDICTED: LOW QUALITY PROTEIN: U2 small nuclear ribonucleoprotein B''-like [Cucumis sativus]

 Score =  362 bits (930), Expect = 7e-98,   Method: Compositional matrix adjust.
 Identities = 191/285 (67%), Positives = 210/285 (73%), Gaps = 24/285 (8%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKP 60
           MAH PYDPYYL          P P Y    + + INTLF+SGLPDDV+AREIHNLFRR+P
Sbjct: 1   MAHLPYDPYYLYN-------QPDPTY---SERSNINTLFISGLPDDVKAREIHNLFRRRP 50

Query: 61  GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           GFD CQLKYTGRGNQVVAFATF NHQ+AV ALH LNGVKFDPQSGSVLHIELARSNSR+K
Sbjct: 51  GFDSCQLKYTGRGNQVVAFATFYNHQSAVTALHALNGVKFDPQSGSVLHIELARSNSRRK 110

Query: 121 RKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATD 180
            KPG GAYVVIDKR K  AN QE+SS DG S+ DE S                 +E    
Sbjct: 111 HKPGGGAYVVIDKRKKPXANSQETSSDDGGSEPDEPSKK-----------AQQSNEAVVT 159

Query: 181 SGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG 240
             NA++   E  EK  +GG  PCSTLFIANLGPNC EDELK+ L  YPGFN+LK+RA+ G
Sbjct: 160 PANAISAPYEHHEKN-DGG--PCSTLFIANLGPNCNEDELKEVLCKYPGFNVLKLRAKSG 216

Query: 241 MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           MPVAFADFE++EQAS  ME LQ S LPSSDRGGMHIEYARSKMRK
Sbjct: 217 MPVAFADFEDIEQASKVMEELQGSVLPSSDRGGMHIEYARSKMRK 261

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814370|ref|NP_001242824.1| uncharacterized protein LOC100810989 [Glycine max] gi|255636681|gb|ACU18677.1| unknown [Glycine max]

 Score =  355 bits (910), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 196/287 (68%), Positives = 217/287 (75%), Gaps = 25/287 (8%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKP 60
           MAHPP DPYYL              Y  Q + + INTLFVSGLPDDV+AREIHNLFRR+P
Sbjct: 1   MAHPPLDPYYL--------------YQQQDERSNINTLFVSGLPDDVKAREIHNLFRRRP 46

Query: 61  GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           GFD CQLKYTGR NQVVAFATF NHQ+A+AALH LNGVKFDPQ+GSVLHIELARSNSR+K
Sbjct: 47  GFDSCQLKYTGRANQVVAFATFFNHQSAMAALHALNGVKFDPQTGSVLHIELARSNSRRK 106

Query: 121 RKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSAD-KGDF-VTTQSERA 178
           RKPG  A VVIDKR+  E ++Q SSS DGDSD DE S     DS D +G+  + T  E A
Sbjct: 107 RKPGGEACVVIDKRSTGEPDLQGSSSDDGDSDPDEPS-----DSGDNQGNIAIMTSDETA 161

Query: 179 TDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR 238
             S NAV+   EQ  K   GG+  CSTLFIANLGPNCTEDELKQ  SVY GFNM+KMR+R
Sbjct: 162 VGSDNAVSV--EQHGKGSAGGL--CSTLFIANLGPNCTEDELKQAFSVYTGFNMVKMRSR 217

Query: 239 GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           GGMPVAF DFEE +QA+  +E LQ S LPSSDRGGMHIEYARSKMRK
Sbjct: 218 GGMPVAFVDFEETDQAAKVVEELQGSLLPSSDRGGMHIEYARSKMRK 264

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186510039|ref|NP_001118622.1| RNA recognition motif-containing protein [Arabidopsis thaliana] gi|26449895|dbj|BAC42069.1| unknown protein [Arabidopsis thaliana] gi|332641880|gb|AEE75401.1| RNA recognition motif-containing protein [Arabidopsis thaliana]

 Score =  351 bits (901), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 181/285 (63%), Positives = 214/285 (75%), Gaps = 4/285 (1%)

Query: 3   HPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGF 62
           H PYDP+Y+  +H  P  +PP       +   INTLFVSGLP+DV+AREIHNLFRR+ GF
Sbjct: 4   HQPYDPFYVYQLHSHPHHLPPQLPLLADEPGAINTLFVSGLPNDVKAREIHNLFRRRHGF 63

Query: 63  DFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
           + CQLKYTGRG+QVVAFATF +H+ A+AA++ELNGVKFDPQ+GS LHIELARSNSR+K +
Sbjct: 64  ESCQLKYTGRGDQVVAFATFTSHRFALAAMNELNGVKFDPQTGSNLHIELARSNSRRKER 123

Query: 123 PGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSG 182
           PGSG YVVID R K  +  Q+  S +GDSD DE     N DS  + D  TT+SE  ++  
Sbjct: 124 PGSGPYVVIDNRNKEISKSQDDQSDEGDSDPDEVQEPGNSDSPKEND--TTKSEADSEPD 181

Query: 183 NAVAPINEQSEKPYEG--GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG 240
           +     N   EK  EG  G + CSTLFIANLGPNCTEDELKQ LS YPGF++LK+RARGG
Sbjct: 182 SKAPSANGHLEKASEGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGG 241

Query: 241 MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           MPVAFADFEE+EQA+ AM  LQ + L SSDRGGMHIEYARSKMRK
Sbjct: 242 MPVAFADFEEIEQATDAMNHLQGNLLSSSDRGGMHIEYARSKMRK 286

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834202|ref|XP_002884983.1| hypothetical protein ARALYDRAFT_478769 [Arabidopsis lyrata subsp. lyrata] gi|297330823|gb|EFH61242.1| hypothetical protein ARALYDRAFT_478769 [Arabidopsis lyrata subsp. lyrata]

 Score =  343 bits (880), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 180/285 (63%), Positives = 213/285 (74%), Gaps = 4/285 (1%)

Query: 3   HPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGF 62
           H PYDP+Y+   H  P  +PP       +   INTLFVSGLP+DV+AREIHNLFRR+ GF
Sbjct: 4   HQPYDPFYVYQPHYHPHHLPPQLPQFADEPGAINTLFVSGLPNDVKAREIHNLFRRRYGF 63

Query: 63  DFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
           + CQLKYTGRG+QVVAFATF +H+ A+AA++ELNGVKFDPQ+GS LHIELARSNSR+K +
Sbjct: 64  ESCQLKYTGRGDQVVAFATFTSHRFAMAAMNELNGVKFDPQTGSTLHIELARSNSRRKER 123

Query: 123 PGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSG 182
           PGSG YVVID R K  +  Q+  S +GDSD DE    RN +S  + D   ++++   DS 
Sbjct: 124 PGSGPYVVIDNRNKELSKSQDDQSDEGDSDPDEVQEPRNSESPKENDNAKSEADSEPDSK 183

Query: 183 NAVAPINEQSEKPYEG--GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG 240
              A  N   EK YEG  G + CSTLFIANLGPNCTEDEL+Q LS Y GFN+LK+RARGG
Sbjct: 184 APSA--NGHLEKAYEGGSGARACSTLFIANLGPNCTEDELRQLLSRYSGFNILKIRARGG 241

Query: 241 MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
           MPVAFADFEE+EQA+ AM  LQ + L SSDRGGMHIEYARSKMRK
Sbjct: 242 MPVAFADFEEIEQATDAMNELQGNLLSSSDRGGMHIEYARSKMRK 286

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231331|ref|NP_187983.1| RNA recognition motif-containing protein [Arabidopsis thaliana] gi|332641879|gb|AEE75400.1| RNA recognition motif-containing protein [Arabidopsis thaliana]

 Score =  323 bits (828), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 173/295 (58%), Positives = 206/295 (69%), Gaps = 22/295 (7%)

Query: 3   HPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGF 62
           H PYDP+Y+  +H  P  +PP       +   INTLFVSGLP+DV+AREIHNLFRR+ GF
Sbjct: 4   HQPYDPFYVYQLHSHPHHLPPQLPLLADEPGAINTLFVSGLPNDVKAREIHNLFRRRHGF 63

Query: 63  DFCQLKYTGRGNQV------------------VAFATFVNHQTAVAALHELNGVKFDPQS 104
           + CQLKYTGRG+QV                  VAFATF +H+ A+AA++ELNGVKFDPQ+
Sbjct: 64  ESCQLKYTGRGDQVCKNLQFLFFFIPIFRKAVVAFATFTSHRFALAAMNELNGVKFDPQT 123

Query: 105 GSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDS 164
           GS LHIELARSNSR+K +PGSG YVVID R K  +  Q+  S +GDSD DE     N DS
Sbjct: 124 GSNLHIELARSNSRRKERPGSGPYVVIDNRNKEISKSQDDQSDEGDSDPDEVQEPGNSDS 183

Query: 165 ADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGG--VQPCSTLFIANLGPNCTEDELKQ 222
             + D  TT+SE  ++  +     N   EK  EGG   + CSTLFIANLGPNCTEDELKQ
Sbjct: 184 PKEND--TTKSEADSEPDSKAPSANGHLEKASEGGSGARACSTLFIANLGPNCTEDELKQ 241

Query: 223 TLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE 277
            LS YPGF++LK+RARGGMPVAFADFEE+EQA+ AM  LQ + L SSDRGGMHIE
Sbjct: 242 LLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLLSSSDRGGMHIE 296

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	286
TAIR|locus:2091526	296	AT3G13700 [Arabidopsis thalian	0.699	0.675	0.632	5.5e-61
TAIR|locus:2060015	302	AT2G42240 [Arabidopsis thalian	0.807	0.764	0.391	2.2e-34
WB|WBGene00003172	312	mec-8 [Caenorhabditis elegans	0.349	0.320	0.37	6.6e-32
UNIPROTKB|G5ECJ4	312	mec-8 "Protein MEC-8" [Caenorh	0.349	0.320	0.37	6.6e-32
TAIR|locus:504955737	339	AT3G21215 [Arabidopsis thalian	0.293	0.247	0.416	1.7e-26
FB|FBgn0263995	738	cpo "couch potato" [Drosophila	0.311	0.120	0.408	2.1e-15
UNIPROTKB|Q9YGP5	196	rbpms "RNA-binding protein wit	0.286	0.418	0.428	1.3e-13
ZFIN|ZDB-GENE-040426-741	200	rbpms2b "RNA binding protein w	0.286	0.41	0.428	1.6e-13
ZFIN|ZDB-GENE-040718-106	199	rbpms2a "RNA binding protein w	0.286	0.412	0.428	1.6e-13
UNIPROTKB|F1NZ89	180	RBPMS2 "Uncharacterized protei	0.286	0.455	0.416	4.4e-13

TAIR|locus:2091526 AT3G13700 [Arabidopsis thaliana (taxid:3702)]

 Score = 624 (224.7 bits), Expect = 5.5e-61, P = 5.5e-61
 Identities = 129/204 (63%), Positives = 152/204 (74%)

Query:    76 VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRT 135
             VVAFATF +H+ A+AA++ELNGVKFDPQ+GS LHIELARSNSR+K +PGSG YVVID R 
Sbjct:    95 VVAFATFTSHRFALAAMNELNGVKFDPQTGSNLHIELARSNSRRKERPGSGPYVVIDNRN 154

Query:   136 KTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKP 195
             K  +  Q+  S +GDSD DE     N DS  + D  TT+SE  ++  +     N   EK 
Sbjct:   155 KEISKSQDDQSDEGDSDPDEVQEPGNSDSPKEND--TTKSEADSEPDSKAPSANGHLEKA 212

Query:   196 YEGG--VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQ 253
              EGG   + CSTLFIANLGPNCTEDELKQ LS YPGF++LK+RARGGMPVAFADFEE+EQ
Sbjct:   213 SEGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQ 272

Query:   254 ASIAMEGLQDSTLPSSDRGGMHIE 277
             A+ AM  LQ + L SSDRGGMHIE
Sbjct:   273 ATDAMNHLQGNLLSSSDRGGMHIE 296

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2060015 AT2G42240 [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 96/245 (39%), Positives = 135/245 (55%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             + TLFV+GLP+DV+ REI+NLFR  PG++   L+ +  G +  AFA F + Q+AVA +H 
Sbjct:    49 VRTLFVAGLPEDVKPREIYNLFREFPGYETSHLR-SSDGAKPFAFAVFSDLQSAVAVMHA 107

Query:    95 LNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTD 154
             LNG+ FD +  S LHI+LA+SN + KR      +  + K+ K+     ES      +   
Sbjct:   108 LNGMVFDLEKHSTLHIDLAKSNPKSKRSRTDDGWESL-KKLKSWNTTTESGFGSFQTPGM 166

Query:   155 EASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPN 214
              +S    I       +   QS+   +     AP    S KP +    PC TLFIAN+GPN
Sbjct:   167 SSSAYNTIG------YSPAQSQGIANVAGR-APT---SRKPSKAA-DPCPTLFIANMGPN 215

Query:   215 CTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG- 273
             CTE EL Q  S   GF  LK++   G PVAF DF++V  +S A+  LQ + L SS  G  
Sbjct:   216 CTEAELIQVFSRCRGFLKLKIQGTYGTPVAFVDFQDVSCSSEALHTLQGTVLYSSLTGEV 275

Query:   274 MHIEY 278
             + ++Y
Sbjct:   276 LRLQY 280

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

WB|WBGene00003172 mec-8 [Caenorhabditis elegans (taxid:6239)]

 Score = 191 (72.3 bits), Expect = 6.6e-32, Sum P(2) = 6.6e-32
 Identities = 37/100 (37%), Positives = 59/100 (59%)

Query:   184 AVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPV 243
             A A   + S++  +     CSTLF+ANL     ED L+     + GF  L++  + G  V
Sbjct:   208 AAAASLQHSQQASQASTSACSTLFVANLSAEVNEDTLRGVFKAFSGFTRLRLHNKNGSCV 267

Query:   244 AFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM 283
             AF ++ ++++A+ AM  LQ   + ++DRGG+ IEYAR+KM
Sbjct:   268 AFVEYSDLQKATQAMISLQGFQITANDRGGLRIEYARNKM 307

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0007638 "mechanosensory behavior" evidence=IMP

GO:0048666 "neuron development" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0048644 "muscle organ morphogenesis" evidence=IGI;IMP

GO:0005634 "nucleus" evidence=IDA

GO:0031581 "hemidesmosome assembly" evidence=IGI

UNIPROTKB|G5ECJ4 mec-8 "Protein MEC-8" [Caenorhabditis elegans (taxid:6239)]

 Score = 191 (72.3 bits), Expect = 6.6e-32, Sum P(2) = 6.6e-32
 Identities = 37/100 (37%), Positives = 59/100 (59%)

Query:   184 AVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPV 243
             A A   + S++  +     CSTLF+ANL     ED L+     + GF  L++  + G  V
Sbjct:   208 AAAASLQHSQQASQASTSACSTLFVANLSAEVNEDTLRGVFKAFSGFTRLRLHNKNGSCV 267

Query:   244 AFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM 283
             AF ++ ++++A+ AM  LQ   + ++DRGG+ IEYAR+KM
Sbjct:   268 AFVEYSDLQKATQAMISLQGFQITANDRGGLRIEYARNKM 307

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:504955737 AT3G21215 [Arabidopsis thaliana (taxid:3702)]

 Score = 175 (66.7 bits), Expect = 1.7e-26, Sum P(2) = 1.7e-26
 Identities = 35/84 (41%), Positives = 50/84 (59%)

Query:   202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
             PC+TLFI NLG N  E+EL+  LS  PGF  +K+  +    V F +FE+V  A+     L
Sbjct:   231 PCNTLFIGNLGENINEEELRSLLSAQPGFKQMKILRQERHTVCFIEFEDVNSATNVHHNL 290

Query:   262 QDSTLPSSDRGGMHIEYARSKMRK 285
             Q + +PSS   GM I+Y+++   K
Sbjct:   291 QGAVIPSSGSIGMRIQYSKNPYGK 314

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

FB|FBgn0263995 cpo "couch potato" [Drosophila melanogaster (taxid:7227)]

 Score = 168 (64.2 bits), Expect = 2.1e-15, Sum P(2) = 2.1e-15
 Identities = 38/93 (40%), Positives = 53/93 (56%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV---VAFATFVNHQTAVAA 91
             + TLFVSGLP D + RE++ LFR   G++   LK T +  +    V F TF     A AA
Sbjct:   450 VRTLFVSGLPMDAKPRELYLLFRAYEGYEGSLLKVTSKNGKTASPVGFVTFHTRAGAEAA 509

Query:    92 LHELNGVKFDPQSGSVLHIELARSNSR-KKRKP 123
               +L GV+FDP     + +E A+SN++  K KP
Sbjct:   510 KQDLQGVRFDPDMPQTIRLEFAKSNTKVSKPKP 542

GO:0003729 "mRNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=NAS;IDA

GO:0007422 "peripheral nervous system development" evidence=NAS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0009987 "cellular process" evidence=IMP

GO:0007268 "synaptic transmission" evidence=IMP

GO:0042048 "olfactory behavior" evidence=IMP

GO:0022611 "dormancy process" evidence=IMP

GO:0035206 "regulation of hemocyte proliferation" evidence=IMP

UNIPROTKB|Q9YGP5 rbpms "RNA-binding protein with multiple splicing" [Xenopus laevis (taxid:8355)]

 Score = 177 (67.4 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 36/84 (42%), Positives = 55/84 (65%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF N   A AA + 
Sbjct:    19 VRTLFVSGLPIDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDNRAGAEAAKNA 76

Query:    95 LNGVKFDPQSGSVLHIELARSNSR 118
             LNG++FDP++   L +E A++N++
Sbjct:    77 LNGIRFDPENPQTLRLEFAKANTK 100

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0008143 "poly(A) RNA binding" evidence=ISS

GO:0010862 "positive regulation of pathway-restricted SMAD protein phosphorylation" evidence=ISS

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=ISS

ZFIN|ZDB-GENE-040426-741 rbpms2b "RNA binding protein with multiple splicing 2b" [Danio rerio (taxid:7955)]

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 36/84 (42%), Positives = 55/84 (65%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF +   A AA + 
Sbjct:    19 VRTLFVSGLPTDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDSRSGAEAAKNA 76

Query:    95 LNGVKFDPQSGSVLHIELARSNSR 118
             LNGV+FDP++   L +E A++N++
Sbjct:    77 LNGVRFDPENPQTLRLEFAKANTK 100

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

ZFIN|ZDB-GENE-040718-106 rbpms2a "RNA binding protein with multiple splicing 2a" [Danio rerio (taxid:7955)]

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 36/84 (42%), Positives = 55/84 (65%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF +   A AA + 
Sbjct:    19 VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDSRSGAEAAKNA 76

Query:    95 LNGVKFDPQSGSVLHIELARSNSR 118
             LNG++FDP+S   L +E A++N++
Sbjct:    77 LNGIRFDPESPQTLRLEFAKANTK 100

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|F1NZ89 RBPMS2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 35/84 (41%), Positives = 55/84 (65%)

Query:    35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF +   A AA + 
Sbjct:     1 VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDSRAGAEAAKNA 58

Query:    95 LNGVKFDPQSGSVLHIELARSNSR 118
             LNG++FDP++   L +E A++N++
Sbjct:    59 LNGIRFDPENPQTLRLEFAKANTK 82

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	286
cd12245	79	cd12245, RRM_scw1_like, RNA recognition motif in y	5e-40
cd12420	79	cd12420, RRM_RBPMS_like, RNA recognition motif in	2e-25
cd12245	79	cd12245, RRM_scw1_like, RNA recognition motif in y	3e-14
cd12684	83	cd12684, RRM_cpo, RNA recognition motif in Drosoph	2e-13
cd12683	76	cd12683, RRM_RBPMS2, RNA recognition motif in vert	7e-13
cd12247	72	cd12247, RRM2_U1A_like, RNA recognition motif 2 in	7e-12
cd12682	76	cd12682, RRM_RBPMS, RNA recognition motif in verte	2e-11
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-09
smart00360	73	smart00360, RRM, RNA recognition motif	2e-09
cd12420	79	cd12420, RRM_RBPMS_like, RNA recognition motif in	4e-09
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-07
smart00360	73	smart00360, RRM, RNA recognition motif	7e-07
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	9e-07
cd12368	75	cd12368, RRM3_RBM45, RNA recognition motif 3 in RN	2e-06
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-05
cd12246	78	cd12246, RRM1_U1A_like, RNA recognition motif 1 in	2e-05
cd12310	72	cd12310, RRM3_Spen, RNA recognition motif 3 in the	5e-05
cd12247	72	cd12247, RRM2_U1A_like, RNA recognition motif 2 in	1e-04
cd12226	78	cd12226, RRM_NOL8, RNA recognition motif in nucleo	1e-04
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	1e-04
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	2e-04
cd12238	73	cd12238, RRM1_RBM40_like, RNA recognition motif 1	3e-04
cd12454	80	cd12454, RRM2_RIM4_like, RNA recognition motif 2 i	4e-04
cd12467	78	cd12467, RRM_Srp1p_like, RNA recognition motif 1 i	7e-04
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	9e-04
cd12239	82	cd12239, RRM2_RBM40_like, RNA recognition motif 2	0.002
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	0.003
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	0.003
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	0.003
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	0.003
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	0.004
cd12599	72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	0.004

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

 Score =  133 bits (338), Expect = 5e-40
 Identities = 46/79 (58%), Positives = 58/79 (73%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
           PC+TLF+ANLGPN TE+EL+Q  S  PGF  LKM  +GG PV F +FE+V  A+ A+  L
Sbjct: 1   PCNTLFVANLGPNTTEEELRQLFSRQPGFRRLKMHNKGGGPVCFVEFEDVSFATQALNSL 60

Query: 262 QDSTLPSSDRGGMHIEYAR 280
           Q + L SSDRGG+ IEYA+
Sbjct: 61  QGAVLSSSDRGGIRIEYAK 79

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

>gnl|CDD|240866 cd12420, RRM_RBPMS_like, RNA recognition motif in RNA-binding protein with multiple splicing (RBP-MS)-like proteins

 Score = 95.8 bits (239), Expect = 2e-25
 Identities = 36/79 (45%), Positives = 48/79 (60%), Gaps = 3/79 (3%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT---GRGNQVVAFATFVNHQTAVAAL 92
            TLFVSGLP DV+ RE+ +LFR  PG++  +L +    G   Q V F  F + Q A AA+
Sbjct: 1   RTLFVSGLPSDVKERELAHLFRPFPGYEASRLVFKEKKGGEKQPVGFVDFSSAQCAAAAM 60

Query: 93  HELNGVKFDPQSGSVLHIE 111
             L G +FDP + SVL +E
Sbjct: 61  DALQGYRFDPDTSSVLRLE 79

This subfamily corresponds to the RRM of RNA-binding proteins with multiple splicing (RBP-MS)-like proteins, including protein products of RBPMS genes (RBP-MS and its paralogue RBP-MS2), the Drosophila couch potato (cpo), and Caenorhabditis elegans Mec-8 genes. RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. It has also been shown to physically interact with Smad2, Smad3 and Smad4, and stimulates Smad-mediated transactivation. Cpo may play an important role in regulating normal function of the nervous system, whereas mutations in Mec-8 affect mechanosensory and chemosensory neuronal function. All members contain a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Some uncharacterized family members contain two RRMs; this subfamily includes their RRM1. Their RRM2 shows high sequence homology to the RRM of yeast proteins scw1, Whi3, and Whi4. Length = 79

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

 Score = 66.1 bits (162), Expect = 3e-14
 Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 2/79 (2%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
           NTLFV+ L  +    E+  LF R+PGF   +LK   +G   V F  F +   A  AL+ L
Sbjct: 3   NTLFVANLGPNTTEEELRQLFSRQPGF--RRLKMHNKGGGPVCFVEFEDVSFATQALNSL 60

Query: 96  NGVKFDPQSGSVLHIELAR 114
            G          + IE A+
Sbjct: 61  QGAVLSSSDRGGIRIEYAK 79

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

>gnl|CDD|241128 cd12684, RRM_cpo, RNA recognition motif in Drosophila couch potato (cpo) coding RNA-binding protein and similar proteins

 Score = 63.9 bits (155), Expect = 2e-13
 Identities = 34/83 (40%), Positives = 46/83 (55%), Gaps = 3/83 (3%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT---GRGNQVVAFATFVNHQTAVAA 91
           + TLFVSGLP D + RE++ LFR   G++   LK T   G+    V F TF     A AA
Sbjct: 1   VRTLFVSGLPMDAKPRELYLLFRAYKGYEGSLLKVTSKNGKTTSPVGFVTFETRAGAEAA 60

Query: 92  LHELNGVKFDPQSGSVLHIELAR 114
             +L GV+FDP     + +E A+
Sbjct: 61  KQDLQGVRFDPDIPQTIRLEFAK 83

This subfamily corresponds to the RRM of Cpo, an RNA-binding protein encoded by Drosophila couch potato (cpo) gene. Cpo contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It may control the processing of RNA molecules required for the proper functioning of the peripheral nervous system (PNS). . Length = 83

>gnl|CDD|241127 cd12683, RRM_RBPMS2, RNA recognition motif in vertebrate RNA-binding protein with multiple splicing 2 (RBP-MS2)

 Score = 62.4 bits (151), Expect = 7e-13
 Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 2/78 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F TF +   A AA + 
Sbjct: 1   VRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVTFDSRAGAEAAKNA 58

Query: 95  LNGVKFDPQSGSVLHIEL 112
           LNG++FDP++   L +E 
Sbjct: 59  LNGIRFDPENPQTLRLEF 76

This subfamily corresponds to the RRM of RBP-MS2, encoded by RBPMS2 gene, a paralog of RNA-binding protein with multiple splicing (RBP-MS). The biological function of RBP-MS2 remains unclear. Like RBP-MS, RBP-MS2 contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 76

>gnl|CDD|240693 cd12247, RRM2_U1A_like, RNA recognition motif 2 in the U1A/U2B"/SNF protein family

 Score = 59.5 bits (145), Expect = 7e-12
 Identities = 22/62 (35%), Positives = 37/62 (59%), Gaps = 2/62 (3%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
           P   LF+ NL    T++ L+   + +PGF  +++  R G  +AF +FE  EQA++A++ L
Sbjct: 1   PNKILFLQNLPEETTKEMLEMLFNQFPGFKEVRLVPRRG--IAFVEFETEEQATVALQAL 58

Query: 262 QD 263
           Q 
Sbjct: 59  QG 60

This subfamily corresponds to the RRM2 of U1A/U2B"/SNF protein family, containing Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs) connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. U2B" does not require an auxiliary protein for binding to RNA and its nuclear transport is independent on U2 snRNA binding. . Length = 72

>gnl|CDD|241126 cd12682, RRM_RBPMS, RNA recognition motif in vertebrate RNA-binding protein with multiple splicing (RBP-MS)

 Score = 58.9 bits (142), Expect = 2e-11
 Identities = 32/78 (41%), Positives = 48/78 (61%), Gaps = 2/78 (2%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + TLFVSGLP D++ RE++ LFR   G++   +K T +  Q V F +F +   A AA + 
Sbjct: 1   VRTLFVSGLPLDIKPRELYLLFRPFKGYEGSLIKLTSK--QPVGFVSFDSRSEAEAAKNA 58

Query: 95  LNGVKFDPQSGSVLHIEL 112
           LNG++FDP+    L +E 
Sbjct: 59  LNGIRFDPEIPQTLRLEF 76

This subfamily corresponds to the RRM of RBP-MS, also termed heart and RRM expressed sequence (hermes), an RNA-binding proteins found in various vertebrate species. It contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). RBP-MS physically interacts with Smad2, Smad3 and Smad4 and plays a role in regulation of Smad-mediated transcriptional activity. In addition, RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. . Length = 76

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

 Score = 53.1 bits (128), Expect = 1e-09
 Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELN 96
           LFV  LP D    ++  LF +    +  ++     G ++  AF  F + + A  AL  LN
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 97  GVKFDPQSGSVLHIE 111
           G + D   G  L + 
Sbjct: 61  GKELD---GRKLKVS 72

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

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

 Score = 53.0 bits (128), Expect = 2e-09
 Identities = 26/77 (33%), Positives = 37/77 (48%), Gaps = 7/77 (9%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGRGNQVVAFATFVNHQTAVAALH 93
           TLFV  LP D    E+  LF +    +  +L   K TG+ ++  AF  F + + A  AL 
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGK-SKGFAFVEFESEEDAEKALE 59

Query: 94  ELNGVKFDPQSGSVLHI 110
            LNG + D   G  L +
Sbjct: 60  ALNGKELD---GRPLKV 73

Length = 73

>gnl|CDD|240866 cd12420, RRM_RBPMS_like, RNA recognition motif in RNA-binding protein with multiple splicing (RBP-MS)-like proteins

 Score = 51.9 bits (125), Expect = 4e-09
 Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 5/79 (6%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGM-----PVAFADFEEVEQASIAM 258
            TLF++ L  +  E EL      +PG+   ++  +        PV F DF   + A+ AM
Sbjct: 1   RTLFVSGLPSDVKERELAHLFRPFPGYEASRLVFKEKKGGEKQPVGFVDFSSAQCAAAAM 60

Query: 259 EGLQDSTLPSSDRGGMHIE 277
           + LQ           + +E
Sbjct: 61  DALQGYRFDPDTSSVLRLE 79

This subfamily corresponds to the RRM of RNA-binding proteins with multiple splicing (RBP-MS)-like proteins, including protein products of RBPMS genes (RBP-MS and its paralogue RBP-MS2), the Drosophila couch potato (cpo), and Caenorhabditis elegans Mec-8 genes. RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. It has also been shown to physically interact with Smad2, Smad3 and Smad4, and stimulates Smad-mediated transactivation. Cpo may play an important role in regulating normal function of the nervous system, whereas mutations in Mec-8 affect mechanosensory and chemosensory neuronal function. All members contain a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Some uncharacterized family members contain two RRMs; this subfamily includes their RRM1. Their RRM2 shows high sequence homology to the RRM of yeast proteins scw1, Whi3, and Whi4. Length = 79

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

 Score = 45.8 bits (109), Expect = 7e-07
 Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 3/64 (4%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPG---FNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           LF+ NL P+ TE++L++  S +       +++ +       AF +FE  E A  A+E L 
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 263 DSTL 266
              L
Sbjct: 61  GKEL 64

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

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

 Score = 45.7 bits (109), Expect = 7e-07
 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPG---FNMLKMRARG-GMPVAFADFEEVEQASIAMEG 260
           TLF+ NL P+ TE+EL++  S +       +++ +  G     AF +FE  E A  A+E 
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 261 LQDSTL 266
           L    L
Sbjct: 61  LNGKEL 66

Length = 73

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

 Score = 45.3 bits (108), Expect = 9e-07
 Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 9/69 (13%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKM------RARGGMPVAFADFEEVEQASIAME 259
           LF+ NL P+ TE++LK   S +     +++      R++G    AF +FE+ E A  A+E
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKG---FAFVEFEDEEDAEKALE 57

Query: 260 GLQDSTLPS 268
            L    L  
Sbjct: 58  ALNGKELGG 66

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|240814 cd12368, RRM3_RBM45, RNA recognition motif 3 in RNA-binding protein 45 (RBM45) and similar proteins

 Score = 44.6 bits (106), Expect = 2e-06
 Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 4/54 (7%)

Query: 52  IHNLFRRKPGFDFCQLK---YTGRGNQVVAFATFVNHQTAVAALHELNGVKFDP 102
           +H LF   PG ++C LK   YTG+     A+ T+ N  +A+ A  +LNG ++ P
Sbjct: 16  LHRLFDIIPGLEYCDLKRDPYTGKSKG-FAYVTYSNPASAIYAKEKLNGFEYPP 68

This subfamily corresponds to the RRM3 of RBM45, also termed developmentally-regulated RNA-binding protein 1 (DRB1), a new member of RNA recognition motif (RRM)-type neural RNA-binding proteins, which expresses under spatiotemporal control. It is encoded by gene drb1 that is expressed in neurons, not in glial cells. RBM45 predominantly localizes in cytoplasm of cultured cells and specifically binds to poly(C) RNA. It could play an important role during neurogenesis. RBM45 carries four RRMs, also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 75

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

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELN 96
           LFV  LP D    ++ +LF +    +  ++     G ++  AF  F + + A  AL  LN
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 97  GVKFD 101
           G +  
Sbjct: 61  GKELG 65

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|240692 cd12246, RRM1_U1A_like, RNA recognition motif 1 in the U1A/U2B"/SNF protein family

 Score = 41.7 bits (99), Expect = 2e-05
 Identities = 30/86 (34%), Positives = 43/86 (50%), Gaps = 18/86 (20%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGF---------NMLK-MRARGGMPVAFADFEEVEQA 254
           TL+I NL     +DELK++L  Y  F            K ++ RG    AF  F++VE A
Sbjct: 1   TLYINNLNEKIKKDELKRSL--YALFSQFGPVLDIVASKTLKMRGQ---AFVVFKDVESA 55

Query: 255 SIAMEGLQDSTLPSSDRGGMHIEYAR 280
           + A+  LQ    P  D+  M I+YA+
Sbjct: 56  TNALRALQG--FPFYDK-PMRIQYAK 78

This subfamily corresponds to the RRM1 of U1A/U2B"/SNF protein family which contains Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs), connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. Moreover, U2B" does not require an auxiliary protein for binding to RNA, and its nuclear transport is independent of U2 snRNA binding. . Length = 78

>gnl|CDD|240756 cd12310, RRM3_Spen, RNA recognition motif 3 in the Spen (split end) protein family

 Score = 40.3 bits (95), Expect = 5e-05
 Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 3/75 (4%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDST 265
           L++  LGP  +  EL++    + G  + ++    G   A+ ++E +E A  A E L+   
Sbjct: 1   LWVGGLGPWTSLAELEREFDRF-GA-IRRIDYDPGRNYAYIEYESIEAAQAAKEALRGFP 58

Query: 266 LPSSDRGGMHIEYAR 280
           L    R  + +++A 
Sbjct: 59  LGGPGR-RLRVDFAD 72

This subfamily corresponds to the RRM3 domain in the Spen (split end) protein family which includes RNA binding motif protein 15 (RBM15), putative RNA binding motif protein 15B (RBM15B) and similar proteins found in Metazoa. RBM15, also termed one-twenty two protein 1 (OTT1), conserved in eukaryotes, is a novel mRNA export factor and is a novel component of the NXF1 pathway. It binds to NXF1 and serves as receptor for the RNA export element RTE. It also possess mRNA export activity and can facilitate the access of DEAD-box protein DBP5 to mRNA at the nuclear pore complex (NPC). RNA-binding protein 15B (RBM15B), also termed one twenty-two 3 (OTT3), is a paralog of RBM15 and therefore has post-transcriptional regulatory activity. It is a nuclear protein sharing with RBM15 the association with the splicing factor compartment and the nuclear envelope as well as the binding to mRNA export factors NXF1 and Aly/REF. Members in this family belong to the Spen (split end) protein family, which shares a domain architecture comprising of three N-terminal RNA recognition motifs (RRMs), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal SPOC (Spen paralog and ortholog C-terminal) domain. . Length = 72

>gnl|CDD|240693 cd12247, RRM2_U1A_like, RNA recognition motif 2 in the U1A/U2B"/SNF protein family

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 4/68 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             LF+  LP++     +  LF + PGF   +++   R    +AF  F   + A  AL  L
Sbjct: 3   KILFLQNLPEETTKEMLEMLFNQFPGFK--EVRLVPRRG--IAFVEFETEEQATVALQAL 58

Query: 96  NGVKFDPQ 103
            G K  P 
Sbjct: 59  QGFKITPG 66

This subfamily corresponds to the RRM2 of U1A/U2B"/SNF protein family, containing Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs) connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. U2B" does not require an auxiliary protein for binding to RNA and its nuclear transport is independent on U2 snRNA binding. . Length = 72

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

 Score = 39.8 bits (94), Expect = 1e-04
 Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 30/92 (32%)

Query: 38  LFVSGLPDDVRAREIHNLFRR-----------KPGFDFCQLKYTGRGNQVVAFATFVNHQ 86
           LFV GL   V   ++   F R           K      +            FA +++ +
Sbjct: 2   LFVGGLSPSVTESDLEERFSRFGTVSDVEIIKKKDAGPDR-----------GFA-YIDLR 49

Query: 87  TAVAALHE----LNGVKFDPQSGSVLHIELAR 114
           T+ A L +    LNG K+    GSVL IE A+
Sbjct: 50  TSEAQLKKCKSTLNGTKW---KGSVLKIEEAK 78

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

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

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 6/67 (8%)

Query: 38  LFVSGLPDDVRAREIHNLFRR--KP-GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           L+V  LP  V   ++   F    K  G    + K   RG    AF  F + + A AAL +
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRG---FAFVEFASPEDAEAALKK 57

Query: 95  LNGVKFD 101
           LNG+  D
Sbjct: 58  LNGLVLD 64

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

>gnl|CDD|240854 cd12408, RRM_eIF3G_like, RNA recognition motif in eukaryotic translation initiation factor 3 subunit G (eIF-3G) and similar proteins

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 21/88 (23%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQL--------KYTG--RGNQVVAFATFVNHQ 86
           T+ V+ L +D    ++  LFR      F  +        K TG  RG    AF TF   +
Sbjct: 1   TIRVTNLSEDADEDDLRELFRP-----FGPISRVYLAKDKETGQSRG---FAFVTFHTRE 52

Query: 87  TAVAALHELNGVKFDPQSGSVLHIELAR 114
            A  A+ +LNG  +D     +L +E A+
Sbjct: 53  DAERAIEKLNGFGYD---NLILSVEWAK 77

This subfamily corresponds to the RRM of eIF-3G and similar proteins. eIF-3G, also termed eIF-3 subunit 4, or eIF-3-delta, or eIF3-p42, or eIF3-p44, is the RNA-binding subunit of eIF3, a large multisubunit complex that plays a central role in the initiation of translation by binding to the 40 S ribosomal subunit and promoting the binding of methionyl-tRNAi and mRNA. eIF-3G binds 18 S rRNA and beta-globin mRNA, and therefore appears to be a nonspecific RNA-binding protein. eIF-3G is one of the cytosolic targets and interacts with mature apoptosis-inducing factor (AIF). eIF-3G contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). This family also includes yeast eIF3-p33, a homolog of vertebrate eIF-3G, plays an important role in the initiation phase of protein synthesis in yeast. It binds both, mRNA and rRNA, fragments due to an RRM near its C-terminus. . Length = 77

>gnl|CDD|240684 cd12238, RRM1_RBM40_like, RNA recognition motif 1 in RNA-binding protein 40 (RBM40) and similar proteins

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 8/79 (10%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALHE 94
           TL V  LP ++   +  +L +    F    ++   R  ++   AFATF N Q A  AL  
Sbjct: 1   TLLVRHLPPELSEDDKEDLLKH---FGASSVRVMSRRGKLKNTAFATFDNEQAASQALSR 57

Query: 95  LNGVKFDPQSGSVLHIELA 113
           L+ +K     G  L +E A
Sbjct: 58  LHQLKI---LGKRLVVEYA 73

This subfamily corresponds to the RRM1 of RBM40, also known as RNA-binding region-containing protein 3 (RNPC3) or U11/U12 small nuclear ribonucleoprotein 65 kDa protein (U11/U12-65K protein), It serves as a bridging factor between the U11 and U12 snRNPs. It contains two repeats of RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), connected by a linker that includes a proline-rich region. It binds to the U11-associated 59K protein via its RRM1 and employs the RRM2 to bind hairpin III of the U12 small nuclear RNA (snRNA). The proline-rich region might be involved in protein-protein interactions. . Length = 73

>gnl|CDD|240900 cd12454, RRM2_RIM4_like, RNA recognition motif 2 in yeast meiotic activator RIM4 and similar proteins

 Score = 38.1 bits (89), Expect = 4e-04
 Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 5/76 (6%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKM--RARGGMPVAFADFEEVEQASIAMEGLQ 262
           ++F+  L P+ T++EL +  S +     + +  RA      AF  FE  + A+ A+E   
Sbjct: 5   SIFVGQLSPDVTKEELNERFSRHGKILEVNLIKRANHTNAFAFIKFEREQAAARAVESEN 64

Query: 263 DSTLPSSDRGGMHIEY 278
            S L +     MH++Y
Sbjct: 65  HSMLKNKT---MHVQY 77

This subfamily corresponds to the RRM2 of RIM4, also termed regulator of IME2 protein 4, a putative RNA binding protein that is expressed at elevated levels early in meiosis. It functions as a meiotic activator required for both the IME1- and IME2-dependent pathways of meiotic gene expression, as well as early events of meiosis, such as meiotic division and recombination, in Saccharomyces cerevisiae. RIM4 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes a putative RNA-binding protein termed multicopy suppressor of sporulation protein Msa1. It is a putative RNA-binding protein encoded by a novel gene, msa1, from the fission yeast Schizosaccharomyces pombe. Msa1 may be involved in the inhibition of sexual differentiation by controlling the expression of Ste11-regulated genes, possibly through the pheromone-signaling pathway. Like RIM4, Msa1 also contains two RRMs, both of which are essential for the function of Msa1. . Length = 80

>gnl|CDD|240913 cd12467, RRM_Srp1p_like, RNA recognition motif 1 in fission yeast pre-mRNA-splicing factor Srp1p and similar proteins

 Score = 37.5 bits (87), Expect = 7e-04
 Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT-GRGNQVVAFATFVNHQTAVAALHEL 95
           TL+V+G   + RAR++   F R      C +       ++  AF  + +H+ A  A  E+
Sbjct: 1   TLYVTGFGAETRARDLAYEFERYGRLVRCDIPPPRTFQSRPFAFVEYESHRDAEDAYEEM 60

Query: 96  NGVKFDPQSGSVLHIELAR 114
           +G +F P +G  LH++ A+
Sbjct: 61  HGRRF-PDTGDTLHVQWAK 78

This subgroup corresponds to the RRM domain in Srp1p encoded by gene srp1 from fission yeast Schizosaccharomyces pombe. It plays a role in the pre-mRNA splicing process, but not essential for growth. Srp1p is closely related to the SR protein family found in metazoa. It contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a glycine hinge and a RS domain in the middle, and a C-terminal domain. Some family members also contain another RRM domain. Length = 78

>gnl|CDD|240854 cd12408, RRM_eIF3G_like, RNA recognition motif in eukaryotic translation initiation factor 3 subunit G (eIF-3G) and similar proteins

 Score = 37.1 bits (87), Expect = 9e-04
 Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 21/87 (24%)

Query: 205 TLFIANLGPNCTEDELKQTLS-------VYPGFNMLKMRARGGMPVAFADFEEVEQASIA 257
           T+ + NL  +  ED+L++          VY   +    ++RG    AF  F   E A  A
Sbjct: 1   TIRVTNLSEDADEDDLRELFRPFGPISRVYLAKDKETGQSRG---FAFVTFHTREDAERA 57

Query: 258 MEGLQ----DSTLPSSDRGGMHIEYAR 280
           +E L     D+ +       + +E+A+
Sbjct: 58  IEKLNGFGYDNLI-------LSVEWAK 77

This subfamily corresponds to the RRM of eIF-3G and similar proteins. eIF-3G, also termed eIF-3 subunit 4, or eIF-3-delta, or eIF3-p42, or eIF3-p44, is the RNA-binding subunit of eIF3, a large multisubunit complex that plays a central role in the initiation of translation by binding to the 40 S ribosomal subunit and promoting the binding of methionyl-tRNAi and mRNA. eIF-3G binds 18 S rRNA and beta-globin mRNA, and therefore appears to be a nonspecific RNA-binding protein. eIF-3G is one of the cytosolic targets and interacts with mature apoptosis-inducing factor (AIF). eIF-3G contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). This family also includes yeast eIF3-p33, a homolog of vertebrate eIF-3G, plays an important role in the initiation phase of protein synthesis in yeast. It binds both, mRNA and rRNA, fragments due to an RRM near its C-terminus. . Length = 77

>gnl|CDD|240685 cd12239, RRM2_RBM40_like, RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

 Score = 36.4 bits (85), Expect = 0.002
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 12/74 (16%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR--------KPGFDFCQLKYTGR-GNQVVAFATFVNHQ 86
             L+V  L   V   ++  +F R        K  FD   +   GR   Q  AF TF + +
Sbjct: 2   KRLYVKNLSKRVTEEDLVYIFGRFVDSSSEEKNMFDIRLMT-EGRMKGQ--AFVTFPSEE 58

Query: 87  TAVAALHELNGVKF 100
            A  AL+ +NG   
Sbjct: 59  IATKALNLVNGYVL 72

This subfamily corresponds to the RRM2 of RBM40 and the RRM of RBM41. RBM40, also known as RNA-binding region-containing protein 3 (RNPC3) or U11/U12 small nuclear ribonucleoprotein 65 kDa protein (U11/U12-65K protein). It serves as a bridging factor between the U11 and U12 snRNPs. It contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), connected by a linker that includes a proline-rich region. It binds to the U11-associated 59K protein via its RRM1 and employs the RRM2 to bind hairpin III of the U12 small nuclear RNA (snRNA). The proline-rich region might be involved in protein-protein interactions. RBM41 contains only one RRM. Its biological function remains unclear. . Length = 82

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

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGF---NMLKMRARGG------MPVAFADFEEVEQA 254
           +TLF+ NL    TE+ LK+      G     + K +   G      M   F +F+  E A
Sbjct: 1   TTLFVKNLNFKTTEETLKKHFEKCGGVRSVTIAKKKDPKGPGKLLSMGYGFVEFKSKEAA 60

Query: 255 SIAMEGLQDSTL 266
             A++ LQ + L
Sbjct: 61  QKALKRLQGTVL 72

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

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

 Score = 38.4 bits (88), Expect = 0.003
 Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 7/110 (6%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TGR 72
                    P   Q+     NTLFV  LP DV   ++  LF++       +L     TG+
Sbjct: 96  EELFRSSESPKSRQKSKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGK 155

Query: 73  GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
            ++  AF  F + ++A  A+ ELNG + +   G  L ++ A+  S+ + +
Sbjct: 156 -SRGFAFVEFESEESAEKAIEELNGKELE---GRPLRVQKAQPASQPRSE 201

Length = 306

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

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 10/69 (14%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARGGMPVAFADFEEVEQASIA 257
            L++ NL  N TE++LK     +      ++       R+RG     F + E  E+A+ A
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRG---FGFVEMETAEEANAA 57

Query: 258 MEGLQDSTL 266
           +E L  +  
Sbjct: 58  IEKLNGTDF 66

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

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

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 11/84 (13%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVA 90
           N LFVSGL      +E+  LF +    +   L     TG  RG     F TF + + A A
Sbjct: 2   NKLFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRG---FGFVTFESVEDADA 58

Query: 91  ALHELNGVKFDPQSGSVLHIELAR 114
           A+ +LNG + +   G V+ +E A+
Sbjct: 59  AIRDLNGKELE---GRVIKVEKAK 79

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

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

 Score = 34.8 bits (81), Expect = 0.004
 Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 3/37 (8%)

Query: 77  VAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA 113
            AF  F   + A  A+  LNGV F    G  L ++ +
Sbjct: 23  FAFVEFSTEEAAEKAVQYLNGVLFG---GRPLRVDYS 56

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

>gnl|CDD|241043 cd12599, RRM1_SF2_plant_like, RNA recognition motif 1 in plant pre-mRNA-splicing factor SF2 and similar proteins

 Score = 34.7 bits (80), Expect = 0.004
 Identities = 25/76 (32%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN 96
           T++V  LP D+R RE+ +LF +        LK   R     AF  F + + A  A+   +
Sbjct: 1   TVYVGNLPGDIREREVEDLFYKYGPIVDIDLKLPPR-PPGYAFIEFEDARDAEDAIRGRD 59

Query: 97  GVKFDPQSGSVLHIEL 112
           G  FD   G  L +EL
Sbjct: 60  GYDFD---GQRLRVEL 72

This subgroup corresponds to the RRM1 of SF2, also termed SR1 protein, a plant serine/arginine (SR)-rich phosphoprotein similar to the mammalian splicing factor SF2/ASF. It promotes splice site switching in mammalian nuclear extracts. SF2 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a C-terminal domain rich in proline, serine and lysine residues (PSK domain), a composition reminiscent of histones. This PSK domain harbors a putative phosphorylation site for the mitotic kinase cyclin/p34cdc2. . Length = 72

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	286
KOG1457	284	consensus RNA binding protein (contains RRM repeat	100.0
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	100.0
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	100.0
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.97
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.97
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.97
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.97
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.97
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.96
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.96
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.95
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.95
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.95
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.94
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.94
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.94
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.94
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.94
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.93
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.93
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.92
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.92
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.9
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.89
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.87
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.87
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.86
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.85
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.83
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.82
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.82
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.81
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.8
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.79
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.78
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.76
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.71
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.71
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.7
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.69
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.66
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.66
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.65
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.65
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.64
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.64
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.64
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.63
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.62
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.61
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.6
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.59
KOG0122	270	consensus Translation initiation factor 3, subunit	99.58
PLN03120	260	nucleic acid binding protein; Provisional	99.58
PLN03120	260	nucleic acid binding protein; Provisional	99.57
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.54
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.54
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.54
PLN03213	759	repressor of silencing 3; Provisional	99.54
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.52
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.51
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.51
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.5
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.5
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.48
PLN03121	243	nucleic acid binding protein; Provisional	99.48
KOG0122	270	consensus Translation initiation factor 3, subunit	99.47
PLN03213	759	repressor of silencing 3; Provisional	99.46
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.46
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.46
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.46
PLN03121	243	nucleic acid binding protein; Provisional	99.46
smart00362	72	RRM_2 RNA recognition motif.	99.45
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.45
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.45
smart00362	72	RRM_2 RNA recognition motif.	99.44
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.44
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.43
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.42
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.39
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.37
smart00360	71	RRM RNA recognition motif.	99.37
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.37
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.36
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.35
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.34
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.32
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.32
smart00360	71	RRM RNA recognition motif.	99.3
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	99.3
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.3
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.29
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.29
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.28
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.28
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.26
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	99.24
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.23
KOG4660	549	consensus Protein Mei2, essential for commitment t	99.23
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.22
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.2
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.18
smart00361	70	RRM_1 RNA recognition motif.	99.16
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	99.15
smart00361	70	RRM_1 RNA recognition motif.	99.14
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.11
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.11
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.11
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	99.11
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	99.09
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	99.06
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	99.04
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	99.03
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	99.02
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.95
KOG0151	877	consensus Predicted splicing regulator, contains R	98.89
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.88
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.88
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.86
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.84
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.82
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.8
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.79
KOG0151	877	consensus Predicted splicing regulator, contains R	98.78
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	98.74
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.73
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.73
KOG4210	285	consensus Nuclear localization sequence binding pr	98.72
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.7
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.68
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.65
KOG0226	290	consensus RNA-binding proteins [General function p	98.65
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	98.59
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.53
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.5
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.49
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	98.48
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.48
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.44
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	98.43
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.43
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.37
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.23
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.2
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	98.13
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.13
KOG0226	290	consensus RNA-binding proteins [General function p	98.05
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	97.93
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.84
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.82
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.78
KOG3152	278	consensus TBP-binding protein, activator of basal	97.75
KOG1855	484	consensus Predicted RNA-binding protein [General f	97.7
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.66
KOG1855	484	consensus Predicted RNA-binding protein [General f	97.64
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.63
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	97.59
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	97.45
KOG1995	351	consensus Conserved Zn-finger protein [General fun	97.41
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	97.41
KOG2314	698	consensus Translation initiation factor 3, subunit	97.35
KOG3152	278	consensus TBP-binding protein, activator of basal	97.34
KOG1996	378	consensus mRNA splicing factor [RNA processing and	97.31
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	97.3
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	97.28
KOG4210	285	consensus Nuclear localization sequence binding pr	97.28
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	97.17
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.11
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	97.0
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	96.99
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	96.94
KOG1996	378	consensus mRNA splicing factor [RNA processing and	96.92
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	96.9
KOG2314	698	consensus Translation initiation factor 3, subunit	96.9
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.88
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	96.85
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	96.82
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.8
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.71
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	96.66
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.61
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	96.6
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	96.58
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	96.55
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	96.52
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	96.45
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.42
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	96.25
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	96.03
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	96.02
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	95.89
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	95.77
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	95.7
KOG2068	327	consensus MOT2 transcription factor [Transcription	95.41
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	95.19
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	95.1
KOG2068	327	consensus MOT2 transcription factor [Transcription	94.95
PF10567	309	Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IP	94.73
KOG2318	650	consensus Uncharacterized conserved protein [Funct	94.67
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	94.28
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	93.86
KOG2591	684	consensus c-Mpl binding protein, contains La domai	93.82
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	93.67
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	93.65
KOG2318	650	consensus Uncharacterized conserved protein [Funct	93.42
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	93.13
KOG2135	526	consensus Proteins containing the RNA recognition	92.73
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	92.57
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	92.56
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	90.41
KOG2591	684	consensus c-Mpl binding protein, contains La domai	89.87
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	89.18
KOG2135	526	consensus Proteins containing the RNA recognition	85.98
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	85.25
KOG2891	445	consensus Surface glycoprotein [General function p	84.54
PF10567	309	Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IP	84.0
KOG2891	445	consensus Surface glycoprotein [General function p	82.95
KOG4019	193	consensus Calcineurin-mediated signaling pathway i	81.87

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=100.00  E-value=1.3e-33  Score=222.90  Aligned_cols=270  Identities=53%  Similarity=0.832  Sum_probs=188.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCee---EEEEEEcC
Q 023143            8 PYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV---VAFATFVN   84 (286)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~---~aFV~F~~   84 (286)
                      |.+.|..|..+++++++..--.....+.|||||.+||.++...+|+.+|..|-.-+.+.++++.++++.   +|||.|.+
T Consensus         7 p~~s~~~~es~hsvs~~~~~~~~~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s   86 (284)
T KOG1457|consen    7 PFYSYQLHESPHSVSPQLPLLADEPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTS   86 (284)
T ss_pred             CccccccccCCCCCCcccccccccccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecc
Confidence            788888899998888765444444677899999999999999999999999999999999998888655   99999999


Q ss_pred             HHHHHHHHHHhCCCccCCCCCCeEEEEEeecCCCCCcCCCCCC-----ceecccccccccccccCCCCCCCCCCCCCCCC
Q 023143           85 HQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGA-----YVVIDKRTKTEANVQESSSADGDSDTDEASPV  159 (286)
Q Consensus        85 ~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (286)
                      ..+|..|+..|||..|++.++..|+|+++++|.+.++....++     ....+-.....++............+.+..+.
T Consensus        87 ~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~  166 (284)
T KOG1457|consen   87 HQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEP  166 (284)
T ss_pred             hHHHHHHHHHhcCeeeccccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCc
Confidence            9999999999999999999999999999999987766633331     11111111111110001111111111111111


Q ss_pred             CCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC
Q 023143          160 RNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG  239 (286)
Q Consensus       160 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~  239 (286)
                      ........+....+....+.....+...+......+.-.....+.||||.||..++||++|+.+|+.|.++..+++....
T Consensus       167 ~~a~al~~~~~t~~~~l~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~  246 (284)
T KOG1457|consen  167 GNADALKENDTTKSEALSAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARG  246 (284)
T ss_pred             cccccCCCccccchhhhhhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCC
Confidence            11111100100000000101111111111111122222334458999999999999999999999999999999999988


Q ss_pred             CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          240 GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       240 ~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +...|||+|++.+.|..||..|+|+.|-.+|+..++|+
T Consensus       247 g~~vaf~~~~~~~~at~am~~lqg~~~s~~drgg~~ie  284 (284)
T KOG1457|consen  247 GMPVAFADFEEIEQATDAMNHLQGNLLSSSDRGGMHIE  284 (284)
T ss_pred             CcceEeecHHHHHHHHHHHHHhhcceeccccCCCcccC
Confidence            88899999999999999999999999998888888874

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=100.00  E-value=3.7e-32  Score=242.89  Aligned_cols=245  Identities=18%  Similarity=0.259  Sum_probs=150.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +..+|||+|||.++++++|+++|+.||.|.+|+|..+.  ...++||||+|.+.++|.+|++.|+|..|.   |+.|+|+
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~---g~~i~v~   78 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQ---NKTIKVS   78 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEEC---CeeEEEE
Confidence            46789999999999999999999999999999998542  224569999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCC---------------------CCCC----ceecccccccccc---------------cccCCCCCC--
Q 023143          112 LARSNSRKKRKP---------------------GSGA----YVVIDKRTKTEAN---------------VQESSSADG--  149 (286)
Q Consensus       112 ~~~~~~~~~~~~---------------------~~~~----~~~~~~~~~~~~~---------------~~~~~~~~~--  149 (286)
                      |++.........                     .-+.    .+..+......++               .....+...  
T Consensus        79 ~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g  158 (352)
T TIGR01661        79 YARPSSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSG  158 (352)
T ss_pred             eecccccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            986443211100                     0000    0000100000000               000000000  


Q ss_pred             --------CCCCCC----------------CCCCC-CCC--------CCCCC---CC-CCCCcccc----------CCC-
Q 023143          150 --------DSDTDE----------------ASPVR-NID--------SADKG---DF-VTTQSERA----------TDS-  181 (286)
Q Consensus       150 --------~~~~~~----------------~~~~~-~~~--------~~~~~---~~-~~p~~~~~----------~~~-  181 (286)
                              +.....                ..... ...        .....   .. ..+.....          ..+ 
T Consensus       159 ~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (352)
T TIGR01661       159 CTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQ  238 (352)
T ss_pred             CceeEEEEECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccc
Confidence                    000000                00000 000        00000   00 00000000          000 


Q ss_pred             ---CCCCC-ccccC-----CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEE
Q 023143          182 ---GNAVA-PINEQ-----SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADF  248 (286)
Q Consensus       182 ---~~~~~-~~~~~-----~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f  248 (286)
                         ....+ .....     ...........+.+|||+|||.++++++|+++|++||.|.+|+++.    +.++|||||+|
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F  318 (352)
T TIGR01661       239 HAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSM  318 (352)
T ss_pred             cccccCCCccccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEE
Confidence               00000 00000     0000001112356899999999999999999999999999999986    55789999999


Q ss_pred             CCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccccC
Q 023143          249 EEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMR  284 (286)
Q Consensus       249 ~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~~  284 (286)
                      .+.++|.+||+.|||..+.   |+.|+|+|+.++..
T Consensus       319 ~~~~~A~~Ai~~lnG~~~~---gr~i~V~~~~~~~~  351 (352)
T TIGR01661       319 TNYDEAAMAILSLNGYTLG---NRVLQVSFKTNKAY  351 (352)
T ss_pred             CCHHHHHHHHHHhCCCEEC---CeEEEEEEccCCCC
Confidence            9999999999999999999   55999999988754

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=100.00  E-value=1.9e-32  Score=240.90  Aligned_cols=166  Identities=23%  Similarity=0.321  Sum_probs=142.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||+++|+++|+++|+.||.|.+|+|..+..  ..++||||+|.++++|.+|++.|+|..+.   +++|+|
T Consensus       105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~---gr~i~V  181 (346)
T TIGR01659       105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVR---NKRLKV  181 (346)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccC---Cceeee
Confidence            3568999999999999999999999999999999975422  23459999999999999999999999998   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .|++...    .                                                                    
T Consensus       182 ~~a~p~~----~--------------------------------------------------------------------  189 (346)
T TIGR01659       182 SYARPGG----E--------------------------------------------------------------------  189 (346)
T ss_pred             ecccccc----c--------------------------------------------------------------------
Confidence            8864210    0                                                                    


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                               ....++|||+|||.++|+++|+++|++||.|..|+++.    +++++||||+|.+.++|++||+.|||..+
T Consensus       190 ---------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~  260 (346)
T TIGR01659       190 ---------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIP  260 (346)
T ss_pred             ---------ccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCcc
Confidence                     00245799999999999999999999999999999886    34568999999999999999999999999


Q ss_pred             CCCCCCcEEEEEecccc
Q 023143          267 PSSDRGGMHIEYARSKM  283 (286)
Q Consensus       267 ~~~~g~~l~V~~ak~~~  283 (286)
                      .+. ++.|+|.||+.+.
T Consensus       261 ~g~-~~~l~V~~a~~~~  276 (346)
T TIGR01659       261 EGG-SQPLTVRLAEEHG  276 (346)
T ss_pred             CCC-ceeEEEEECCccc
Confidence            755 5699999998653

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).

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

Probab=99.97  E-value=5.4e-30  Score=236.89  Aligned_cols=202  Identities=20%  Similarity=0.279  Sum_probs=147.5

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..++++|||+|||. .+|+++|+++|+.||.|..|++....++   ||||+|.+.++|.+|++.|||..|.   |++|+|
T Consensus       272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g---~afV~f~~~~~A~~Ai~~lng~~l~---g~~l~v  345 (481)
T TIGR01649       272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKE---TALIEMADPYQAQLALTHLNGVKLF---GKPLRV  345 (481)
T ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC---EEEEEECCHHHHHHHHHHhCCCEEC---CceEEE
Confidence            45778999999998 6999999999999999999999855444   9999999999999999999999998   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .+++.......+  .+...  +....        ....  +.            ........+                 
T Consensus       346 ~~s~~~~~~~~~--~~~~~--~~~~~--------~~d~--~~------------~~~~r~~~~-----------------  382 (481)
T TIGR01649       346 CPSKQQNVQPPR--EGQLD--DGLTS--------YKDY--SS------------SRNHRFKKP-----------------  382 (481)
T ss_pred             EEcccccccCCC--CCcCc--CCCcc--------cccc--cC------------CccccCCCc-----------------
Confidence            987654321111  00000  00000        0000  00            000000000                 


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCC--ceEEEEeec--CCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPG--FNMLKMRAR--GGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~--v~~v~~~~~--~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                       .........+++.+|||+|||.++++++|+++|+.||.  |..+++...  ..+++|||+|.+.++|.+||..|||..|
T Consensus       383 -~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l  461 (481)
T TIGR01649       383 -GSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDNERSKMGLLEWESVEDAVEALIALNHHQL  461 (481)
T ss_pred             -ccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCCCcceeEEEEcCCHHHHHHHHHHhcCCcc
Confidence             00011122457999999999999999999999999998  888888663  2457999999999999999999999999


Q ss_pred             CCCCCC---cEEEEEecccc
Q 023143          267 PSSDRG---GMHIEYARSKM  283 (286)
Q Consensus       267 ~~~~g~---~l~V~~ak~~~  283 (286)
                      .++.+.   .|+|+||+++.
T Consensus       462 ~~~~~~~~~~lkv~fs~~~~  481 (481)
T TIGR01649       462 NEPNGSAPYHLKVSFSTSRI  481 (481)
T ss_pred             CCCCCCccceEEEEeccCCC
Confidence            855111   49999999763

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

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

Probab=99.97  E-value=7.3e-31  Score=226.12  Aligned_cols=230  Identities=22%  Similarity=0.249  Sum_probs=159.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .-.+.|||+.||.++.|++|..+|++.|+|-+++|.++  +..+++||||.|.+.+.|++|++.||+.+|.  .|+.|.|
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir--~GK~igv  158 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIR--PGKLLGV  158 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcccc--CCCEeEE
Confidence            45889999999999999999999999999999999866  3334669999999999999999999999997  6899999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCC----C---------------CCCCCCCC-CCCCCCCCCCCCCCCC
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESS----S---------------ADGDSDTD-EASPVRNIDSADKGDF  170 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~---------------~~~~~~~~-~~~~~~~~~~~~~~~~  170 (286)
                      +.+..|...-..       .+.+.+.+..-..+..    +               ..+|.... +++....   ..+.. 
T Consensus       159 c~Svan~RLFiG-------~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa---~aRrK-  227 (506)
T KOG0117|consen  159 CVSVANCRLFIG-------NIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAA---MARRK-  227 (506)
T ss_pred             EEeeecceeEec-------cCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHH---HHHhh-
Confidence            988766533221       0111111111100000    0               00000000 0000000   00000 


Q ss_pred             CCCCccccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECC
Q 023143          171 VTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE  250 (286)
Q Consensus       171 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~  250 (286)
                      -.+..-...........+........+ ....-+.|||+||+.++|||.|+.+|+.||.|++|+.+++    ||||.|.+
T Consensus       228 l~~g~~klwgn~~tVdWAep~~e~ded-~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD----YaFVHf~e  302 (506)
T KOG0117|consen  228 LMPGKIKLWGNAITVDWAEPEEEPDED-TMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD----YAFVHFAE  302 (506)
T ss_pred             ccCCceeecCCcceeeccCcccCCChh-hhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc----eeEEeecc
Confidence            122222333344444444443333333 2334899999999999999999999999999999988744    79999999


Q ss_pred             HHHHHHHHHhcCCCccCCCCCCcEEEEEecccc
Q 023143          251 VEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       251 ~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~  283 (286)
                      +++|.+||+.|||++|.   |..|.|++||..-
T Consensus       303 R~davkAm~~~ngkeld---G~~iEvtLAKP~~  332 (506)
T KOG0117|consen  303 REDAVKAMKETNGKELD---GSPIEVTLAKPVD  332 (506)
T ss_pred             hHHHHHHHHHhcCceec---CceEEEEecCChh
Confidence            99999999999999999   5599999999654

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

Probab=99.97  E-value=2.3e-30  Score=239.14  Aligned_cols=175  Identities=13%  Similarity=0.225  Sum_probs=142.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||+++++++|+++|+.||.|.+|++..+.  ...++||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~---GR~IkV  181 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLG---GRNIKV  181 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEe---cceeee
Confidence            456899999999999999999999999999999997542  223459999999999999999999999998   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .+...... ...                 .    . .                                           
T Consensus       182 ~rp~~~p~-a~~-----------------~----~-~-------------------------------------------  195 (612)
T TIGR01645       182 GRPSNMPQ-AQP-----------------I----I-D-------------------------------------------  195 (612)
T ss_pred             cccccccc-ccc-----------------c----c-c-------------------------------------------
Confidence            84221100 000                 0    0 0                                           


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                          .........++|||+||+.++++++|+++|+.||.|.+|++.+    ++++|||||+|.+.++|.+|++.|||+.+
T Consensus       196 ----~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~el  271 (612)
T TIGR01645       196 ----MVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDL  271 (612)
T ss_pred             ----cccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCee
Confidence                0000011357899999999999999999999999999999987    35788999999999999999999999999


Q ss_pred             CCCCCCcEEEEEecccc
Q 023143          267 PSSDRGGMHIEYARSKM  283 (286)
Q Consensus       267 ~~~~g~~l~V~~ak~~~  283 (286)
                      +   |+.|+|.++..+.
T Consensus       272 g---Gr~LrV~kAi~pP  285 (612)
T TIGR01645       272 G---GQYLRVGKCVTPP  285 (612)
T ss_pred             C---CeEEEEEecCCCc
Confidence            9   5599999988654

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.

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

Probab=99.97  E-value=2.6e-30  Score=209.76  Aligned_cols=175  Identities=16%  Similarity=0.260  Sum_probs=145.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      =-|||+.|...++-++|++.|.+||+|.+++|+.+  ....++|+||.|.+.++|++||..|+|.=|.   +|.|+..|+
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG---~R~IRTNWA  139 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLG---RRTIRTNWA  139 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeec---cceeecccc
Confidence            34999999999999999999999999999999833  2223459999999999999999999999997   899999999


Q ss_pred             ecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCC
Q 023143          114 RSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSE  193 (286)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  193 (286)
                      ..+......    .         . ...++.                                                 
T Consensus       140 TRKp~e~n~----~---------~-ltfdeV-------------------------------------------------  156 (321)
T KOG0148|consen  140 TRKPSEMNG----K---------P-LTFDEV-------------------------------------------------  156 (321)
T ss_pred             ccCccccCC----C---------C-ccHHHH-------------------------------------------------
Confidence            765411000    0         0 000000                                                 


Q ss_pred             CCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       194 ~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                        .....+.+++|||+||+..+||++|+..|++||.|.+|++.+.+  ||+||+|++.|.|.+||..|||.+|.   |+.
T Consensus       157 --~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q--GYaFVrF~tkEaAahAIv~mNntei~---G~~  229 (321)
T KOG0148|consen  157 --YNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ--GYAFVRFETKEAAAHAIVQMNNTEIG---GQL  229 (321)
T ss_pred             --hccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc--ceEEEEecchhhHHHHHHHhcCceeC---ceE
Confidence              00112359999999999999999999999999999999999988  99999999999999999999999999   669


Q ss_pred             EEEEEecccc
Q 023143          274 MHIEYARSKM  283 (286)
Q Consensus       274 l~V~~ak~~~  283 (286)
                      ++++|+|...
T Consensus       230 VkCsWGKe~~  239 (321)
T KOG0148|consen  230 VRCSWGKEGD  239 (321)
T ss_pred             EEEeccccCC
Confidence            9999999753

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

Probab=99.97  E-value=2.2e-29  Score=232.79  Aligned_cols=172  Identities=20%  Similarity=0.233  Sum_probs=141.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh--CCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL--NGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l--~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||+++++++|+++|++||.|.+|.+. ..++   ||||+|.+.++|.+|++.+  ++..+.   |++|.|+
T Consensus         1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~-~~k~---~afVef~~~e~A~~Ai~~~~~~~~~l~---g~~l~v~   73 (481)
T TIGR01649         1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMML-PGKR---QALVEFEDEESAKACVNFATSVPIYIR---GQPAFFN   73 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEE-CCCC---EEEEEeCchHHHHHHHHHhhcCCceEc---CeEEEEE
Confidence            48999999999999999999999999999999887 3444   9999999999999999975  678887   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      |+...... +. ..                    ...         .                                 
T Consensus        74 ~s~~~~~~-~~-~~--------------------~~~---------~---------------------------------   89 (481)
T TIGR01649        74 YSTSQEIK-RD-GN--------------------SDF---------D---------------------------------   89 (481)
T ss_pred             ecCCcccc-cC-CC--------------------Ccc---------c---------------------------------
Confidence            98643211 00 00                    000         0                                 


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                           ........+|||+||+..+|+++|+++|+.||.|.+|.+.++.++++|||+|.+.++|.+|++.|||..|.+. +
T Consensus        90 -----~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~-~  163 (481)
T TIGR01649        90 -----SAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNG-C  163 (481)
T ss_pred             -----CCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCC-c
Confidence                 0000024579999999999999999999999999999998877667999999999999999999999999754 5


Q ss_pred             CcEEEEEeccc
Q 023143          272 GGMHIEYARSK  282 (286)
Q Consensus       272 ~~l~V~~ak~~  282 (286)
                      +.|+|+|+|..
T Consensus       164 ~~l~v~~sk~~  174 (481)
T TIGR01649       164 CTLKIEYAKPT  174 (481)
T ss_pred             eEEEEEEecCC
Confidence            69999999864

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).

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

Probab=99.96  E-value=1.2e-28  Score=227.33  Aligned_cols=233  Identities=19%  Similarity=0.197  Sum_probs=142.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ...++|||+|||.+++|++|+++|+.||.|.+|+|.++..+ .++||||+|.+.++|.+||+.||+..+.  .|+.|.|.
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~--~Gr~l~V~  133 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIR--PGRLLGVC  133 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeec--CCcccccc
Confidence            34689999999999999999999999999999998865222 3459999999999999999999999884  25666666


Q ss_pred             EeecCCCCCcCCCCCC---ceecc---cc-----------cccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 023143          112 LARSNSRKKRKPGSGA---YVVID---KR-----------TKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQ  174 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~---~~~~~---~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  174 (286)
                      ++..+...-.......   ....+   +.           .........-.....+....+...  ...     .+ ...
T Consensus       134 ~S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~--Air-----kL-~~g  205 (578)
T TIGR01648       134 ISVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAM--ARR-----KL-MPG  205 (578)
T ss_pred             ccccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHH--HHH-----Hh-hcc
Confidence            5543221111100000   00000   00           000000000000000000000000  000     00 000


Q ss_pred             ccccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcC--CCceEEEEeecCCccEEEEEECCHH
Q 023143          175 SERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVY--PGFNMLKMRARGGMPVAFADFEEVE  252 (286)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~--G~v~~v~~~~~~~~~~afV~f~~~e  252 (286)
                      .............+.... ..........++|||+||+.++++++|+++|+.|  |.|++|++++    +||||+|.+.+
T Consensus       206 ki~l~Gr~I~VdwA~p~~-~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r----gfAFVeF~s~e  280 (578)
T TIGR01648       206 RIQLWGHVIAVDWAEPEE-EVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR----DYAFVHFEDRE  280 (578)
T ss_pred             ceEecCceEEEEeecccc-cccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec----CeEEEEeCCHH
Confidence            000000000000000000 0001112346899999999999999999999999  9999998763    58999999999


Q ss_pred             HHHHHHHhcCCCccCCCCCCcEEEEEecccc
Q 023143          253 QASIAMEGLQDSTLPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       253 ~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~  283 (286)
                      +|.+|++.|||..|.   |+.|+|+||+.+.
T Consensus       281 ~A~kAi~~lnG~~i~---Gr~I~V~~Akp~~  308 (578)
T TIGR01648       281 DAVKAMDELNGKELE---GSEIEVTLAKPVD  308 (578)
T ss_pred             HHHHHHHHhCCCEEC---CEEEEEEEccCCC
Confidence            999999999999999   5599999998753

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.

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

Probab=99.96  E-value=2e-28  Score=226.17  Aligned_cols=175  Identities=21%  Similarity=0.328  Sum_probs=141.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||..+++++|+++|+.||.|..|+++.+..  ..++||||+|.+.++|.+||. |+|..+.   |++|.
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~---g~~i~  161 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLL---GRPII  161 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEEC---CeeeE
Confidence            44678999999999999999999999999999999985422  235599999999999999996 9999998   99999


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccc
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPIN  189 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  189 (286)
                      |+++.........                      ....                                         
T Consensus       162 v~~~~~~~~~~~~----------------------~~~~-----------------------------------------  178 (457)
T TIGR01622       162 VQSSQAEKNRAAK----------------------AATH-----------------------------------------  178 (457)
T ss_pred             Eeecchhhhhhhh----------------------cccc-----------------------------------------
Confidence            9865321100000                      0000                                         


Q ss_pred             cCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCc
Q 023143          190 EQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDST  265 (286)
Q Consensus       190 ~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~  265 (286)
                            .....+..++|||+|||..+++++|+++|+.||.|..|.+..    +.++|||||+|.+.++|.+|++.|||..
T Consensus       179 ------~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~  252 (457)
T TIGR01622       179 ------QPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFE  252 (457)
T ss_pred             ------cCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcE
Confidence                  000012378899999999999999999999999999999986    3567899999999999999999999999


Q ss_pred             cCCCCCCcEEEEEeccc
Q 023143          266 LPSSDRGGMHIEYARSK  282 (286)
Q Consensus       266 ~~~~~g~~l~V~~ak~~  282 (286)
                      |.   |+.|+|+||.+.
T Consensus       253 i~---g~~i~v~~a~~~  266 (457)
T TIGR01622       253 LA---GRPIKVGYAQDS  266 (457)
T ss_pred             EC---CEEEEEEEccCC
Confidence            98   559999998743

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.

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

Probab=99.96  E-value=4.1e-28  Score=229.22  Aligned_cols=161  Identities=19%  Similarity=0.246  Sum_probs=137.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      +|||+|||.++||++|+++|+.||.|.+|+|..+..  ...+||||+|.+.++|.+|++.+++..+.   |++|+|.|+.
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~---gk~i~i~~s~   78 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLG---GKPIRIMWSQ   78 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CeeEEeeccc
Confidence            699999999999999999999999999999975432  23459999999999999999999999998   9999999864


Q ss_pred             cCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCC
Q 023143          115 SNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEK  194 (286)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~  194 (286)
                      .+.... .                                                                        
T Consensus        79 ~~~~~~-~------------------------------------------------------------------------   85 (562)
T TIGR01628        79 RDPSLR-R------------------------------------------------------------------------   85 (562)
T ss_pred             cccccc-c------------------------------------------------------------------------
Confidence            321000 0                                                                        


Q ss_pred             CCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          195 PYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       195 ~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                            ....+|||+|||.++++++|+++|+.||.|..|++..   ++++|||||+|.+.++|.+|++.|||..+.++  
T Consensus        86 ------~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~--  157 (562)
T TIGR01628        86 ------SGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDK--  157 (562)
T ss_pred             ------cCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCc--
Confidence                  0145699999999999999999999999999999877   45789999999999999999999999999944  


Q ss_pred             CcEEEEEeccc
Q 023143          272 GGMHIEYARSK  282 (286)
Q Consensus       272 ~~l~V~~ak~~  282 (286)
                       .|.|...+.+
T Consensus       158 -~i~v~~~~~~  167 (562)
T TIGR01628       158 -EVYVGRFIKK  167 (562)
T ss_pred             -eEEEeccccc
Confidence             9998776544

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

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

Probab=99.96  E-value=2.4e-27  Score=221.77  Aligned_cols=191  Identities=16%  Similarity=0.250  Sum_probs=135.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcC------------CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRK------------PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN   96 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~------------G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~   96 (286)
                      .......++|||+|||+.+|+++|+++|+.+            +.|..+.+. ..++   ||||+|.+.++|..|| .|+
T Consensus       169 ~~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-~~kg---~afVeF~~~e~A~~Al-~l~  243 (509)
T TIGR01642       169 QQATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-KEKN---FAFLEFRTVEEATFAM-ALD  243 (509)
T ss_pred             ccCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-CCCC---EEEEEeCCHHHHhhhh-cCC
Confidence            3446678999999999999999999999975            233333333 3344   9999999999999999 599


Q ss_pred             CCccCCCCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 023143           97 GVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSE  176 (286)
Q Consensus        97 g~~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~  176 (286)
                      |..|.   |+.|.|............    ..           .   ....           .....        .....
T Consensus       244 g~~~~---g~~l~v~r~~~~~~~~~~----~~-----------~---~~~~-----------~~~~~--------~~~~~  283 (509)
T TIGR01642       244 SIIYS---NVFLKIRRPHDYIPVPQI----TP-----------E---VSQK-----------NPDDN--------AKNVE  283 (509)
T ss_pred             CeEee---CceeEecCccccCCcccc----CC-----------C---CCCC-----------CCccc--------ccccc
Confidence            99998   999988643221100000    00           0   0000           00000        00000


Q ss_pred             ccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHH
Q 023143          177 RATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVE  252 (286)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e  252 (286)
                      .               ...........++|||+|||..+++++|+++|+.||.|..+.++.    +.++|||||+|.+.+
T Consensus       284 ~---------------~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~  348 (509)
T TIGR01642       284 K---------------LVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPS  348 (509)
T ss_pred             c---------------ccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHH
Confidence            0               000011112478899999999999999999999999999999876    557899999999999


Q ss_pred             HHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          253 QASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       253 ~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      +|..|++.|||..|.   |+.|.|.+|...
T Consensus       349 ~a~~A~~~l~g~~~~---~~~l~v~~a~~~  375 (509)
T TIGR01642       349 VTDVAIAALNGKDTG---DNKLHVQRACVG  375 (509)
T ss_pred             HHHHHHHHcCCCEEC---CeEEEEEECccC
Confidence            999999999999999   559999998643

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

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

Probab=99.95  E-value=2.3e-27  Score=224.12  Aligned_cols=185  Identities=20%  Similarity=0.286  Sum_probs=142.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCC-CCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQ-SGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~-~g~~l~v  110 (286)
                      ...++|||+|||.++|+++|+++|+.||.|.++.+..+..+ .++||||+|.+.++|.+|++.++|..+... .|+.+.|
T Consensus       176 ~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v  255 (562)
T TIGR01628       176 KKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYV  255 (562)
T ss_pred             cCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEe
Confidence            34578999999999999999999999999999988754332 344999999999999999999999998311 2667777


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .++.........            .+....  ...                                             
T Consensus       256 ~~a~~k~er~~~------------~~~~~~--~~~---------------------------------------------  276 (562)
T TIGR01628       256 GRAQKRAEREAE------------LRRKFE--ELQ---------------------------------------------  276 (562)
T ss_pred             ecccChhhhHHH------------HHhhHH--hhh---------------------------------------------
Confidence            665432211000            000000  000                                             


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                          ........+++|||+||+.++++++|+++|++||.|.+|+++.   +.++|||||+|.+.++|.+|++.|||..++
T Consensus       277 ----~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~  352 (562)
T TIGR01628       277 ----QERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLG  352 (562)
T ss_pred             ----hhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeC
Confidence                0000012377899999999999999999999999999999987   567899999999999999999999999999


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         |+.|.|.||+.+.
T Consensus       353 ---gk~l~V~~a~~k~  365 (562)
T TIGR01628       353 ---GKPLYVALAQRKE  365 (562)
T ss_pred             ---CceeEEEeccCcH
Confidence               5599999998764

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

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

Probab=99.95  E-value=1.1e-27  Score=205.61  Aligned_cols=172  Identities=18%  Similarity=0.276  Sum_probs=146.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+.-.+||+-+|..++|.||+++|++||.|.+|.|+.+.  +-.++||||.|.+.++|.+|+..|+.....|+-..++.|
T Consensus        32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv  111 (510)
T KOG0144|consen   32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV  111 (510)
T ss_pred             chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence            344569999999999999999999999999999887332  233459999999999999999999988887888899999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .|++......                                                                      
T Consensus       112 k~Ad~E~er~----------------------------------------------------------------------  121 (510)
T KOG0144|consen  112 KYADGERERI----------------------------------------------------------------------  121 (510)
T ss_pred             cccchhhhcc----------------------------------------------------------------------
Confidence            9886532111                                                                      


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCcc-
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTL-  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~-  266 (286)
                                ...+.|||+-|++.+||.|++++|++||.|++|.|.+   +.+||||||.|.+.|-|..||++|||..- 
T Consensus       122 ----------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tm  191 (510)
T KOG0144|consen  122 ----------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTM  191 (510)
T ss_pred             ----------ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceee
Confidence                      1255699999999999999999999999999999988   77899999999999999999999999754 


Q ss_pred             CCCCCCcEEEEEeccccCC
Q 023143          267 PSSDRGGMHIEYARSKMRK  285 (286)
Q Consensus       267 ~~~~g~~l~V~~ak~~~~~  285 (286)
                      .+. ..+|.|.||..+..|
T Consensus       192 eGc-s~PLVVkFADtqkdk  209 (510)
T KOG0144|consen  192 EGC-SQPLVVKFADTQKDK  209 (510)
T ss_pred             ccC-CCceEEEecccCCCc
Confidence            533 459999999887655

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

Probab=99.95  E-value=1.9e-25  Score=206.22  Aligned_cols=239  Identities=17%  Similarity=0.245  Sum_probs=146.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++|||+|||..+++++|+++|+.||.|..|.+.....+  .++||||+|.+.++|.+|++.|+|..|.   |++|.|.
T Consensus       185 ~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~---g~~i~v~  261 (457)
T TIGR01622       185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELA---GRPIKVG  261 (457)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEEC---CEEEEEE
Confidence            3789999999999999999999999999999988854332  3459999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccc-----cc---ccc---CCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTE-----AN---VQE---SSSAD-GDSDTDEASPVRNIDSADKGDFVTTQSERAT  179 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~---~~~---~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  179 (286)
                      |+.........  .......+......     ..   ...   ..... ....+........+....+.+... ...+..
T Consensus       262 ~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  338 (457)
T TIGR01622       262 YAQDSTYLLDA--ANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIID-PNIPSR  338 (457)
T ss_pred             EccCCCccccc--hhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhcccccccccc-cccccc
Confidence            98632111100  00000000000000     00   000   00000 000000000000000000000000 000000


Q ss_pred             CCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCC----------HHHHHHHHhcCCCceEEEEeecCCccEEEEEEC
Q 023143          180 DSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCT----------EDELKQTLSVYPGFNMLKMRARGGMPVAFADFE  249 (286)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~t----------e~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~  249 (286)
                      ...........+..........++++|+|.||....+          .+||++.|++||.|..|.+......|++||+|.
T Consensus       339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~  418 (457)
T TIGR01622       339 YATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFS  418 (457)
T ss_pred             ccccccccccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEEC
Confidence            0000000001111111111334689999999975544          378999999999999999987777799999999


Q ss_pred             CHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          250 EVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       250 ~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      ++++|.+|++.|||..|+   |+.|.++|.-.
T Consensus       419 ~~e~A~~A~~~lnGr~f~---gr~i~~~~~~~  447 (457)
T TIGR01622       419 SVDAALAAFQALNGRYFG---GKMITAAFVVN  447 (457)
T ss_pred             CHHHHHHHHHHhcCcccC---CeEEEEEEEcH
Confidence            999999999999999999   55999999653

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.

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

Probab=99.94  E-value=7.3e-26  Score=211.78  Aligned_cols=190  Identities=16%  Similarity=0.212  Sum_probs=139.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .++.++|||+|||..+++++|+++|+.||.|..+.+....  ...++||||+|.+.++|..|++.|+|..|.   |+.|.
T Consensus       292 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~---~~~l~  368 (509)
T TIGR01642       292 LDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTG---DNKLH  368 (509)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC---CeEEE
Confidence            3456899999999999999999999999999999887432  224569999999999999999999999998   99999


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccc
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPIN  189 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  189 (286)
                      |+++............                   ....   .....  ...        .         ..        
T Consensus       369 v~~a~~~~~~~~~~~~-------------------~~~~---~~~~~--~~~--------~---------~~--------  399 (509)
T TIGR01642       369 VQRACVGANQATIDTS-------------------NGMA---PVTLL--AKA--------L---------SQ--------  399 (509)
T ss_pred             EEECccCCCCCCcccc-------------------cccc---ccccc--ccc--------c---------hh--------
Confidence            9998653221111000                   0000   00000  000        0         00        


Q ss_pred             cCCCCCCCCCCCCccEEEEccCCCC--C--------CHHHHHHHHhcCCCceEEEEeec-------CCccEEEEEECCHH
Q 023143          190 EQSEKPYEGGVQPCSTLFIANLGPN--C--------TEDELKQTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVE  252 (286)
Q Consensus       190 ~~~~~~~~~~~~~~~~L~v~NL~~~--~--------te~~L~~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e  252 (286)
                          ........++.+|+|.||...  +        ..++|+++|++||.|..|.|.+.       .+.|+|||+|.+++
T Consensus       400 ----~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e  475 (509)
T TIGR01642       400 ----SILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVR  475 (509)
T ss_pred             ----hhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHH
Confidence                000011236889999999742  1        23689999999999999999752       34689999999999


Q ss_pred             HHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          253 QASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       253 ~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +|.+|+.+|||..|.   |+.|.|+|.-
T Consensus       476 ~A~~A~~~lnGr~~~---gr~v~~~~~~  500 (509)
T TIGR01642       476 SAEKAMEGMNGRKFN---DRVVVAAFYG  500 (509)
T ss_pred             HHHHHHHHcCCCEEC---CeEEEEEEeC
Confidence            999999999999999   5599999964

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

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

Probab=99.94  E-value=1.2e-25  Score=179.33  Aligned_cols=211  Identities=23%  Similarity=0.346  Sum_probs=159.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHH----HhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           33 NGINTLFVSGLPDDVRAREIHN----LFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~----~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      .++.||||+||...+..++|+.    +|+.||.|..|... .+..-+|.|||.|.+.+.|..|++.|+|..+.   |++|
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~-kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFy---gK~m   82 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF-KTPKMRGQAFVVFKETEAASAALRALQGFPFY---GKPM   82 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec-CCCCccCceEEEecChhHHHHHHHHhcCCccc---Cchh
Confidence            4567999999999999999987    99999999888777 33444559999999999999999999999999   9999


Q ss_pred             EEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcc
Q 023143          109 HIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPI  188 (286)
Q Consensus       109 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~  188 (286)
                      +|+|++++++...+ ..+..+..++.....+..........         ..........               ..+..
T Consensus        83 riqyA~s~sdii~~-~~~~~v~~~~k~~~~~~~~~~~~~~~---------ng~~~~~~~~---------------~~p~p  137 (221)
T KOG4206|consen   83 RIQYAKSDSDIIAQ-APGTFVEKEKKINGEILARIKQPLDT---------NGHFYNMNRM---------------NLPPP  137 (221)
T ss_pred             heecccCccchhhc-cCceeccccCccccccccccCCcccc---------cccccccccc---------------cCCCC
Confidence            99999999888777 34455544443332222111100000         0000000000               00000


Q ss_pred             ccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          189 NEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       189 ~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                           . .....+|+.+||+.|||..++.+.|..+|++|++.+.++++... ++.|||+|.+...|..|..+++|..|.-
T Consensus       138 -----~-~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-~~iAfve~~~d~~a~~a~~~lq~~~it~  210 (221)
T KOG4206|consen  138 -----F-LAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-SGIAFVEFLSDRQASAAQQALQGFKITK  210 (221)
T ss_pred             -----c-cccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-CceeEEecchhhhhHHHhhhhccceecc
Confidence                 0 13446789999999999999999999999999999999999965 2799999999999999999999999962


Q ss_pred             CCCCcEEEEEecc
Q 023143          269 SDRGGMHIEYARS  281 (286)
Q Consensus       269 ~~g~~l~V~~ak~  281 (286)
                        .+.++|+||+.
T Consensus       211 --~~~m~i~~a~K  221 (221)
T KOG4206|consen  211 --KNTMQITFAKK  221 (221)
T ss_pred             --CceEEecccCC
Confidence              45999999873

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

Probab=99.94  E-value=6.3e-27  Score=191.89  Aligned_cols=150  Identities=25%  Similarity=0.503  Sum_probs=138.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeecC
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSN  116 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~~  116 (286)
                      .|||+|||..+++.+|+.+|++||.|.+|.|+   +|   ||||...+...|+.|++.|+|..|+   |..|+|+-++++
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv---KN---YgFVHiEdktaaedairNLhgYtLh---g~nInVeaSksK   74 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGKVLECDIV---KN---YGFVHIEDKTAAEDAIRNLHGYTLH---GVNINVEASKSK   74 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCceEeeeee---cc---cceEEeecccccHHHHhhcccceec---ceEEEEEecccc
Confidence            59999999999999999999999999999999   77   9999999999999999999999999   999999965543


Q ss_pred             CCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCCC
Q 023143          117 SRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPY  196 (286)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~  196 (286)
                      +    +                                                                          
T Consensus        75 s----k--------------------------------------------------------------------------   76 (346)
T KOG0109|consen   75 S----K--------------------------------------------------------------------------   76 (346)
T ss_pred             C----C--------------------------------------------------------------------------
Confidence            1    1                                                                          


Q ss_pred             CCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          197 EGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       197 ~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                           .+++|+|+||.+.++.+||+..|++||.|.++++.++.    +||.|+-.++|..|++.|||.++.   |++|+|
T Consensus        77 -----~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy----~fvh~d~~eda~~air~l~~~~~~---gk~m~v  144 (346)
T KOG0109|consen   77 -----ASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDY----AFVHFDRAEDAVEAIRGLDNTEFQ---GKRMHV  144 (346)
T ss_pred             -----CccccccCCCCccccCHHHhhhhcccCCceeeeeecce----eEEEEeeccchHHHHhcccccccc---cceeee
Confidence                 37779999999999999999999999999999999875    999999999999999999999999   559999


Q ss_pred             EEeccccCC
Q 023143          277 EYARSKMRK  285 (286)
Q Consensus       277 ~~ak~~~~~  285 (286)
                      +.+.++++.
T Consensus       145 q~stsrlrt  153 (346)
T KOG0109|consen  145 QLSTSRLRT  153 (346)
T ss_pred             eeecccccc
Confidence            999988763

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

Probab=99.94  E-value=2.8e-25  Score=179.64  Aligned_cols=244  Identities=17%  Similarity=0.248  Sum_probs=154.3

Q ss_pred             CCCCe-EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           33 NGINT-LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        33 ~~~~~-lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ++++| |.|.-||..+|+|+|+.+|+..|+|++|+++.+.-.  .-+|+||.|.+++||++|+..|||..+.   .+.|+
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ---~KTIK  114 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQ---NKTIK  114 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeec---cceEE
Confidence            45544 999999999999999999999999999999844222  2239999999999999999999999999   99999


Q ss_pred             EEEeecCCCCCcCCC----------------------------------------CCCceecccccccccccccCCCCCC
Q 023143          110 IELARSNSRKKRKPG----------------------------------------SGAYVVIDKRTKTEANVQESSSADG  149 (286)
Q Consensus       110 v~~~~~~~~~~~~~~----------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~  149 (286)
                      |.|++..++..+...                                        .-.++.+|+.....+.-....+...
T Consensus       115 VSyARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P  194 (360)
T KOG0145|consen  115 VSYARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKP  194 (360)
T ss_pred             EEeccCChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCC
Confidence            999997654433210                                        0011112222111111000111000


Q ss_pred             CCCCCCCC---------CCC------CCCCCCCCCCCCCCccccCCC-------CCCCCccccCC------CCCCCCC--
Q 023143          150 DSDTDEAS---------PVR------NIDSADKGDFVTTQSERATDS-------GNAVAPINEQS------EKPYEGG--  199 (286)
Q Consensus       150 ~~~~~~~~---------~~~------~~~~~~~~~~~~p~~~~~~~~-------~~~~~~~~~~~------~~~~~~~--  199 (286)
                       +...|+-         +..      ....+...+..-|........       ......+.++.      +......  
T Consensus       195 -~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~  273 (360)
T KOG0145|consen  195 -SGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPG  273 (360)
T ss_pred             -CCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCC
Confidence             0000000         000      000000001111110000000       00000011111      1111111  


Q ss_pred             -CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          200 -VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       200 -~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                       ...+=+|||.||..+.+|.-|..+|++||.|..|++++    ++.||||||.+.+-++|.-||..|||..++++   .|
T Consensus       274 ~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~r---vL  350 (360)
T KOG0145|consen  274 GPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDR---VL  350 (360)
T ss_pred             CCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccce---EE
Confidence             11267899999999999999999999999999999988    66789999999999999999999999999966   99


Q ss_pred             EEEEecccc
Q 023143          275 HIEYARSKM  283 (286)
Q Consensus       275 ~V~~ak~~~  283 (286)
                      +|+|..++.
T Consensus       351 QVsFKtnk~  359 (360)
T KOG0145|consen  351 QVSFKTNKA  359 (360)
T ss_pred             EEEEecCCC
Confidence            999977653

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

Probab=99.94  E-value=1.7e-25  Score=197.22  Aligned_cols=238  Identities=20%  Similarity=0.235  Sum_probs=144.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCe-eEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ-VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~-~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      --+|.|+|||+.|...+|+.+|+.||.|.+|.|.....++. |||||+|....+|..||+.+||..|.   ||++.|.|+
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~---gR~VAVDWA  193 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKID---GRPVAVDWA  193 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceec---CceeEEeee
Confidence            45699999999999999999999999999999883333322 39999999999999999999999999   999999999


Q ss_pred             ecCCCCCcCCCCCCceecccccccccccccCCCCCCC------C-CCCCCCCCCCCCCCCCC--CCCCC---CccccCCC
Q 023143          114 RSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGD------S-DTDEASPVRNIDSADKG--DFVTT---QSERATDS  181 (286)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~-~~~~~~~~~~~~~~~~~--~~~~p---~~~~~~~~  181 (286)
                      ......... .........+... ...........+.      + ...+......++.-...  ....-   .-+...++
T Consensus       194 V~Kd~ye~t-a~~~~~s~Kk~~~-eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S  271 (678)
T KOG0127|consen  194 VDKDTYEDT-AHEEKQSLKKAVK-EEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESS  271 (678)
T ss_pred             ccccccccc-chhhhhhhhhccc-hhhhcccccccccccchhcccccccccccccccchhhhcccccccccccccccccc
Confidence            865433221 0000000000000 0000000000000      0 00000000000000000  00000   00000000


Q ss_pred             CCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHH
Q 023143          182 GNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIA  257 (286)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~A  257 (286)
                      ...++..... .........-+.||||+|||+++|+++|.+.|++||.|.++.++.    +.++|+|||.|.+..+|+.|
T Consensus       272 ~~~~~~k~~q-~k~~~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~c  350 (678)
T KOG0127|consen  272 GKKESDKKAQ-NKTTRENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNC  350 (678)
T ss_pred             ccCcccchhc-cccccccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHH
Confidence            0000000000 000111122369999999999999999999999999999998876    77889999999999999999


Q ss_pred             HHhc-----CC-CccCCCCCCcEEEEEecc
Q 023143          258 MEGL-----QD-STLPSSDRGGMHIEYARS  281 (286)
Q Consensus       258 l~~l-----ng-~~~~~~~g~~l~V~~ak~  281 (286)
                      |++.     .| ..+.   |+.|+|..|-.
T Consensus       351 i~~Aspa~e~g~~ll~---GR~Lkv~~Av~  377 (678)
T KOG0127|consen  351 IEAASPASEDGSVLLD---GRLLKVTLAVT  377 (678)
T ss_pred             HHhcCccCCCceEEEe---ccEEeeeeccc
Confidence            9986     33 4555   67999988754

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

Probab=99.93  E-value=1.5e-25  Score=172.25  Aligned_cols=166  Identities=22%  Similarity=0.298  Sum_probs=138.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +.+...||||+||+..++++.|+++|-..|+|.++++.-.  ....++||||+|.++++|.-|++-|++..++   |++|
T Consensus         5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLY---grpI   81 (203)
T KOG0131|consen    5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLY---GRPI   81 (203)
T ss_pred             ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhc---Ccee
Confidence            4567789999999999999999999999999999987621  1223559999999999999999999999999   9999


Q ss_pred             EEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcc
Q 023143          109 HIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPI  188 (286)
Q Consensus       109 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~  188 (286)
                      +|.-+..  .. ..                                                                  
T Consensus        82 rv~kas~--~~-~n------------------------------------------------------------------   92 (203)
T KOG0131|consen   82 RVNKASA--HQ-KN------------------------------------------------------------------   92 (203)
T ss_pred             EEEeccc--cc-cc------------------------------------------------------------------
Confidence            9986541  00 00                                                                  


Q ss_pred             ccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEE-EEee----cCCccEEEEEECCHHHHHHHHHhcCC
Q 023143          189 NEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNML-KMRA----RGGMPVAFADFEEVEQASIAMEGLQD  263 (286)
Q Consensus       189 ~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v-~~~~----~~~~~~afV~f~~~e~A~~Al~~lng  263 (286)
                                 ..-+.+|||+||++.++|.-|.++|+.||.+... ++++    +.+++||||.|++.|.+.+|+..|||
T Consensus        93 -----------l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ng  161 (203)
T KOG0131|consen   93 -----------LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNG  161 (203)
T ss_pred             -----------ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhcc
Confidence                       0125679999999999999999999999987642 2222    56778999999999999999999999


Q ss_pred             CccCCCCCCcEEEEEeccc
Q 023143          264 STLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       264 ~~~~~~~g~~l~V~~ak~~  282 (286)
                      .-+..+   ++.|+|++.+
T Consensus       162 q~l~nr---~itv~ya~k~  177 (203)
T KOG0131|consen  162 QYLCNR---PITVSYAFKK  177 (203)
T ss_pred             chhcCC---ceEEEEEEec
Confidence            999966   9999999865

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

Probab=99.93  E-value=3.1e-25  Score=190.69  Aligned_cols=87  Identities=24%  Similarity=0.322  Sum_probs=75.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+.+.|||+-|+..+||.+++++|++||-|++|.|.... +-.++||||+|.+.+.|..||+.|||.....+|..+|.|.
T Consensus       122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk  201 (510)
T KOG0144|consen  122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK  201 (510)
T ss_pred             ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence            356789999999999999999999999999999998432 1234499999999999999999999998888999999999


Q ss_pred             EeecCCCC
Q 023143          112 LARSNSRK  119 (286)
Q Consensus       112 ~~~~~~~~  119 (286)
                      |+++..+.
T Consensus       202 FADtqkdk  209 (510)
T KOG0144|consen  202 FADTQKDK  209 (510)
T ss_pred             ecccCCCc
Confidence            99876533

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

Probab=99.92  E-value=1.8e-24  Score=175.57  Aligned_cols=246  Identities=17%  Similarity=0.191  Sum_probs=155.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +.+.|||+-|...-.|||++.+|..||.|++|.+.... ...++||||.|.+.-+|..||..|+|....++...-|.|+|
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~   97 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF   97 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence            67889999999999999999999999999999888322 22445999999999999999999999998888899999999


Q ss_pred             eecCCCCCcCCC----------------C----------------------CCce-------------------------
Q 023143          113 ARSNSRKKRKPG----------------S----------------------GAYV-------------------------  129 (286)
Q Consensus       113 ~~~~~~~~~~~~----------------~----------------------~~~~-------------------------  129 (286)
                      +++.......+.                -                      +.+.                         
T Consensus        98 ADTdkER~lRRMQQma~qlGm~~Pl~l~~g~~~ay~qalmQqQa~~~at~~~~~L~p~~~~~~~~mQ~~aA~~angl~A~  177 (371)
T KOG0146|consen   98 ADTDKERTLRRMQQMAGQLGMFNPLALPFGAYGAYAQALMQQQAALLATVAGPYLSPMAAFAAAQMQQMAALNANGLAAA  177 (371)
T ss_pred             ccchHHHHHHHHHHHHHHhcccCccccccchhHHHHHHHHHHHHHHHHhhcccccChhhhhHHHHHHHHHHHhhcccccC
Confidence            985431110000                0                      0000                         


Q ss_pred             ecccccccccc----cccC------CCCCCCCCCCC------CCCCCCCCCCCCCCCCCCC--------------cc---
Q 023143          130 VIDKRTKTEAN----VQES------SSADGDSDTDE------ASPVRNIDSADKGDFVTTQ--------------SE---  176 (286)
Q Consensus       130 ~~~~~~~~~~~----~~~~------~~~~~~~~~~~------~~~~~~~~~~~~~~~~~p~--------------~~---  176 (286)
                      +.-+.......    ....      -+..+++....      .....-.+........+|.              +.   
T Consensus       178 Pv~p~s~~~~pp~~~a~~~~~~~A~~g~ng~~~l~~q~~gqpa~~~vy~ng~~pypaQsp~va~~lq~a~~g~~~Y~Aay  257 (371)
T KOG0146|consen  178 PVTPASGGSTPPGIGATAVPGIPAPIGVNGFTGLPPQPNGQPAAEAVYANGLHPYPAQSPTVADPLQQAYAGVQQYAAAY  257 (371)
T ss_pred             CcCccccCCCCCcccccccCCcccccccccccCCCCCCCCCcchhHHhhcCCccCCCCCccccchhhhhhhhHHHHhhhc
Confidence            00000000000    0000      00000000000      0000000000000000000              00   


Q ss_pred             ccCCCCCCCCccccCC-CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCH
Q 023143          177 RATDSGNAVAPINEQS-EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEV  251 (286)
Q Consensus       177 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~  251 (286)
                      ++..........+.+. ........|.+++|||..||....+.||..+|-.||.|.+.++..    +.+|.|+||.|+++
T Consensus       258 paays~v~~~~pq~p~~~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp  337 (371)
T KOG0146|consen  258 PAAYSPISQAFPQPPPLLPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNP  337 (371)
T ss_pred             chhhhhhhhcCCCCcchhhhhhhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCc
Confidence            0000000111111111 112244567799999999999999999999999999999888765    67889999999999


Q ss_pred             HHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          252 EQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       252 e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      .+|+.||.+|||+.|+-|   +|+|++.|.|
T Consensus       338 ~SaQaAIqAMNGFQIGMK---RLKVQLKRPk  365 (371)
T KOG0146|consen  338 ASAQAAIQAMNGFQIGMK---RLKVQLKRPK  365 (371)
T ss_pred             hhHHHHHHHhcchhhhhh---hhhhhhcCcc
Confidence            999999999999999988   9999987754

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

Probab=99.92  E-value=4e-24  Score=188.70  Aligned_cols=187  Identities=21%  Similarity=0.292  Sum_probs=142.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ..||||++||++++.++|.++||.+|+|..+.+.-...  -.++|+||+|.-.+++.+|++.+.+..+.   |+.|+|.+
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~---Gr~l~v~~   81 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFE---GRILNVDP   81 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCccc---ceeccccc
Confidence            38999999999999999999999999999888772211  13449999999999999999999999999   99999999


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      +......... ..+......+..++.                                 .|.                  
T Consensus        82 A~~R~r~e~~-~~~e~~~veK~~~q~---------------------------------~~~------------------  109 (678)
T KOG0127|consen   82 AKKRARSEEV-EKGENKAVEKPIEQK---------------------------------RPT------------------  109 (678)
T ss_pred             ccccccchhc-ccccchhhhcccccC---------------------------------Ccc------------------
Confidence            8754332211 001000000000000                                 000                  


Q ss_pred             CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                         ......+--.|.|+|||+.+...+|+.+|+.||.|..|.|++   ++-.|||||+|.+..+|.+||+.|||.+|+  
T Consensus       110 ---k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~--  184 (678)
T KOG0127|consen  110 ---KAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKID--  184 (678)
T ss_pred             ---hhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceec--
Confidence               000011355699999999999999999999999999999987   334479999999999999999999999999  


Q ss_pred             CCCcEEEEEeccc
Q 023143          270 DRGGMHIEYARSK  282 (286)
Q Consensus       270 ~g~~l~V~~ak~~  282 (286)
                       |++|-|.||-++
T Consensus       185 -gR~VAVDWAV~K  196 (678)
T KOG0127|consen  185 -GRPVAVDWAVDK  196 (678)
T ss_pred             -CceeEEeeeccc
Confidence             669999998654

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

Probab=99.90  E-value=1.3e-23  Score=190.81  Aligned_cols=167  Identities=20%  Similarity=0.342  Sum_probs=140.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-----CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-----NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-----~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +|||.||++++|.++|..+|+..|.|.++.|....++     ..|||||+|.++++|..|++.|+|..|+   |..|.|+
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvld---GH~l~lk  593 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLD---GHKLELK  593 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceec---CceEEEE
Confidence            3999999999999999999999999999988744322     1259999999999999999999999999   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++. +......   +..                                                               
T Consensus       594 ~S~-~k~~~~~---gK~---------------------------------------------------------------  606 (725)
T KOG0110|consen  594 ISE-NKPASTV---GKK---------------------------------------------------------------  606 (725)
T ss_pred             ecc-Ccccccc---ccc---------------------------------------------------------------
Confidence            987 1111000   000                                                               


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                           ......++.|+|+|||+..+..+++.||+.||.|..|+++..    .++|||||+|-++.+|..|+.+|.+.-+.
T Consensus       607 -----~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHly  681 (725)
T KOG0110|consen  607 -----KSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLY  681 (725)
T ss_pred             -----cccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhccccee
Confidence                 000113788999999999999999999999999999999873    35789999999999999999999999999


Q ss_pred             CCCCCcEEEEEecc
Q 023143          268 SSDRGGMHIEYARS  281 (286)
Q Consensus       268 ~~~g~~l~V~~ak~  281 (286)
                         |+.|-++||++
T Consensus       682 ---GRrLVLEwA~~  692 (725)
T KOG0110|consen  682 ---GRRLVLEWAKS  692 (725)
T ss_pred             ---chhhheehhcc
Confidence               56999999986

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

Probab=99.89  E-value=6e-22  Score=175.40  Aligned_cols=150  Identities=22%  Similarity=0.259  Sum_probs=134.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      ..|||+   +++||..|++.|+++|.|.+|++..+. +.-+||||.|.++++|.+||..+|...+.   |++++|-|+..
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-tslgy~yvnf~~~~da~~A~~~~n~~~~~---~~~~rim~s~r   74 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-TSLGYAYVNFQQPADAERALDTMNFDVLK---GKPIRIMWSQR   74 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecC-CccceEEEecCCHHHHHHHHHHcCCcccC---CcEEEeehhcc
Confidence            358999   899999999999999999999998666 56669999999999999999999999998   99999998754


Q ss_pred             CCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCC
Q 023143          116 NSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKP  195 (286)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~  195 (286)
                      +.                                                                              
T Consensus        75 d~------------------------------------------------------------------------------   76 (369)
T KOG0123|consen   75 DP------------------------------------------------------------------------------   76 (369)
T ss_pred             CC------------------------------------------------------------------------------
Confidence            21                                                                              


Q ss_pred             CCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          196 YEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       196 ~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                              +.|||+||+.+++..+|.++|+.||.|.+|++..  ..++|| ||+|++.++|.+|++.+||..+.++   .
T Consensus        77 --------~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~k---k  144 (369)
T KOG0123|consen   77 --------SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGK---K  144 (369)
T ss_pred             --------ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCC---e
Confidence                    1199999999999999999999999999999988  447789 9999999999999999999999955   8


Q ss_pred             EEEEEeccc
Q 023143          274 MHIEYARSK  282 (286)
Q Consensus       274 l~V~~ak~~  282 (286)
                      |.|.....+
T Consensus       145 i~vg~~~~~  153 (369)
T KOG0123|consen  145 IYVGLFERK  153 (369)
T ss_pred             eEEeeccch
Confidence            888766554

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

Probab=99.87  E-value=1.7e-21  Score=172.52  Aligned_cols=166  Identities=20%  Similarity=0.373  Sum_probs=142.7

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeecCC
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNS  117 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~~~  117 (286)
                      |||.||+.+++..+|+++|+.||.|.+|++..+..+.++| ||+|.+.+.|.+|++.+||..+.   |+++.|.......
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~---~kki~vg~~~~~~  154 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLN---GKKIYVGLFERKE  154 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccC---CCeeEEeeccchh
Confidence            9999999999999999999999999999999887777879 99999999999999999999998   9999998765432


Q ss_pred             CCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCCCC
Q 023143          118 RKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYE  197 (286)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~  197 (286)
                      .......                                                                        .
T Consensus       155 er~~~~~------------------------------------------------------------------------~  162 (369)
T KOG0123|consen  155 EREAPLG------------------------------------------------------------------------E  162 (369)
T ss_pred             hhccccc------------------------------------------------------------------------c
Confidence            2221100                                                                        0


Q ss_pred             CCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                       ....-+.++|.|++.++++++|.++|+.||.|..+.++.   +.+++|+||.|.++++|..|++.|||..++++   .+
T Consensus       163 -~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~---~~  238 (369)
T KOG0123|consen  163 -YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDK---EL  238 (369)
T ss_pred             -hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCcc---ce
Confidence             011356789999999999999999999999999999988   55678999999999999999999999999955   88


Q ss_pred             EEEEecccc
Q 023143          275 HIEYARSKM  283 (286)
Q Consensus       275 ~V~~ak~~~  283 (286)
                      .|.-+..+.
T Consensus       239 ~V~~aqkk~  247 (369)
T KOG0123|consen  239 YVGRAQKKS  247 (369)
T ss_pred             eecccccch
Confidence            888776644

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

Probab=99.87  E-value=5.8e-20  Score=170.35  Aligned_cols=82  Identities=21%  Similarity=0.357  Sum_probs=72.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||.++++++|+++|+.||.|.+|++..+.  +..++||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus       202 ~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elg---Gr~LrV  278 (612)
T TIGR01645       202 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLG---GQYLRV  278 (612)
T ss_pred             cccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeC---CeEEEE
Confidence            356799999999999999999999999999999998542  224559999999999999999999999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      .++....
T Consensus       279 ~kAi~pP  285 (612)
T TIGR01645       279 GKCVTPP  285 (612)
T ss_pred             EecCCCc
Confidence            9987543

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 Transcriptional coactivator CAPER (RRM superfamily) [Transcription]

Probab=99.86  E-value=1.1e-21  Score=173.99  Aligned_cols=233  Identities=15%  Similarity=0.169  Sum_probs=142.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+...|||+||.+.+++++|+.+|++||.|+.|.+.++.  .-.++|+||+|.+.++|++|++.|||.+|.   |+.|+|
T Consensus       276 ~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelA---Gr~ikV  352 (549)
T KOG0147|consen  276 GPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELA---GRLIKV  352 (549)
T ss_pred             cchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceec---CceEEE
Confidence            345559999999999999999999999999999988663  223459999999999999999999999998   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccc--ccc---ccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCC
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKR--TKT---EANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAV  185 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~  185 (286)
                      .......+.... . ...-..|..  ...   ..+..+.....     .+.........+..+.....+.+.+.......
T Consensus       353 ~~v~~r~~~~~a-~-~~~~d~D~~d~~gl~~~~~g~~Ql~~kl-----a~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~  425 (549)
T KOG0147|consen  353 SVVTERVDTKEA-A-VTQFDFDEDDRQGLSLGSGGRNQLMAKL-----AEGKGRSLPSTAISALLLLAKLASAAQFNGVV  425 (549)
T ss_pred             EEeeeecccccc-c-ccccccchhhccccccccccHHHHHHHH-----hccCCccccchhhhHHHhccccchHHhhcCCc
Confidence            876543332211 0 000000000  000   00000000000     00000000000000001111111111100000


Q ss_pred             -CccccCCCCCCCCCCCCccEEEEccCCCCCCH----------HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHH
Q 023143          186 -APINEQSEKPYEGGVQPCSTLFIANLGPNCTE----------DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQA  254 (286)
Q Consensus       186 -~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te----------~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A  254 (286)
                       .....+... ....++++.+|.++||-...||          +|+.+-|++||+|.+|.+-++ +.||.||.|.+.+.|
T Consensus       426 ~~~~~~p~~~-~p~~~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~n-s~g~VYvrc~s~~~A  503 (549)
T KOG0147|consen  426 RVRSVDPADA-SPAFDIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKN-SAGCVYVRCPSAEAA  503 (549)
T ss_pred             CccccCcccc-ccccCCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccC-CCceEEEecCcHHHH
Confidence             000000000 1111257889999999754443          789999999999999877664 349999999999999


Q ss_pred             HHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          255 SIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       255 ~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ..|+.+|||++|.   |+.|...|-.
T Consensus       504 ~~a~~alhgrWF~---gr~Ita~~~~  526 (549)
T KOG0147|consen  504 GTAVKALHGRWFA---GRMITAKYLP  526 (549)
T ss_pred             HHHHHHHhhhhhc---cceeEEEEee
Confidence            9999999999999   5599988843

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

Probab=99.85  E-value=5.6e-21  Score=161.53  Aligned_cols=173  Identities=15%  Similarity=0.280  Sum_probs=138.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++|||+.+++.+.||.|+..|.+||+|.+|.+-++.  ...++||||+|.-+|.|..|++.|||..+.   ||.|+|..
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlG---GRNiKVgr  189 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLG---GRNIKVGR  189 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhcccccc---CccccccC
Confidence            4789999999999999999999999999999888653  223449999999999999999999999998   99999883


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      . +|......       ..|.....                                                       
T Consensus       190 P-sNmpQAQp-------iID~vqee-------------------------------------------------------  206 (544)
T KOG0124|consen  190 P-SNMPQAQP-------IIDMVQEE-------------------------------------------------------  206 (544)
T ss_pred             C-CCCcccch-------HHHHHHHH-------------------------------------------------------
Confidence            2 22221111       00000000                                                       


Q ss_pred             CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                             ...-.+|||..+.++.+|+||++.|+.||.|.+|++-+    ...+||+|++|.+..+-..|+..||=+.++ 
T Consensus       207 -------Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLG-  278 (544)
T KOG0124|consen  207 -------AKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLG-  278 (544)
T ss_pred             -------HHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcc-
Confidence                   01246699999999999999999999999999999987    456789999999999999999999999888 


Q ss_pred             CCCCcEEEEEecccc
Q 023143          269 SDRGGMHIEYARSKM  283 (286)
Q Consensus       269 ~~g~~l~V~~ak~~~  283 (286)
                        |.-|+|.-+-...
T Consensus       279 --GQyLRVGk~vTPP  291 (544)
T KOG0124|consen  279 --GQYLRVGKCVTPP  291 (544)
T ss_pred             --cceEecccccCCC
Confidence              5588887665543

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=99.83  E-value=7e-19  Score=150.83  Aligned_cols=194  Identities=21%  Similarity=0.305  Sum_probs=147.0

Q ss_pred             CCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           35 INTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        35 ~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +.+|.|.||... +|.+.|..+|+.||.|.+|+|....+.   .|.|++.+...|..|++.|+|..|+   |++|+|.++
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd---~ALIQmsd~~qAqLA~~hL~g~~l~---gk~lrvt~S  370 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKD---NALIQMSDGQQAQLAMEHLEGHKLY---GKKLRVTLS  370 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCc---ceeeeecchhHHHHHHHHhhcceec---CceEEEeec
Confidence            688999999854 899999999999999999999965554   9999999999999999999999999   999999998


Q ss_pred             ecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCC
Q 023143          114 RSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSE  193 (286)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  193 (286)
                      +-..-....  .+..+               .+.   .....+..+                          ..-..+..
T Consensus       371 KH~~vqlp~--egq~d---------------~gl---T~dy~~spL--------------------------hrfkkpgs  404 (492)
T KOG1190|consen  371 KHTNVQLPR--EGQED---------------QGL---TKDYGNSPL--------------------------HRFKKPGS  404 (492)
T ss_pred             cCccccCCC--CCCcc---------------ccc---cccCCCCch--------------------------hhccCccc
Confidence            754322111  11100               000   000000000                          00011112


Q ss_pred             CCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       194 ~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      ....+..||+.+|.+.|+|.+++||+|+++|..-|...+....-.+.+.+|++.+.++|+|..|+..+++..+++  ++.
T Consensus       405 KN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lge--n~h  482 (492)
T KOG1190|consen  405 KNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGE--NHH  482 (492)
T ss_pred             ccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCC--Cce
Confidence            244455678999999999999999999999999998765555555566899999999999999999999999872  459


Q ss_pred             EEEEEeccc
Q 023143          274 MHIEYARSK  282 (286)
Q Consensus       274 l~V~~ak~~  282 (286)
                      |+|+|+|+.
T Consensus       483 lRvSFSks~  491 (492)
T KOG1190|consen  483 LRVSFSKST  491 (492)
T ss_pred             EEEEeeccc
Confidence            999999975

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

Probab=99.82  E-value=1.4e-18  Score=134.20  Aligned_cols=182  Identities=20%  Similarity=0.319  Sum_probs=133.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +..+++|||+|||.++.+.+|.++|.+||.|..|.++.. ++.-+||||+|.++.+|..||.--+|..++   |..|+|+
T Consensus         3 gr~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r-~g~ppfafVeFEd~RDAeDAiygRdGYdyd---g~rLRVE   78 (241)
T KOG0105|consen    3 GRNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR-PGPPPFAFVEFEDPRDAEDAIYGRDGYDYD---GCRLRVE   78 (241)
T ss_pred             CcccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC-CCCCCeeEEEecCccchhhhhhcccccccC---cceEEEE
Confidence            456789999999999999999999999999999999843 333459999999999999999999999999   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      +++.......  ..+.+.      .....     +                  ....+.           . .++.    
T Consensus        79 fprggr~s~~--~~G~y~------gggrg-----G------------------gg~gg~-----------r-gpps----  111 (241)
T KOG0105|consen   79 FPRGGRSSSD--RRGSYS------GGGRG-----G------------------GGGGGR-----------R-GPPS----  111 (241)
T ss_pred             eccCCCcccc--cccccC------CCCCC-----C------------------CCCCcc-----------c-CCcc----
Confidence            9986531111  111000      00000     0                  000000           0 0000    


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                              -..--.+.|++||.+-+.+||++....-|.|-...+.++   +++.|+|...|+-.=|+..|....+... |
T Consensus       112 --------rrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD---g~GvV~~~r~eDMkYAvr~ld~~~~~se-G  179 (241)
T KOG0105|consen  112 --------RRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD---GVGVVEYLRKEDMKYAVRKLDDQKFRSE-G  179 (241)
T ss_pred             --------cccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc---cceeeeeeehhhHHHHHHhhccccccCc-C
Confidence                    012345889999999999999999999999977777665   4799999999999999999988887765 4


Q ss_pred             CcEEE
Q 023143          272 GGMHI  276 (286)
Q Consensus       272 ~~l~V  276 (286)
                      -...|
T Consensus       180 e~~yi  184 (241)
T KOG0105|consen  180 ETAYI  184 (241)
T ss_pred             cEeeE
Confidence            44333

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

Probab=99.82  E-value=2.6e-19  Score=163.01  Aligned_cols=208  Identities=21%  Similarity=0.272  Sum_probs=140.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ...+.|+|+|||..+..++|..+|..||+|..|.+. ...   ..|.|+|.++.+|.+|++.|....+.   ..++.++|
T Consensus       383 rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp-~~G---~~aiv~fl~p~eAr~Afrklaysr~k---~~plyle~  455 (725)
T KOG0110|consen  383 RSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLP-PGG---TGAIVEFLNPLEARKAFRKLAYSRFK---SAPLYLEW  455 (725)
T ss_pred             hhcceeeeccCccccccHHHHHHhhcccccceeecC-ccc---ceeeeeecCccchHHHHHHhchhhhc---cCcccccc
Confidence            345789999999999999999999999999988333 222   27999999999999999999999998   99999999


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQES-SSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      +......... ..... .............+. ....        ..+...                  .......    
T Consensus       456 aP~dvf~~~p-ka~~~-~~e~~~~~ee~~~Er~s~~d--------~~v~eD------------------~d~te~s----  503 (725)
T KOG0110|consen  456 APEDVFTEDP-KADDL-SAESRSKMEENPSERVSAED--------GQVEED------------------KDPTEES----  503 (725)
T ss_pred             ChhhhccCCc-ccccc-ccccccccccCcceeccccc--------cccccc------------------CCccccc----
Confidence            8765433111 10000 000000000000000 0000        000000                  0000000    


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC-------CccEEEEEECCHHHHHHHHHhcCCC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-------GMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~-------~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      +...........++|||+||+++.|.++|...|+..|.|..+.|...+       +.|||||+|.+.++|+.|+..|+|.
T Consensus       504 s~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgt  583 (725)
T KOG0110|consen  504 SLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGT  583 (725)
T ss_pred             cchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCc
Confidence            000000111112339999999999999999999999999999887632       4599999999999999999999999


Q ss_pred             ccCCCCCCcEEEEEeccc
Q 023143          265 TLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       265 ~~~~~~g~~l~V~~ak~~  282 (286)
                      .+.   |+.|.|+++.++
T Consensus       584 vld---GH~l~lk~S~~k  598 (725)
T KOG0110|consen  584 VLD---GHKLELKISENK  598 (725)
T ss_pred             eec---CceEEEEeccCc
Confidence            999   669999999833

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

Probab=99.81  E-value=1.6e-19  Score=147.19  Aligned_cols=139  Identities=18%  Similarity=0.280  Sum_probs=114.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+++-|||||+||+.++||+-|-.||+..|.|..+++++.                                    .|+|
T Consensus         2 ~~~~prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~------------------------------------e~~v   45 (321)
T KOG0148|consen    2 GSDEPRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFD------------------------------------ELKV   45 (321)
T ss_pred             CCCCCceEEeeccChhhHHHHHHHHHHhccccccceeehh------------------------------------hhcc
Confidence            3567799999999999999999999999999999988843                                    2345


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .|+... ....+  ..                                                                
T Consensus        46 ~wa~~p-~nQsk--~t----------------------------------------------------------------   58 (321)
T KOG0148|consen   46 NWATAP-GNQSK--PT----------------------------------------------------------------   58 (321)
T ss_pred             ccccCc-ccCCC--Cc----------------------------------------------------------------
Confidence            554432 11101  00                                                                


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                               ....--+||+-|...++.|+|++.|.+||+|.++++++    +++|||+||.|.+.++|+.||..|||.+|
T Consensus        59 ---------~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWl  129 (321)
T KOG0148|consen   59 ---------SNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWL  129 (321)
T ss_pred             ---------cccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeee
Confidence                     00144599999999999999999999999999999988    78899999999999999999999999999


Q ss_pred             CCCCCCcEEEEEeccccC
Q 023143          267 PSSDRGGMHIEYARSKMR  284 (286)
Q Consensus       267 ~~~~g~~l~V~~ak~~~~  284 (286)
                      +   +|.|+-.||..|..
T Consensus       130 G---~R~IRTNWATRKp~  144 (321)
T KOG0148|consen  130 G---RRTIRTNWATRKPS  144 (321)
T ss_pred             c---cceeeccccccCcc
Confidence            9   66999999987753

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.80  E-value=2.2e-17  Score=140.26  Aligned_cols=234  Identities=13%  Similarity=0.113  Sum_probs=154.9

Q ss_pred             CCCCCeEEEcCCC--CCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLP--DDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp--~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.+++.|.+.=|.  +.+|.|.|+.++.+.|.|.+|.|.   +.+...|.|+|.+.+.|++|.+.|||..|+ .....|+
T Consensus       117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIf---kkngVQAmVEFdsv~~AqrAk~alNGADIY-sGCCTLK  192 (494)
T KOG1456|consen  117 ATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIF---KKNGVQAMVEFDSVEVAQRAKAALNGADIY-SGCCTLK  192 (494)
T ss_pred             CCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEE---eccceeeEEeechhHHHHHHHhhccccccc-ccceeEE
Confidence            4567777666554  679999999999999999999888   334559999999999999999999999994 5458999


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCC----------CCCCCCccccC
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKG----------DFVTTQSERAT  179 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~p~~~~~~  179 (286)
                      |+|++...-...+...++++-..+..+..-... .....++..+...............          ..+.|......
T Consensus       193 IeyAkP~rlnV~knd~DtwDyTlp~~~~~~~~g-~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~  271 (494)
T KOG1456|consen  193 IEYAKPTRLNVQKNDKDTWDYTLPDLRGPYDPG-RNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDG  271 (494)
T ss_pred             EEecCcceeeeeecCCccccccCCCCCCCCCCC-CCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCccc
Confidence            999997765555544444432222221111100 0001111111111111111110000          11111111111


Q ss_pred             CCCCCCCccccCCCCCCCCCCCCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHH
Q 023143          180 DSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM  258 (286)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al  258 (286)
                      ....   .     +........++.++.|.+|+. .++.+.|.++|..||.|.+|++++.+. +.|.|++.+..+.++|+
T Consensus       272 ~~~~---~-----g~a~p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-gtamVemgd~~aver~v  342 (494)
T KOG1456|consen  272 YRDG---R-----GYASPGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-GTAMVEMGDAYAVERAV  342 (494)
T ss_pred             cccC---C-----CCCCCCCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-ceeEEEcCcHHHHHHHH
Confidence            1100   0     011113445799999999996 888999999999999999999999552 79999999999999999


Q ss_pred             HhcCCCccCCCCCCcEEEEEeccc
Q 023143          259 EGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       259 ~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      ..||+..+.   |.+|.|.++|..
T Consensus       343 ~hLnn~~lf---G~kl~v~~SkQ~  363 (494)
T KOG1456|consen  343 THLNNIPLF---GGKLNVCVSKQN  363 (494)
T ss_pred             HHhccCccc---cceEEEeecccc
Confidence            999999999   558888888754

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=99.79  E-value=9.1e-18  Score=144.04  Aligned_cols=223  Identities=15%  Similarity=0.120  Sum_probs=143.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..-+++|.|+-+.++.|.|..+|++||.|..|...-  +++.=.|.|+|.+.++|..|...|+|+.| +...+.|+|.|+
T Consensus       149 ~vLr~iie~m~ypVslDVLHqvFS~fG~VlKIiTF~--Knn~FQALvQy~d~~sAq~AK~aLdGqnI-yngcCtLrId~S  225 (492)
T KOG1190|consen  149 PVLRTIIENMFYPVSLDVLHQVFSKFGFVLKIITFT--KNNGFQALVQYTDAVSAQAAKLALDGQNI-YNGCCTLRIDFS  225 (492)
T ss_pred             eeEEEEeccceeeeEHHHHHHHHhhcceeEEEEEEe--cccchhhhhhccchhhHHHHHHhccCCcc-cCceeEEEeehh
Confidence            335689999999999999999999999998765542  22222899999999999999999999999 666789999988


Q ss_pred             ecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCC
Q 023143          114 RSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSE  193 (286)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  193 (286)
                      +-..-...-       ..++++.-...    ....+.+.+.....+.....+   ....+. .+..-+.......    .
T Consensus       226 klt~LnvKy-------nndkSRDyTnp----~LP~gd~~p~l~~~~~aa~~~---~~~~~g-~p~aip~~~~~a~----~  286 (492)
T KOG1190|consen  226 KLTDLNVKY-------NNDKSRDYTNP----DLPVGDGQPSLDQLMAAAFGS---VPAVHG-APLAIPSGAAGAN----A  286 (492)
T ss_pred             hcccceeec-------cccccccccCC----CCCCCccccccchhhhccccc---cccccC-CcccCCccchhhc----c
Confidence            743211111       00011100000    000001111111111111000   000011 0000000000000    0


Q ss_pred             CCCCCCCC-CccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          194 KPYEGGVQ-PCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       194 ~~~~~~~~-~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      .......+ .+.+|.|.||.. .+|.+-|..+|+-||+|.+|+|..++. .-|.|+|.+...|+-|++.|+|.++.|+  
T Consensus       287 a~~~~~~~~~n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-d~ALIQmsd~~qAqLA~~hL~g~~l~gk--  363 (492)
T KOG1190|consen  287 ADGKIESPSANVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-DNALIQMSDGQQAQLAMEHLEGHKLYGK--  363 (492)
T ss_pred             cccccccCCCceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-cceeeeecchhHHHHHHHHhhcceecCc--
Confidence            00111111 168889999885 899999999999999999999999663 6899999999999999999999999955  


Q ss_pred             CcEEEEEeccc
Q 023143          272 GGMHIEYARSK  282 (286)
Q Consensus       272 ~~l~V~~ak~~  282 (286)
                       .|+|.|+|-.
T Consensus       364 -~lrvt~SKH~  373 (492)
T KOG1190|consen  364 -KLRVTLSKHT  373 (492)
T ss_pred             -eEEEeeccCc
Confidence             9999998853

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

Probab=99.78  E-value=2.8e-19  Score=158.81  Aligned_cols=176  Identities=18%  Similarity=0.278  Sum_probs=138.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +..-+|||+--|+-..+..+|.++|+.+|.|..|+++.+.  +..++.|||+|.+.++...|+ .|.|..+.   |-+|.
T Consensus       176 ERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrll---g~pv~  251 (549)
T KOG0147|consen  176 ERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLL---GVPVI  251 (549)
T ss_pred             HHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCccc---CceeE
Confidence            5566999999999999999999999999999999998432  224559999999999999999 69999998   99999


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccc
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPIN  189 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  189 (286)
                      |+...... .... ..+                  ...                                          
T Consensus       252 vq~sEaek-nr~a-~~s------------------~a~------------------------------------------  269 (549)
T KOG0147|consen  252 VQLSEAEK-NRAA-NAS------------------PAL------------------------------------------  269 (549)
T ss_pred             ecccHHHH-HHHH-hcc------------------ccc------------------------------------------
Confidence            98543210 0000 000                  000                                          


Q ss_pred             cCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCc
Q 023143          190 EQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDST  265 (286)
Q Consensus       190 ~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~  265 (286)
                           ......-|-..|||+||..++++++|+.+|++||.|..|.+..    ++++|||||+|.+.++|.+|++.|||++
T Consensus       270 -----~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfe  344 (549)
T KOG0147|consen  270 -----QGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFE  344 (549)
T ss_pred             -----cccccccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccce
Confidence                 0000011233399999999999999999999999999998876    6788999999999999999999999999


Q ss_pred             cCCCCCCcEEEEEecc
Q 023143          266 LPSSDRGGMHIEYARS  281 (286)
Q Consensus       266 ~~~~~g~~l~V~~ak~  281 (286)
                      +-   |+.|+|+..-.
T Consensus       345 lA---Gr~ikV~~v~~  357 (549)
T KOG0147|consen  345 LA---GRLIKVSVVTE  357 (549)
T ss_pred             ec---CceEEEEEeee
Confidence            99   66999987544

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

Probab=99.76  E-value=1.3e-17  Score=129.37  Aligned_cols=79  Identities=15%  Similarity=0.243  Sum_probs=72.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++|||+||+.++++++|+++|++||.|.+++++.    +++++||||+|.+.++|++|++.|||..|.   |+.|+|+
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~---Gr~l~V~  109 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN---GRHIRVN  109 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            478899999999999999999999999999999986    457899999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |++.+.
T Consensus       110 ~a~~~~  115 (144)
T PLN03134        110 PANDRP  115 (144)
T ss_pred             eCCcCC
Confidence            998765

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=99.71  E-value=7.9e-16  Score=129.74  Aligned_cols=197  Identities=13%  Similarity=0.140  Sum_probs=134.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCcc------EEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHhCCCccCC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFD------FCQLKYTG---RGNQVVAFATFVNHQTAVAALHELNGVKFDP  102 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~------~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~  102 (286)
                      ..-+..|||+|||.++|.+++.++|+.+|.|.      ..++++..   ...+|=|.|.|...++...|++.|++..|. 
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r-  209 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR-  209 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc-
Confidence            34456699999999999999999999999982      22444321   113338999999999999999999999998 


Q ss_pred             CCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCC
Q 023143          103 QSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSA-DGDSDTDEASPVRNIDSADKGDFVTTQSERATDS  181 (286)
Q Consensus       103 ~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~  181 (286)
                        |+.|+|+.|+........ ... ..  .......++....... ..+...                     .      
T Consensus       210 --g~~~rVerAkfq~Kge~~-~~~-k~--k~k~~~~kk~~k~q~k~~dw~pd---------------------~------  256 (382)
T KOG1548|consen  210 --GKKLRVERAKFQMKGEYD-ASK-KE--KGKCKDKKKLKKQQQKLLDWRPD---------------------R------  256 (382)
T ss_pred             --CcEEEEehhhhhhccCcC-ccc-cc--ccccccHHHHHHHHHhhcccCCC---------------------c------
Confidence              999999998865432211 000 00  0011111111111100 000000                     0      


Q ss_pred             CCCCCccccCCCCCCCCCCCCccEEEEccCCC----CCC-------HHHHHHHHhcCCCceEEEEeecCCccEEEEEECC
Q 023143          182 GNAVAPINEQSEKPYEGGVQPCSTLFIANLGP----NCT-------EDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE  250 (286)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~----~~t-------e~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~  250 (286)
                                   .........+||.|+||-.    ..+       .++|++-+++||.|.+|.+......|.+-|.|.+
T Consensus       257 -------------~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n  323 (382)
T KOG1548|consen  257 -------------DDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRN  323 (382)
T ss_pred             -------------cccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCC
Confidence                         0000111378888999872    333       3677778999999999999876667899999999


Q ss_pred             HHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          251 VEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       251 ~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|+.||+.|+|+.+.   |+.|.-+.
T Consensus       324 ~eeA~~ciq~m~GR~fd---gRql~A~i  348 (382)
T KOG1548|consen  324 NEEADQCIQTMDGRWFD---GRQLTASI  348 (382)
T ss_pred             hHHHHHHHHHhcCeeec---ceEEEEEE
Confidence            99999999999999999   55877654

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

Probab=99.71  E-value=3.4e-17  Score=132.35  Aligned_cols=166  Identities=25%  Similarity=0.405  Sum_probs=128.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      ..|||++||+.+.+.+|..+|..||.|..|.++   .+   |+||+|.+..+|..|+..+||..|.   |..+.++|++.
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk---~g---f~fv~fed~rda~Dav~~l~~~~l~---~e~~vve~~r~   72 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK---NG---FGFVEFEDPRDADDAVHDLDGKELC---GERLVVEHARG   72 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee---cc---cceeccCchhhhhcccchhcCceec---ceeeeeecccc
Confidence            469999999999999999999999999999888   44   9999999999999999999999997   77788888875


Q ss_pred             CCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCC
Q 023143          116 NSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKP  195 (286)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~  195 (286)
                      .......+..+                     ...+            +.                            ..
T Consensus        73 ~~~~~g~~~~g---------------------~r~~------------~~----------------------------~~   91 (216)
T KOG0106|consen   73 KRRGRGRPRGG---------------------DRRS------------DS----------------------------RR   91 (216)
T ss_pred             cccccCCCCCC---------------------Cccc------------hh----------------------------hc
Confidence            43221110000                     0000            00                            00


Q ss_pred             CCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          196 YEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       196 ~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ........+.|+|.|+...+.+.+|.+.|+.+|.+..+..    ..+++||+|.+.++|.+|++.|+|..+.   ++.|.
T Consensus        92 ~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~----~~~~~~v~Fs~~~da~ra~~~l~~~~~~---~~~l~  164 (216)
T KOG0106|consen   92 YRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA----RRNFAFVEFSEQEDAKRALEKLDGKKLN---GRRIS  164 (216)
T ss_pred             cCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh----hccccceeehhhhhhhhcchhccchhhc---Cceee
Confidence            0000112677899999999999999999999999966655    3357999999999999999999999999   44887


Q ss_pred             EEE
Q 023143          276 IEY  278 (286)
Q Consensus       276 V~~  278 (286)
                      +.+
T Consensus       165 ~~~  167 (216)
T KOG0106|consen  165 VEK  167 (216)
T ss_pred             ecc
Confidence            743

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

Probab=99.70  E-value=2.5e-16  Score=122.08  Aligned_cols=82  Identities=17%  Similarity=0.269  Sum_probs=73.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...+++|||+|||++++|++|+++|++||.|.+|++..+..  ..++||||+|.+.++|.+|++.|++..|.   |+.|+
T Consensus        31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~---Gr~l~  107 (144)
T PLN03134         31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN---GRHIR  107 (144)
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            55678899999999999999999999999999999985532  23459999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus       108 V~~a~~~  114 (144)
T PLN03134        108 VNPANDR  114 (144)
T ss_pred             EEeCCcC
Confidence            9998654

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

Probab=99.69  E-value=2.8e-15  Score=129.89  Aligned_cols=215  Identities=17%  Similarity=0.215  Sum_probs=137.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhh-cCCCccEEEEEecCCCC-eeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFR-RKPGFDFCQLKYTGRGN-QVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~-~~G~i~~v~i~~~~~~~-~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.+||.|+|+++.|++|+++|. +.|+|+.|.++++..++ ++||.|+|+++|.+++|++.||..++.   ||+|.|.
T Consensus        43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~---GR~l~vK  119 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVN---GRELVVK  119 (608)
T ss_pred             ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhcccc---CceEEEe
Confidence            346699999999999999999996 67999999999775543 339999999999999999999999998   9999997


Q ss_pred             EeecCCCCCc----CCCCCC-------ceeccccccc---------------ccccccCCCCCCCCCCCCCCCCCCCCCC
Q 023143          112 LARSNSRKKR----KPGSGA-------YVVIDKRTKT---------------EANVQESSSADGDSDTDEASPVRNIDSA  165 (286)
Q Consensus       112 ~~~~~~~~~~----~~~~~~-------~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (286)
                      -.+.......    ....+.       ..-.......               .+......+...++...+......+   
T Consensus       120 Ed~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~l---  196 (608)
T KOG4212|consen  120 EDHDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNL---  196 (608)
T ss_pred             ccCchhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhc---
Confidence            4332110000    000000       0000000000               0000000000000000000000000   


Q ss_pred             CCCCCCCCCccccCCCCCCCCccccCCCCCC--CCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCC
Q 023143          166 DKGDFVTTQSERATDSGNAVAPINEQSEKPY--EGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGG  240 (286)
Q Consensus       166 ~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~  240 (286)
                                           .........+  .-..|-...+||.||...+....|++.|.--|.|+.+.+.-   +.+
T Consensus       197 ---------------------fgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKeG~s  255 (608)
T KOG4212|consen  197 ---------------------FGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKEGNS  255 (608)
T ss_pred             ---------------------ccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHhccceeeeeeceeecccccc
Confidence                                 0000000000  01123477899999999999999999999999999888755   667


Q ss_pred             ccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          241 MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       241 ~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ++||.++|..+-+|..||..+++-.+++.   +..+.+
T Consensus       256 ~G~~vi~y~hpveavqaIsml~~~g~~~~---~~~~Rl  290 (608)
T KOG4212|consen  256 RGFAVIEYDHPVEAVQAISMLDRQGLFDR---RMTVRL  290 (608)
T ss_pred             CCeeEEEecchHHHHHHHHhhccCCCccc---cceeec
Confidence            88999999999999999999998777655   444443

>PF00076 RRM_1: RNA recognition motif

Probab=99.66  E-value=5.4e-16  Score=105.30  Aligned_cols=69  Identities=29%  Similarity=0.474  Sum_probs=62.5

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec-CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT-GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~-~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      |||+|||.++|+++|+++|+.||.|..+++... .+..+++|||+|.+.++|.+|++.++|..+.   |+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~---~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKIN---GRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEEC---ccCcC
Confidence            799999999999999999999999999998864 4445569999999999999999999999998   88775

(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 ....

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

Probab=99.66  E-value=4.2e-16  Score=130.52  Aligned_cols=83  Identities=22%  Similarity=0.320  Sum_probs=77.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+--++|+|+|+|+...+.||+.+|++||.|.+|.|++..||.+||+||+|.+++||.+|.++|||..+.   ||+|.|.
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VE---GRkIEVn  169 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVE---GRKIEVN  169 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceee---ceEEEEe
Confidence            4445889999999999999999999999999999999999999999999999999999999999999999   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      .+....
T Consensus       170 ~ATarV  175 (376)
T KOG0125|consen  170 NATARV  175 (376)
T ss_pred             ccchhh
Confidence            887543

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

Probab=99.65  E-value=7.8e-16  Score=132.19  Aligned_cols=164  Identities=16%  Similarity=0.228  Sum_probs=121.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.+.|||++|+++++++.|++.|+.||+|.+|.+..+  ....++|+||+|.+++...+++..- -..|+   |+.+.+.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~-~h~~d---gr~ve~k   80 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNAR-THKLD---GRSVEPK   80 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeeccc-ccccC---Cccccce
Confidence            7889999999999999999999999999999988732  2233449999999999998888532 22344   6666666


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      -+.+.......                                                                     
T Consensus        81 ~av~r~~~~~~---------------------------------------------------------------------   91 (311)
T KOG4205|consen   81 RAVSREDQTKV---------------------------------------------------------------------   91 (311)
T ss_pred             eccCccccccc---------------------------------------------------------------------
Confidence            54432221111                                                                     


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                            ........+||+.||.++++++|++.|.+||.|..+.++.    .+.++|+||.|.+.++..+++.. ....|.
T Consensus        92 ------~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~-~f~~~~  164 (311)
T KOG4205|consen   92 ------GRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQ-KFHDFN  164 (311)
T ss_pred             ------ccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceeccc-ceeeec
Confidence                  0001377899999999999999999999999888887765    55678999999999998888754 444444


Q ss_pred             CCCCCcEEEEEec
Q 023143          268 SSDRGGMHIEYAR  280 (286)
Q Consensus       268 ~~~g~~l~V~~ak  280 (286)
                         ++.+.|.-|.
T Consensus       165 ---gk~vevkrA~  174 (311)
T KOG4205|consen  165 ---GKKVEVKRAI  174 (311)
T ss_pred             ---CceeeEeecc
Confidence               2255555443

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

Probab=99.65  E-value=1.2e-15  Score=141.55  Aligned_cols=75  Identities=27%  Similarity=0.406  Sum_probs=69.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcC--CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRK--PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~--G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||.++++++|+++|+.|  |.|..|++.   ++   ||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus       231 ~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~---rg---fAFVeF~s~e~A~kAi~~lnG~~i~---Gr~I~V  301 (578)
T TIGR01648       231 AKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI---RD---YAFVHFEDREDAVKAMDELNGKELE---GSEIEV  301 (578)
T ss_pred             ccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee---cC---eEEEEeCCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            346889999999999999999999999  999999876   55   9999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .|++..
T Consensus       302 ~~Akp~  307 (578)
T TIGR01648       302 TLAKPV  307 (578)
T ss_pred             EEccCC
Confidence            999754

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.

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.64  E-value=8.6e-14  Score=118.57  Aligned_cols=201  Identities=16%  Similarity=0.183  Sum_probs=143.6

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..++.+++|-+|.- .++.+.|.++|-.||.|+.|++..+..+   .|.|+..+....++|+..||+..+.   |.+|.|
T Consensus       284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~g---tamVemgd~~aver~v~hLnn~~lf---G~kl~v  357 (494)
T KOG1456|consen  284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPG---TAMVEMGDAYAVERAVTHLNNIPLF---GGKLNV  357 (494)
T ss_pred             CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccc---eeEEEcCcHHHHHHHHHHhccCccc---cceEEE
Confidence            45779999999995 4899999999999999999999855544   9999999999999999999999997   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .+++.+.-....    .+.-.|-.          .+...++.+.            .....+|..               
T Consensus       358 ~~SkQ~~v~~~~----pflLpDgS----------pSfKdys~Sk------------NnRFssp~q---------------  396 (494)
T KOG1456|consen  358 CVSKQNFVSPVQ----PFLLPDGS----------PSFKDYSGSK------------NNRFSSPEQ---------------  396 (494)
T ss_pred             eeccccccccCC----ceecCCCC----------cchhhccccc------------ccccCChhH---------------
Confidence            998754322111    01000000          0000000000            000000000               


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCC-ceEEEEeecCC--ccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPG-FNMLKMRARGG--MPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~-v~~v~~~~~~~--~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                         .......+|+++|..-|.|..+||+.|..||...+. ..+|++...++  ..-+.++|++.++|..||-.+|...|.
T Consensus       397 ---AsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~kserSssGllEfe~~s~Aveal~~~NH~pi~  473 (494)
T KOG1456|consen  397 ---ASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLKSERSSSGLLEFENKSDAVEALMKLNHYPIE  473 (494)
T ss_pred             ---hhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeecccccccccceeeeehHHHHHHHHHHhcccccc
Confidence               011223567999999999999999999999987663 34667766332  237999999999999999999999999


Q ss_pred             CCCCC---cEEEEEeccc
Q 023143          268 SSDRG---GMHIEYARSK  282 (286)
Q Consensus       268 ~~~g~---~l~V~~ak~~  282 (286)
                      +..|.   .|++.|+.++
T Consensus       474 ~p~gs~PfilKlcfsts~  491 (494)
T KOG1456|consen  474 GPNGSFPFILKLCFSTSK  491 (494)
T ss_pred             CCCCCCCeeeeeeecccc
Confidence            88555   6787777655

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

Probab=99.64  E-value=5.2e-16  Score=112.98  Aligned_cols=80  Identities=16%  Similarity=0.213  Sum_probs=70.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCee--EEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~--~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...++||||+||++.++|++|+++|+++|.|..|.+-++.-.+.+  ||||+|.+.++|..|++.++|..++   .++|+
T Consensus        33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLd---dr~ir  109 (153)
T KOG0121|consen   33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLD---DRPIR  109 (153)
T ss_pred             HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccc---cccee
Confidence            346899999999999999999999999999998877655333222  9999999999999999999999999   99999


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      +.|..
T Consensus       110 ~D~D~  114 (153)
T KOG0121|consen  110 IDWDA  114 (153)
T ss_pred             eeccc
Confidence            99864

>PF00076 RRM_1: RNA recognition motif

Probab=99.64  E-value=7.2e-16  Score=104.70  Aligned_cols=67  Identities=28%  Similarity=0.473  Sum_probs=61.3

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      |||+|||.++|+++|+++|++||.|..+++..   +..+++|||+|.+.++|.+|++.|||..+.++   .|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~---~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGR---KIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE---EEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECcc---CcC
Confidence            79999999999999999999999999999988   34567999999999999999999999999944   765

(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 ....

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.63  E-value=1.9e-15  Score=133.31  Aligned_cols=79  Identities=20%  Similarity=0.292  Sum_probs=72.4

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ....++|||+|||.++|+++|+++|+.||.|++|+++.    +++++||||+|.+.++|.+||+.|||..+.++   .|+
T Consensus       104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr---~i~  180 (346)
T TIGR01659       104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNK---RLK  180 (346)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCc---eee
Confidence            34589999999999999999999999999999999976    45678999999999999999999999999955   999


Q ss_pred             EEEecc
Q 023143          276 IEYARS  281 (286)
Q Consensus       276 V~~ak~  281 (286)
                      |+|++.
T Consensus       181 V~~a~p  186 (346)
T TIGR01659       181 VSYARP  186 (346)
T ss_pred             eecccc
Confidence            999875

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).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.62  E-value=5.4e-15  Score=132.18  Aligned_cols=81  Identities=19%  Similarity=0.237  Sum_probs=71.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..+++|||+|||+++++++|+++|++||.|.+|+|..+.  ...++||||+|.+.++|.+||+.|||..|.   ||.|+|
T Consensus       267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~---gr~i~V  343 (352)
T TIGR01661       267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLG---NRVLQV  343 (352)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEEC---CeEEEE
Confidence            344589999999999999999999999999999998542  233559999999999999999999999999   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .|....
T Consensus       344 ~~~~~~  349 (352)
T TIGR01661       344 SFKTNK  349 (352)
T ss_pred             EEccCC
Confidence            998654

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

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

Probab=99.61  E-value=7.9e-14  Score=121.02  Aligned_cols=74  Identities=16%  Similarity=0.136  Sum_probs=66.6

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +..++|||+|||.++|.+.|++-|..||.|.++.|+. +++  .+.|+|.++++|.+|+..|||..+.   |+.|+|+|.
T Consensus       534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~Gks--kGVVrF~s~edAEra~a~Mngs~l~---Gr~I~V~y~  608 (608)
T KOG4212|consen  534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKS--KGVVRFFSPEDAERACALMNGSRLD---GRNIKVTYF  608 (608)
T ss_pred             ccccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCc--cceEEecCHHHHHHHHHHhccCccc---CceeeeeeC
Confidence            4578999999999999999999999999999998855 444  4599999999999999999999999   669999984

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

Probab=99.60  E-value=3.6e-15  Score=114.52  Aligned_cols=78  Identities=23%  Similarity=0.363  Sum_probs=71.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      -++.|||+||+..+++.||...|+.||.|-.|.|-....+   ||||+|.++.+|..|+..|+|..|.   |..++|+++
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPG---fAFVEFed~RDA~DAvr~LDG~~~c---G~r~rVE~S   82 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPG---FAFVEFEDPRDAEDAVRYLDGKDIC---GSRIRVELS   82 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCC---ceEEeccCcccHHHHHhhcCCcccc---CceEEEEee
Confidence            4788999999999999999999999999999999855555   9999999999999999999999996   999999998


Q ss_pred             ecCC
Q 023143          114 RSNS  117 (286)
Q Consensus       114 ~~~~  117 (286)
                      ....
T Consensus        83 ~G~~   86 (195)
T KOG0107|consen   83 TGRP   86 (195)
T ss_pred             cCCc
Confidence            7543

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

Probab=99.59  E-value=8.2e-14  Score=118.41  Aligned_cols=80  Identities=24%  Similarity=0.403  Sum_probs=70.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEe--cCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~--~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .-++|||..+..+++|+||+.+|+.||+|..|++-.  +.++.++|+|++|.+..+-.+|+..||-..+.   |.-|+|.
T Consensus       209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLG---GQyLRVG  285 (544)
T KOG0124|consen  209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLG---GQYLRVG  285 (544)
T ss_pred             hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcc---cceEecc
Confidence            348899999999999999999999999999999873  45666779999999999999999999999997   8888887


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      -+.+.
T Consensus       286 k~vTP  290 (544)
T KOG0124|consen  286 KCVTP  290 (544)
T ss_pred             cccCC
Confidence            65543

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

Probab=99.58  E-value=7e-15  Score=118.66  Aligned_cols=78  Identities=18%  Similarity=0.278  Sum_probs=72.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ...+|-|.||+.+++|++|++||.+||.|.++.+.+    +.++|||||.|.+.++|++||+.|||..+..-   .|+|+
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~L---ILrvE  264 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNL---ILRVE  264 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceE---EEEEE
Confidence            377899999999999999999999999999999987    66889999999999999999999999999855   99999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      |+|.+
T Consensus       265 wskP~  269 (270)
T KOG0122|consen  265 WSKPS  269 (270)
T ss_pred             ecCCC
Confidence            99864

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.58  E-value=1.1e-14  Score=120.84  Aligned_cols=76  Identities=22%  Similarity=0.357  Sum_probs=68.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.|...+. .++||||+|.++++|..|+. |+|..|.   |+.|+|.++.
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~-~~GfAFVtF~d~eaAe~All-LnG~~l~---gr~V~Vt~a~   78 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE-RSQIAYVTFKDPQGAETALL-LSGATIV---DQSVTITPAE   78 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC-CCCEEEEEeCcHHHHHHHHH-hcCCeeC---CceEEEEecc
Confidence            68999999999999999999999999999999985532 34599999999999999995 9999998   9999999875


Q ss_pred             c
Q 023143          115 S  115 (286)
Q Consensus       115 ~  115 (286)
                      .
T Consensus        79 ~   79 (260)
T PLN03120         79 D   79 (260)
T ss_pred             C
Confidence            4

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.57  E-value=1.7e-14  Score=119.85  Aligned_cols=75  Identities=20%  Similarity=0.319  Sum_probs=68.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC-CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~-~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .++|||+||++.+|+++|+++|+.||.|.+|.|...+ .++||||+|.+.++|..|| .|||..|.   |+.|.|+++.+
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~Al-lLnG~~l~---gr~V~Vt~a~~   79 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL-LLSGATIV---DQSVTITPAED   79 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHH-HhcCCeeC---CceEEEEeccC
Confidence            6799999999999999999999999999999998854 5689999999999999999 59999999   44999999873

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

Probab=99.54  E-value=3.4e-14  Score=99.75  Aligned_cols=80  Identities=19%  Similarity=0.272  Sum_probs=71.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ..++.|||+|||+++|.++..++|.+||.|..|+|-.. ++-+|.|||.|.+..+|++|+..|+|..+.   ++.+.|.|
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~-k~TrGTAFVVYedi~dAk~A~dhlsg~n~~---~ryl~vly   91 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT-KETRGTAFVVYEDIFDAKKACDHLSGYNVD---NRYLVVLY   91 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCc-cCcCceEEEEehHhhhHHHHHHHhcccccC---CceEEEEe
Confidence            45788999999999999999999999999999998733 333559999999999999999999999998   99999999


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      ....
T Consensus        92 yq~~   95 (124)
T KOG0114|consen   92 YQPE   95 (124)
T ss_pred             cCHH
Confidence            8654

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

Probab=99.54  E-value=3.1e-14  Score=119.40  Aligned_cols=77  Identities=14%  Similarity=0.228  Sum_probs=70.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++|+|+|||+..-+-||+.+|++||.|.+|.|+-  ..+||||||+|++.+||++|-++|||..+.   ||+|.|.-|.
T Consensus        96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VE---GRkIEVn~AT  172 (376)
T KOG0125|consen   96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVE---GRKIEVNNAT  172 (376)
T ss_pred             CceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceee---ceEEEEeccc
Confidence            57799999999999999999999999999999887  447899999999999999999999999999   6699998875


Q ss_pred             cc
Q 023143          281 SK  282 (286)
Q Consensus       281 ~~  282 (286)
                      .+
T Consensus       173 ar  174 (376)
T KOG0125|consen  173 AR  174 (376)
T ss_pred             hh
Confidence            54

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

Probab=99.54  E-value=4.1e-14  Score=99.31  Aligned_cols=74  Identities=19%  Similarity=0.273  Sum_probs=67.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ++.|||+|||+.+|.|++.+||.+||.|.-+++-. ...+|.|||-|++..+|.+|++.|+|.-+.+.   -|.|-|-
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~r---yl~vlyy   92 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNR---YLVVLYY   92 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCc---eEEEEec
Confidence            89999999999999999999999999999998876 55678999999999999999999999999844   8888773

>PLN03213 repressor of silencing 3; Provisional

Probab=99.54  E-value=2.7e-14  Score=125.65  Aligned_cols=78  Identities=17%  Similarity=0.277  Sum_probs=72.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCH--HHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEV--EQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~--e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .+.+||||||+.++++++|+.+|+.||.|.+|.|++..+||||||+|.+.  .++.+||+.|||..+.   |+.|+|.-|
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWK---GR~LKVNKA   85 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWK---GGRLRLEKA   85 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeec---CceeEEeec
Confidence            47889999999999999999999999999999999977799999999987  7899999999999999   669999999


Q ss_pred             ccc
Q 023143          280 RSK  282 (286)
Q Consensus       280 k~~  282 (286)
                      |..
T Consensus        86 KP~   88 (759)
T PLN03213         86 KEH   88 (759)
T ss_pred             cHH
Confidence            865

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.52  E-value=9.1e-14  Score=94.47  Aligned_cols=69  Identities=29%  Similarity=0.475  Sum_probs=59.2

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      |||+|||+++++++|+++|+.||.|..+++.....+ .+++|||+|.++++|.+|++.++|..+.   |+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~---g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEID---GRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEEC---CEEcC
Confidence            799999999999999999999999999999855322 2449999999999999999999999998   88764

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 ....

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

Probab=99.51  E-value=6e-14  Score=107.85  Aligned_cols=79  Identities=22%  Similarity=0.354  Sum_probs=71.1

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      -.+.|||+||+..+++.||..+|..||.+..|-+-.. ..|||||+|+++.+|..|+..|+|..|-   |..|+|++++-
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-PPGfAFVEFed~RDA~DAvr~LDG~~~c---G~r~rVE~S~G   84 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-PPGFAFVEFEDPRDAEDAVRYLDGKDIC---GSRIRVELSTG   84 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-CCCceEEeccCcccHHHHHhhcCCcccc---CceEEEEeecC
Confidence            3788999999999999999999999999999988773 3479999999999999999999999999   44999999876


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      +.+
T Consensus        85 ~~r   87 (195)
T KOG0107|consen   85 RPR   87 (195)
T ss_pred             Ccc
Confidence            654

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

Probab=99.51  E-value=3.1e-13  Score=115.84  Aligned_cols=173  Identities=21%  Similarity=0.265  Sum_probs=119.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++|||+|||.++++++|+++|+.||.|..+.+..+.  ...++||||+|.+.++|..|++.++|..|.   |+.|.|.+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~---~~~~~v~~  191 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELE---GRPLRVQK  191 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeEC---CceeEeec
Confidence            6999999999999999999999999999888887543  233459999999999999999999999998   99999998


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      .......... ...       .    ..    ....       .                 ..                 
T Consensus       192 ~~~~~~~~~~-~~~-------~----~~----~~~~-------~-----------------~~-----------------  214 (306)
T COG0724         192 AQPASQPRSE-LSN-------N----LD----ASFA-------K-----------------KL-----------------  214 (306)
T ss_pred             cccccccccc-ccc-------c----cc----hhhh-------c-----------------cc-----------------
Confidence            7540000000 000       0    00    0000       0                 00                 


Q ss_pred             CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCC----ccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG----MPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~----~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .............+++.|++..++..++...|..+|.+....+.....    ..+.++.+.....+...+.........
T Consensus       215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  293 (306)
T COG0724         215 SRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSRGNKKKIL  293 (306)
T ss_pred             cccccccccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhccccceeec
Confidence            001112233588899999999999999999999999997777766322    123445555555555555554444433

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.50  E-value=6.4e-14  Score=95.21  Aligned_cols=64  Identities=25%  Similarity=0.425  Sum_probs=57.3

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC---CccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG---GMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~---~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      |||+|||.++++++|+++|+.||.|..+++...+   ++++|||+|.+.++|.+|++.++|..+.++
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~   67 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGR   67 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCE
Confidence            7999999999999999999999999999998853   467999999999999999999999999844

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 ....

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

Probab=99.50  E-value=1.8e-13  Score=111.50  Aligned_cols=78  Identities=21%  Similarity=0.330  Sum_probs=72.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ...++|.|.-||.++|+|||+.+|+..|+|++|++++    +.+.||+||.|.+++||++|+..|||..+..|   .|+|
T Consensus        39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~K---TIKV  115 (360)
T KOG0145|consen   39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNK---TIKV  115 (360)
T ss_pred             cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccc---eEEE
Confidence            3477888999999999999999999999999999998    55777999999999999999999999999977   9999


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      +|||.
T Consensus       116 SyARP  120 (360)
T KOG0145|consen  116 SYARP  120 (360)
T ss_pred             EeccC
Confidence            99985

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

Probab=99.48  E-value=1.1e-12  Score=115.67  Aligned_cols=160  Identities=15%  Similarity=0.167  Sum_probs=108.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ......|-+++||+.||++||.++|+.++ |+++.+........+=|||+|.+.+++++|++ .+-..+-   .|-|.|-
T Consensus         7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg---~RYIEVf   81 (510)
T KOG4211|consen    7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMG---HRYIEVF   81 (510)
T ss_pred             CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhC---CceEEEE
Confidence            34566789999999999999999999996 66655543212224499999999999999997 4555553   4444443


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                        ..+......      +                             +...                             
T Consensus        82 --~~~~~e~d~------~-----------------------------~~~~-----------------------------   95 (510)
T KOG4211|consen   82 --TAGGAEADW------V-----------------------------MRPG-----------------------------   95 (510)
T ss_pred             --ccCCccccc------c-----------------------------ccCC-----------------------------
Confidence              322111100      0                             0000                             


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                         .... .....+|-+++||++||++||.++|+-.-.|.. +.+..   .+..+=|||+|++.+.|++|+.. |-+.|+
T Consensus        96 ---g~~s-~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iG  170 (510)
T KOG4211|consen   96 ---GPNS-SANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIG  170 (510)
T ss_pred             ---CCCC-CCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhc
Confidence               0000 013567889999999999999999998877665 22222   44556899999999999999976 566666

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.48  E-value=2.6e-13  Score=111.00  Aligned_cols=76  Identities=17%  Similarity=0.234  Sum_probs=67.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ...+|||+||++.+|+++|+++|+.||.|..|+|..+++ ..++|||+|.++++|..|+ .|+|..|.   +++|.|...
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e-t~gfAfVtF~d~~aaetAl-lLnGa~l~---d~~I~It~~   78 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE-YACTAYVTFKDAYALETAV-LLSGATIV---DQRVCITRW   78 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC-cceEEEEEECCHHHHHHHH-hcCCCeeC---CceEEEEeC
Confidence            468999999999999999999999999999999995543 3459999999999999999 69999998   999998865


Q ss_pred             e
Q 023143          114 R  114 (286)
Q Consensus       114 ~  114 (286)
                      .
T Consensus        79 ~   79 (243)
T PLN03121         79 G   79 (243)
T ss_pred             c
Confidence            4

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

Probab=99.47  E-value=2.9e-13  Score=109.39  Aligned_cols=83  Identities=25%  Similarity=0.414  Sum_probs=72.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ..+++++|-|.|||.+++|++|.+||.+||.|..|.|..+...  .+|||||.|.+.++|.+||..|||.-++   .-.|
T Consensus       185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd---~LIL  261 (270)
T KOG0122|consen  185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYD---NLIL  261 (270)
T ss_pred             cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccc---eEEE
Confidence            4567889999999999999999999999999999988744222  2449999999999999999999999998   8899


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|+|++..
T Consensus       262 rvEwskP~  269 (270)
T KOG0122|consen  262 RVEWSKPS  269 (270)
T ss_pred             EEEecCCC
Confidence            99998753

>PLN03213 repressor of silencing 3; Provisional

Probab=99.46  E-value=2.3e-13  Score=119.86  Aligned_cols=79  Identities=22%  Similarity=0.374  Sum_probs=70.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCH--HHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNH--QTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~--~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .....+||||||++.+++++|+.+|+.||.|..|.|. +..+ ++||||+|.+.  .++.+||..|||..|.   |+.|+
T Consensus         7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp-RETG-RGFAFVEMssdddaEeeKAISaLNGAEWK---GR~LK   81 (759)
T PLN03213          7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV-RTKG-RSFAYIDFSPSSTNSLTKLFSTYNGCVWK---GGRLR   81 (759)
T ss_pred             CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe-cccC-CceEEEEecCCcHHHHHHHHHHhcCCeec---CceeE
Confidence            3456789999999999999999999999999999998 3333 67999999988  7899999999999999   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |+-++.
T Consensus        82 VNKAKP   87 (759)
T PLN03213         82 LEKAKE   87 (759)
T ss_pred             EeeccH
Confidence            998874

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

Probab=99.46  E-value=1.6e-13  Score=100.12  Aligned_cols=76  Identities=16%  Similarity=0.268  Sum_probs=67.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC----CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG----GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~----~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ..++||||+||.+.++||.|.+||++.|.|..|-|--++    .=|||||+|-+.++|..|+..+||..+.++   +|+|
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr---~ir~  110 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDR---PIRI  110 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccccc---ceee
Confidence            359999999999999999999999999999988764422    235999999999999999999999999977   9999


Q ss_pred             EEe
Q 023143          277 EYA  279 (286)
Q Consensus       277 ~~a  279 (286)
                      .|-
T Consensus       111 D~D  113 (153)
T KOG0121|consen  111 DWD  113 (153)
T ss_pred             ecc
Confidence            873

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=99.46  E-value=4.3e-13  Score=120.95  Aligned_cols=181  Identities=16%  Similarity=0.241  Sum_probs=128.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      -..+||+|||..+++++++++.+.||.+....+..+..  ++++|||.+|.++.....|+..|||..+.   ++.|.++.
T Consensus       289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lg---d~~lvvq~  365 (500)
T KOG0120|consen  289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG---DKKLVVQR  365 (500)
T ss_pred             cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhc---CceeEeeh
Confidence            35699999999999999999999999997777764333  56669999999999999999999999997   89999998


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      +..+.........             ...   .                    ...++  +.                  
T Consensus       366 A~~g~~~~~~~~~-------------~~~---~--------------------~~~~i--~~------------------  389 (500)
T KOG0120|consen  366 AIVGASNANVNFN-------------ISQ---S--------------------QVPGI--PL------------------  389 (500)
T ss_pred             hhccchhccccCC-------------ccc---c--------------------ccccc--hh------------------
Confidence            7654322111000             000   0                    00000  00                  


Q ss_pred             CCCCCCCCCCccEEEEccCCC--C-CCH-------HHHHHHHhcCCCceEEEEeec-------CCccEEEEEECCHHHHH
Q 023143          193 EKPYEGGVQPCSTLFIANLGP--N-CTE-------DELKQTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVEQAS  255 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~--~-~te-------~~L~~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e~A~  255 (286)
                       ........+..+|-+.|+=.  . ..+       |+++.-|++||.|..|.+.+.       .+.|..||+|.+.++++
T Consensus       390 -~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~q  468 (500)
T KOG0120|consen  390 -LMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQ  468 (500)
T ss_pred             -hhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHH
Confidence             00011122455555555431  0 011       566668899999999998763       35678999999999999


Q ss_pred             HHHHhcCCCccCCCCCCcEEEEE
Q 023143          256 IAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       256 ~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +|+++|+|.+|.++   ++..+|
T Consensus       469 rA~~~L~GrKF~nR---tVvtsY  488 (500)
T KOG0120|consen  469 RAMEELTGRKFANR---TVVASY  488 (500)
T ss_pred             HHHHHccCceeCCc---EEEEEe
Confidence            99999999999944   888887

>PF13893 RRM_5: RNA recognition motif

Probab=99.46  E-value=2.6e-13  Score=87.95  Aligned_cols=56  Identities=25%  Similarity=0.385  Sum_probs=51.0

Q ss_pred             HHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          220 LKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       220 L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      |+++|++||.|..+.+.... +++|||+|.+.++|.+|++.|||..+.   |+.|+|+||
T Consensus         1 L~~~f~~fG~V~~i~~~~~~-~~~a~V~f~~~~~A~~a~~~l~~~~~~---g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK-RGFAFVEFASVEDAQKAIEQLNGRQFN---GRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS-TTEEEEEESSHHHHHHHHHHHTTSEET---TEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC-CCEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEEC
Confidence            78999999999999998865 589999999999999999999999998   559999997

(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 ....

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.46  E-value=4.2e-13  Score=109.76  Aligned_cols=75  Identities=17%  Similarity=0.156  Sum_probs=67.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+.+|||+||++.+|+++|+++|+.||.|.+|+|++ +..++||||+|.++++|..|+ .|||..|.+.   .|.|+-+-
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~---~I~It~~~   79 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQ---RVCITRWG   79 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCc---eEEEEeCc
Confidence            478999999999999999999999999999999998 444569999999999999999 8999999955   88887643

>smart00362 RRM_2 RNA recognition motif

Probab=99.45  E-value=5.1e-13  Score=90.34  Aligned_cols=71  Identities=30%  Similarity=0.492  Sum_probs=62.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      +|||+|||..+++++|+++|+.||.|..+.+........++|||+|.+.++|.+|++.++|..+.   |+.+.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~---~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLG---GRPLRV   71 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEEC---CEEEee
Confidence            58999999999999999999999999998888443223449999999999999999999999997   888776

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

Probab=99.45  E-value=3e-13  Score=108.55  Aligned_cols=80  Identities=33%  Similarity=0.386  Sum_probs=73.0

Q ss_pred             CccEEEEccCCCCCCHHHHHH----HHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQ----TLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~----~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++.||||.||+..+..++|+.    +|++||.|..|...+ .+.+|-|||.|.+.+.|-.|+.+|+|+.+.|+   .++|
T Consensus         8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK---~mri   84 (221)
T KOG4206|consen    8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGK---PMRI   84 (221)
T ss_pred             CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCc---hhhe
Confidence            455999999999999999999    999999999888765 67789999999999999999999999999966   9999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+++..
T Consensus        85 qyA~s~sd   92 (221)
T KOG4206|consen   85 QYAKSDSD   92 (221)
T ss_pred             ecccCccc
Confidence            99998753

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

Probab=99.45  E-value=1.7e-13  Score=106.18  Aligned_cols=77  Identities=22%  Similarity=0.432  Sum_probs=70.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCC-ccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG-MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~-~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ..++|||+|||.++-+.||.+||.+||.|..|.|....+ .+||||+|+++.+|+.||..-+|..++   |+.|+|+|++
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdyd---g~rLRVEfpr   81 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYD---GCRLRVEFPR   81 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccC---cceEEEEecc
Confidence            478899999999999999999999999999999988443 469999999999999999999999998   8899999987


Q ss_pred             c
Q 023143          281 S  281 (286)
Q Consensus       281 ~  281 (286)
                      .
T Consensus        82 g   82 (241)
T KOG0105|consen   82 G   82 (241)
T ss_pred             C
Confidence            5

>smart00362 RRM_2 RNA recognition motif

Probab=99.44  E-value=5.7e-13  Score=90.08  Aligned_cols=70  Identities=33%  Similarity=0.524  Sum_probs=62.9

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC--CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG--GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~--~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +|||+|||..+++++|+++|++||.|..+.+....  ++++|||+|.+.++|.+|++.++|..+.   |+.|+|+
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~---~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLG---GRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEEC---CEEEeeC
Confidence            58999999999999999999999999999888743  5689999999999999999999999998   4477763

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

Probab=99.44  E-value=5.1e-13  Score=110.88  Aligned_cols=81  Identities=21%  Similarity=0.336  Sum_probs=72.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +++-+||||+-|+++++|++|+..|+.||+|..|+|+-+  ....++||||+|.++.+...|++..+|..|+   |+.|.
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id---grri~  174 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID---GRRIL  174 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec---CcEEE
Confidence            678899999999999999999999999999999999833  2223559999999999999999999999999   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |.+...
T Consensus       175 VDvERg  180 (335)
T KOG0113|consen  175 VDVERG  180 (335)
T ss_pred             EEeccc
Confidence            998764

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

Probab=99.43  E-value=2.9e-13  Score=117.86  Aligned_cols=77  Identities=27%  Similarity=0.472  Sum_probs=70.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..+.|||+||+.++||+.|+++|+.||.|+.|+..   |.   ||||+|.+.++|.+||+.+||++|.   |..|.|-++
T Consensus       258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~---rD---YaFVHf~eR~davkAm~~~ngkeld---G~~iEvtLA  328 (506)
T KOG0117|consen  258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP---RD---YAFVHFAEREDAVKAMKETNGKELD---GSPIEVTLA  328 (506)
T ss_pred             heeeeeeeccchhhhHHHHHHHHHhccceEEeecc---cc---eeEEeecchHHHHHHHHHhcCceec---CceEEEEec
Confidence            45889999999999999999999999999999877   66   9999999999999999999999999   999999999


Q ss_pred             ecCCCC
Q 023143          114 RSNSRK  119 (286)
Q Consensus       114 ~~~~~~  119 (286)
                      +...+.
T Consensus       329 KP~~k~  334 (506)
T KOG0117|consen  329 KPVDKK  334 (506)
T ss_pred             CChhhh
Confidence            865433

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

Probab=99.42  E-value=2.1e-13  Score=107.57  Aligned_cols=75  Identities=20%  Similarity=0.344  Sum_probs=70.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      -.+|.|-||-.-++.++|+.+|++||.|-+|.|..    ..++|||||.|....+|+.|+++|+|..+.   |+.|.|++
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ld---gRelrVq~   89 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLD---GRELRVQM   89 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeec---cceeeehh
Confidence            67899999999999999999999999999999987    667899999999999999999999999999   55999999


Q ss_pred             ec
Q 023143          279 AR  280 (286)
Q Consensus       279 ak  280 (286)
                      |+
T Consensus        90 ar   91 (256)
T KOG4207|consen   90 AR   91 (256)
T ss_pred             hh
Confidence            87

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

Probab=99.39  E-value=6.4e-13  Score=104.82  Aligned_cols=83  Identities=22%  Similarity=0.361  Sum_probs=73.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      |+-+...+|-|-||-+.++.++|+.+|++||.|..|.|..+  .+..++||||.|....+|+.|++.|+|..|+   |+.
T Consensus         8 Pdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ld---gRe   84 (256)
T KOG4207|consen    8 PDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLD---GRE   84 (256)
T ss_pred             CCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeec---cce
Confidence            44566788999999999999999999999999999988743  2334459999999999999999999999999   999


Q ss_pred             EEEEEeec
Q 023143          108 LHIELARS  115 (286)
Q Consensus       108 l~v~~~~~  115 (286)
                      |+|++++-
T Consensus        85 lrVq~ary   92 (256)
T KOG4207|consen   85 LRVQMARY   92 (256)
T ss_pred             eeehhhhc
Confidence            99999874

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=99.37  E-value=4.2e-12  Score=86.24  Aligned_cols=71  Identities=30%  Similarity=0.533  Sum_probs=64.3

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC---CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG---GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~---~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +|+|+|||..+++++|+++|+.||.|..+.+....   .+++|||+|.+.++|..|++.++|..+.   |+.++|+|
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~---~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELG---GRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEeC
Confidence            48999999999999999999999999999998843   3689999999999999999999999998   44888865

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).

>smart00360 RRM RNA recognition motif

Probab=99.37  E-value=3e-12  Score=86.15  Aligned_cols=67  Identities=27%  Similarity=0.470  Sum_probs=60.1

Q ss_pred             EccCCCCCCHHHHHHHHhcCCCceEEEEeecC----CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          208 IANLGPNCTEDELKQTLSVYPGFNMLKMRARG----GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       208 v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~----~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      |+|||..+++++|+++|++||.|..+.+....    ++++|||+|.+.++|..|++.|+|..+.+   +.|+|+
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~---~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDG---RPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCC---cEEEeC
Confidence            68999999999999999999999999988744    36899999999999999999999999984   487763

>PF13893 RRM_5: RNA recognition motif

Probab=99.37  E-value=3e-12  Score=82.92  Aligned_cols=56  Identities=29%  Similarity=0.463  Sum_probs=49.5

Q ss_pred             HHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           52 IHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        52 L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      |+++|++||.|..+.+....++   +|||+|.+.++|..|++.|||..+.   |++|+|+|+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~~~---~a~V~f~~~~~A~~a~~~l~~~~~~---g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKKRG---FAFVEFASVEDAQKAIEQLNGRQFN---GRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTSTT---EEEEEESSHHHHHHHHHHHTTSEET---TEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCCCC---EEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEEC
Confidence            7899999999999988733324   9999999999999999999999998   999999986

(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 ....

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=99.36  E-value=6.3e-12  Score=85.37  Aligned_cols=73  Identities=30%  Similarity=0.496  Sum_probs=64.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +|+|+|||..+++++|+++|+.||.|..+.+..... ...++|||+|.+.++|..|++.+++..+.   |+.+.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~---~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELG---GRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEeC
Confidence            589999999999999999999999999988884432 12449999999999999999999999998   99988864

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).

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

Probab=99.35  E-value=7.1e-13  Score=105.49  Aligned_cols=79  Identities=20%  Similarity=0.363  Sum_probs=73.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..+||||++|...++|.-|...|-+||.|..++++-    .+.++||||+|+..|+|.+||..||+.++.   |+.|+|.
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~---GrtirVN   85 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELF---GRTIRVN   85 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhc---ceeEEEe
Confidence            378999999999999999999999999999999875    677899999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |||...
T Consensus        86 ~AkP~k   91 (298)
T KOG0111|consen   86 LAKPEK   91 (298)
T ss_pred             ecCCcc
Confidence            998643

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

Probab=99.34  E-value=2.9e-12  Score=94.41  Aligned_cols=75  Identities=13%  Similarity=0.305  Sum_probs=68.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +=.|||.++...+||++|.+.|..||.|+.+.+--    +..+|||+|+|++.++|++|+++|||..+-   |..|.|.|
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll---~q~v~VDw  148 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELL---GQNVSVDW  148 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhh---CCceeEEE
Confidence            67899999999999999999999999999888743    667889999999999999999999999999   44999999


Q ss_pred             ec
Q 023143          279 AR  280 (286)
Q Consensus       279 ak  280 (286)
                      +=
T Consensus       149 ~F  150 (170)
T KOG0130|consen  149 CF  150 (170)
T ss_pred             EE
Confidence            73

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

Probab=99.32  E-value=2.9e-12  Score=103.24  Aligned_cols=76  Identities=20%  Similarity=0.256  Sum_probs=63.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..|||+||++.++.+.|++.|++||+|+++.++-+  ....++|+||+|.+.++|.+|++.-+-. |+   ||+-.+.++
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~pi-Id---GR~aNcnlA   88 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPI-ID---GRKANCNLA   88 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCc-cc---ccccccchh
Confidence            56999999999999999999999999999888732  2223559999999999999999865544 55   888888877


Q ss_pred             ec
Q 023143          114 RS  115 (286)
Q Consensus       114 ~~  115 (286)
                      ..
T Consensus        89 ~l   90 (247)
T KOG0149|consen   89 SL   90 (247)
T ss_pred             hh
Confidence            65

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

Probab=99.32  E-value=5.8e-12  Score=113.04  Aligned_cols=78  Identities=23%  Similarity=0.426  Sum_probs=71.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++|||||+|+++++++|.++|+..|.|.++++..++.+  .+||||++|.+.++|..|++.|||.++.   ||+|+|.|+
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~---gr~l~v~~~   95 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFN---GRKLRVNYA   95 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccC---CceEEeecc
Confidence            89999999999999999999999999999999966443  3449999999999999999999999998   999999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus        96 ~~~   98 (435)
T KOG0108|consen   96 SNR   98 (435)
T ss_pred             ccc
Confidence            654

>smart00360 RRM RNA recognition motif

Probab=99.30  E-value=1.2e-11  Score=83.13  Aligned_cols=69  Identities=30%  Similarity=0.469  Sum_probs=60.0

Q ss_pred             EcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           40 VSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        40 V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      |+|||..+++++|+++|+.||.|..+.+.....  ..+++|||+|.+.++|.+|++.+++..+.   |+.++|+
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~---~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELD---GRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeC---CcEEEeC
Confidence            689999999999999999999999998885432  22349999999999999999999999997   8888763

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=99.30  E-value=3.6e-12  Score=119.53  Aligned_cols=161  Identities=19%  Similarity=0.303  Sum_probs=133.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||++||+..+++.+|+..|+.+|.|.+|.|+....+ ...||||.|.+...+-.|...+.+..|-   ...+++
T Consensus       369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~---~g~~r~  445 (975)
T KOG0112|consen  369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIG---NGTHRI  445 (975)
T ss_pred             hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccc---cCcccc
Confidence            446799999999999999999999999999999999843222 2229999999999999999888888883   222222


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      .+...      +                                                                    
T Consensus       446 glG~~------k--------------------------------------------------------------------  451 (975)
T KOG0112|consen  446 GLGQP------K--------------------------------------------------------------------  451 (975)
T ss_pred             ccccc------c--------------------------------------------------------------------
Confidence            22110      0                                                                    


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                               ..+++.+++++|..-+....|...|..||.|..+.+..+.  .||+|.|+++..|+.|+..|-|+.+++- 
T Consensus       452 ---------st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq--~yayi~yes~~~aq~a~~~~rgap~G~P-  519 (975)
T KOG0112|consen  452 ---------STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ--PYAYIQYESPPAAQAATHDMRGAPLGGP-  519 (975)
T ss_pred             ---------cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC--cceeeecccCccchhhHHHHhcCcCCCC-
Confidence                     1147889999999999999999999999999998888877  8999999999999999999999999865 


Q ss_pred             CCcEEEEEecc
Q 023143          271 RGGMHIEYARS  281 (286)
Q Consensus       271 g~~l~V~~ak~  281 (286)
                      -+.++|.||..
T Consensus       520 ~~r~rvdla~~  530 (975)
T KOG0112|consen  520 PRRLRVDLASP  530 (975)
T ss_pred             CcccccccccC
Confidence            55799999875

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

Probab=99.30  E-value=2.3e-12  Score=102.55  Aligned_cols=85  Identities=26%  Similarity=0.407  Sum_probs=74.8

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      +..+..-+||||++|-.+++|..|...|-+||.|..|++.++  ....++||||+|...|+|..||..||+.+|.   ||
T Consensus         4 ~~~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~---Gr   80 (298)
T KOG0111|consen    4 QQMANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELF---GR   80 (298)
T ss_pred             ccccccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhc---ce
Confidence            344567899999999999999999999999999999998854  2333449999999999999999999999998   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      .|+|.+++..
T Consensus        81 tirVN~AkP~   90 (298)
T KOG0111|consen   81 TIRVNLAKPE   90 (298)
T ss_pred             eEEEeecCCc
Confidence            9999999864

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

Probab=99.29  E-value=8.7e-12  Score=111.93  Aligned_cols=78  Identities=18%  Similarity=0.294  Sum_probs=72.8

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +++||||+|+++++++|.++|+..|.|.++++..    ++.+||||++|.+.++|.+|++.|||.++.   |++|+|.|+
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~---gr~l~v~~~   95 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFN---GRKLRVNYA   95 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccC---CceEEeecc
Confidence            8999999999999999999999999999999987    677889999999999999999999999999   669999998


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      .....
T Consensus        96 ~~~~~  100 (435)
T KOG0108|consen   96 SNRKN  100 (435)
T ss_pred             cccch
Confidence            76554

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

Probab=99.29  E-value=2.7e-11  Score=100.73  Aligned_cols=80  Identities=18%  Similarity=0.343  Sum_probs=73.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .|=+||||+-|+..++|.+|+..|+.||.|+.++|+.    ++++|||||+|++..+-..|.+..+|..|.   |+.|.|
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id---grri~V  175 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID---GRRILV  175 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec---CcEEEE
Confidence            3689999999999999999999999999999999987    778999999999999999999999999999   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      .+=+.+-
T Consensus       176 DvERgRT  182 (335)
T KOG0113|consen  176 DVERGRT  182 (335)
T ss_pred             Eeccccc
Confidence            8866543

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

Probab=99.28  E-value=4.2e-13  Score=103.81  Aligned_cols=73  Identities=15%  Similarity=0.240  Sum_probs=68.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +-.|||+|||...||.||.-.|++||+|..|-+++    ++++||||+.|++..+..-|+..|||..|.   |+.|+|.-
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~---gRtirVDH  111 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKIL---GRTIRVDH  111 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceec---ceeEEeee
Confidence            78899999999999999999999999999999988    778999999999999999999999999999   55999875

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

Probab=99.28  E-value=8.1e-12  Score=100.73  Aligned_cols=65  Identities=12%  Similarity=0.215  Sum_probs=58.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .-+.|||++|++.+..|+|++.|++||+|.++.++.    +++||||||+|.+.++|.+|++..| -.|+
T Consensus        11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piId   79 (247)
T KOG0149|consen   11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIID   79 (247)
T ss_pred             eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Cccc
Confidence            367899999999999999999999999999998887    7789999999999999999998854 3455

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

Probab=99.26  E-value=2.3e-11  Score=104.17  Aligned_cols=75  Identities=25%  Similarity=0.404  Sum_probs=69.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..+|||+|||..+++++|+++|..||.|..+.+..    +.++|||||+|.+.++|..|++.++|..+.+   +.|+|.+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~---~~~~v~~  191 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEG---RPLRVQK  191 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECC---ceeEeec
Confidence            69999999999999999999999999999888866    5678899999999999999999999999994   4999999


Q ss_pred             ec
Q 023143          279 AR  280 (286)
Q Consensus       279 ak  280 (286)
                      +.
T Consensus       192 ~~  193 (306)
T COG0724         192 AQ  193 (306)
T ss_pred             cc
Confidence            64

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

Probab=99.24  E-value=1.7e-11  Score=113.35  Aligned_cols=75  Identities=19%  Similarity=0.316  Sum_probs=71.6

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      ++||||+.|+.+++|.||.++|+.||.|.+|.++..+  +||||.+....+|.+|+.+|++..+.++   .|+|.||..+
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R--~cAfI~M~~RqdA~kalqkl~n~kv~~k---~Iki~Wa~g~  495 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR--GCAFIKMVRRQDAEKALQKLSNVKVADK---TIKIAWAVGK  495 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC--ceeEEEEeehhHHHHHHHHHhcccccce---eeEEeeeccC
Confidence            8999999999999999999999999999999999887  9999999999999999999999999966   9999999765

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=99.23  E-value=4.2e-11  Score=95.72  Aligned_cols=82  Identities=27%  Similarity=0.430  Sum_probs=73.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCC----ccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGG----MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~----~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      -+||||.+||.++---||+.+|+.|-+.+.+.+.. +++    +.+|||.|.+.++|.+|+.+|||..|+-..+..|+|+
T Consensus        34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE  113 (284)
T KOG1457|consen   34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE  113 (284)
T ss_pred             cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence            79999999999999999999999999998877765 332    3699999999999999999999999988878899999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      +||++-+
T Consensus       114 lAKSNtK  120 (284)
T KOG1457|consen  114 LAKSNTK  120 (284)
T ss_pred             ehhcCcc
Confidence            9998753

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

Probab=99.23  E-value=3.3e-11  Score=108.13  Aligned_cols=177  Identities=20%  Similarity=0.183  Sum_probs=115.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ....++|||-|||..+++++|+.+|+.||+|..|+.-...++   .+||+|.+..+|++|++.|+++++.   |+.+.  
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~---~~~v~FyDvR~A~~Alk~l~~~~~~---~~~~k--  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRG---IVFVEFYDVRDAERALKALNRREIA---GKRIK--  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCc---eEEEEEeehHhHHHHHHHHHHHHhh---hhhhc--
Confidence            456789999999999999999999999999998877755555   9999999999999999999999998   77766  


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                        +... ..+.                ..........            ...               ..+....+..+  
T Consensus       144 --~~~~-~~~~----------------~~~~~~~~~~------------~~~---------------~~p~a~s~pgg--  175 (549)
T KOG4660|consen  144 --RPGG-ARRA----------------MGLQSGTSFL------------NHF---------------GSPLANSPPGG--  175 (549)
T ss_pred             --CCCc-cccc----------------chhcccchhh------------hhc---------------cchhhcCCCCC--
Confidence              1100 0000                0000000000            000               00000000000  


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                              . +-..+|+ .|++..+..-++.+|.-+|.+.. +...-. ...-|+.|.+..++..+...+ |+.+.++  
T Consensus       176 --------~-~~~~~~g-~l~P~~s~~~~~~~~~~~~~~~~-~~~~~~-~hq~~~~~~~~~s~a~~~~~~-G~~~s~~--  240 (549)
T KOG4660|consen  176 --------W-PRGQLFG-MLSPTRSSILLEHISSVDGSSPG-RETPLL-NHQRFVEFADNRSYAFSEPRG-GFLISNS--  240 (549)
T ss_pred             --------C-cCCccee-eeccchhhhhhhcchhccCcccc-ccccch-hhhhhhhhccccchhhcccCC-ceecCCC--
Confidence                    0 0122333 49999888888889999998876 333311 136789999999997777755 7777755  


Q ss_pred             CcEEEEEec
Q 023143          272 GGMHIEYAR  280 (286)
Q Consensus       272 ~~l~V~~ak  280 (286)
                       ..-++|+.
T Consensus       241 -~~v~t~S~  248 (549)
T KOG4660|consen  241 -SGVITFSG  248 (549)
T ss_pred             -CceEEecC
Confidence             45555543

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=99.22  E-value=6.2e-11  Score=107.18  Aligned_cols=185  Identities=18%  Similarity=0.274  Sum_probs=131.8

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcC-----------CC-ccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHH
Q 023143           27 HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRK-----------PG-FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE   94 (286)
Q Consensus        27 ~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~-----------G~-i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~   94 (286)
                      -+......++.++|+++|..++++..-.+|..-           |+ |..+.+.. -++   |||++|.+.+.|..|+. 
T Consensus       167 ~~~~~t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~-~~n---fa~ie~~s~~~at~~~~-  241 (500)
T KOG0120|consen  167 MDSQATRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNL-EKN---FAFIEFRSISEATEAMA-  241 (500)
T ss_pred             cCcchhhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeecc-ccc---ceeEEecCCCchhhhhc-
Confidence            334446677889999999999999999888754           33 56666652 234   99999999999999985 


Q ss_pred             hCCCccCCCCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 023143           95 LNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQ  174 (286)
Q Consensus        95 l~g~~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  174 (286)
                      +++..+.   |.++++.-.......  . ......   .   .      .....      ...                 
T Consensus       242 ~~~~~f~---g~~~~~~r~~d~~~~--p-~~~~~~---~---~------~~~~~------~~~-----------------  280 (500)
T KOG0120|consen  242 LDGIIFE---GRPLKIRRPHDYQPV--P-GITLSP---S---Q------LGKVG------LLP-----------------  280 (500)
T ss_pred             ccchhhC---CCCceecccccccCC--c-cchhhh---c---c------ccccC------Ccc-----------------
Confidence            7888787   888887643321110  0 000000   0   0      00000      000                 


Q ss_pred             ccccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECC
Q 023143          175 SERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEE  250 (286)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~  250 (286)
                                          ......-....+||+|||..+++..++++.+.||.+....+..    +.+++|||.+|-+
T Consensus       281 --------------------~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~d  340 (500)
T KOG0120|consen  281 --------------------ASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCD  340 (500)
T ss_pred             --------------------cccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeC
Confidence                                0000011266799999999999999999999999998877766    5788999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          251 VEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       251 ~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ...+..|+..|||..++++   .|.|+.|=
T Consensus       341 psvtd~A~agLnGm~lgd~---~lvvq~A~  367 (500)
T KOG0120|consen  341 PSVTDQAIAGLNGMQLGDK---KLVVQRAI  367 (500)
T ss_pred             CcchhhhhcccchhhhcCc---eeEeehhh
Confidence            9999999999999999966   99998764

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

Probab=99.20  E-value=5.1e-11  Score=87.87  Aligned_cols=83  Identities=19%  Similarity=0.286  Sum_probs=74.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.+.=.|||.|+....+|++|.+.|..||+|.++.+.++.|.  -++||+|+|.+.++|.+|+..+||..|.   |.++.
T Consensus        69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll---~q~v~  145 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELL---GQNVS  145 (170)
T ss_pred             ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhh---CCcee
Confidence            556778999999999999999999999999999999876544  3459999999999999999999999999   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |.|+-...
T Consensus       146 VDw~Fv~g  153 (170)
T KOG0130|consen  146 VDWCFVKG  153 (170)
T ss_pred             EEEEEecC
Confidence            99986543

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

Probab=99.18  E-value=2.8e-11  Score=100.35  Aligned_cols=77  Identities=22%  Similarity=0.407  Sum_probs=72.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +..+.+|+|+|+.+.|+.++|++.|++||.|.+|.|.   ++   |+||.|...++|..|++.||+.++.   |++|+|+
T Consensus        75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv---kd---y~fvh~d~~eda~~air~l~~~~~~---gk~m~vq  145 (346)
T KOG0109|consen   75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV---KD---YAFVHFDRAEDAVEAIRGLDNTEFQ---GKRMHVQ  145 (346)
T ss_pred             CCCccccccCCCCccccCHHHhhhhcccCCceeeeee---cc---eeEEEEeeccchHHHHhcccccccc---cceeeee
Confidence            4467889999999999999999999999999999999   67   9999999999999999999999999   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      ++.+..
T Consensus       146 ~stsrl  151 (346)
T KOG0109|consen  146 LSTSRL  151 (346)
T ss_pred             eecccc
Confidence            987653

>smart00361 RRM_1 RNA recognition motif

Probab=99.16  E-value=1.1e-10  Score=79.25  Aligned_cols=58  Identities=14%  Similarity=0.245  Sum_probs=48.7

Q ss_pred             HHHHHHHHh----cCCCceEEE-E-ee-----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          217 EDELKQTLS----VYPGFNMLK-M-RA-----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       217 e~~L~~~F~----~~G~v~~v~-~-~~-----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +++|+++|+    .||.|.++. + +.     +.++|||||+|.+.++|.+|+..|||..+.   |+.|+++
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~---gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFD---GRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEeC
Confidence            578888888    999999885 3 32     446889999999999999999999999999   4487753

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

Probab=99.15  E-value=9.2e-11  Score=108.66  Aligned_cols=76  Identities=32%  Similarity=0.455  Sum_probs=70.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      =++||||++|+..++|.||.++|+.||+|.+|.++ ..++   ||||...+..+|.+|+.+|....+.   ++.|+|.|+
T Consensus       420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li-~~R~---cAfI~M~~RqdA~kalqkl~n~kv~---~k~Iki~Wa  492 (894)
T KOG0132|consen  420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILI-PPRG---CAFIKMVRRQDAEKALQKLSNVKVA---DKTIKIAWA  492 (894)
T ss_pred             eeeeeeeccccchhhHHHHHHHHHhcccceeEeec-cCCc---eeEEEEeehhHHHHHHHHHhccccc---ceeeEEeee
Confidence            45999999999999999999999999999999888 4455   9999999999999999999999998   999999999


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus       493 ~g~  495 (894)
T KOG0132|consen  493 VGK  495 (894)
T ss_pred             ccC
Confidence            754

>smart00361 RRM_1 RNA recognition motif

Probab=99.14  E-value=2.2e-10  Score=77.65  Aligned_cols=59  Identities=19%  Similarity=0.257  Sum_probs=50.0

Q ss_pred             HHHHHHHhh----cCCCccEEE-EEecC----CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           49 AREIHNLFR----RKPGFDFCQ-LKYTG----RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        49 e~~L~~~F~----~~G~i~~v~-i~~~~----~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      +++|+++|+    .||.|.+|. +.+..    ...++||||+|.+.++|.+|++.|||..+.   |+.|++
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~---gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFD---GRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEe
Confidence            678888888    999999885 55443    334669999999999999999999999998   998875

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

Probab=99.11  E-value=1e-10  Score=95.88  Aligned_cols=83  Identities=23%  Similarity=0.314  Sum_probs=73.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCee--EEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~--~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      .+.+.++|||=.||.+..+.||-.+|-+||.|.+.++.+++-.++.  |+||.|.|+.+|..||..|||..|.   =+.|
T Consensus       281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIG---MKRL  357 (371)
T KOG0146|consen  281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIG---MKRL  357 (371)
T ss_pred             cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhh---hhhh
Confidence            4789999999999999999999999999999999999876544444  9999999999999999999999996   6888


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|+.-+.+
T Consensus       358 KVQLKRPk  365 (371)
T KOG0146|consen  358 KVQLKRPK  365 (371)
T ss_pred             hhhhcCcc
Confidence            88865543

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

Probab=99.11  E-value=1.2e-10  Score=90.41  Aligned_cols=75  Identities=21%  Similarity=0.232  Sum_probs=69.0

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..||||+||+..++++-|+++|-+.|.|..+++.+    +..+|||||+|.+.|+|+=|+..||+..+.+   ++|+|.-
T Consensus         9 d~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYg---rpIrv~k   85 (203)
T KOG0131|consen    9 DATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYG---RPIRVNK   85 (203)
T ss_pred             CceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcC---ceeEEEe
Confidence            67899999999999999999999999999999987    4467899999999999999999999999994   4999987


Q ss_pred             ec
Q 023143          279 AR  280 (286)
Q Consensus       279 ak  280 (286)
                      +-
T Consensus        86 as   87 (203)
T KOG0131|consen   86 AS   87 (203)
T ss_pred             cc
Confidence            65

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

Probab=99.11  E-value=1.1e-11  Score=96.05  Aligned_cols=78  Identities=18%  Similarity=0.362  Sum_probs=69.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++.-|||+|||+++||.||.-+||.||+|..|.++.+.+  ..+||||..|.+.++-..|+..|||..|.   ||.|+|.
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~---gRtirVD  110 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKIL---GRTIRVD  110 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceec---ceeEEee
Confidence            567899999999999999999999999999998884422  23459999999999999999999999999   9999998


Q ss_pred             Eee
Q 023143          112 LAR  114 (286)
Q Consensus       112 ~~~  114 (286)
                      -..
T Consensus       111 Hv~  113 (219)
T KOG0126|consen  111 HVS  113 (219)
T ss_pred             ecc
Confidence            543

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

Probab=99.11  E-value=1.9e-10  Score=97.61  Aligned_cols=75  Identities=21%  Similarity=0.343  Sum_probs=67.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhc-CCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL-QDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~l-ng~~~~~~~g~~l~V~~ak  280 (286)
                      ..++|||+||...++|.+|++.|.+||+|..+.+...+  +||||+|.+.++|..|.++. |...|.   |.+|+|.|++
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~--~CAFv~ftTR~aAE~Aae~~~n~lvI~---G~Rl~i~Wg~  301 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK--GCAFVTFTTREAAEKAAEKSFNKLVIN---GFRLKIKWGR  301 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc--ccceeeehhhHHHHHHHHhhcceeeec---ceEEEEEeCC
Confidence            48999999999999999999999999999999999877  79999999999999988775 544445   7799999998


Q ss_pred             c
Q 023143          281 S  281 (286)
Q Consensus       281 ~  281 (286)
                      .
T Consensus       302 ~  302 (377)
T KOG0153|consen  302 P  302 (377)
T ss_pred             C
Confidence            8

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=99.09  E-value=3.5e-09  Score=94.51  Aligned_cols=160  Identities=14%  Similarity=0.222  Sum_probs=109.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec----------CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT----------GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~----------~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      =++.|||++||.+++|+.|...|..||.+   .+.+.          .++.-+|+|..|.++.+...=+..+.   ..  
T Consensus       258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~---~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~---~~--  329 (520)
T KOG0129|consen  258 YSRKVFVGGLPWDITEAQINASFGQFGSV---KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS---EG--  329 (520)
T ss_pred             cccceeecCCCccccHHHHHhhcccccce---EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh---hc--
Confidence            45889999999999999999999999986   22211          23333499999999988766655433   23  


Q ss_pred             CCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCC
Q 023143          104 SGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGN  183 (286)
Q Consensus       104 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~  183 (286)
                       ...+.+.+.......+.     ..+   .-|...+.     ...             +                     
T Consensus       330 -~~~~yf~vss~~~k~k~-----VQI---rPW~laDs-----~fv-------------~---------------------  361 (520)
T KOG0129|consen  330 -EGNYYFKVSSPTIKDKE-----VQI---RPWVLADS-----DFV-------------L---------------------  361 (520)
T ss_pred             -ccceEEEEecCcccccc-----eeE---EeeEeccc-----hhh-------------h---------------------
Confidence             55555655443222110     000   00000000     000             0                     


Q ss_pred             CCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHh-cCCCceEEEEee----cCCccEEEEEECCHHHHHHHH
Q 023143          184 AVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLS-VYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAM  258 (286)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~-~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al  258 (286)
                                 .......+.+||||+.||--++.++|..||+ .||.|..|-|-.    +.-+|-|=|.|.+.++=.+||
T Consensus       362 -----------d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AI  430 (520)
T KOG0129|consen  362 -----------DHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAI  430 (520)
T ss_pred             -----------ccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHH
Confidence                       0111134699999999999999999999999 899999888866    456788999999999999999


Q ss_pred             Hh
Q 023143          259 EG  260 (286)
Q Consensus       259 ~~  260 (286)
                      ++
T Consensus       431 sa  432 (520)
T KOG0129|consen  431 SA  432 (520)
T ss_pred             hh
Confidence            87

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

Probab=99.06  E-value=4.1e-10  Score=95.65  Aligned_cols=78  Identities=28%  Similarity=0.488  Sum_probs=67.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHH-hCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE-LNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~-l~g~~~~~~~g~~l~  109 (286)
                      .....++|||+||-..++|.+|++.|.+||+|.++++. ..++   ||||+|.+.++|+.|.+. ++...|.   |+.|.
T Consensus       224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~-~~~~---CAFv~ftTR~aAE~Aae~~~n~lvI~---G~Rl~  296 (377)
T KOG0153|consen  224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRIL-PRKG---CAFVTFTTREAAEKAAEKSFNKLVIN---GFRLK  296 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEee-cccc---cceeeehhhHHHHHHHHhhcceeeec---ceEEE
Confidence            34557999999999999999999999999999999888 4444   999999999999999975 4556666   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |.|.+.
T Consensus       297 i~Wg~~  302 (377)
T KOG0153|consen  297 IKWGRP  302 (377)
T ss_pred             EEeCCC
Confidence            999987

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

Probab=99.04  E-value=3.5e-10  Score=96.23  Aligned_cols=81  Identities=20%  Similarity=0.374  Sum_probs=73.5

Q ss_pred             CCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      ...||-.+|||--|.+-+|.++|.-||+.||.|..|.+++.    .+..||||+|++.+++.+|.=.|++.-|.++   .
T Consensus       234 d~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDr---R  310 (479)
T KOG0415|consen  234 DVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDR---R  310 (479)
T ss_pred             ccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccc---e
Confidence            44578999999999999999999999999999999999983    3445999999999999999999999999977   9


Q ss_pred             EEEEEecc
Q 023143          274 MHIEYARS  281 (286)
Q Consensus       274 l~V~~ak~  281 (286)
                      |+|.|+.+
T Consensus       311 IHVDFSQS  318 (479)
T KOG0415|consen  311 IHVDFSQS  318 (479)
T ss_pred             EEeehhhh
Confidence            99999754

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

Probab=99.03  E-value=5.1e-11  Score=94.96  Aligned_cols=80  Identities=18%  Similarity=0.113  Sum_probs=69.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .....+||||.|+...++|+-|.++|-..|+|..|.|.-...++..||||.|.++.+..-|++.+||..+.   ++++.+
T Consensus         5 aae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~---~~e~q~   81 (267)
T KOG4454|consen    5 AAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLE---EDEEQR   81 (267)
T ss_pred             CcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhc---cchhhc
Confidence            34567999999999999999999999999999998887443444449999999999999999999999998   888887


Q ss_pred             EEe
Q 023143          111 ELA  113 (286)
Q Consensus       111 ~~~  113 (286)
                      .+-
T Consensus        82 ~~r   84 (267)
T KOG4454|consen   82 TLR   84 (267)
T ss_pred             ccc
Confidence            753

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

Probab=99.02  E-value=4.8e-10  Score=95.40  Aligned_cols=84  Identities=21%  Similarity=0.347  Sum_probs=73.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCee--EEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~--~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .+|.++|||+-|.+-++.++|.-+||.||.|.+|.++.+.+....  ||||+|.+.+++++|+=.|+...|+   ++.|+
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLID---DrRIH  312 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLID---DRRIH  312 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeec---cceEE
Confidence            457799999999999999999999999999999999854433222  9999999999999999999999999   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |.++.+-..
T Consensus       313 VDFSQSVsk  321 (479)
T KOG0415|consen  313 VDFSQSVSK  321 (479)
T ss_pred             eehhhhhhh
Confidence            999876443

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

Probab=98.95  E-value=2.6e-09  Score=84.79  Aligned_cols=75  Identities=16%  Similarity=0.212  Sum_probs=66.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcC-CCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVY-PGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~-G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ....++|..+|..+.+.++..+|.+| |.|..+++-+    ++++|||||+|++.+.|..|-+.||++-+.   ++.|.+
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~---e~lL~c  124 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLM---EHLLEC  124 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhh---hheeee
Confidence            47789999999999999999999999 6777888733    889999999999999999999999999999   449988


Q ss_pred             EEe
Q 023143          277 EYA  279 (286)
Q Consensus       277 ~~a  279 (286)
                      .|=
T Consensus       125 ~vm  127 (214)
T KOG4208|consen  125 HVM  127 (214)
T ss_pred             EEe
Confidence            873

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

Probab=98.89  E-value=2.7e-09  Score=98.20  Aligned_cols=82  Identities=21%  Similarity=0.337  Sum_probs=73.3

Q ss_pred             CCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-------cCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          197 EGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-------RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       197 ~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-------~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      +..+|..++|||+||++.++++.|...|+.||.|..|+++-       .+.+.||||-|.+..+|++|+..|+|..+.  
T Consensus       168 DdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~--  245 (877)
T KOG0151|consen  168 DDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVM--  245 (877)
T ss_pred             CCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeee--
Confidence            44467799999999999999999999999999999999875       334569999999999999999999999999  


Q ss_pred             CCCcEEEEEecc
Q 023143          270 DRGGMHIEYARS  281 (286)
Q Consensus       270 ~g~~l~V~~ak~  281 (286)
                       +..+++-|+|.
T Consensus       246 -~~e~K~gWgk~  256 (877)
T KOG0151|consen  246 -EYEMKLGWGKA  256 (877)
T ss_pred             -eeeeeeccccc
Confidence             45999999975

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

Probab=98.88  E-value=5.4e-09  Score=94.11  Aligned_cols=78  Identities=23%  Similarity=0.391  Sum_probs=69.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ++.|||.+|+..+...+|+++|++||.|.-.+++-.  ..+-+.|+||++.+.++|.+||+.|+..+|+   |+.|.|+-
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELH---GrmISVEk  481 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELH---GRMISVEK  481 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhc---ceeeeeee
Confidence            478999999999999999999999999988888743  3344449999999999999999999999999   99999997


Q ss_pred             eec
Q 023143          113 ARS  115 (286)
Q Consensus       113 ~~~  115 (286)
                      ++.
T Consensus       482 aKN  484 (940)
T KOG4661|consen  482 AKN  484 (940)
T ss_pred             ccc
Confidence            764

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

Probab=98.88  E-value=1.9e-08  Score=71.78  Aligned_cols=79  Identities=20%  Similarity=0.314  Sum_probs=65.3

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhc--CCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCC-CCCcEEE
Q 023143          204 STLFIANLGPNCTEDELKQTLSV--YPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS-DRGGMHI  276 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~--~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~-~g~~l~V  276 (286)
                      +||.|+|||...|.++|.+++..  .|.+..+.++-    ..+.|||||.|.+++.|.+-.+.++|..+... ..+...|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            78999999999999999998865  34555555543    56789999999999999999999999999643 3668999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      +||+-+
T Consensus        82 ~yAriQ   87 (97)
T PF04059_consen   82 SYARIQ   87 (97)
T ss_pred             ehhHhh
Confidence            999753

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

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

Probab=98.86  E-value=4.4e-09  Score=94.67  Aligned_cols=78  Identities=18%  Similarity=0.243  Sum_probs=70.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC----CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG----GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~----~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +++|||.+|...+-..+|+.||++||.|.-.+++++.    .+.|+||+|.+.++|.+||+.||-.++.   |+.|.|+-
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELH---GrmISVEk  481 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELH---GRMISVEK  481 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhc---ceeeeeee
Confidence            7999999999999999999999999999999988832    2349999999999999999999999999   55999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      +|+.+
T Consensus       482 aKNEp  486 (940)
T KOG4661|consen  482 AKNEP  486 (940)
T ss_pred             cccCc
Confidence            98753

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.84  E-value=3.8e-10  Score=105.81  Aligned_cols=135  Identities=19%  Similarity=0.196  Sum_probs=113.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEE--ecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLK--YTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~--~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +..++||+||+..+.+.+|...|+.+|.++.+++.  ...+.-+|+|||.|.++++|.+|+...+++.+    |      
T Consensus       666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~----g------  735 (881)
T KOG0128|consen  666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFF----G------  735 (881)
T ss_pred             HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhh----h------
Confidence            34679999999999999999999999998777665  11222244999999999999999987666655    4      


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                              +.                                                                      
T Consensus       736 --------K~----------------------------------------------------------------------  737 (881)
T KOG0128|consen  736 --------KI----------------------------------------------------------------------  737 (881)
T ss_pred             --------hh----------------------------------------------------------------------
Confidence                    11                                                                      


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                                   .|+|+|.|+..|.++|+.+|+.+|.+++++++.   ++.+|-|+|.|.+..+|.+++..+.+..+..
T Consensus       738 -------------~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE  804 (881)
T KOG0128|consen  738 -------------SVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRE  804 (881)
T ss_pred             -------------hhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhh
Confidence                         178999999999999999999999999888766   5667899999999999999999888888875


Q ss_pred             C
Q 023143          269 S  269 (286)
Q Consensus       269 ~  269 (286)
                      .
T Consensus       805 ~  805 (881)
T KOG0128|consen  805 N  805 (881)
T ss_pred             c
Confidence            5

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

Probab=98.82  E-value=2.1e-07  Score=82.83  Aligned_cols=225  Identities=15%  Similarity=0.113  Sum_probs=111.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE-EEEEecCCCCee-EEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDF-CQLKYTGRGNQV-VAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~-v~i~~~~~~~~~-~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...-+|-+++||+.||++||.++|+..-.|.. +-+.+..+++.+ =|||+|.+.+.|+.|+.. |...|-   .|-|.|
T Consensus       101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iG---hRYIEv  176 (510)
T KOG4211|consen  101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIG---HRYIEV  176 (510)
T ss_pred             CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhc---cceEEe
Confidence            34578999999999999999999998876655 334444444322 899999999999999974 444452   344444


Q ss_pred             EEeecCCCCCcC--------CCCCCceecccccccccccccCCCCCCCCCCC----CCCCCC--CCCCCCCCCCCCCCcc
Q 023143          111 ELARSNSRKKRK--------PGSGAYVVIDKRTKTEANVQESSSADGDSDTD----EASPVR--NIDSADKGDFVTTQSE  176 (286)
Q Consensus       111 ~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~--~~~~~~~~~~~~p~~~  176 (286)
                      --+.... ..+.        ...+.+...   ...+...+-...........    ......  ....+....-....+.
T Consensus       177 F~Ss~~e-~~~~~~~~~~~~~rpGpy~~~---~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~  252 (510)
T KOG4211|consen  177 FRSSRAE-VKRAAGPGDGRVGRPGPYDRP---GAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYG  252 (510)
T ss_pred             ehhHHHH-HHhhccccccccCCCCccccc---cCCccccccccccCCCccccccccccCCccccccCccccccccccccc
Confidence            3222110 0000        000111100   00000000000000000000    000000  0000000000000000


Q ss_pred             ccCCCCCCCCccccCC--CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCH
Q 023143          177 RATDSGNAVAPINEQS--EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEV  251 (286)
Q Consensus       177 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~  251 (286)
                      ................  ........+.+..+..++||...++.++.++|+..-.+ .|.+..   ++..+=|+|+|.|.
T Consensus       253 ~~~~~~~~~~~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfFspl~p~-~v~i~ig~dGr~TGEAdveF~t~  331 (510)
T KOG4211|consen  253 GGRDPNYPVSSGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFFSPLNPY-RVHIEIGPDGRATGEADVEFATG  331 (510)
T ss_pred             cccccccCCCCCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhcCCCCce-eEEEEeCCCCccCCcceeecccc
Confidence            0000000000000000  11112222234778889999999999999999986555 566544   55556899999999


Q ss_pred             HHHHHHHHhcCCCccC
Q 023143          252 EQASIAMEGLQDSTLP  267 (286)
Q Consensus       252 e~A~~Al~~lng~~~~  267 (286)
                      ++|..|+.. ++..+.
T Consensus       332 edav~Amsk-d~anm~  346 (510)
T KOG4211|consen  332 EDAVGAMGK-DGANMG  346 (510)
T ss_pred             hhhHhhhcc-CCcccC
Confidence            999999966 455544

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

Probab=98.80  E-value=1.8e-08  Score=90.17  Aligned_cols=80  Identities=20%  Similarity=0.331  Sum_probs=65.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCe--eEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ--VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~--~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+..+|||+|||.++++++|+++|..||.|....|....++.+  .||||+|.+.+++..|+++- -..+.   ++++.|
T Consensus       286 ~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig---~~kl~V  361 (419)
T KOG0116|consen  286 ADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIG---GRKLNV  361 (419)
T ss_pred             ecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccC---CeeEEE
Confidence            3456799999999999999999999999998888875442222  49999999999999999865 55555   899999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +--+..
T Consensus       362 eek~~~  367 (419)
T KOG0116|consen  362 EEKRPG  367 (419)
T ss_pred             Eecccc
Confidence            855443

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

Probab=98.79  E-value=8.4e-09  Score=88.77  Aligned_cols=177  Identities=18%  Similarity=0.160  Sum_probs=103.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcC----CCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRK----PGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~----G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .|-+++||+++++.|+.++|.+-    |..+.|-++-...| ..+-|||.|..+++|..|+..-. ..|    |+. .|+
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khr-q~i----GqR-YIE  236 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHR-QNI----GQR-YIE  236 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHH-HHH----hHH-HHH
Confidence            37789999999999999999632    23333333312122 12389999999999999997533 223    433 344


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ..++......+           -..+...    ...              .          +......-+..       +
T Consensus       237 lFRSTaaEvqq-----------vlnr~~s----~pL--------------i----------~~~~sp~~p~~-------p  270 (508)
T KOG1365|consen  237 LFRSTAAEVQQ-----------VLNREVS----EPL--------------I----------PGLTSPLLPGG-------P  270 (508)
T ss_pred             HHHHhHHHHHH-----------HHHhhcc----ccc--------------c----------CCCCCCCCCCC-------c
Confidence            33332211111           0000000    000              0          00000000000       0


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCce---EEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCc
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFN---MLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDST  265 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~---~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~  265 (286)
                        ........+..+|-+++||.+.+.|+|.++|..|-.-.   -|.|.-   ++-.|-|||+|.+.|+|..|....+++.
T Consensus       271 --~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~  348 (508)
T KOG1365|consen  271 --ARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKL  348 (508)
T ss_pred             --cccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhh
Confidence              00011122366788999999999999999999887322   244443   4445689999999999999999988877


Q ss_pred             cC
Q 023143          266 LP  267 (286)
Q Consensus       266 ~~  267 (286)
                      .+
T Consensus       349 mk  350 (508)
T KOG1365|consen  349 MK  350 (508)
T ss_pred             cc
Confidence            75

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

Probab=98.78  E-value=1.9e-08  Score=92.73  Aligned_cols=81  Identities=20%  Similarity=0.305  Sum_probs=70.3

Q ss_pred             CCCC-CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-----CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           32 DNGI-NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-----RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        32 ~~~~-~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-----~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      +++. +.|||+||++.++++.|-..|+.||+|..|+|.+.+     +..+.|+||-|.+..+|.+|++.|+|..+.   +
T Consensus       170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~---~  246 (877)
T KOG0151|consen  170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVM---E  246 (877)
T ss_pred             CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeee---e
Confidence            3554 559999999999999999999999999999998531     222339999999999999999999999999   9


Q ss_pred             CeEEEEEeec
Q 023143          106 SVLHIELARS  115 (286)
Q Consensus       106 ~~l~v~~~~~  115 (286)
                      ..+++.|++.
T Consensus       247 ~e~K~gWgk~  256 (877)
T KOG0151|consen  247 YEMKLGWGKA  256 (877)
T ss_pred             eeeeeccccc
Confidence            9999999863

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=98.74  E-value=1.2e-08  Score=87.93  Aligned_cols=202  Identities=11%  Similarity=0.067  Sum_probs=120.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-----CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-----NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-----~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..|-|.||.+..|.++++.||.-.|.|.++.|.-.-.+     ....|||.|.+..++.-|-+.-|...+    ++.|.|
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfv----draliv   83 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFV----DRALIV   83 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceee----eeeEEE
Confidence            48999999999999999999999999998887632111     111999999999999999876666666    677666


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      -.+-...   .. ...+++.+...+...      ......+..-....+...+......+.+|...+..           
T Consensus        84 ~p~~~~~---~p-~r~af~~l~~~navp------rll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~-----------  142 (479)
T KOG4676|consen   84 RPYGDEV---IP-DRFAFVELADQNAVP------RLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQA-----------  142 (479)
T ss_pred             EecCCCC---Cc-cHHHHHhcCcccccc------cccCCCCccCCCCccccccCCccceecCCCCChHh-----------
Confidence            6443211   11 000110000000000      00000000000000001111111111111111100           


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                          .......-.+|++|.+|...+...++.+.|..+|+|...++..+....+|-|+|...-+...|+.. +|.++.
T Consensus       143 ----~A~kleeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr~-~gre~k  214 (479)
T KOG4676|consen  143 ----AAKKLEEIRRTREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALRS-HGRERK  214 (479)
T ss_pred             ----hhhhhHHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHHh-cchhhh
Confidence                111111125899999999999999999999999999988887766667888999988887778754 677765

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

Probab=98.73  E-value=9.5e-09  Score=92.56  Aligned_cols=75  Identities=17%  Similarity=0.283  Sum_probs=65.0

Q ss_pred             CCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          197 EGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       197 ~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ...+.+.++|+|-|||.+|++++|+.+|+.||+|+.|+.-... ++.+||+|-|+.+|++|+++||+.+|.++   .|+
T Consensus        69 ~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~-~~~~~v~FyDvR~A~~Alk~l~~~~~~~~---~~k  143 (549)
T KOG4660|consen   69 SEKDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK-RGIVFVEFYDVRDAERALKALNRREIAGK---RIK  143 (549)
T ss_pred             CcccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc-CceEEEEEeehHhHHHHHHHHHHHHhhhh---hhc
Confidence            3334468999999999999999999999999999997765532 47999999999999999999999999954   666

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

Probab=98.73  E-value=4.9e-08  Score=81.15  Aligned_cols=85  Identities=28%  Similarity=0.375  Sum_probs=71.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..+|+|.|||+.++++||+++|..||.+..+-+-+...+ ..++|=|.|...++|..|++.++|..++   |++|+++..
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ld---G~~mk~~~i  159 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALD---GRPMKIEII  159 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccC---CceeeeEEe
Confidence            367999999999999999999999998888877765433 2239999999999999999999998888   999999987


Q ss_pred             ecCCCCCcC
Q 023143          114 RSNSRKKRK  122 (286)
Q Consensus       114 ~~~~~~~~~  122 (286)
                      .......+.
T Consensus       160 ~~~~~~~r~  168 (243)
T KOG0533|consen  160 SSPSQSKRL  168 (243)
T ss_pred             cCccccccc
Confidence            765544433

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.72  E-value=1.7e-08  Score=86.78  Aligned_cols=173  Identities=16%  Similarity=0.191  Sum_probs=124.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEe--cCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~--~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ....+.|++++...+.+.++..++..+|.+..+.+..  ..-..++++.|.|...+.+..|+.......+.   ++.+..
T Consensus        86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~---~~~~~~  162 (285)
T KOG4210|consen   86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLD---GNKGEK  162 (285)
T ss_pred             cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccc---cccccC
Confidence            4578899999999999999999999999765554431  11223349999999999999999865554553   444333


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      -......   .... .      +.                                                        
T Consensus       163 dl~~~~~---~~~~-n------~~--------------------------------------------------------  176 (285)
T KOG4210|consen  163 DLNTRRG---LRPK-N------KL--------------------------------------------------------  176 (285)
T ss_pred             ccccccc---cccc-c------hh--------------------------------------------------------
Confidence            3222111   0000 0      00                                                        


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                          ......+..+.++++|++.++++++|+..|..+|.|..+++..    +..++||+|+|.+...+..++.. +...+
T Consensus       177 ----~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~  251 (285)
T KOG4210|consen  177 ----SRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSI  251 (285)
T ss_pred             ----cccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcc
Confidence                0000112244455999999999999999999999999999987    55677999999999999999988 88888


Q ss_pred             CCCCCCcEEEEEeccc
Q 023143          267 PSSDRGGMHIEYARSK  282 (286)
Q Consensus       267 ~~~~g~~l~V~~ak~~  282 (286)
                      +   ++++.|.+.+..
T Consensus       252 ~---~~~~~~~~~~~~  264 (285)
T KOG4210|consen  252 G---GRPLRLEEDEPR  264 (285)
T ss_pred             c---CcccccccCCCC
Confidence            8   558998887654

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

Probab=98.70  E-value=7.6e-08  Score=80.01  Aligned_cols=77  Identities=17%  Similarity=0.223  Sum_probs=68.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..+.|+|.|||..|+++||+++|..||.++.+-+..   +.+.|+|=|.|...++|.+|++.+||..+.   |+.|++..
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ld---G~~mk~~~  158 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALD---GRPMKIEI  158 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccC---CceeeeEE
Confidence            458899999999999999999999999998887766   666789999999999999999999998888   55898877


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      .-+
T Consensus       159 i~~  161 (243)
T KOG0533|consen  159 ISS  161 (243)
T ss_pred             ecC
Confidence            443

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

Probab=98.68  E-value=2e-07  Score=66.54  Aligned_cols=80  Identities=25%  Similarity=0.418  Sum_probs=64.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhc--CCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC--CCeEE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQS--GSVLH  109 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~--~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~--g~~l~  109 (286)
                      +||+|+|+|...|.++|.+++..  .|..+.+-+.++  .+-+.|||||.|.+++.|.+..+.++|..+ +..  .+...
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w-~~~~s~Kvc~   80 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKW-PNFNSKKVCE   80 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCcc-ccCCCCcEEE
Confidence            58999999999999999888754  366666666544  455677999999999999999999999999 442  56777


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.||+-+
T Consensus        81 i~yAriQ   87 (97)
T PF04059_consen   81 ISYARIQ   87 (97)
T ss_pred             EehhHhh
Confidence            7777643

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

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

Probab=98.65  E-value=1.1e-07  Score=75.70  Aligned_cols=81  Identities=19%  Similarity=0.212  Sum_probs=67.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcC-CCccEEEEE--ecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRK-PGFDFCQLK--YTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~-G~i~~v~i~--~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ......++|+.+|..+.+.+|...|..| |.|..+++-  .+..+.++||||+|.+++.|.-|-+.||+..|.   ++.|
T Consensus        46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~---e~lL  122 (214)
T KOG4208|consen   46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLM---EHLL  122 (214)
T ss_pred             cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhh---hhee
Confidence            4455679999999999999999999999 556666662  234445669999999999999999999999998   9999


Q ss_pred             EEEEeec
Q 023143          109 HIELARS  115 (286)
Q Consensus       109 ~v~~~~~  115 (286)
                      .+.+-..
T Consensus       123 ~c~vmpp  129 (214)
T KOG4208|consen  123 ECHVMPP  129 (214)
T ss_pred             eeEEeCc
Confidence            9987654

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.65  E-value=8.8e-08  Score=78.41  Aligned_cols=73  Identities=18%  Similarity=0.306  Sum_probs=65.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      -..||.+-|...++.+-|-..|.+|..+...++++    ++++||+||.|.+..++..|+..|||+-++.+   +|++.-
T Consensus       190 DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsr---piklRk  266 (290)
T KOG0226|consen  190 DFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSR---PIKLRK  266 (290)
T ss_pred             cceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccc---hhHhhh
Confidence            55699999999999999999999999988877766    77899999999999999999999999999855   777644

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

Probab=98.59  E-value=4.7e-08  Score=79.55  Aligned_cols=73  Identities=22%  Similarity=0.309  Sum_probs=66.4

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecccc
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~  283 (286)
                      ..+||++||..+.+.+|..+|..||.+.++.|..+.    +||+|++..+|..|+..+||+.+.+.   .+.|+|++.+.
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~gf----~fv~fed~rda~Dav~~l~~~~l~~e---~~vve~~r~~~   74 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKNGF----GFVEFEDPRDADDAVHDLDGKELCGE---RLVVEHARGKR   74 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceeeccc----ceeccCchhhhhcccchhcCceecce---eeeeecccccc
Confidence            358999999999999999999999999999887764    79999999999999999999999966   69999998653

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

Probab=98.53  E-value=2.6e-06  Score=78.85  Aligned_cols=72  Identities=15%  Similarity=0.143  Sum_probs=59.6

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCce-EEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFN-MLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~-~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +++|-+.|+|++++.+||.++|..|--+- +|++..   +.-.|-|-|-|++.++|.+|...|++..|+.+   .++|.
T Consensus       867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr---~V~l~  942 (944)
T KOG4307|consen  867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNR---VVSLR  942 (944)
T ss_pred             CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccce---eEEEE
Confidence            45888999999999999999999996543 455544   33345799999999999999999999999966   77664

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

Probab=98.50  E-value=5.6e-07  Score=80.79  Aligned_cols=75  Identities=19%  Similarity=0.285  Sum_probs=62.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..+|||+|||.++++.+|+++|..||.|+...|..    +.+..||||+|.+..+++.||++- -..++   +++|.|+-
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig---~~kl~Vee  363 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIG---GRKLNVEE  363 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccC---CeeEEEEe
Confidence            56699999999999999999999999999888766    333369999999999999999884 55555   55888886


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      -+.
T Consensus       364 k~~  366 (419)
T KOG0116|consen  364 KRP  366 (419)
T ss_pred             ccc
Confidence            554

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=98.49  E-value=7e-07  Score=60.85  Aligned_cols=70  Identities=17%  Similarity=0.216  Sum_probs=46.6

Q ss_pred             cEEEEccCCCCCCHHHH----HHHHhcCCC-ceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          204 STLFIANLGPNCTEDEL----KQTLSVYPG-FNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L----~~~F~~~G~-v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +.|+|.|||.+.+-..+    +.|+..+|+ |..|  .    .+.|+|.|.+.+.|.+|...|+|..+.   |+.|.|+|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~----~~tAilrF~~~~~A~RA~KRmegEdVf---G~kI~v~~   73 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S----GGTAILRFPNQEFAERAQKRMEGEDVF---GNKISVSF   73 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE--------TT-EEEEESSHHHHHHHHHHHTT--SS---SS--EEES
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e----CCEEEEEeCCHHHHHHHHHhhcccccc---cceEEEEE
Confidence            46999999998887554    556667764 4443  1    267999999999999999999999999   66999999


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      ...+
T Consensus        74 ~~~~   77 (90)
T PF11608_consen   74 SPKN   77 (90)
T ss_dssp             S--S
T ss_pred             cCCc
Confidence            8554

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

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

Probab=98.48  E-value=3.1e-07  Score=67.09  Aligned_cols=60  Identities=18%  Similarity=0.351  Sum_probs=40.6

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      +..|.|.+++..++.++|++.|+.||.|..|.+..+.  ..|+|+|.+.++|++|++.+.-.
T Consensus         1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~--~~g~VRf~~~~~A~~a~~~~~~~   60 (105)
T PF08777_consen    1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD--TEGYVRFKTPEAAQKALEKLKEA   60 (105)
T ss_dssp             --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT---SEEEEEESS---HHHHHHHHHHT
T ss_pred             CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC--CEEEEEECCcchHHHHHHHHHhc
Confidence            3579999999999999999999999999999998876  78999999999999999887443

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

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

Probab=98.48  E-value=7.8e-08  Score=77.03  Aligned_cols=74  Identities=12%  Similarity=0.073  Sum_probs=66.1

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC--CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG--GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~--~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      --+||||.|+-..++||-|.++|-+-|.|.+|.|..++  ...||||.|.+..+..-|++.|||-.+.+.   .++|++
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~---e~q~~~   83 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEED---EEQRTL   83 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccc---hhhccc
Confidence            37899999999999999999999999999999998833  223999999999999999999999999944   888876

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=98.44  E-value=7.1e-07  Score=76.21  Aligned_cols=78  Identities=18%  Similarity=0.212  Sum_probs=68.2

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCce--------EEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFN--------MLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~--------~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      ++.|||+|||.++|.+++.++|+++|.|.        .|+|.+   +.-+|-|.+.|.-.++..-|+..|++..+.   |
T Consensus       134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r---g  210 (382)
T KOG1548|consen  134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR---G  210 (382)
T ss_pred             CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc---C
Confidence            77799999999999999999999999664        466665   556789999999999999999999999999   6


Q ss_pred             CcEEEEEecccc
Q 023143          272 GGMHIEYARSKM  283 (286)
Q Consensus       272 ~~l~V~~ak~~~  283 (286)
                      +.|+|+-|+=.|
T Consensus       211 ~~~rVerAkfq~  222 (382)
T KOG1548|consen  211 KKLRVERAKFQM  222 (382)
T ss_pred             cEEEEehhhhhh
Confidence            699999887544

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=98.43  E-value=3e-08  Score=86.46  Aligned_cols=151  Identities=19%  Similarity=0.261  Sum_probs=115.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCc-cCCCCCCeEEEEEee
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVK-FDPQSGSVLHIELAR  114 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~-~~~~~g~~l~v~~~~  114 (286)
                      +.+|++||.+.++.++|..+|.....-.+-.+++. .+   ||||...+...|.+|++.++|.. +.   |+.+.++.+-
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k-~g---yafvd~pdq~wa~kaie~~sgk~elq---Gkr~e~~~sv   74 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-SG---YAFVDCPDQQWANKAIETLSGKVELQ---GKRQEVEHSV   74 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceeee-cc---eeeccCCchhhhhhhHHhhchhhhhc---Cceeeccchh
Confidence            46899999999999999999986522111122222 33   99999999999999999999864 44   7777777543


Q ss_pred             cCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCC
Q 023143          115 SNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEK  194 (286)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~  194 (286)
                      .+..                                                                            
T Consensus        75 ~kkq----------------------------------------------------------------------------   78 (584)
T KOG2193|consen   75 PKKQ----------------------------------------------------------------------------   78 (584)
T ss_pred             hHHH----------------------------------------------------------------------------
Confidence            2111                                                                            


Q ss_pred             CCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCC-ccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          195 PYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG-MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       195 ~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~-~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                             .++.+-|+|+|.....+.|-.|...||.|..|......+ ....-|+|.+.+.+..||..+||..+...   .
T Consensus        79 -------rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~---~  148 (584)
T KOG2193|consen   79 -------RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQ---H  148 (584)
T ss_pred             -------HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhh---h
Confidence                   144477999999999999999999999999887655332 12556889999999999999999999854   7


Q ss_pred             EEEEEe
Q 023143          274 MHIEYA  279 (286)
Q Consensus       274 l~V~~a  279 (286)
                      ++|.|-
T Consensus       149 ~k~~Yi  154 (584)
T KOG2193|consen  149 LKVGYI  154 (584)
T ss_pred             hhcccC
Confidence            787774

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

Probab=98.43  E-value=4.2e-07  Score=75.70  Aligned_cols=77  Identities=16%  Similarity=0.280  Sum_probs=69.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..+.+||+|++..+|-+++...|+.+|.+..+.+..    +..++|+||+|.+.+.++.|+. |||..|.   |..+.|+
T Consensus       100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~---~~~i~vt  175 (231)
T KOG4209|consen  100 DAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP---GPAIEVT  175 (231)
T ss_pred             CCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc---cccceee
Confidence            478899999999999999999999999998777776    3467799999999999999998 9999999   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      +.+.+
T Consensus       176 ~~r~~  180 (231)
T KOG4209|consen  176 LKRTN  180 (231)
T ss_pred             eeeee
Confidence            98765

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=98.37  E-value=3.2e-06  Score=57.69  Aligned_cols=69  Identities=23%  Similarity=0.322  Sum_probs=47.6

Q ss_pred             CeEEEcCCCCCCCHHHH----HHHhhcCCC-ccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           36 NTLFVSGLPDDVRAREI----HNLFRRKPG-FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L----~~~F~~~G~-i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..|+|.|||.+.+...|    +.++.-+|. |..|  .   .+   .|.|.|.+.+.|.+|.+.|+|..+.   |.+|.|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~---~~---tAilrF~~~~~A~RA~KRmegEdVf---G~kI~v   71 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S---GG---TAILRFPNQEFAERAQKRMEGEDVF---GNKISV   71 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------TT----EEEEESSHHHHHHHHHHHTT--SS---SS--EE
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e---CC---EEEEEeCCHHHHHHHHHhhcccccc---cceEEE
Confidence            46999999999887755    677778876 4333  1   34   8999999999999999999999998   999999


Q ss_pred             EEeec
Q 023143          111 ELARS  115 (286)
Q Consensus       111 ~~~~~  115 (286)
                      .+...
T Consensus        72 ~~~~~   76 (90)
T PF11608_consen   72 SFSPK   76 (90)
T ss_dssp             ESS--
T ss_pred             EEcCC
Confidence            98754

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

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

Probab=98.23  E-value=2.7e-06  Score=70.97  Aligned_cols=83  Identities=17%  Similarity=0.251  Sum_probs=70.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.+.+||+|+.+.+|.+++...|+-||.|..+.+...  ....++||||+|.+.+.+..|+. |+|..|.   |+.+
T Consensus        97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~---~~~i  172 (231)
T KOG4209|consen   97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP---GPAI  172 (231)
T ss_pred             hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc---cccc
Confidence            3556788999999999999999999999999986666622  11245599999999999999999 9999998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      .+.+.+.+.
T Consensus       173 ~vt~~r~~~  181 (231)
T KOG4209|consen  173 EVTLKRTNV  181 (231)
T ss_pred             eeeeeeeec
Confidence            999988773

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

Probab=98.20  E-value=1.9e-06  Score=74.54  Aligned_cols=79  Identities=18%  Similarity=0.282  Sum_probs=63.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.|||++||.++++++|++.|++||.|..+.+.++...  .++|+||.|.+.+++.+++. ..-..|.   |+.+.|.
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~---gk~vevk  171 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFN---GKKVEVK  171 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeec---CceeeEe
Confidence            3568999999999999999999999999988888765333  23399999999999888875 4444554   8888888


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      -|...
T Consensus       172 rA~pk  176 (311)
T KOG4205|consen  172 RAIPK  176 (311)
T ss_pred             eccch
Confidence            77644

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

Probab=98.13  E-value=8.1e-06  Score=59.61  Aligned_cols=71  Identities=21%  Similarity=0.353  Sum_probs=43.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCC-----ccCCCCCCeEEE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGV-----KFDPQSGSVLHI  110 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~-----~~~~~~g~~l~v  110 (286)
                      ..|.|.|++..++-++|+++|+.||.|..|.+. .+..   -|||.|.+.++|++|++.+...     .+.   +..+.+
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~-~G~~---~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~---~~~~~~   74 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFS-RGDT---EGYVRFKTPEAAQKALEKLKEANDGKLKIK---GKEVTL   74 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE---TT-S---EEEEEESS---HHHHHHHHHHTTTS-B-TT---SSSEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEec-CCCC---EEEEEECCcchHHHHHHHHHhccCCceEEc---CceEEE
Confidence            468999999999999999999999999887776 3333   9999999999999999876433     333   666666


Q ss_pred             EEe
Q 023143          111 ELA  113 (286)
Q Consensus       111 ~~~  113 (286)
                      +..
T Consensus        75 ~vL   77 (105)
T PF08777_consen   75 EVL   77 (105)
T ss_dssp             E--
T ss_pred             EEC
Confidence            543

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

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

Probab=98.13  E-value=2.4e-05  Score=72.72  Aligned_cols=194  Identities=7%  Similarity=-0.070  Sum_probs=117.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEE--ecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLK--YTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~--~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +...+-+++.++...+.|++++|-.. .|..+.|.  .-.++..+-++|+|....++.+|++..+...+    .|.+.+.
T Consensus       310 d~~y~~~~gm~fn~~~nd~rkfF~g~-~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~----~R~~q~~  384 (944)
T KOG4307|consen  310 DKYYNNYKGMEFNNDFNDGRKFFPGR-NAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDV----NRPFQTG  384 (944)
T ss_pred             hhheeeecccccccccchhhhhcCcc-cccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhh----hcceeec
Confidence            44567788999999999999998543 24455444  22344445999999999999999986555544    6777666


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      .+-........    ...                ...  ........+...+..                    +.+...
T Consensus       385 P~g~~~~~~a~----~~~----------------~~~--~~~~~~~~hg~p~~~--------------------pr~~~~  422 (944)
T KOG4307|consen  385 PPGNLGRNGAP----PFQ----------------AGV--PPPVIQNNHGRPIAP--------------------PRAMVR  422 (944)
T ss_pred             CCCccccccCc----ccc----------------ccC--CCCcccccCCCCCCC--------------------cccccC
Confidence            44322111111    000                000  000000000000000                    000000


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .+...-...+-+.+|||..||..+++.++.+.|+..-.|++ +.|-+   ++-++.|||.|..++++.+|..--+.+-++
T Consensus       423 ~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G  502 (944)
T KOG4307|consen  423 PGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPG  502 (944)
T ss_pred             CCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccC
Confidence            01111111234889999999999999999999998777776 44433   556679999999999999988766665555


Q ss_pred             CCCCCcEEEE
Q 023143          268 SSDRGGMHIE  277 (286)
Q Consensus       268 ~~~g~~l~V~  277 (286)
                      -+   .|+|.
T Consensus       503 ~r---~irv~  509 (944)
T KOG4307|consen  503 HR---IIRVD  509 (944)
T ss_pred             ce---EEEee
Confidence            33   67764

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.05  E-value=4.7e-06  Score=68.47  Aligned_cols=74  Identities=19%  Similarity=0.335  Sum_probs=63.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCC--eeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGN--QVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~--~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .-+||.+.|.-+++.+.|-..|++|-.....++..+.|..  ++|+||.|.++.++.+||+.|+|..+.   .|++++.
T Consensus       190 DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVg---srpiklR  265 (290)
T KOG0226|consen  190 DFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVG---SRPIKLR  265 (290)
T ss_pred             cceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccc---cchhHhh
Confidence            3679999999999999999999999998777776444433  339999999999999999999999996   7887776

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

Probab=97.93  E-value=0.00023  Score=62.03  Aligned_cols=158  Identities=17%  Similarity=0.139  Sum_probs=93.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcC----CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRK----PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~----G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      .+++..|-.++||+.-+..+|-.+|.--    |.+.-| +. ..+.+.++|.|.|.++|.-.-|++. +...+.   ++.
T Consensus        57 ~~~~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKO-G~-~qgrRnge~lvrf~d~e~RdlalkR-hkhh~g---~ry  130 (508)
T KOG1365|consen   57 ADDNVVVRARGLPWQSSDQDIARFFKGLNIANGGRALC-LN-AQGRRNGEALVRFVDPEGRDLALKR-HKHHMG---TRY  130 (508)
T ss_pred             cCcceEEEecCCCCCcccCCHHHHHhhhhccccceeee-eh-hhhccccceEEEecCchhhhhhhHh-hhhhcc---CCc
Confidence            4556678899999999999999998643    222111 11 1122234999999999888888863 233332   444


Q ss_pred             EEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCc
Q 023143          108 LHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAP  187 (286)
Q Consensus       108 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~  187 (286)
                      +.|--+.....-+..  .+...                         +                            ..+.
T Consensus       131 ievYka~ge~f~~ia--gg~s~-------------------------e----------------------------~~~f  155 (508)
T KOG1365|consen  131 IEVYKATGEEFLKIA--GGTSN-------------------------E----------------------------AAPF  155 (508)
T ss_pred             eeeeccCchhheEec--CCccc-------------------------c----------------------------CCCC
Confidence            444322211111000  00000                         0                            0000


Q ss_pred             cccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCC----CceEEEEee---cCCccEEEEEECCHHHHHHHHHh
Q 023143          188 INEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYP----GFNMLKMRA---RGGMPVAFADFEEVEQASIAMEG  260 (286)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G----~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~  260 (286)
                              ....  .--.|-+++||+++++.++.++|....    .++.|.+++   ++-.|-|||.|...++|+.|+..
T Consensus       156 --------lsk~--~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k  225 (508)
T KOG1365|consen  156 --------LSKE--NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK  225 (508)
T ss_pred             --------CCcc--cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH
Confidence                    0000  123355789999999999999997332    334444444   55567899999999999999976

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.84  E-value=3.8e-05  Score=65.58  Aligned_cols=78  Identities=22%  Similarity=0.394  Sum_probs=62.1

Q ss_pred             CCeEEEcCCCCCCCHHH----H--HHHhhcCCCccEEEEEecCCC-Cee----EEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           35 INTLFVSGLPDDVRARE----I--HNLFRRKPGFDFCQLKYTGRG-NQV----VAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~----L--~~~F~~~G~i~~v~i~~~~~~-~~~----~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      -+-+||-+||..+..++    |  .++|++||.|..|.+..+... +..    -.||+|.+.++|.+||...+|..++  
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D--  191 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD--  191 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc--
Confidence            35689999999986665    3  589999999988877632211 111    3499999999999999999999999  


Q ss_pred             CCCeEEEEEeec
Q 023143          104 SGSVLHIELARS  115 (286)
Q Consensus       104 ~g~~l~v~~~~~  115 (286)
                       ||.|+..|...
T Consensus       192 -Gr~lkatYGTT  202 (480)
T COG5175         192 -GRVLKATYGTT  202 (480)
T ss_pred             -CceEeeecCch
Confidence             99999998763

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=97.82  E-value=4.6e-05  Score=48.25  Aligned_cols=52  Identities=17%  Similarity=0.197  Sum_probs=42.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHH
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL   92 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~   92 (286)
                      +.|-|.|.+.+..+..|+ .|..||+|..+.+. ...+   +++|+|.+..+|++|+
T Consensus         2 ~wI~V~Gf~~~~~~~vl~-~F~~fGeI~~~~~~-~~~~---~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVLE-HFASFGEIVDIYVP-ESTN---WMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHHHH-HHHhcCCEEEEEcC-CCCc---EEEEEECCHHHHHhhC
Confidence            568899999887765555 88899999987666 2344   9999999999999985

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=97.78  E-value=6.1e-05  Score=47.68  Aligned_cols=52  Identities=8%  Similarity=0.210  Sum_probs=42.8

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHH
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM  258 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al  258 (286)
                      +.|-|.+.+.+.. ++++..|..||+|.++.+....  .+.+|+|.+..+|.+||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~~--~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPEST--NWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCCC--cEEEEEECCHHHHHhhC
Confidence            5678888887755 5566699999999988777433  79999999999999985

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=97.75  E-value=2.1e-05  Score=64.78  Aligned_cols=68  Identities=16%  Similarity=0.294  Sum_probs=59.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec------------CCcc----EEEEEECCHHHHHHHHHhcCCCc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR------------GGMP----VAFADFEEVEQASIAMEGLQDST  265 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~------------~~~~----~afV~f~~~e~A~~Al~~lng~~  265 (286)
                      ..-+||++|||+.+.-..|++||++||.|-+|.|.+.            .++.    =|+|+|.+...|..+.+.|||..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~  152 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP  152 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence            4678999999999999999999999999999998761            1111    38999999999999999999999


Q ss_pred             cCCC
Q 023143          266 LPSS  269 (286)
Q Consensus       266 ~~~~  269 (286)
                      |+++
T Consensus       153 Iggk  156 (278)
T KOG3152|consen  153 IGGK  156 (278)
T ss_pred             cCCC
Confidence            9965

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

Probab=97.70  E-value=3e-05  Score=68.22  Aligned_cols=67  Identities=21%  Similarity=0.211  Sum_probs=57.6

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---------C--------CccEEEEEECCHHHHHHHHHhcCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---------G--------GMPVAFADFEEVEQASIAMEGLQD  263 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---------~--------~~~~afV~f~~~e~A~~Al~~lng  263 (286)
                      .++++|.+.|||.+-.-+.|.+||+.+|.|+.|++..-         .        .+-||+|+|++.+.|.+|.+.||.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            37999999999998888999999999999999998752         1        134899999999999999999866


Q ss_pred             CccC
Q 023143          264 STLP  267 (286)
Q Consensus       264 ~~~~  267 (286)
                      ..-.
T Consensus       309 e~~w  312 (484)
T KOG1855|consen  309 EQNW  312 (484)
T ss_pred             hhhh
Confidence            5544

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=97.66  E-value=0.00022  Score=51.31  Aligned_cols=80  Identities=9%  Similarity=0.076  Sum_probs=55.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEE-E----------eecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLK-M----------RARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~-~----------~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      .+.|.|-+.|.. ....+.+.|++||.|.+.. +          ....+..+.-|+|+++.+|.+||.. ||..+.+.  
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~--   81 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGS--   81 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTC--
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCc--
Confidence            556778888888 6778889999999987664 0          1122336999999999999999976 99999822  


Q ss_pred             CcEEEEEeccccCCC
Q 023143          272 GGMHIEYARSKMRKL  286 (286)
Q Consensus       272 ~~l~V~~ak~~~~~~  286 (286)
                      -.+-|.|+++..++|
T Consensus        82 ~mvGV~~~~~~~~~~   96 (100)
T PF05172_consen   82 LMVGVKPCDPADEQL   96 (100)
T ss_dssp             EEEEEEE-HHHHCCC
T ss_pred             EEEEEEEcHHhHHHH
Confidence            255588887665543

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

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

Probab=97.64  E-value=3.6e-05  Score=67.80  Aligned_cols=69  Identities=16%  Similarity=0.107  Sum_probs=57.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--------CCCC-------eeEEEEEEcCHHHHHHHHHHhCC
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--------GRGN-------QVVAFATFVNHQTAVAALHELNG   97 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--------~~~~-------~~~aFV~F~~~~~A~~A~~~l~g   97 (286)
                      -++++|.+-|||.+-..+.|.++|+.+|.|..|+|.-.        +..+       +-||+|+|.+.+.|.+|.+.|+.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            47899999999999888999999999999999999722        1111       22999999999999999998865


Q ss_pred             CccC
Q 023143           98 VKFD  101 (286)
Q Consensus        98 ~~~~  101 (286)
                      ..-|
T Consensus       309 e~~w  312 (484)
T KOG1855|consen  309 EQNW  312 (484)
T ss_pred             hhhh
Confidence            4443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.63  E-value=0.00011  Score=62.80  Aligned_cols=78  Identities=12%  Similarity=0.291  Sum_probs=62.5

Q ss_pred             ccEEEEccCCCCCCHHHH------HHHHhcCCCceEEEEeecCC-----cc--EEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          203 CSTLFIANLGPNCTEDEL------KQTLSVYPGFNMLKMRARGG-----MP--VAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L------~~~F~~~G~v~~v~~~~~~~-----~~--~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      ..-+||-+|++.+..|++      .++|++||.|+.+.+-+..+     .+  =.||.|.+.|+|.+||.+.+|..++  
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D--  191 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD--  191 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc--
Confidence            455899999988877773      34999999999887765221     11  2499999999999999999999998  


Q ss_pred             CCCcEEEEEecccc
Q 023143          270 DRGGMHIEYARSKM  283 (286)
Q Consensus       270 ~g~~l~V~~ak~~~  283 (286)
                       |+.|+.+|+..|.
T Consensus       192 -Gr~lkatYGTTKY  204 (480)
T COG5175         192 -GRVLKATYGTTKY  204 (480)
T ss_pred             -CceEeeecCchHH
Confidence             6699999987663

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=97.59  E-value=9.6e-05  Score=67.64  Aligned_cols=80  Identities=15%  Similarity=0.265  Sum_probs=66.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhc-CCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~-~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++.|+|.||=..+|.-+|+.++.+ .|.|++..|. .-+.   .|||.|.+.++|.+.+++|+|..|-.+..+.|.+
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmD-kIKS---hCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~a  516 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMD-KIKS---HCYVSYSSVEEAAATREALHNVQWPPSNPKHLIA  516 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccCchHHHHHH-Hhhc---ceeEecccHHHHHHHHHHHhccccCCCCCceeEe
Confidence            456889999999999999999999995 5556555443 1133   8999999999999999999999995447899999


Q ss_pred             EEeec
Q 023143          111 ELARS  115 (286)
Q Consensus       111 ~~~~~  115 (286)
                      .|...
T Consensus       517 df~~~  521 (718)
T KOG2416|consen  517 DFVRA  521 (718)
T ss_pred             eecch
Confidence            98764

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=97.45  E-value=0.00073  Score=51.63  Aligned_cols=74  Identities=16%  Similarity=0.245  Sum_probs=53.1

Q ss_pred             CCCCCccEEEEccCC-----CCCCH----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          198 GGVQPCSTLFIANLG-----PNCTE----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~-----~~~te----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      ...||--|+.|+=+.     .....    .+|.+.|..||++.-+++..+.    -+|.|.+-++|.+|+ .|+|.++. 
T Consensus        22 ~~GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~~----mwVTF~dg~sALaal-s~dg~~v~-   95 (146)
T PF08952_consen   22 SQGPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGDT----MWVTFRDGQSALAAL-SLDGIQVN-   95 (146)
T ss_dssp             ----TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETTC----EEEEESSCHHHHHHH-HGCCSEET-
T ss_pred             hcCCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCCe----EEEEECccHHHHHHH-ccCCcEEC-
Confidence            345677778775444     22333    3777899999999988888876    999999999999999 56999999 


Q ss_pred             CCCCcEEEEEe
Q 023143          269 SDRGGMHIEYA  279 (286)
Q Consensus       269 ~~g~~l~V~~a  279 (286)
                        |+.|+|+..
T Consensus        96 --g~~l~i~LK  104 (146)
T PF08952_consen   96 --GRTLKIRLK  104 (146)
T ss_dssp             --TEEEEEEE-
T ss_pred             --CEEEEEEeC
Confidence              559999863

; PDB: 1UFW_A 2DNR_A.

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=97.41  E-value=0.00023  Score=61.61  Aligned_cols=81  Identities=12%  Similarity=0.128  Sum_probs=67.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceE--------EEE----eecCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNM--------LKM----RARGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~--------v~~----~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .....++||-+|+.++++++|.+.|.+.|.|..        +.+    .+...|+-|.|.|++...|+.|++-++++.+-
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            345788999999999999999999999986642        122    22556789999999999999999999999999


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         ++.|+|.+|..+.
T Consensus       143 ---gn~ikvs~a~~r~  155 (351)
T KOG1995|consen  143 ---GNTIKVSLAERRT  155 (351)
T ss_pred             ---CCCchhhhhhhcc
Confidence               5699999987653

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=97.41  E-value=0.00018  Score=65.91  Aligned_cols=80  Identities=23%  Similarity=0.309  Sum_probs=66.8

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .+++.+|+|.||---+|.-.|+.++..-| .|...-|  ++-+.-|||.|.+.++|..-..+|||..+...+.+.|.+.|
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--DkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf  518 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--DKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADF  518 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccCchHHHHH--HHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeee
Confidence            45689999999999999999999999555 5555422  23335699999999999999999999999888888999999


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      +..
T Consensus       519 ~~~  521 (718)
T KOG2416|consen  519 VRA  521 (718)
T ss_pred             cch
Confidence            764

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=97.35  E-value=0.00027  Score=64.46  Aligned_cols=73  Identities=12%  Similarity=0.137  Sum_probs=57.5

Q ss_pred             ccEEEEccCCC--CCCHH----HHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          203 CSTLFIANLGP--NCTED----ELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       203 ~~~L~v~NL~~--~~te~----~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      -++|+|-|+|.  ..-.+    -|..+|+++|.+..+.+..   +..+||.|++|.+..+|+.|+..|||+.+.-  .++
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldk--nHt  135 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDK--NHT  135 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecc--cce
Confidence            67899999995  22233    3445999999999888874   6678999999999999999999999999962  235


Q ss_pred             EEEE
Q 023143          274 MHIE  277 (286)
Q Consensus       274 l~V~  277 (286)
                      ..|.
T Consensus       136 f~v~  139 (698)
T KOG2314|consen  136 FFVR  139 (698)
T ss_pred             EEee
Confidence            5443

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=97.34  E-value=0.00016  Score=59.68  Aligned_cols=68  Identities=13%  Similarity=0.222  Sum_probs=56.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec----------CCCCee----EEEEEEcCHHHHHHHHHHhCCCc
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT----------GRGNQV----VAFATFVNHQTAVAALHELNGVK   99 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~----------~~~~~~----~aFV~F~~~~~A~~A~~~l~g~~   99 (286)
                      ..-.||++|+|+.++-..|+++|+.||.|..|-+...          .+++..    =|.|+|.+...|.++...||+..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~  152 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP  152 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence            3467999999999999999999999999998877511          111111    57899999999999999999999


Q ss_pred             cC
Q 023143          100 FD  101 (286)
Q Consensus       100 ~~  101 (286)
                      |.
T Consensus       153 Ig  154 (278)
T KOG3152|consen  153 IG  154 (278)
T ss_pred             cC
Confidence            95

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.31  E-value=0.0007  Score=57.00  Aligned_cols=74  Identities=23%  Similarity=0.276  Sum_probs=58.3

Q ss_pred             CccEEEEccCCC--CC---CHHHHHHHHhcCCCceEEEEeecCCcc-----EEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          202 PCSTLFIANLGP--NC---TEDELKQTLSVYPGFNMLKMRARGGMP-----VAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~--~~---te~~L~~~F~~~G~v~~v~~~~~~~~~-----~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      ++++|.++|+=.  .+   -++++++.|++||.|..|.+....+-.     ..||+|..+++|.+|+-.|||+=|+   |
T Consensus       280 ptkvlllrnmVg~gevd~elede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFG---G  356 (378)
T KOG1996|consen  280 PTKVLLLRNMVGAGEVDEELEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFG---G  356 (378)
T ss_pred             chHHHHhhhhcCcccccHHHHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceec---c
Confidence            466688887752  33   346788899999999988877632212     6999999999999999999999999   5


Q ss_pred             CcEEEEE
Q 023143          272 GGMHIEY  278 (286)
Q Consensus       272 ~~l~V~~  278 (286)
                      +.++-+|
T Consensus       357 r~v~A~F  363 (378)
T KOG1996|consen  357 RVVSACF  363 (378)
T ss_pred             eeeehee
Confidence            5888776

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=97.30  E-value=0.00012  Score=60.58  Aligned_cols=59  Identities=19%  Similarity=0.242  Sum_probs=48.9

Q ss_pred             HHHHHHHh-cCCCceEEEEeecC---CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          218 DELKQTLS-VYPGFNMLKMRARG---GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       218 ~~L~~~F~-~~G~v~~v~~~~~~---~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      |+|...|+ +||+|+.+.+-.+.   -+|-++|.|...++|++|++.|||..|.   |++|+.+++
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~---G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYN---GRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCcccc---CCcceeeec
Confidence            56666666 99999988776622   3467999999999999999999999999   559998875

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=97.28  E-value=0.0013  Score=45.06  Aligned_cols=54  Identities=19%  Similarity=0.291  Sum_probs=40.4

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCC
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG   97 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g   97 (286)
                      ||--..|..+...||.++|++||.|.--.|.   ..   .|||...+.+.|..|+..+..
T Consensus        11 VFhltFPkeWK~~DI~qlFspfG~I~VsWi~---dT---SAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen   11 VFHLTFPKEWKTSDIYQLFSPFGQIYVSWIN---DT---SAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             EEEEE--TT--HHHHHHHCCCCCCEEEEEEC---TT---EEEEEECCCHHHHHHHHHHTT
T ss_pred             EEEEeCchHhhhhhHHHHhccCCcEEEEEEc---CC---cEEEEeecHHHHHHHHHHhcc
Confidence            5444499999999999999999998433333   44   999999999999999988764

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.28  E-value=0.0003  Score=60.72  Aligned_cols=83  Identities=16%  Similarity=0.223  Sum_probs=67.5

Q ss_pred             CCCCCCCeEE-EcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           30 QQDNGINTLF-VSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        30 ~~~~~~~~lf-V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      -...++.++| |+||++.+++++|++.|..+|.|..+++.-....  ..++|||.|.+..++..++.. +...+.   ++
T Consensus       179 ~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~---~~  254 (285)
T KOG4210|consen  179 LSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIG---GR  254 (285)
T ss_pred             cccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCccc---Cc
Confidence            3455666677 9999999999999999999999998888732222  233999999999999999987 888887   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      ++.+++....
T Consensus       255 ~~~~~~~~~~  264 (285)
T KOG4210|consen  255 PLRLEEDEPR  264 (285)
T ss_pred             ccccccCCCC
Confidence            9999977543

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=97.17  E-value=0.00063  Score=65.31  Aligned_cols=81  Identities=20%  Similarity=0.265  Sum_probs=69.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+.+++.+||++|..++....|...|..||.|..|.+. .+   +.||+|+|.+.+.|..|++.|-|..| ..-.+.+.|
T Consensus       451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~-hg---q~yayi~yes~~~aq~a~~~~rgap~-G~P~~r~rv  525 (975)
T KOG0112|consen  451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYR-HG---QPYAYIQYESPPAAQAATHDMRGAPL-GGPPRRLRV  525 (975)
T ss_pred             ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecc-cC---CcceeeecccCccchhhHHHHhcCcC-CCCCccccc
Confidence            45678999999999999999999999999999887666 23   34999999999999999999999999 454577888


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .++..-
T Consensus       526 dla~~~  531 (975)
T KOG0112|consen  526 DLASPP  531 (975)
T ss_pred             ccccCC
Confidence            887643

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=97.11  E-value=0.0021  Score=46.29  Aligned_cols=72  Identities=21%  Similarity=0.193  Sum_probs=49.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEE------------EEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQ------------LKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~------------i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ..+.|-|=+.|.. ....+-+.|+.||.|.+..            -...+.+   +--|+|.++.+|.+||. -||..+.
T Consensus         5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~N---Wi~I~Y~~~~~A~rAL~-~NG~i~~   79 (100)
T PF05172_consen    5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGN---WIHITYDNPLSAQRALQ-KNGTIFS   79 (100)
T ss_dssp             GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTT---EEEEEESSHHHHHHHHT-TTTEEET
T ss_pred             CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCC---EEEEECCCHHHHHHHHH-hCCeEEc
Confidence            3456888899988 5667778999999997764            2234455   99999999999999996 7899885


Q ss_pred             CCCCCeEE-EEEe
Q 023143          102 PQSGSVLH-IELA  113 (286)
Q Consensus       102 ~~~g~~l~-v~~~  113 (286)
                         |.-|. |.+.
T Consensus        80 ---g~~mvGV~~~   89 (100)
T PF05172_consen   80 ---GSLMVGVKPC   89 (100)
T ss_dssp             ---TCEEEEEEE-
T ss_pred             ---CcEEEEEEEc
Confidence               54432 4444

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=97.00  E-value=0.00059  Score=58.78  Aligned_cols=82  Identities=17%  Similarity=0.148  Sum_probs=66.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCC--CceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYP--GFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G--~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..-++||+||-+-+|++||.+.....|  .+.++++..    +++||||+|-..+..+..+.++.|-.+.|.  |.++..
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iH--GQ~P~V  156 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIH--GQSPTV  156 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceec--CCCCee
Confidence            356799999999999999999998877  344555544    778999999999999999999999999998  335777


Q ss_pred             EEEeccccCC
Q 023143          276 IEYARSKMRK  285 (286)
Q Consensus       276 V~~ak~~~~~  285 (286)
                      ++|-|....+
T Consensus       157 ~~~NK~~~ak  166 (498)
T KOG4849|consen  157 LSYNKTNQAK  166 (498)
T ss_pred             eccchhhHHH
Confidence            7887766544

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=96.99  E-value=0.008  Score=49.91  Aligned_cols=79  Identities=19%  Similarity=0.240  Sum_probs=62.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCee-EEEEEEcCHHHHHHHHHHhCCCccC-CCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV-VAFATFVNHQTAVAALHELNGVKFD-PQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~-~aFV~F~~~~~A~~A~~~l~g~~~~-~~~g~~l~v~~~  113 (286)
                      ..|+|.||+..++-|.|..-|+.||.|+...+..+.+++.. =++|.|...-.|.+|.+.+.-.-+. .-++++..|...
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~  111 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM  111 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence            67999999999999999999999999988877766555433 8999999999999999887322221 335777777654


Q ss_pred             e
Q 023143          114 R  114 (286)
Q Consensus       114 ~  114 (286)
                      .
T Consensus       112 e  112 (275)
T KOG0115|consen  112 E  112 (275)
T ss_pred             h
Confidence            3

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=96.94  E-value=0.0055  Score=46.34  Aligned_cols=76  Identities=14%  Similarity=0.220  Sum_probs=59.6

Q ss_pred             CCCCCCeEEEcCCCCCC-CHHHHH---HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           31 QDNGINTLFVSGLPDDV-RAREIH---NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~-te~~L~---~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .+.+..||.|+=|...+ ..+||+   ..++.||+|++|.+.  ++.   .|.|.|.+..+|-+|+.+++...-    |.
T Consensus        82 kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c--Grq---savVvF~d~~SAC~Av~Af~s~~p----gt  152 (166)
T PF15023_consen   82 KEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC--GRQ---SAVVVFKDITSACKAVSAFQSRAP----GT  152 (166)
T ss_pred             CCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec--CCc---eEEEEehhhHHHHHHHHhhcCCCC----Cc
Confidence            36678999998887775 344555   457899999988766  233   899999999999999999888655    88


Q ss_pred             eEEEEEeec
Q 023143          107 VLHIELARS  115 (286)
Q Consensus       107 ~l~v~~~~~  115 (286)
                      .++..|.+.
T Consensus       153 m~qCsWqqr  161 (166)
T PF15023_consen  153 MFQCSWQQR  161 (166)
T ss_pred             eEEeecccc
Confidence            888887653

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.92  E-value=0.003  Score=53.34  Aligned_cols=64  Identities=19%  Similarity=0.192  Sum_probs=51.4

Q ss_pred             HHHHHHHhhcCCCccEEEEEecCC---CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           49 AREIHNLFRRKPGFDFCQLKYTGR---GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        49 e~~L~~~F~~~G~i~~v~i~~~~~---~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      ++++++.|++||.|..|.|.....   ....--||+|...++|.+|+-.|||+.|.   ||.++..|...
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFG---Gr~v~A~Fyn~  366 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFG---GRVVSACFYNL  366 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceec---ceeeeheeccH
Confidence            457789999999999887763211   11227899999999999999999999998   99988887654

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=96.90  E-value=4.9e-05  Score=72.25  Aligned_cols=157  Identities=14%  Similarity=0.146  Sum_probs=102.0

Q ss_pred             CCeEEEcCCCCCCCHH-HHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           35 INTLFVSGLPDDVRAR-EIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~-~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+...+.|+-+..... ..+..|..+|.|+.|++.-.+..  .++++++.+....+++.|.. ..|..+.   ++...+.
T Consensus       571 ~~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~-pa~~~~a---~~~~av~  646 (881)
T KOG0128|consen  571 RREKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATV-PAGGALA---NRSAAVG  646 (881)
T ss_pred             hhhhcccCCCcchhhHHhhHHHhhcccccccccCccccccccccchhhhhhccccchhhccc-ccccccC---CccccCC
Confidence            3456677777766555 56899999999998877631111  12278888888877777764 3333343   3333333


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      .+......  .                ..                                                   
T Consensus       647 ~ad~~~~~--~----------------~~---------------------------------------------------  657 (881)
T KOG0128|consen  647 LADAEEKE--E----------------NF---------------------------------------------------  657 (881)
T ss_pred             CCCchhhh--h----------------cc---------------------------------------------------
Confidence            22211000  0                00                                                   


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEe----ecCCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMR----ARGGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~----~~~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                        ....+......++||+||+..+.+++|...|..+|.+..+++.    +++-+|.|+|.|...++|.+|+....+.-+
T Consensus       658 --kvs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~  734 (881)
T KOG0128|consen  658 --KVSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFF  734 (881)
T ss_pred             --CcCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhh
Confidence              0000001235679999999999999999999999998877665    366788999999999999999976444333

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=96.90  E-value=0.0037  Score=57.28  Aligned_cols=76  Identities=17%  Similarity=0.266  Sum_probs=57.3

Q ss_pred             CCCeEEEcCCCCC--CCHHHH----HHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           34 GINTLFVSGLPDD--VRAREI----HNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        34 ~~~~lfV~nLp~~--~te~~L----~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      ..++|+|.|.|.-  ...+.|    ..+|+++|+|..+.+.... .+-.||.|++|.+.++|..|++.+||..|+  ...
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ld--knH  134 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLD--KNH  134 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceec--ccc
Confidence            4478999999963  333444    5789999999887776443 234559999999999999999999999995  334


Q ss_pred             eEEEE
Q 023143          107 VLHIE  111 (286)
Q Consensus       107 ~l~v~  111 (286)
                      .+.+.
T Consensus       135 tf~v~  139 (698)
T KOG2314|consen  135 TFFVR  139 (698)
T ss_pred             eEEee
Confidence            44443

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.88  E-value=0.0045  Score=47.36  Aligned_cols=73  Identities=25%  Similarity=0.322  Sum_probs=53.3

Q ss_pred             CCCCCeEEEcCCC------CCCCH---HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCC
Q 023143           32 DNGINTLFVSGLP------DDVRA---REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDP  102 (286)
Q Consensus        32 ~~~~~~lfV~nLp------~~~te---~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~  102 (286)
                      +++..||.|.=+.      ....+   ++|-+.|+.||++.-|++.   .+   .-.|+|.+-++|-+|+. ++|..+. 
T Consensus        24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv---~~---~mwVTF~dg~sALaals-~dg~~v~-   95 (146)
T PF08952_consen   24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFV---GD---TMWVTFRDGQSALAALS-LDGIQVN-   95 (146)
T ss_dssp             --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEE---TT---CEEEEESSCHHHHHHHH-GCCSEET-
T ss_pred             CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEe---CC---eEEEEECccHHHHHHHc-cCCcEEC-
Confidence            5567788777666      12332   2667889999999888777   44   79999999999999995 9999997 


Q ss_pred             CCCCeEEEEEee
Q 023143          103 QSGSVLHIELAR  114 (286)
Q Consensus       103 ~~g~~l~v~~~~  114 (286)
                        |+.|+|..-.
T Consensus        96 --g~~l~i~LKt  105 (146)
T PF08952_consen   96 --GRTLKIRLKT  105 (146)
T ss_dssp             --TEEEEEEE--
T ss_pred             --CEEEEEEeCC
Confidence              9999998643

; PDB: 1UFW_A 2DNR_A.

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=96.85  E-value=0.00078  Score=64.29  Aligned_cols=76  Identities=20%  Similarity=0.212  Sum_probs=66.0

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      ...++.|.+.+.+..-|..+|++||.|.+....++.  ..|.|+|.+++.|..|+++++|+++..- |-+.+|.|||.-
T Consensus       299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~--N~alvs~~s~~sai~a~dAl~gkevs~~-g~Ps~V~~ak~~  374 (1007)
T KOG4574|consen  299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL--NMALVSFSSVESAILALDALQGKEVSVT-GAPSRVSFAKTL  374 (1007)
T ss_pred             chhhhhcccccchHHHHHHHHHhhcchhhheecccc--cchhhhhHHHHHHHHhhhhhcCCccccc-CCceeEEecccc
Confidence            334556666788889999999999999999987766  6899999999999999999999999877 889999999853

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=96.82  E-value=0.0025  Score=51.14  Aligned_cols=77  Identities=19%  Similarity=0.270  Sum_probs=52.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhc-CCCc---eEEEEee-----cC-CccEEEEEECCHHHHHHHHHhcCCCccCCCCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSV-YPGF---NMLKMRA-----RG-GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG  272 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~-~G~v---~~v~~~~-----~~-~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~  272 (286)
                      ...|.|++||+++|++++.+.++. ++.-   ..+....     .. ....|||.|.+.++...-...++|..+.+.-|+
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~   86 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGN   86 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCC
Confidence            668999999999999999998887 6665   3443222     11 122799999999999999999999999766344


Q ss_pred             --cEEEEEe
Q 023143          273 --GMHIEYA  279 (286)
Q Consensus       273 --~l~V~~a  279 (286)
                        .-.|+||
T Consensus        87 ~~~~~VE~A   95 (176)
T PF03467_consen   87 EYPAVVEFA   95 (176)
T ss_dssp             EEEEEEEE-
T ss_pred             CcceeEEEc
Confidence              4556665

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.80  E-value=0.0047  Score=56.12  Aligned_cols=81  Identities=21%  Similarity=0.271  Sum_probs=61.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhh-cCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHH----hCCCccC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFR-RKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHE----LNGVKFD  101 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~-~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~----l~g~~~~  101 (286)
                      ...-++.+|||||+||.-++.++|-.+|+ -||.|.-+-|.-+.  +-.+|-|=|.|.+..+=.+||..    ++...| 
T Consensus       364 sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~-  442 (520)
T KOG0129|consen  364 NQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDI-  442 (520)
T ss_pred             CcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEecccc-
Confidence            33467789999999999999999999999 89999888776331  22233889999999999999974    344444 


Q ss_pred             CCCCCeEEEEEe
Q 023143          102 PQSGSVLHIELA  113 (286)
Q Consensus       102 ~~~g~~l~v~~~  113 (286)
                         .+.+.|...
T Consensus       443 ---~KRVEIkPY  451 (520)
T KOG0129|consen  443 ---DKRVEIKPY  451 (520)
T ss_pred             ---ceeeeecce
Confidence               455555543

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=96.71  E-value=0.011  Score=38.48  Aligned_cols=53  Identities=19%  Similarity=0.276  Sum_probs=42.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcC----CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRK----PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL   95 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~----G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l   95 (286)
                      ..|.|+|+. .++.++|+.+|..|    +.. .|.-+-  ..   .|-|.|.+.+.|.+|+..|
T Consensus         6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~-~IEWId--Dt---ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPF-RIEWID--DT---SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHhcccCCCc-eEEEec--CC---cEEEEECCHHHHHHHHHcC
Confidence            459999995 59999999999999    543 444442  33   8999999999999999764

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=96.66  E-value=0.061  Score=39.50  Aligned_cols=84  Identities=12%  Similarity=0.135  Sum_probs=60.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC-ccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPG-FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~-i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +.......+.+...|.-++.++|..+.+.+-. |..++|+.++..++=-+.++|.+.++|.+..+.+||+.+..-.....
T Consensus         8 ~~~~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~FnslEpE~C   87 (110)
T PF07576_consen    8 PDERRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNSLEPETC   87 (110)
T ss_pred             CCCCCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCCCCCcee
Confidence            34445566667777777888888877776644 67778886665555589999999999999999999999852223334


Q ss_pred             EEEEe
Q 023143          109 HIELA  113 (286)
Q Consensus       109 ~v~~~  113 (286)
                      +|-|.
T Consensus        88 hvvfV   92 (110)
T PF07576_consen   88 HVVFV   92 (110)
T ss_pred             EEEEE
Confidence            44443

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=96.61  E-value=0.0033  Score=54.61  Aligned_cols=82  Identities=22%  Similarity=0.294  Sum_probs=64.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE------EEEEe----cCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF------CQLKY----TGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~------v~i~~----~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ...+.+|||-+||..+++++|.++|..+|.|..      .+|.+    .+...++=|.|.|.+..+|+.|+..+++..+.
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            456688999999999999999999999998822      12221    11122338999999999999999999999997


Q ss_pred             CCCCCeEEEEEeecC
Q 023143          102 PQSGSVLHIELARSN  116 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~  116 (286)
                         +..|+|..+...
T Consensus       143 ---gn~ikvs~a~~r  154 (351)
T KOG1995|consen  143 ---GNTIKVSLAERR  154 (351)
T ss_pred             ---CCCchhhhhhhc
Confidence               888888777544

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=96.60  E-value=0.0013  Score=54.61  Aligned_cols=62  Identities=19%  Similarity=0.277  Sum_probs=47.9

Q ss_pred             HHHHHHhh-cCCCccEEEEEec-CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           50 REIHNLFR-RKPGFDFCQLKYT-GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        50 ~~L~~~F~-~~G~i~~v~i~~~-~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      +++...|+ +||+|+++++.-. ..--.+-+||.|...++|++|++.||+.-+.   |++|+.++..
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~---G~pi~ae~~p  146 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYN---GRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCcccc---CCcceeeecC
Confidence            45556666 9999998866511 0001117999999999999999999999998   9999999865

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=96.58  E-value=0.0088  Score=49.67  Aligned_cols=64  Identities=14%  Similarity=0.209  Sum_probs=52.5

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      ..|+|.||..-++.+.|..-|+.||.|....+..   .+..+-++|.|...-.|.+|++.++-..+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~   98 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFG   98 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccc
Confidence            4599999999999999999999999998554433   444457999999999999999998555444

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=96.55  E-value=0.016  Score=43.96  Aligned_cols=78  Identities=21%  Similarity=0.266  Sum_probs=57.8

Q ss_pred             CCCccEEEEccCCC----CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGP----NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~----~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .||-.||.|+=|..    .-+-..+..-.+.||.|.+|.+...   ..|.|.|.+..+|=+|+.+++.. ..   |..++
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGr---qsavVvF~d~~SAC~Av~Af~s~-~p---gtm~q  155 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGR---QSAVVVFKDITSACKAVSAFQSR-AP---GTMFQ  155 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCC---ceEEEEehhhHHHHHHHHhhcCC-CC---CceEE
Confidence            56778888865544    4344445556789999999876543   46999999999999999999874 44   55888


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      .+|-..=|.
T Consensus       156 CsWqqrFMs  164 (166)
T PF15023_consen  156 CSWQQRFMS  164 (166)
T ss_pred             eeccccccc
Confidence            888665544

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=96.52  E-value=0.0041  Score=58.10  Aligned_cols=100  Identities=19%  Similarity=0.155  Sum_probs=72.5

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEE
Q 023143            1 MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFA   80 (286)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV   80 (286)
                      |||.|.-|.-.--....||.+|+.|-  ..+..+.-+|||+|+...+..+-++.+...+|-|-+++..   .    |+|.
T Consensus         8 ~a~~P~~~~~~~~~~~~p~~~p~qp~--~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---~----fgf~   78 (668)
T KOG2253|consen    8 AAGMPMMPQVPMVGNGVPYVVPIQPV--FQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---K----FGFC   78 (668)
T ss_pred             CCCCCCCCCCccccCCcccccCCccc--ccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---h----hccc
Confidence            56777755432222333333333221  2234457889999999999999999999999998776544   2    9999


Q ss_pred             EEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           81 TFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        81 ~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .|..+.-+.+|+..+....+.   |..+.+..
T Consensus        79 ~f~~~~~~~ra~r~~t~~~~~---~~kl~~~~  107 (668)
T KOG2253|consen   79 EFLKHIGDLRASRLLTELNID---DQKLIENV  107 (668)
T ss_pred             chhhHHHHHHHHHHhcccCCC---cchhhccc
Confidence            999999999999999888886   77766654

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=96.45  E-value=0.0035  Score=50.24  Aligned_cols=83  Identities=18%  Similarity=0.219  Sum_probs=52.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhc-CCCc---cEEEEEecC----CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRR-KPGF---DFCQLKYTG----RGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~-~G~i---~~v~i~~~~----~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      .+...|-|++||+.+||+++++.++. ++..   ..+.-....    ...-.-|||.|.+.+++......++|..|.-..
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k   84 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK   84 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence            35568999999999999999998887 6665   233212111    111128999999999999999999998884223


Q ss_pred             C--CeEEEEEeec
Q 023143          105 G--SVLHIELARS  115 (286)
Q Consensus       105 g--~~l~v~~~~~  115 (286)
                      |  ....|+++-.
T Consensus        85 g~~~~~~VE~Apy   97 (176)
T PF03467_consen   85 GNEYPAVVEFAPY   97 (176)
T ss_dssp             S-EEEEEEEE-SS
T ss_pred             CCCcceeEEEcch
Confidence            3  3445666544

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=96.42  E-value=0.025  Score=36.75  Aligned_cols=55  Identities=20%  Similarity=0.208  Sum_probs=44.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCC---CceEEEEeecCCccEEEEEECCHHHHHHHHHhc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYP---GFNMLKMRARGGMPVAFADFEEVEQASIAMEGL  261 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G---~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~l  261 (286)
                      ...|+|++++. ++.++++.+|..|.   ...+|.-+.+.   .|=|-|.+.+.|.+||.+|
T Consensus         5 peavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt---ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT---SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC---cEEEEECCHHHHHHHHHcC
Confidence            45699999964 78999999999991   23467777765   4999999999999999875

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=96.25  E-value=0.0042  Score=55.02  Aligned_cols=74  Identities=22%  Similarity=0.230  Sum_probs=55.7

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      .|||+||.+.++-.+|..+|...-.--.-.++-+.  +|+||.+.+..-|.+|++.++|+.-.  .|+++.|.++-.+
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~k~--gyafvd~pdq~wa~kaie~~sgk~el--qGkr~e~~~sv~k   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS--GYAFVDCPDQQWANKAIETLSGKVEL--QGKRQEVEHSVPK   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceeeec--ceeeccCCchhhhhhhHHhhchhhhh--cCceeeccchhhH
Confidence            58999999999999999999764211111223333  68999999999999999999987542  2668888876544

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=96.03  E-value=0.02  Score=46.12  Aligned_cols=60  Identities=17%  Similarity=0.125  Sum_probs=46.0

Q ss_pred             CHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC--CCccCCCCCCcEEEEEec
Q 023143          216 TEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ--DSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       216 te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln--g~~~~~~~g~~l~V~~ak  280 (286)
                      ..+.|+++|..|+.+..+...++-  +...|.|.+.++|.+|...|+  +..+.++   .++|.|+.
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~sF--rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~---~l~~yf~~   69 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLKSF--RRIRVVFESPESAQRARQLLHWDGTSFNGK---RLRVYFGQ   69 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEETTT--TEEEEE-SSTTHHHHHHHTST--TSEETTE---E-EEE---
T ss_pred             hHHHHHHHHHhcCCceEEEEcCCC--CEEEEEeCCHHHHHHHHHHhcccccccCCC---ceEEEEcc
Confidence            458899999999999877777755  679999999999999999999  9999944   99999984

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=96.02  E-value=0.0093  Score=52.39  Aligned_cols=63  Identities=14%  Similarity=0.296  Sum_probs=52.1

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-------CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .+|-|.||.+++|.+.++.||.-.|.|..++|+..       .....|||.|.+...+..|- .|-++.+-
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfv   77 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFV   77 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceee
Confidence            38999999999999999999999999999998771       12348999999999888776 45555554

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=95.89  E-value=0.23  Score=36.49  Aligned_cols=78  Identities=13%  Similarity=0.134  Sum_probs=54.3

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecC--CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARG--GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~--~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +..+-+...|.-++.++|..+.+.+- .|..++++++.  ++-.+.++|.+.++|..-...+||+.+..-..-..+|-|-
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~FnslEpE~ChvvfV   92 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNSLEPETCHVVFV   92 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCCCCCceeEEEEE
Confidence            44444555556666677776666554 45678887733  3338999999999999999999999997543445565554


Q ss_pred             c
Q 023143          280 R  280 (286)
Q Consensus       280 k  280 (286)
                      +
T Consensus        93 ~   93 (110)
T PF07576_consen   93 K   93 (110)
T ss_pred             E
Confidence            3

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=95.77  E-value=0.035  Score=38.13  Aligned_cols=56  Identities=14%  Similarity=0.233  Sum_probs=42.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD  263 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng  263 (286)
                      ..+.+| ..|...-..||.++|+.||.|. |.-+...   -|||...+.+.|..|+..+..
T Consensus         9 dHVFhl-tFPkeWK~~DI~qlFspfG~I~-VsWi~dT---SAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen    9 DHVFHL-TFPKEWKTSDIYQLFSPFGQIY-VSWINDT---SAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             CCEEEE-E--TT--HHHHHHHCCCCCCEE-EEEECTT---EEEEEECCCHHHHHHHHHHTT
T ss_pred             ceEEEE-eCchHhhhhhHHHHhccCCcEE-EEEEcCC---cEEEEeecHHHHHHHHHHhcc
Confidence            345556 5999999999999999999995 5555554   599999999999999998864

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=95.70  E-value=0.022  Score=54.79  Aligned_cols=70  Identities=14%  Similarity=0.219  Sum_probs=58.4

Q ss_pred             cCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           41 SGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        41 ~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      -|.+...+-.-|..+|+.||.|.+.+.+ +.-+   .|.|+|...+.|..|+..++|+++ -..|.+.+|-+++.
T Consensus       304 ~nn~v~~tSssL~~l~s~yg~v~s~wtl-r~~N---~alvs~~s~~sai~a~dAl~gkev-s~~g~Ps~V~~ak~  373 (1007)
T KOG4574|consen  304 ENNAVNLTSSSLATLCSDYGSVASAWTL-RDLN---MALVSFSSVESAILALDALQGKEV-SVTGAPSRVSFAKT  373 (1007)
T ss_pred             hcccccchHHHHHHHHHhhcchhhheec-cccc---chhhhhHHHHHHHHhhhhhcCCcc-cccCCceeEEeccc
Confidence            3444456777889999999999999887 3344   899999999999999999999988 55688999988874

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=95.41  E-value=0.0062  Score=52.57  Aligned_cols=77  Identities=10%  Similarity=0.203  Sum_probs=60.9

Q ss_pred             cEEEEccCCCCCCHHHHHH---HHhcCCCceEEEEeecC----C---ccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          204 STLFIANLGPNCTEDELKQ---TLSVYPGFNMLKMRARG----G---MPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~---~F~~~G~v~~v~~~~~~----~---~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      .-+||-+|+..+..+.+.+   .|.+||.|..|.+..+.    +   ..-++|+|...++|+.||...+|..+.   |+.
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~d---g~~  154 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDD---GRA  154 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhh---hhh
Confidence            4467778887766666655   89999999988877633    1   125999999999999999999999998   558


Q ss_pred             EEEEEecccc
Q 023143          274 MHIEYARSKM  283 (286)
Q Consensus       274 l~V~~ak~~~  283 (286)
                      |+.+|+..+.
T Consensus       155 lka~~gttky  164 (327)
T KOG2068|consen  155 LKASLGTTKY  164 (327)
T ss_pred             hHHhhCCCcc
Confidence            8888877664

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=95.19  E-value=0.13  Score=44.01  Aligned_cols=61  Identities=7%  Similarity=-0.026  Sum_probs=48.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      -..|-|-+.++. .-.-|..+|++||.|.+....  ..-.+..|+|.++-+|++||.. ||..|.
T Consensus       197 D~WVTVfGFppg-~~s~vL~~F~~cG~Vvkhv~~--~ngNwMhirYssr~~A~KALsk-ng~ii~  257 (350)
T KOG4285|consen  197 DTWVTVFGFPPG-QVSIVLNLFSRCGEVVKHVTP--SNGNWMHIRYSSRTHAQKALSK-NGTIID  257 (350)
T ss_pred             cceEEEeccCcc-chhHHHHHHHhhCeeeeeecC--CCCceEEEEecchhHHHHhhhh-cCeeec
Confidence            566777788877 345677899999999766555  2225999999999999999987 888886

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=95.10  E-value=0.049  Score=36.95  Aligned_cols=66  Identities=21%  Similarity=0.339  Sum_probs=39.9

Q ss_pred             EEEEccCC--CCCCHHHHHHHHhcCCCce-----EEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          205 TLFIANLG--PNCTEDELKQTLSVYPGFN-----MLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       205 ~L~v~NL~--~~~te~~L~~~F~~~G~v~-----~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +||| |+.  ..++..+|..++..-+.+.     .+++..    .|+||+-. .+.|..+++.|++..+.   |+.++|+
T Consensus         2 rl~i-n~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~----~~S~vev~-~~~a~~v~~~l~~~~~~---gk~v~ve   72 (74)
T PF03880_consen    2 RLFI-NVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD----NFSFVEVP-EEVAEKVLEALNGKKIK---GKKVRVE   72 (74)
T ss_dssp             EEEE-S-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S----S-EEEEE--TT-HHHHHHHHTT--SS---S----EE
T ss_pred             EEEE-EcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee----eEEEEEEC-HHHHHHHHHHhcCCCCC---CeeEEEE
Confidence            5777 666  4889999999998887665     344433    36999987 56899999999999999   5599988


Q ss_pred             Ee
Q 023143          278 YA  279 (286)
Q Consensus       278 ~a  279 (286)
                      -|
T Consensus        73 ~A   74 (74)
T PF03880_consen   73 RA   74 (74)
T ss_dssp             E-
T ss_pred             EC
Confidence            65

; PDB: 2G0C_A 3MOJ_B.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=94.95  E-value=0.0077  Score=52.03  Aligned_cols=78  Identities=19%  Similarity=0.336  Sum_probs=60.1

Q ss_pred             CCeEEEcCCCCCCCHHH-H--HHHhhcCCCccEEEEEecC-----CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           35 INTLFVSGLPDDVRARE-I--HNLFRRKPGFDFCQLKYTG-----RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~-L--~~~F~~~G~i~~v~i~~~~-----~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .+-+||-+|+..+..+. |  .+.|.+||.|..|.+.-+.     .+...-++|+|...++|..||...+|..++   |+
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~d---g~  153 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDD---GR  153 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhh---hh
Confidence            35689999998875554 4  3789999999888776322     112227999999999999999999999998   88


Q ss_pred             eEEEEEeec
Q 023143          107 VLHIELARS  115 (286)
Q Consensus       107 ~l~v~~~~~  115 (286)
                      .++..+...
T Consensus       154 ~lka~~gtt  162 (327)
T KOG2068|consen  154 ALKASLGTT  162 (327)
T ss_pred             hhHHhhCCC
Confidence            877776553

>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing

Probab=94.73  E-value=2.2  Score=36.58  Aligned_cols=79  Identities=11%  Similarity=0.201  Sum_probs=60.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC---------CCCeeEEEEEEcCHHHHHHHHHH----hC--CCc
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG---------RGNQVVAFATFVNHQTAVAALHE----LN--GVK   99 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~---------~~~~~~aFV~F~~~~~A~~A~~~----l~--g~~   99 (286)
                      .|.|...||..+++-..+-..|..||+|++|.+.-..         .+......+.|-+.+.+...+..    |.  ...
T Consensus        15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~   94 (309)
T PF10567_consen   15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTK   94 (309)
T ss_pred             eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHh
Confidence            4679999999999999999999999999999998332         12223899999999988776643    22  233


Q ss_pred             cCCCCCCeEEEEEeecC
Q 023143          100 FDPQSGSVLHIELARSN  116 (286)
Q Consensus       100 ~~~~~g~~l~v~~~~~~  116 (286)
                      +.   ...|.+.+..-+
T Consensus        95 L~---S~~L~lsFV~l~  108 (309)
T PF10567_consen   95 LK---SESLTLSFVSLN  108 (309)
T ss_pred             cC---CcceeEEEEEEe
Confidence            44   778888877643

It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.

>KOG2318 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.67  E-value=0.18  Score=46.76  Aligned_cols=82  Identities=21%  Similarity=0.243  Sum_probs=64.1

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHhhcC----CCccEEEEEe-------------cCC---------------------
Q 023143           32 DNGINTLFVSGLPDD-VRAREIHNLFRRK----PGFDFCQLKY-------------TGR---------------------   72 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~-~te~~L~~~F~~~----G~i~~v~i~~-------------~~~---------------------   72 (286)
                      +.++++|-|.|+.++ +...+|..+|+.|    |.|.+|.|-.             .+.                     
T Consensus       171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~  250 (650)
T KOG2318|consen  171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE  250 (650)
T ss_pred             ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence            667899999999987 8999999888765    4788887641             111                     


Q ss_pred             -------------CCee--EEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           73 -------------GNQV--VAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        73 -------------~~~~--~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                                   ++..  ||.|+|.+++.|...++.++|..+ ...+-.|-+.|..
T Consensus       251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~Ef-EsS~~~~DLRFIP  306 (650)
T KOG2318|consen  251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEF-ESSANKLDLRFIP  306 (650)
T ss_pred             hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCccee-ccccceeeeeecC
Confidence                         1111  999999999999999999999999 5666777777654

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=94.28  E-value=0.16  Score=40.92  Aligned_cols=61  Identities=20%  Similarity=0.184  Sum_probs=44.6

Q ss_pred             CHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC--CCccCCCCCCeEEEEEeec
Q 023143           48 RAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN--GVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        48 te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~--g~~~~~~~g~~l~v~~~~~  115 (286)
                      ..+.|+++|..|+.+.....+..-+    -..|.|.+.++|.+|...|+  +..+.   |..+++.|+..
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~sFr----Ri~v~f~~~~~A~~~r~~l~~~~~~~~---g~~l~~yf~~~   70 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLKSFR----RIRVVFESPESAQRARQLLHWDGTSFN---GKRLRVYFGQP   70 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEETTTT----EEEEE-SSTTHHHHHHHTST--TSEET---TEE-EEE----
T ss_pred             hHHHHHHHHHhcCCceEEEEcCCCC----EEEEEeCCHHHHHHHHHHhcccccccC---CCceEEEEccc
Confidence            4578999999999988776662222    68999999999999999999  99998   99999998843

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=93.86  E-value=0.07  Score=46.37  Aligned_cols=75  Identities=7%  Similarity=0.010  Sum_probs=54.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCc--cEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE-E
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGF--DFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI-E  111 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i--~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v-~  111 (286)
                      ++||+||-+.+|.+||-+....-|--  .++++.-.  ....++||+|...+..+.++-|+.|-.+.|+   |..-.| .
T Consensus        82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iH---GQ~P~V~~  158 (498)
T KOG4849|consen   82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIH---GQSPTVLS  158 (498)
T ss_pred             EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceec---CCCCeeec
Confidence            58999999999999998777666643  33344311  1223449999999999999999999999998   654444 4


Q ss_pred             Eee
Q 023143          112 LAR  114 (286)
Q Consensus       112 ~~~  114 (286)
                      |.+
T Consensus       159 ~NK  161 (498)
T KOG4849|consen  159 YNK  161 (498)
T ss_pred             cch
Confidence            443

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

Probab=93.82  E-value=0.12  Score=47.76  Aligned_cols=59  Identities=12%  Similarity=0.130  Sum_probs=50.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhc--CCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSV--YPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ  262 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~--~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln  262 (286)
                      ...+.+.|+-||.+.-+|+++.||+.  ...+++|.+-.+.+   =||+|++..||+.|...|.
T Consensus       173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n---WyITfesd~DAQqAykylr  233 (684)
T KOG2591|consen  173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN---WYITFESDTDAQQAYKYLR  233 (684)
T ss_pred             cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc---eEEEeecchhHHHHHHHHH
Confidence            35788889999999999999999975  66888999887542   7999999999999987753

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=93.67  E-value=0.63  Score=42.06  Aligned_cols=70  Identities=14%  Similarity=0.245  Sum_probs=59.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcC-CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRK-PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~-G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      +.++..|+|=.+|-.++-.||-.++..+ -.|..++++.++-.++-.+.|.|.+.++|...++.+||+.|.
T Consensus        71 ~~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn  141 (493)
T KOG0804|consen   71 ASSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFN  141 (493)
T ss_pred             CCCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence            3347889999999999999999988766 347888888655555558999999999999999999999885

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=93.65  E-value=0.11  Score=48.94  Aligned_cols=67  Identities=16%  Similarity=0.141  Sum_probs=59.3

Q ss_pred             CCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      ...++..++||+|+-..+..+-++.+....|.|..++...     |||..|..+..+..|+..++-..+++.
T Consensus        35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-----fgf~~f~~~~~~~ra~r~~t~~~~~~~  101 (668)
T KOG2253|consen   35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-----FGFCEFLKHIGDLRASRLLTELNIDDQ  101 (668)
T ss_pred             cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-----hcccchhhHHHHHHHHHHhcccCCCcc
Confidence            3456788999999999999999999999999998876554     899999999999999999998888755

>KOG2318 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.42  E-value=0.46  Score=44.26  Aligned_cols=78  Identities=13%  Similarity=0.161  Sum_probs=63.1

Q ss_pred             CccEEEEccCCC-CCCHHHHHHHHhcCC----CceEEEEee--------------cC-----------------------
Q 023143          202 PCSTLFIANLGP-NCTEDELKQTLSVYP----GFNMLKMRA--------------RG-----------------------  239 (286)
Q Consensus       202 ~~~~L~v~NL~~-~~te~~L~~~F~~~G----~v~~v~~~~--------------~~-----------------------  239 (286)
                      .+++|=|-||++ .+..++|.-+|++|-    .|.+|.|..              +.                       
T Consensus       173 ~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~  252 (650)
T KOG2318|consen  173 ETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEED  252 (650)
T ss_pred             ccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhh
Confidence            488899999998 899999999998763    566777643              00                       


Q ss_pred             --------------CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          240 --------------GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       240 --------------~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                                    ..-||.|+|.+.+.|....+.++|.++..+ ++.|-+.|--
T Consensus       253 ~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS-~~~~DLRFIP  306 (650)
T KOG2318|consen  253 VDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESS-ANKLDLRFIP  306 (650)
T ss_pred             HHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccc-cceeeeeecC
Confidence                          012899999999999999999999999988 7777777643

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=93.13  E-value=0.45  Score=31.40  Aligned_cols=55  Identities=11%  Similarity=0.104  Sum_probs=42.7

Q ss_pred             CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           46 DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        46 ~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .++-++++..+..|+-. .|  +....    ==||.|.+..+|+++....+|..+.   +..|.+
T Consensus        11 ~~~v~d~K~~Lr~y~~~-~I--~~d~t----GfYIvF~~~~Ea~rC~~~~~~~~~f---~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRWD-RI--RDDRT----GFYIVFNDSKEAERCFRAEDGTLFF---TYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCCcc-eE--EecCC----EEEEEECChHHHHHHHHhcCCCEEE---EEEEEe
Confidence            57889999999999744 33  32332    3689999999999999999999886   555543

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=92.73  E-value=0.064  Score=48.45  Aligned_cols=73  Identities=15%  Similarity=0.188  Sum_probs=58.3

Q ss_pred             CCeEEEcCCCCCC-CHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           35 INTLFVSGLPDDV-RAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        35 ~~~lfV~nLp~~~-te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++.|-+.-.|+.+ +..+|...|..||.|+.|.+.+...    -|.|+|.+..+|-+|.. ..+..|.   +|.|+|.|.
T Consensus       372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~----~a~vTF~t~aeag~a~~-s~~avln---nr~iKl~wh  443 (526)
T KOG2135|consen  372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSL----HAVVTFKTRAEAGEAYA-SHGAVLN---NRFIKLFWH  443 (526)
T ss_pred             cchhhhhccCCCCchHhhhhhhhhhcCccccccccCchh----hheeeeeccccccchhc-cccceec---CceeEEEEe
Confidence            3444444555554 5678999999999999999986522    79999999999988874 6888898   999999997


Q ss_pred             ec
Q 023143          114 RS  115 (286)
Q Consensus       114 ~~  115 (286)
                      ..
T Consensus       444 np  445 (526)
T KOG2135|consen  444 NP  445 (526)
T ss_pred             cC
Confidence            65

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=92.57  E-value=0.81  Score=30.91  Aligned_cols=58  Identities=22%  Similarity=0.342  Sum_probs=35.9

Q ss_pred             CCCHHHHHHHhhcCCCc-----cEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           46 DVRAREIHNLFRRKPGF-----DFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        46 ~~te~~L~~~F~~~G~i-----~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .++..+|..++..-+.|     -.|++.   .+   |+||+-... .|.++++.|++..+.   |++++|+.|
T Consensus        12 g~~~~~iv~~i~~~~gi~~~~IG~I~I~---~~---~S~vev~~~-~a~~v~~~l~~~~~~---gk~v~ve~A   74 (74)
T PF03880_consen   12 GLTPRDIVGAICNEAGIPGRDIGRIDIF---DN---FSFVEVPEE-VAEKVLEALNGKKIK---GKKVRVERA   74 (74)
T ss_dssp             T--HHHHHHHHHTCTTB-GGGEEEEEE----SS----EEEEE-TT--HHHHHHHHTT--SS---S----EEE-
T ss_pred             CCCHHHHHHHHHhccCCCHHhEEEEEEe---ee---EEEEEECHH-HHHHHHHHhcCCCCC---CeeEEEEEC
Confidence            47888888888777665     455555   44   999998775 899999999999998   999999864

; PDB: 2G0C_A 3MOJ_B.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=92.56  E-value=0.85  Score=41.26  Aligned_cols=78  Identities=14%  Similarity=0.208  Sum_probs=63.1

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecC--CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARG--GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~--~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ++.|.|--+|..+|--||..++..+- .|.+++++++.  ++-.+.+.|.+.++|..-.+.+||+.|...+--..+|-|.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~Chll~V  153 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPEVCHLLYV  153 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCccceeEEEE
Confidence            88999999999999999999988765 46788888832  2237999999999999999999999998654445555554


Q ss_pred             c
Q 023143          280 R  280 (286)
Q Consensus       280 k  280 (286)
                      .
T Consensus       154 ~  154 (493)
T KOG0804|consen  154 D  154 (493)
T ss_pred             E
Confidence            3

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=90.41  E-value=1.1  Score=29.49  Aligned_cols=51  Identities=14%  Similarity=0.202  Sum_probs=40.6

Q ss_pred             CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          214 NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       214 ~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      .++-++++.-+..|+-. .|..-+..    =||-|.+.++|.++....+|..+.+.
T Consensus        11 ~~~v~d~K~~Lr~y~~~-~I~~d~tG----fYIvF~~~~Ea~rC~~~~~~~~~f~y   61 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRWD-RIRDDRTG----FYIVFNDSKEAERCFRAEDGTLFFTY   61 (66)
T ss_pred             CccHHHHHHHHhcCCcc-eEEecCCE----EEEEECChHHHHHHHHhcCCCEEEEE
Confidence            67889999999999654 33333322    48999999999999999999999844

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

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

Probab=89.87  E-value=0.99  Score=41.93  Aligned_cols=56  Identities=18%  Similarity=0.285  Sum_probs=47.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhc--CCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL   95 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~--~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l   95 (286)
                      .+.|.++-+|..+.+|+++.+|+-  +-++.+|.+-...     -=||+|.+..||..|++.|
T Consensus       175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-----nWyITfesd~DAQqAykyl  232 (684)
T KOG2591|consen  175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-----NWYITFESDTDAQQAYKYL  232 (684)
T ss_pred             eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-----ceEEEeecchhHHHHHHHH
Confidence            356889999999999999999975  6777888777433     5799999999999999765

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=89.18  E-value=0.97  Score=38.79  Aligned_cols=67  Identities=19%  Similarity=0.185  Sum_probs=48.7

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      |=|-++|.. .-.-|..+|++||.|.....- ...|   +-.|.|.+.-+|.+||. .+|+.|    +..+-|.+..
T Consensus       200 VTVfGFppg-~~s~vL~~F~~cG~Vvkhv~~-~ngN---wMhirYssr~~A~KALs-kng~ii----~g~vmiGVkp  266 (350)
T KOG4285|consen  200 VTVFGFPPG-QVSIVLNLFSRCGEVVKHVTP-SNGN---WMHIRYSSRTHAQKALS-KNGTII----DGDVMIGVKP  266 (350)
T ss_pred             EEEeccCcc-chhHHHHHHHhhCeeeeeecC-CCCc---eEEEEecchhHHHHhhh-hcCeee----ccceEEeeee
Confidence            334455553 344667899999999766544 3333   99999999999999995 789888    5566666554

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=85.98  E-value=0.5  Score=42.93  Aligned_cols=73  Identities=12%  Similarity=0.102  Sum_probs=58.1

Q ss_pred             CccEEEEccCCCCC-CHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNC-TEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~-te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ..+.|-+.-.++.. +.++|...|.+||.|..|.+...  .--|.|+|.+..+|-+|. +.+|..|.+   +.|+|-|=+
T Consensus       371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~--~~~a~vTF~t~aeag~a~-~s~~avlnn---r~iKl~whn  444 (526)
T KOG2135|consen  371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS--SLHAVVTFKTRAEAGEAY-ASHGAVLNN---RFIKLFWHN  444 (526)
T ss_pred             ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc--hhhheeeeeccccccchh-ccccceecC---ceeEEEEec
Confidence            46677777777644 56889999999999998887664  246999999999997776 568999984   499998854

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=85.25  E-value=1.1  Score=31.40  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHH
Q 023143          202 PCSTLFIANLGPNCTEDELKQTL  224 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F  224 (286)
                      ..++|.|.|||....+++|++..
T Consensus        51 s~rtVlvsgip~~l~ee~l~D~L   73 (88)
T PF07292_consen   51 SKRTVLVSGIPDVLDEEELRDKL   73 (88)
T ss_pred             cCCEEEEeCCCCCCChhhheeeE
Confidence            48889999999999999999754

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

>KOG2891 consensus Surface glycoprotein [General function prediction only]

Probab=84.54  E-value=0.5  Score=39.97  Aligned_cols=81  Identities=19%  Similarity=0.310  Sum_probs=51.6

Q ss_pred             CccEEEEccCCC------------CCCHHHHHHHHhcCCCceEEEEee---------cCC-----ccE---------EEE
Q 023143          202 PCSTLFIANLGP------------NCTEDELKQTLSVYPGFNMLKMRA---------RGG-----MPV---------AFA  246 (286)
Q Consensus       202 ~~~~L~v~NL~~------------~~te~~L~~~F~~~G~v~~v~~~~---------~~~-----~~~---------afV  246 (286)
                      ...||++.+||.            --+++.|+..|+.||.|..|.++-         ++.     +||         |||
T Consensus       148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayv  227 (445)
T KOG2891|consen  148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYV  227 (445)
T ss_pred             CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHH
Confidence            356677777772            246788999999999999887753         222     223         456


Q ss_pred             EECCHHHHHHHHHhcCCCccCCC--CC---CcEEEEEeccc
Q 023143          247 DFEEVEQASIAMEGLQDSTLPSS--DR---GGMHIEYARSK  282 (286)
Q Consensus       247 ~f~~~e~A~~Al~~lng~~~~~~--~g---~~l~V~~ak~~  282 (286)
                      +|..-..-..|+.+|.|..+--+  ||   -.++|.|.+++
T Consensus       228 qfmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdrsr  268 (445)
T KOG2891|consen  228 QFMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDRSR  268 (445)
T ss_pred             HHHHHHhHHHHHHHHhcchHHhhcCCcccccccccccchhh
Confidence            66555555566666666655322  12   26788887764

>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing

Probab=84.00  E-value=2.2  Score=36.57  Aligned_cols=78  Identities=6%  Similarity=0.097  Sum_probs=60.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC-----------CccEEEEEECCHHHHHH----HHHhcCCCcc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-----------GMPVAFADFEEVEQASI----AMEGLQDSTL  266 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~-----------~~~~afV~f~~~e~A~~----Al~~lng~~~  266 (286)
                      .+|.|.+.|+..+++--++..-|-+||.|++|.++.+.           ......+.|-+.+.+..    .+..|+.++-
T Consensus        14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~   93 (309)
T PF10567_consen   14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKT   93 (309)
T ss_pred             eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHH
Confidence            48889999999999999999999999999999998844           23479999999999875    3444544443


Q ss_pred             CCCCCCcEEEEEec
Q 023143          267 PSSDRGGMHIEYAR  280 (286)
Q Consensus       267 ~~~~g~~l~V~~ak  280 (286)
                      .-+ ...|.|+|..
T Consensus        94 ~L~-S~~L~lsFV~  106 (309)
T PF10567_consen   94 KLK-SESLTLSFVS  106 (309)
T ss_pred             hcC-CcceeEEEEE
Confidence            333 4477777764

It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.

>KOG2891 consensus Surface glycoprotein [General function prediction only]

Probab=82.95  E-value=0.41  Score=40.49  Aligned_cols=69  Identities=16%  Similarity=0.310  Sum_probs=47.2

Q ss_pred             CCCCeEEEcCCCCCC------------CHHHHHHHhhcCCCccEEEEE--------ecCCCC----eeE---------EE
Q 023143           33 NGINTLFVSGLPDDV------------RAREIHNLFRRKPGFDFCQLK--------YTGRGN----QVV---------AF   79 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~------------te~~L~~~F~~~G~i~~v~i~--------~~~~~~----~~~---------aF   79 (286)
                      ..-.||++.+||..+            +++.|+..|+.||.|..|.|.        ++++..    ++|         ||
T Consensus       147 erpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeay  226 (445)
T KOG2891|consen  147 ERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAY  226 (445)
T ss_pred             CCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHH
Confidence            334679999999653            678999999999999877664        233331    112         45


Q ss_pred             EEEcCHHHHHHHHHHhCCCccC
Q 023143           80 ATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        80 V~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      |+|..-.--..||..|.|..+.
T Consensus       227 vqfmeykgfa~amdalr~~k~a  248 (445)
T KOG2891|consen  227 VQFMEYKGFAQAMDALRGMKLA  248 (445)
T ss_pred             HHHHHHHhHHHHHHHHhcchHH
Confidence            7776666666777777777663

>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]

Probab=81.87  E-value=1.6  Score=34.68  Aligned_cols=77  Identities=8%  Similarity=0.065  Sum_probs=55.9

Q ss_pred             ccEEEEccCCCCCCH-----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          203 CSTLFIANLGPNCTE-----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       203 ~~~L~v~NL~~~~te-----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++.+.+|+..+..     ....++|.+|-+....++.+..  ++.-|.|.+++.|..|...+++..+.++  +.++.-
T Consensus        10 p~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsf--rrvRi~f~~p~~a~~a~i~~~~~~f~~~--~~~k~y   85 (193)
T KOG4019|consen   10 PTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSF--RRVRINFSNPEAAADARIKLHSTSFNGK--NELKLY   85 (193)
T ss_pred             cceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhh--ceeEEeccChhHHHHHHHHhhhcccCCC--ceEEEE
Confidence            455667788753332     3445588888777666666655  6788999999999999999999999833  377777


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |+....
T Consensus        86 faQ~~~   91 (193)
T KOG4019|consen   86 FAQPGH   91 (193)
T ss_pred             EccCCC
Confidence            776544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	286
2cpx_A	115	Solution Structure Of Rna Binding Domain In Hypothe		8e-04

>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical Protein Flj11016 Length = 115

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 29/95 (30%), Positives = 44/95 (46%), Gaps = 11/95 (11%)
Query: 37  TLFVSGLPDDVRAREIHNLF-----RRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAA 91
            L++  L   V  R++ +LF     ++ P   F  +    RG    AF TF N + A  A
Sbjct: 27  VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQ---AFITFPNKEIAWQA 83
Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           LH +NG K     G +L IE  ++  ++   P SG
Sbjct: 84  LHLVNGYKL---YGKILVIEFGKNKKQRSSGPSSG 115

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	286
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	1e-21
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	1e-06
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	3e-20
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	4e-09
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	4e-07
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-18
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	1e-07
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	2e-12
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	1e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	3e-11
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-09
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	6e-11
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-07
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-04
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	7e-11
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-10
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	9e-04
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-10
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	5e-07
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	2e-10
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	6e-10
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	5e-07
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-09
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	5e-09
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	1e-09
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	6e-06
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	1e-09
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	8e-05
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	2e-09
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	5e-06
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	2e-09
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	3e-09
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	8e-08
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	3e-09
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	3e-09
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	2e-04
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	3e-09
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	9e-09
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-08
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-05
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	2e-08
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	2e-05
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	2e-08
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	4e-06
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	2e-08
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	3e-08
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	4e-04
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-08
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	1e-07
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	1e-07
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	1e-07
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	1e-07
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	4e-05
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-07
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-04
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	2e-07
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	1e-04
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	2e-07
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	2e-07
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-07
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-06
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	6e-07
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	6e-07
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	6e-07
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	8e-07
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	8e-07
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	1e-06
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	1e-06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	1e-06
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	1e-06
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	8e-04
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	2e-06
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	2e-06
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	2e-06
2dis_A	109	Unnamed protein product; structural genomics, RRM	3e-06
2dis_A	109	Unnamed protein product; structural genomics, RRM	8e-05
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	3e-06
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	3e-06
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	1e-04
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	3e-06
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	9e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	7e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-04
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	4e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	4e-06
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	4e-06
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-06
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	1e-04
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-04
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-04
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	5e-06
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	5e-06
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	8e-06
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	9e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	9e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-04
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-05
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	2e-05
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-05
1x5p_A	97	Negative elongation factor E; structure genomics,	2e-05
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-05
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-04
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	3e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	4e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	3e-04
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	5e-05
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	5e-05
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	6e-05
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	1e-04
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	6e-05
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	7e-05
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	8e-05
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	8e-05
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	8e-05
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	9e-05
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	9e-05
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-04
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	8e-04
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	1e-04
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	1e-04
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	1e-04
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	1e-04
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	1e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	5e-04
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	1e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-04
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	1e-04
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-04
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	7e-04
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	2e-04
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	2e-04
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	3e-04
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	3e-04
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	3e-04
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	3e-04
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	3e-04
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	4e-04
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	4e-04
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	4e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	6e-04
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	9e-04

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 90.1 bits (223), Expect = 1e-21
 Identities = 47/282 (16%), Positives = 90/282 (31%), Gaps = 59/282 (20%)

Query: 3   HPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGL-PDDVRAREIHNLFRRKPG 61
           H  +    L P       +  P         G + L VS L P+ V  + +  LF     
Sbjct: 6   HHHHHSSGLVPRGSHMGRIAIPG----LAGAGNSVLLVSNLNPERVTPQSLFILFGVYGD 61

Query: 62  FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
               ++ +  + N   A     +   A  A+  LNG K     G  + I L++  + +  
Sbjct: 62  VQRVKILFNKKEN---ALVQMADGNQAQLAMSHLNGHKLH---GKPIRITLSKHQNVQLP 115

Query: 122 KPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDS 181
           + G                                      D     D+  +   R    
Sbjct: 116 REGQE------------------------------------DQGLTKDYGNSPLHRFKKP 139

Query: 182 GNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGM 241
           G+            ++    P +TL ++N+ P+ +E++LK   S   G        +   
Sbjct: 140 GSKN----------FQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR 189

Query: 242 PVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM 283
            +A      VE+A  A+  L +  L  +    + + +++S +
Sbjct: 190 KMALIQMGSVEEAVQALIDLHNHDLGENHH--LRVSFSKSTI 229

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 47.7 bits (113), Expect = 1e-06
 Identities = 20/115 (17%), Positives = 34/115 (29%), Gaps = 7/115 (6%)

Query: 2   AHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPG 61
                  Y   P+H    P      +         TL +S +P  V   ++  LF    G
Sbjct: 121 DQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSA---TLHLSNIPPSVSEEDLKVLFSSNGG 177

Query: 62  FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSN 116
                  +        A     + + AV AL +L+           L +  ++S 
Sbjct: 178 VVKGFKFFQKDRKM--ALIQMGSVEEAVQALIDLHNHDLGE--NHHLRVSFSKST 228

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 87.2 bits (215), Expect = 3e-20
 Identities = 45/279 (16%), Positives = 93/279 (33%), Gaps = 41/279 (14%)

Query: 36  NTLFVSGLPDDVRARE----IHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAA 91
           +T++++ L + ++  E    ++ +F +        +  + +  +  AF  F    +A  A
Sbjct: 10  HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLK-MRGQAFVIFKEVSSATNA 68

Query: 92  LHELNGVKFDPQSGSVLHIELARSNS-RKKRKPGSGAYVVIDKRTKTEANVQESSSADGD 150
           L  + G  F       + I+ A+++S    +  G+       +  +   + +  ++    
Sbjct: 69  LRSMQGFPFY---DKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAV 125

Query: 151 SDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQ--------- 201
                   V  +     G    TQ+ R         P           G+          
Sbjct: 126 QGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPPGLAPGQIPPGAM 185

Query: 202 --------------------PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGM 241
                               P   LF+ NL     E  L    + +PGF  +++   G  
Sbjct: 186 PPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLV-PGRH 244

Query: 242 PVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR 280
            +AF +F+   QA  A + LQ   +  +    M I +A+
Sbjct: 245 DIAFVEFDNEVQAGAARDALQGFKI--TQNNAMKISFAK 281

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 55.3 bits (132), Expect = 4e-09
 Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 8/88 (9%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPG-----FNMLKMRARGGMPVAFADFEEVEQA 254
            +P  T++I NL     +DELK++L           ++L  R+      AF  F+EV  A
Sbjct: 6   TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSA 65

Query: 255 SIAMEGLQDSTLPSSDRGGMHIEYARSK 282
           + A+  +Q           M I+YA++ 
Sbjct: 66  TNALRSMQGFPFYDKP---MRIQYAKTD 90

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 49.5 bits (117), Expect = 4e-07
 Identities = 29/117 (24%), Positives = 45/117 (38%), Gaps = 8/117 (6%)

Query: 1   MAHPPYDPYYLPP---IHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFR 57
           +  P   P  +PP         P   PP     ++   + LF++ LP++     +  LF 
Sbjct: 170 IPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFN 229

Query: 58  RKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR 114
           + PGF   +L         +AF  F N   A AA   L G K      + + I  A+
Sbjct: 230 QFPGFKEVRLVPGRHD---IAFVEFDNEVQAGAARDALQGFKITQ--NNAMKISFAK 281

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 80.7 bits (199), Expect = 2e-18
 Identities = 43/251 (17%), Positives = 84/251 (33%), Gaps = 55/251 (21%)

Query: 34  GINTLFVSGL-PDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
           G + L VS L P+ V  + +  LF         ++ +  + N   A     +   A  A+
Sbjct: 2   GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKEN---ALVQMADGNQAQLAM 58

Query: 93  HELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSD 152
             LNG K     G  + I L++  + +  + G                            
Sbjct: 59  SHLNGHKLH---GKPIRITLSKHQNVQLPREGQE-------------------------- 89

Query: 153 TDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLG 212
                     D     D+  +   R            +   K ++    P +TL ++N+ 
Sbjct: 90  ----------DQGLTKDYGNSPLHR----------FKKPGSKNFQNIFPPSATLHLSNIP 129

Query: 213 PNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG 272
           P+ +E++LK   S   G        +    +A      VE+A  A+  L +  L  +   
Sbjct: 130 PSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHH- 188

Query: 273 GMHIEYARSKM 283
            + + +++S +
Sbjct: 189 -LRVSFSKSTI 198

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 49.9 bits (119), Expect = 1e-07
 Identities = 20/114 (17%), Positives = 34/114 (29%), Gaps = 7/114 (6%)

Query: 2   AHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPG 61
                  Y   P+H    P      +         TL +S +P  V   ++  LF    G
Sbjct: 90  DQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSA---TLHLSNIPPSVSEEDLKVLFSSNGG 146

Query: 62  FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS 115
                  +        A     + + AV AL +L+           L +  ++S
Sbjct: 147 VVKGFKFFQKDRKM--ALIQMGSVEEAVQALIDLHNHDLGE--NHHLRVSFSKS 196

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 10/95 (10%)

Query: 33  NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL-KYTGRGNQVVAFATFVNHQTAVAA 91
           +G + + V  LP D   +E+H+L  +     +C + +          F T +N + A  A
Sbjct: 3   SGSSGILVKNLPQDSNCQEVHDLL-KDYDLKYCYVDRNKRTA-----FVTLLNGEQAQNA 56

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +   +   F    G  L ++L  +++     P SG
Sbjct: 57  IQMFHQYSFR---GKDLIVQLQPTDALLCSGPSSG 88

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 3/63 (4%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD 263
           S + + NL  +    E+   L  Y       +        AF      EQA  A++    
Sbjct: 6   SGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDRNKRT--AFVTLLNGEQAQNAIQMFHQ 62

Query: 264 STL 266
            + 
Sbjct: 63  YSF 65

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 58.3 bits (141), Expect = 3e-11
 Identities = 22/104 (21%), Positives = 36/104 (34%), Gaps = 9/104 (8%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ 75
                   PP    +       ++V  LP D R  ++    R         L+ T +G +
Sbjct: 3   SGSSGPGSPP---GEGAPLAADVYVGNLPRDARVSDLKRALRE---LGSVPLRLTWQGPR 56

Query: 76  VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRK 119
             AF  + +   A  A+  L G++        L + LAR    K
Sbjct: 57  RRAFLHYPDSAAAQQAVSCLQGLRLG---TDTLRVALARQQRDK 97

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 21/102 (20%), Positives = 39/102 (38%), Gaps = 8/102 (7%)

Query: 186 APINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAF 245
           +  +     P   G    + +++ NL  +    +LK+ L    G   L++  +G    AF
Sbjct: 2   SSGSSGPGSPPGEGAPLAADVYVGNLPRDARVSDLKRALREL-GSVPLRLTWQGPRRRAF 60

Query: 246 ADFEEVEQASIAMEGLQDSTLPSSDRGG--MHIEYARSKMRK 285
             + +   A  A+  LQ   L     G   + +  AR +  K
Sbjct: 61  LHYPDSAAAQQAVSCLQGLRL-----GTDTLRVALARQQRDK 97

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 59.7 bits (144), Expect = 6e-11
 Identities = 24/241 (9%), Positives = 56/241 (23%), Gaps = 57/241 (23%)

Query: 36  NTLFVSGL-PDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
             L V GL    +    + N+F      +  +   +  G    A     +      A+  
Sbjct: 5   PVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGA---AMVEMADGYAVDRAITH 61

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTD 154
           LN      Q    +++ +++  +    +                                
Sbjct: 62  LNNNFMFGQK---MNVCVSKQPAIMPGQSYG----------------------------- 89

Query: 155 EASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCS-TLFIANLGP 213
                           +   S    D   +        E+  +  +Q  S  L   N   
Sbjct: 90  ----------------LEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPL 133

Query: 214 NCTEDELKQTLSVYPGFNMLKMRARGGMP----VAFADFEEVEQASIAMEGLQDSTLPSS 269
             TE+   +            ++   G          +++    A   +  L    + + 
Sbjct: 134 EVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNP 193

Query: 270 D 270
           +
Sbjct: 194 N 194

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 49.7 bits (118), Expect = 2e-07
 Identities = 12/105 (11%), Positives = 26/105 (24%), Gaps = 3/105 (2%)

Query: 12  PPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG 71
                      P      +  +  N L     P +V       +           +K   
Sbjct: 100 FSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFS 159

Query: 72  RGNQV--VAFATFVNHQTAVAALHELNGVKFDPQSGSV-LHIELA 113
             ++        + +   A+  L  LN  +    +G     ++L 
Sbjct: 160 GKSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC 204

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 40.5 bits (94), Expect = 2e-04
 Identities = 11/84 (13%), Positives = 28/84 (33%), Gaps = 7/84 (8%)

Query: 202 PCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLK-MRARGGMPVAFADFEEVEQASIAME 259
               L +  L       D +     +Y     +K M+++ G   A  +  +      A+ 
Sbjct: 3   DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGA--AMVEMADGYAVDRAIT 60

Query: 260 GLQDSTLPSSDRGGMHIEYARSKM 283
            L ++ +       M++  ++   
Sbjct: 61  HLNNNFMFGQK---MNVCVSKQPA 81

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 56.8 bits (138), Expect = 7e-11
 Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 27/98 (27%)

Query: 38  LFVSGLPDDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNHQTA 88
           LF+  LP +   +EI +LF +            +                F    +   A
Sbjct: 11  LFIGNLPREATEQEIRSLFEQYGKVLECDIIKNY---------------GFVHIEDKTAA 55

Query: 89  VAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             A+  L+  K     G  +++E +++ S+    P SG
Sbjct: 56  EDAIRNLHHYKLH---GVNINVEASKNKSKASSGPSSG 90

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 55.7 bits (135), Expect = 2e-10
 Identities = 19/100 (19%), Positives = 31/100 (31%), Gaps = 27/100 (27%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNHQ 86
             L V  +      +E+   F              +               AF      +
Sbjct: 11  TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY---------------AFVHMERAE 55

Query: 87  TAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            AV A+  L+  +F    G  +H++L+ S  R    P SG
Sbjct: 56  DAVEAIRGLDNTEFQ---GKRMHVQLSTSRLRTASGPSSG 92

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 36.8 bits (86), Expect = 9e-04
 Identities = 21/96 (21%), Positives = 35/96 (36%), Gaps = 29/96 (30%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVY---------PGFNMLKMRARGGMPVAFADFEEV 251
           +  + L + N+ P CT  EL+     Y           +             AF   E  
Sbjct: 8   KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY-------------AFVHMERA 54

Query: 252 EQASIAMEGLQDSTLPSSDRGG--MHIEYARSKMRK 285
           E A  A+ GL ++        G  MH++ + S++R 
Sbjct: 55  EDAVEAIRGLDNTEF-----QGKRMHVQLSTSRLRT 85

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 55.7 bits (135), Expect = 2e-10
 Identities = 25/99 (25%), Positives = 37/99 (37%), Gaps = 7/99 (7%)

Query: 28  HQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQT 87
            +   + +  L+V  L        I   F         ++K   R     AF  F N + 
Sbjct: 8   DEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK-KIRD---YAFVHFSNRED 63

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           AV A+  LNG   D   GS + + LA+   +    P SG
Sbjct: 64  AVEAMKALNGKVLD---GSPIEVTLAKPVDKDSSGPSSG 99

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 46.1 bits (110), Expect = 5e-07
 Identities = 17/98 (17%), Positives = 35/98 (35%), Gaps = 11/98 (11%)

Query: 191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLK-MRARGGMPVAFADFE 249
                 E  +     L++ NL  + +E+ +++  +      + +  + R     AF  F 
Sbjct: 3   SGSSGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD---YAFVHFS 59

Query: 250 EVEQASIAMEGLQDSTLPSSDRGG--MHIEYARSKMRK 285
             E A  AM+ L    L      G  + +  A+   + 
Sbjct: 60  NREDAVEAMKALNGKVL-----DGSPIEVTLAKPVDKD 92

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 55.8 bits (135), Expect = 2e-10
 Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 4/91 (4%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             ++V  LP D+R ++I ++F +        LK    G    AF  F + + A  A++  
Sbjct: 23  CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPP-FAFVEFEDPRDAEDAVYGR 81

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +G  +D   G  L +E  RS       P SG
Sbjct: 82  DGYDYD---GYRLRVEFPRSGRGTGSGPSSG 109

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 55.3 bits (133), Expect = 6e-10
 Identities = 17/114 (14%), Positives = 39/114 (34%), Gaps = 11/114 (9%)

Query: 174 QSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTL----SVY-P 228
           ++  A      +   +  S  P+    +P   + I N+ P   +++L+  L    S    
Sbjct: 3   ETAAAKFERQHMDSPDLGSTPPHT---EPSQVVLITNINPEVPKEKLQALLYALASSQGD 59

Query: 229 GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
             +++   +      A+  F   E A   +E  Q           + I ++ + 
Sbjct: 60  ILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPF--QGN-PLVITFSETP 110

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 46.8 bits (111), Expect = 5e-07
 Identities = 17/118 (14%), Positives = 39/118 (33%), Gaps = 19/118 (16%)

Query: 12  PPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRARE----IHNLFRRKPGFDFCQL 67
           P +   PP   P              + ++ +  +V   +    ++ L   +       +
Sbjct: 17  PDLGSTPPHTEP-----------SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVV 65

Query: 68  KYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
             +   +   A+  F   ++A A +    G  F    G+ L I  + +   +  + GS
Sbjct: 66  DLSDDNSGK-AYIVFATQESAQAFVEAFQGYPFQ---GNPLVITFSETPQSQVAEDGS 119

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 54.2 bits (131), Expect = 1e-09
 Identities = 32/108 (29%), Positives = 48/108 (44%), Gaps = 11/108 (10%)

Query: 24  PPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TG--RGNQVVA 78
           P +           L++  L   V  R++ +LF R        +++   TG  RG Q  A
Sbjct: 14  PMFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRG-Q--A 70

Query: 79  FATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           F TF N + A  ALH +NG K     G +L IE  ++  ++   P SG
Sbjct: 71  FITFPNKEIAWQALHLVNGYKLY---GKILVIEFGKNKKQRSSGPSSG 115

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 52.3 bits (126), Expect = 5e-09
 Identities = 25/98 (25%), Positives = 38/98 (38%), Gaps = 18/98 (18%)

Query: 194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFN-------MLKMRARGGMPVAFA 246
             Y  G +P   L++ NL P  TE +L    + +           M+  R RG    AF 
Sbjct: 17  SSYNPG-EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRG---QAFI 72

Query: 247 DFEEVEQASIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
            F   E A  A+  +    L      G  + IE+ ++K
Sbjct: 73  TFPNKEIAWQALHLVNGYKL-----YGKILVIEFGKNK 105

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 53.4 bits (129), Expect = 1e-09
 Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 22/94 (23%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFN----------MLKMRARGGMPVAFADFEE 250
           +P  T++I NL     +DELK++L  +  F+             ++ RG    AF  F+E
Sbjct: 6   RPNHTIYINNLNEKIKKDELKKSL--HAIFSRFGQILDILVSRSLKMRG---QAFVIFKE 60

Query: 251 VEQASIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
           V  A+ A+  +Q             M I+YA++ 
Sbjct: 61  VSSATNALRSMQGFPF-----YDKPMRIQYAKTD 89

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 43.0 bits (102), Expect = 6e-06
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 12/93 (12%)

Query: 36  NTLFVSGLPDDVRA----REIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAV 89
           +T++++ L + ++     + +H +F R        +  +   RG    AF  F    +A 
Sbjct: 9   HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRG---QAFVIFKEVSSAT 65

Query: 90  AALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
            AL  + G  F       + I+ A+++S    K
Sbjct: 66  NALRSMQGFPFY---DKPMRIQYAKTDSDIIAK 95

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 54.9 bits (132), Expect = 1e-09
 Identities = 18/105 (17%), Positives = 33/105 (31%), Gaps = 6/105 (5%)

Query: 14  IHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG 73
                       + H+        ++V  L ++    E+   F          +     G
Sbjct: 52  FTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG 111

Query: 74  NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSR 118
               AF  F + + A  A+ EL+G       G  + +EL+    R
Sbjct: 112 ---FAFVEFEDPRDAADAVRELDGRTLC---GCRVRVELSNGEKR 150

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 41.0 bits (96), Expect = 8e-05
 Identities = 27/153 (17%), Positives = 52/153 (33%), Gaps = 6/153 (3%)

Query: 134 RTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTT--QSERATDSGNAVAPINEQ 191
           + K   N +           D A+  +        + V      + AT +       +  
Sbjct: 2   QYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHH 61

Query: 192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEV 251
               +         +++ NLG N  + EL++    Y     + + AR     AF +FE+ 
Sbjct: 62  HHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWV-ARNPPGFAFVEFEDP 120

Query: 252 EQASIAMEGLQDSTLPSSDRGGMHIEYARSKMR 284
             A+ A+  L   TL       + +E +  + R
Sbjct: 121 RDAADAVRELDGRTL---CGCRVRVELSNGEKR 150

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 23/111 (20%), Positives = 41/111 (36%), Gaps = 27/111 (24%)

Query: 20  PVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR---------KPGFDFCQLKYT 70
           P     +H Q+ +     LFV   P DV+  E++ +F             GF        
Sbjct: 16  PRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGF-------- 67

Query: 71  GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
                  AF  F   ++A  A+ E++G  F       L +  ++  +++ R
Sbjct: 68  -------AFVEFEEAESAAKAIEEVHGKSFA---NQPLEVVYSKLPAKRYR 108

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 43.8 bits (104), Expect = 5e-06
 Identities = 20/108 (18%), Positives = 38/108 (35%), Gaps = 26/108 (24%)

Query: 187 PINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVY---------PGFNMLKMRA 237
           P         EG +   + LF+     +  E EL +    +          GF       
Sbjct: 16  PRGSHMHHRQEGELSN-TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGF------- 67

Query: 238 RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
                 AF +FEE E A+ A+E +   +  +     + + Y++   ++
Sbjct: 68  ------AFVEFEEAESAAKAIEEVHGKSFANQP---LEVVYSKLPAKR 106

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 52.8 bits (127), Expect = 2e-09
 Identities = 20/101 (19%), Positives = 34/101 (33%), Gaps = 28/101 (27%)

Query: 36  NTLFVSGLP-DDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNH 85
           + +F+  L    V+  ++  +F +           G+               AF  + N 
Sbjct: 28  SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGY---------------AFVQYSNE 72

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           + A AA+   NG       G  L I +A      +  P SG
Sbjct: 73  RHARAAVLGENGRVLA---GQTLDINMAGEPKPDRSGPSSG 110

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 19/85 (22%), Positives = 39/85 (45%), Gaps = 3/85 (3%)

Query: 198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIA 257
           G   P + L++  LGPN +   L +    + G ++  +    G   A+  +E ++ A  A
Sbjct: 12  GKANPTTRLWVGGLGPNTSLAALAREFDRF-G-SIRTIDHVKGDSFAYIQYESLDAAQAA 69

Query: 258 MEGLQDSTLPSSDRGGMHIEYARSK 282
              ++   L   DR  + +++A+S 
Sbjct: 70  CAKMRGFPLGGPDR-RLRVDFAKSG 93

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 48.4 bits (116), Expect = 8e-08
 Identities = 16/87 (18%), Positives = 29/87 (33%), Gaps = 13/87 (14%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY----TGRGNQVVAFATFVNHQTAVAA 91
             L+V GL  +     +   F R     F  ++      G      A+  + +   A AA
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDR-----FGSIRTIDHVKGDSF---AYIQYESLDAAQAA 69

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSR 118
             ++ G          L ++ A+S   
Sbjct: 70  CAKMRGFPLGGPDR-RLRVDFAKSGPS 95

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 20/101 (19%), Positives = 34/101 (33%), Gaps = 28/101 (27%)

Query: 36  NTLFVSGLP-DDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNH 85
           + LF+  LP  +V   ++  +F           K  F                F  F N 
Sbjct: 11  SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAF---------------GFIQFDNP 55

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           Q+   A+   +        G  L +E++ SN+R +   G  
Sbjct: 56  QSVRDAIECESQEMNF---GKKLILEVSSSNARPQFDHGDH 93

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 22/109 (20%), Positives = 33/109 (30%), Gaps = 29/109 (26%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFR-----------RKPGFDFCQLKYTGRGNQVV 77
           ++     + LFV  LP D+   E+  LF            +  GF               
Sbjct: 9   EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF--------------- 53

Query: 78  AFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            F        A  A  EL+ +      G  L +  A  ++     P SG
Sbjct: 54  GFIRLETRTLAEIAKVELDNMPLR---GKQLRVRFACHSASLTSGPSSG 99

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 38.8 bits (91), Expect = 2e-04
 Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 11/85 (12%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLK-MRARGGMPVAFADFEEVEQASIAMEGLQ 262
           S LF+ NL P+ TE+E+++    Y     +   + +G     F   E    A IA   L 
Sbjct: 16  SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG---FGFIRLETRTLAEIAKVELD 72

Query: 263 DSTLPSSDRGG--MHIEYARSKMRK 285
           +  L      G  + + +A      
Sbjct: 73  NMPL-----RGKQLRVRFACHSASL 92

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 51.8 bits (125), Expect = 3e-09
 Identities = 22/99 (22%), Positives = 37/99 (37%), Gaps = 28/99 (28%)

Query: 37  TLFVSGLPDDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNHQT 87
            +FV  +     ++E+ +LF R            +               AF        
Sbjct: 11  KIFVGNVSAACTSQELRSLFERRGRVIECDVVKDY---------------AFVHMEKEAD 55

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           A AA+ +LNG +     G  +++EL+    +KK  P SG
Sbjct: 56  AKAAIAQLNGKEVK---GKRINVELSTKG-QKKSGPSSG 90

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 52.0 bits (125), Expect = 9e-09
 Identities = 27/121 (22%), Positives = 38/121 (31%), Gaps = 19/121 (15%)

Query: 16  PPPPPVPPPPYHHQQQDNGI---------NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQ 66
                  P  + H   D+G            L VS L   V   +I  LF          
Sbjct: 7   GQQMGRDPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAA 66

Query: 67  LKY--TGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
           + Y  +GR  G    A   F     A+ A+ +  GV  D   G  + I+L  S    +  
Sbjct: 67  VDYDRSGRSLG---TADVHFERRADALKAMKQYKGVPLD---GRPMDIQLVASQIDLEHH 120

Query: 123 P 123
            
Sbjct: 121 H 121

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 50.0 bits (120), Expect = 2e-08
 Identities = 20/91 (21%), Positives = 34/91 (37%), Gaps = 13/91 (14%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMR---------ARGGMPVAFADFEEV 251
               T+ + N+ P+   D +   LS Y    +  +R          RG    AF      
Sbjct: 7   HHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRG---FAFVQLSSA 63

Query: 252 EQASIAMEGLQDSTLPSSDRG-GMHIEYARS 281
             AS  ++ LQ    P    G  + +++A+S
Sbjct: 64  MDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 16/97 (16%), Positives = 28/97 (28%), Gaps = 13/97 (13%)

Query: 27  HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL-----KYTG--RGNQVVAF 79
           HH       +T+ +  +        I              +     K T   RG    AF
Sbjct: 3   HHHHHHM--DTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRG---FAF 57

Query: 80  ATFVNHQTAVAALHELNGVKFDPQ-SGSVLHIELARS 115
               +   A   L  L  +    +  G  + ++ A+S
Sbjct: 58  VQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 49.9 bits (120), Expect = 2e-08
 Identities = 22/106 (20%), Positives = 41/106 (38%), Gaps = 30/106 (28%)

Query: 33  NGINTLFVSGLPDDVRAREIHNLFR-----------RKPGFDFCQLKYTGRGNQVVAFAT 81
           +G+N L++  L   V A ++  LF             K G+               AF  
Sbjct: 6   SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGY---------------AFVD 50

Query: 82  FVNHQTAVAALHELNG-VKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           + +   A+ A+  L+G V+     G ++ ++ + S   +   P SG
Sbjct: 51  YPDQNWAIRAIETLSGKVELH---GKIMEVDYSVSKKLRSSGPSSG 93

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 10/87 (11%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVY-PGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
             + L+I NL P  T D+L+Q             +   G    AF D+ +   A  A+E 
Sbjct: 7   GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSG---YAFVDYPDQNWAIRAIET 63

Query: 261 LQDSTLPSSDRGG--MHIEYARSKMRK 285
           L        +  G  M ++Y+ SK  +
Sbjct: 64  LSGKV----ELHGKIMEVDYSVSKKLR 86

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 51.4 bits (123), Expect = 2e-08
 Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 23/103 (22%)

Query: 194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFN------------MLKMRARGGM 241
           + YE G +P   +++ NL  +  E +LK     Y  F+            M + R +G  
Sbjct: 37  RSYEPG-EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKG-- 93

Query: 242 PVAFADFEEVEQASIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
             AF      + A+ A++      L      G  M +++ARS 
Sbjct: 94  -QAFIGLPNEKAAAKALKEANGYVL-----FGKPMVVQFARSA 130

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 44.8 bits (106), Expect = 4e-06
 Identities = 24/108 (22%), Positives = 40/108 (37%), Gaps = 14/108 (12%)

Query: 24  PPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR---------KPGFDFCQLKYTGRGN 74
             +   +       ++V  L   V+ +++  +F R         +  FD  +L   GR  
Sbjct: 34  SVFRSYEPGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDI-RLMKEGRMK 92

Query: 75  QVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
              AF    N + A  AL E NG       G  + ++ ARS   K+  
Sbjct: 93  GQ-AFIGLPNEKAAAKALKEANGYVLF---GKPMVVQFARSARPKQDP 136

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 50.5 bits (121), Expect = 2e-08
 Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 19/104 (18%)

Query: 36  NTLFVSGLPDDVRAREIHNLFR--------RKPGFDFCQL---KYTGR--GNQVVAFATF 82
           + ++V GL D V   ++ + F+        ++ G     +   K TG+  G+   A  ++
Sbjct: 16  SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGD---ATVSY 72

Query: 83  VNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            +  TA AA+   +G  F    GS L + LAR        P SG
Sbjct: 73  EDPPTAKAAVEWFDGKDFQ---GSKLKVSLARKKPPMNSGPSSG 113

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 49.6 bits (119), Expect = 3e-08
 Identities = 19/98 (19%), Positives = 34/98 (34%), Gaps = 8/98 (8%)

Query: 34  GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVV-----AFATFVNHQTA 88
           G + LF+  L        +  +F +      C +        V+      F  +   + A
Sbjct: 4   GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQA 63

Query: 89  VAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             AL +L G   D   G  L + ++   ++    P SG
Sbjct: 64  QKALKQLQGHTVD---GHKLEVRISERATKPASGPSSG 98

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 38.0 bits (89), Expect = 4e-04
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 7/75 (9%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFN--MLKMRARGGMPV-----AFADFEEV 251
           G    S LFI NL  + TE+ LK   S         +  +      +      F ++++ 
Sbjct: 1   GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60

Query: 252 EQASIAMEGLQDSTL 266
           EQA  A++ LQ  T+
Sbjct: 61  EQAQKALKQLQGHTV 75

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 49.6 bits (119), Expect = 3e-08
 Identities = 18/106 (16%), Positives = 32/106 (30%), Gaps = 17/106 (16%)

Query: 16  PPPPPVPPPPYHH--QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---- 69
             PP V P    H  +     + T ++  +P      ++  LF+      F  +      
Sbjct: 6   GLPPQVNPQAVDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQN-----FGFILDFKHY 60

Query: 70  TGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS 115
             +G     F  +  H+ A   +  L    F    G  L     + 
Sbjct: 61  PEKG---CCFIKYDTHEQAAVCIVALANFPFQ---GRNLRTGWGKE 100

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD 263
           +T +I N+    TE +L      +      K     G    F  ++  EQA++ +  L +
Sbjct: 28  TTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKG--CCFIKYDTHEQAAVCIVALAN 85

Query: 264 STL 266
              
Sbjct: 86  FPF 88

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 48.7 bits (116), Expect = 1e-07
 Identities = 22/110 (20%), Positives = 36/110 (32%), Gaps = 11/110 (10%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ 75
            P     PP    +      N + VSGLP     +++ +  R      +  +   G G  
Sbjct: 3   APRGRYGPPSRRSE------NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTG-- 54

Query: 76  VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
                 FV  +    A+ +L+  KF    G   +I +     R      S
Sbjct: 55  ---VVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRS 101

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 48.1 bits (115), Expect = 1e-07
 Identities = 19/90 (21%), Positives = 31/90 (34%), Gaps = 6/90 (6%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG 97
           ++V  L       E+   F          +     G    AF  F + + A  A+  L+G
Sbjct: 3   VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG---FAFVEFEDPRDAEDAVRGLDG 59

Query: 98  VKFDPQSGSVLHIELARSNSRKKRKPGSGA 127
                  GS + +EL+    R+ R     A
Sbjct: 60  KVIC---GSRVRVELSTGMPRRSRFDRPPA 86

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 49.5 bits (118), Expect = 1e-07
 Identities = 28/131 (21%), Positives = 40/131 (30%), Gaps = 18/131 (13%)

Query: 4   PPYDPYYLPPIHPPPPPVPPPPYH--------HQQQDNGINTLFVSGLPDDVRAREIHNL 55
                   P  +  P P+P    H          +       L VS L   V   +I  L
Sbjct: 49  IARGGRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQEL 108

Query: 56  FRRKPGFDFCQLKY--TGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE 111
           F          + Y  +GR  G    A   F     A+ A+ +  GV  D   G  + I+
Sbjct: 109 FAEFGTLKKAAVDYDRSGRSLG---TADVHFERRADALKAMKQYKGVPLD---GRPMDIQ 162

Query: 112 LARSNSRKKRK 122
           L  S    +  
Sbjct: 163 LVASQIDLEHH 173

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 27/101 (26%), Positives = 41/101 (40%), Gaps = 25/101 (24%)

Query: 38  LFVSGLPDDVRAREIHNLF------------RRKPGFDFCQLKYTGRGNQVVAFATFVNH 85
           LFV  L       ++  LF            R   G        + +G    AF  F +H
Sbjct: 18  LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDG--------SSKG---CAFVKFSSH 66

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             A AA+H L+G +  P + S L ++ A  ++ K+  P SG
Sbjct: 67  TEAQAAIHALHGSQTMPGASSSLVVKFA--DTDKESGPSSG 105

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 41.1 bits (97), Expect = 4e-05
 Identities = 14/83 (16%), Positives = 30/83 (36%), Gaps = 3/83 (3%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLK-MRARGGMP--VAFADFEEVEQASIAMEGLQ 262
           LF+  L    +E+++ +    +   +    +R   G     AF  F    +A  A+  L 
Sbjct: 18  LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH 77

Query: 263 DSTLPSSDRGGMHIEYARSKMRK 285
            S         + +++A +    
Sbjct: 78  GSQTMPGASSSLVVKFADTDKES 100

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 44/277 (15%), Positives = 87/277 (31%), Gaps = 52/277 (18%)

Query: 15  HPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGN 74
              P  +     H ++Q      + + GLP DV  +E+H+L        +C +    +G 
Sbjct: 2   MLDPEEIRKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLL-SDYELKYCFVDKY-KG- 58

Query: 75  QVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKR 134
              AF T +N + A AA++  +  +        L ++L  +++           V     
Sbjct: 59  --TAFVTLLNGEQAEAAINAFHQSRLR---ERELSVQLQPTDAL--------LCV----- 100

Query: 135 TKTEANVQESSSADGDSDTDEASPVRNIDSAD-KGDFVTTQS--------ERATDSGNAV 185
               AN+    S       +   P  +++         T QS         +   +  A 
Sbjct: 101 ----ANL--PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAK 154

Query: 186 APINEQ------------SEKPYEGGVQPCSTLFIANLGPNCTEDE-LKQTLSVYPGFNM 232
           + +  +                    +     L +  L P   + + L + LS       
Sbjct: 155 SDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTF 214

Query: 233 LK-MRARGGMP--VAFADFEEVEQASIAMEGLQDSTL 266
            +    + G     A  ++E  E A  A +     +L
Sbjct: 215 CQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSL 251

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 40.3 bits (95), Expect = 4e-04
 Identities = 16/87 (18%), Positives = 25/87 (28%), Gaps = 5/87 (5%)

Query: 36  NTLFVSGLPDDVRARE-IHNLFRRKPGFDFCQLKYTGRGNQV-VAFATFVNHQTAVAALH 93
             L V  LP      + +           FCQL     G     A   +   + A  A  
Sbjct: 185 RCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQ 244

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKK 120
           + +G+      GS L +         +
Sbjct: 245 QADGLSLG---GSHLRVSFCAPGPPGR 268

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 19/93 (20%), Positives = 32/93 (34%), Gaps = 28/93 (30%)

Query: 36  NTLFVSGLP-DDVRAREIHNLFRR---------KPGFDFCQLKYTGRGNQVVAFATFVNH 85
           + LF+  LP  +V   ++  +F           K  F                F  F N 
Sbjct: 23  SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAF---------------GFIQFDNP 67

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSR 118
           Q+   A+   +        G  L +E++ SN+R
Sbjct: 68  QSVRDAIEXESQEMNF---GKKLILEVSSSNAR 97

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 47.9 bits (114), Expect = 2e-07
 Identities = 24/114 (21%), Positives = 32/114 (28%), Gaps = 13/114 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             +    LP    A EI   F R        L   G    + A   F+    A  A   L
Sbjct: 11  TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGG----ITAIVEFLEPLEARKAFRHL 66

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADG 149
              KF       L++E A                  D + +  A   ES  + G
Sbjct: 67  AYSKFH---HVPLYLEWAPIGVFGAAPQKK------DSQHEQPAEKAESGPSSG 111

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 47.4 bits (113), Expect = 2e-07
 Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 4/81 (4%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             L +  +P  ++   + +L  +    + C+   T      V   T+ +   A  AL +L
Sbjct: 16  RKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETA-VVNVTYSSKDQARQALDKL 74

Query: 96  NGVKFDPQSGSVLHIELARSN 116
           NG + +      L +      
Sbjct: 75  NGFQLE---NFTLKVAYIPDE 92

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 15/83 (18%), Positives = 29/83 (34%), Gaps = 4/83 (4%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVY-PGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           Q    L I N+ P+   + L   L  Y    +  ++       V    +   +QA  A++
Sbjct: 13  QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALD 72

Query: 260 GLQDSTLPSSDRGGMHIEYARSK 282
            L    L +     + + Y   +
Sbjct: 73  KLNGFQLENFT---LKVAYIPDE 92

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 20/97 (20%), Positives = 33/97 (34%), Gaps = 7/97 (7%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRGNQV-VAFA 80
                      G   + V  +P  V   EI + F   +       LKY  +G     A  
Sbjct: 3   SGSSGSSSGKPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMV 62

Query: 81  TFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNS 117
            F +   A AA+ +LN      +      ++L+  +S
Sbjct: 63  AFESRDEATAAVIDLNDRPIGSR-----KVKLSGPSS 94

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 11/101 (10%)

Query: 31  QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNH 85
             +G+ TL V  L        +  +F +        +    +T   RG    AF  F + 
Sbjct: 9   DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRG---FAFVRFHDR 65

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           + A  A   ++G + D   G  L +++AR   R    P SG
Sbjct: 66  RDAQDAEAAMDGAELD---GRELRVQVARYGRRDLSGPSSG 103

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 47.4 bits (113), Expect = 2e-07
 Identities = 15/105 (14%), Positives = 36/105 (34%), Gaps = 21/105 (20%)

Query: 22  PPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TG--RGNQV 76
             P             +  + L D+VR   + ++ R+    +  ++     T    G   
Sbjct: 3   QIPL----------KEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGL-- 50

Query: 77  VAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
            A   F + + A   +  L+        G+++H +L     ++ +
Sbjct: 51  -ARVLFTSTRGAKETVKNLHLTSVM---GNIIHAQLDIKGQQRMK 91

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 44.7 bits (106), Expect = 2e-06
 Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 10/76 (13%)

Query: 198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARGGMPVAFADFEE 250
           GG  P   +  A L  N  E  LK     Y     +++       +  G   +A   F  
Sbjct: 1   GGQIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLG---LARVLFTS 57

Query: 251 VEQASIAMEGLQDSTL 266
              A   ++ L  +++
Sbjct: 58  TRGAKETVKNLHLTSV 73

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 47.0 bits (112), Expect = 3e-07
 Identities = 27/112 (24%), Positives = 49/112 (43%), Gaps = 19/112 (16%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLF--------RRKPGFDFCQL---KYTGR--GNQ 75
           +Q ++  NT+FV GL ++V    + + F         +K G     L   + TG+  G  
Sbjct: 1   EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGE- 59

Query: 76  VVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGA 127
             A  +F +  +A AA+   +G +F    G+ + +  A   +   R  G+G 
Sbjct: 60  --ATVSFDDPPSAKAAIDWFDGKEFS---GNPIKVSFATRRADFNRGGGNGR 106

>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 = 49.9 bits (118), Expect = 5e-07
 Identities = 35/291 (12%), Positives = 75/291 (25%), Gaps = 96/291 (32%)

Query: 4   PPYDPYYLPPIHPPP-PPVPPPPYHHQQQDNGINT--LFVSGLPDDV-RAREIHNLFRRK 59
             Y  + + PI      P      + +Q+D   N   +F      +V R +    L R+ 
Sbjct: 89  INY-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA---KYNVSRLQPYLKL-RQA 143

Query: 60  PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG-SVLHIELARSNSR 118
                 +L+       V+              +  + G      SG + + +++  S   
Sbjct: 144 ----LLELR---PAKNVL--------------IDGVLG------SGKTWVALDVCLSYKV 176

Query: 119 KKRKPGSGAYVVIDKRTKTEA----------------NVQESSSADGDSDTDEASP---- 158
           + +      ++ +      E                   +   S++              
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236

Query: 159 ----------------VRNIDSADKGDF-----VTTQSERATDSGNAVAPINEQSEKPYE 197
                           V+N  + +  +      +TT+ ++ TD  +A    +   +    
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296

Query: 198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPG--FNMLKMRARGGMPVAFA 246
                             T DE+K  L  Y       L        P   +
Sbjct: 297 T--------L--------TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 46.1 bits (110), Expect = 6e-07
 Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 9/101 (8%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGRGNQVVAFATFVNH 85
            +  +    L VS +P   R  ++  +F +       ++   +   +G     F TF N 
Sbjct: 9   SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKG---FGFVTFENS 65

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             A  A  +L+G   +   G  + +  A +       P SG
Sbjct: 66  ADADRAREKLHGTVVE---GRKIEVNNATARVMTNSGPSSG 103

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 46.2 bits (110), Expect = 6e-07
 Identities = 23/103 (22%), Positives = 45/103 (43%), Gaps = 4/103 (3%)

Query: 27  HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGRGNQVVAFATFV 83
               +D+    LF+  +P ++  +++  LF          +   ++TG  ++  AF T+ 
Sbjct: 5   SSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGM-HKGCAFLTYC 63

Query: 84  NHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             ++A+ A   L+  K  P     + ++ A S SR    P SG
Sbjct: 64  ERESALKAQSALHEQKTLPGMNRPIQVKPADSESRGGSGPSSG 106

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 46.3 bits (110), Expect = 6e-07
 Identities = 20/99 (20%), Positives = 34/99 (34%), Gaps = 11/99 (11%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATF 82
           PP    +      N + VSGLP     +++ +  R      +  +   G G        F
Sbjct: 9   PPSRRSE------NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTG-----VVEF 57

Query: 83  VNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           V  +    A+ +L+  KF    G   +I +     R   
Sbjct: 58  VRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPS 96

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 45.5 bits (108), Expect = 8e-07
 Identities = 14/82 (17%), Positives = 31/82 (37%), Gaps = 3/82 (3%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
                + I  L     E +L + L  +   + + +  +     A  +FE+V  A  A+  
Sbjct: 19  PASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQ--ALVEFEDVLGACNAVNY 76

Query: 261 LQDSTLPSSDRGGMHIEYARSK 282
             D+ +  +      + Y+ S+
Sbjct: 77  AADNQIYIAGH-PAFVNYSTSQ 97

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 45.8 bits (109), Expect = 8e-07
 Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 21/104 (20%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLF--------RRKPGFDFCQL---KYTG 71
              +HH   DN  NT+FV GL ++V    + + F         +K G     L   + TG
Sbjct: 3   HHHHHHSHSDN--NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG 60

Query: 72  R--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA 113
           +  G    A  +F +  +A AA+   +G +F    G+ + +  A
Sbjct: 61  KLKGE---ATVSFDDPPSAKAAIDWFDGKEFS---GNPIKVSFA 98

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 45.4 bits (108), Expect = 1e-06
 Identities = 29/110 (26%), Positives = 40/110 (36%), Gaps = 19/110 (17%)

Query: 19  PPVPPPPYHHQQQDNGI---------NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY 69
           P   P  + H   D+G            L VS L   V   +I  LF          + Y
Sbjct: 4   PKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHY 63

Query: 70  --TGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS 115
             +GR  G    A   F     A+ A+ + NGV  D   G  ++I+L  S
Sbjct: 64  DRSGRSLG---TADVHFERKADALKAMKQYNGVPLD---GRPMNIQLVTS 107

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 45.4 bits (108), Expect = 1e-06
 Identities = 19/116 (16%), Positives = 37/116 (31%), Gaps = 17/116 (14%)

Query: 17  PPPPVPPPPY--HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY----T 70
                    +     Q      T++  G+   +  + +   F       F Q+       
Sbjct: 5   SSGNTKQLRFEDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSP-----FGQIMEIRVFP 59

Query: 71  GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            +G    +F  F  H++A  A+  +NG   +   G V+     + +      P SG
Sbjct: 60  EKG---YSFVRFSTHESAAHAIVSVNGTTIE---GHVVKCYWGKESPDMTSGPSSG 109

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 45.9 bits (109), Expect = 1e-06
 Identities = 25/137 (18%), Positives = 41/137 (29%), Gaps = 21/137 (15%)

Query: 3   HPPYDPYYLPPIHPPPPP---------VPPPPYHHQQQDNGINTLFVSGLPDDVRAREIH 53
           H  +    L P                             G+ +L V  L        + 
Sbjct: 6   HHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLR 65

Query: 54  NLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL 108
            +F +        +   +YT   RG    AF  F + + A  A+  ++G   D   G  L
Sbjct: 66  RVFEKYGRVGDVYIPRDRYTKESRG---FAFVRFHDKRDAEDAMDAMDGAVLD---GREL 119

Query: 109 HIELARSNSRKKRKPGS 125
            +++AR   R      S
Sbjct: 120 RVQMARYG-RPPDSHHS 135

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 46.4 bits (110), Expect = 1e-06
 Identities = 25/115 (21%), Positives = 41/115 (35%), Gaps = 15/115 (13%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG- 71
                     +HH     G+ +L V  L        +  +F +        +   +YT  
Sbjct: 51  TFTVTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE 110

Query: 72  -RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
            RG    AF  F + + A  A+  ++G   D   G  L +++A    R  R P S
Sbjct: 111 SRG---FAFVRFHDKRDAEDAMDAMDGAVLD---GRELRVQMA----RYGRPPDS 155

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 38.3 bits (89), Expect = 8e-04
 Identities = 19/120 (15%), Positives = 38/120 (31%), Gaps = 11/120 (9%)

Query: 154 DEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGP 213
           D A+  +        + V  +      +                  V+  ++L + NL  
Sbjct: 22  DAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHH-HMDVEGMTSLKVDNLTY 80

Query: 214 NCTEDELKQTLSVYPGFNMLKM-------RARGGMPVAFADFEEVEQASIAMEGLQDSTL 266
             + D L++    Y     + +        +RG    AF  F +   A  AM+ +  + L
Sbjct: 81  RTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRG---FAFVRFHDKRDAEDAMDAMDGAVL 137

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 44.9 bits (107), Expect = 2e-06
 Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 13/102 (12%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVN 84
           ++ +   T+ V+ L +D R  ++  LFR         L   K TG  +G    AF +F  
Sbjct: 10  RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKG---FAFISFHR 66

Query: 85  HQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            + A  A+  ++G  +D     +L++E A+        P SG
Sbjct: 67  REDAARAIAGVSGFGYD---HLILNVEWAK--PSTNSGPSSG 103

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 44.6 bits (106), Expect = 2e-06
 Identities = 22/106 (20%), Positives = 34/106 (32%), Gaps = 12/106 (11%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRGNQV-VAFA 80
                      G   + V  +P  V   EI + F   +       LKY  +G     A  
Sbjct: 3   SGSSGASSGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMV 62

Query: 81  TFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            F +   A AA+ +LN      +      ++L   +      P SG
Sbjct: 63  AFESRDEATAAVIDLNDRPIGSR-----KVKLVLGS-----GPSSG 98

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 45.5 bits (108), Expect = 2e-06
 Identities = 27/132 (20%), Positives = 46/132 (34%), Gaps = 18/132 (13%)

Query: 5   PYDPYYLPPIHP---PPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPG 61
            YDPY                 PP     + + +  L V+ +P  V   ++  LF R   
Sbjct: 9   QYDPYGQTAQLQQLQQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGP 68

Query: 62  FDFCQL---KYTGR----GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR 114
            +  ++   + T +    G     F  F +  +A  A+  LNG          L + LA 
Sbjct: 69  IESVKIVCDRETRQSRGYG-----FVKFQSGSSAQQAIAGLNGFNIL---NKRLKVALAA 120

Query: 115 SNSRKKRKPGSG 126
           S  ++    G+ 
Sbjct: 121 SGHQRPGIAGAV 132

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 16/91 (17%), Positives = 31/91 (34%), Gaps = 5/91 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRK-PGFDFCQLKYTGR---GNQVVAFATFVNHQTAVAA 91
             LF+ G+P   +  EI     +   G     +  +      N+  AF  + +H+ A  A
Sbjct: 9   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
             +L   +     G  + ++ A         
Sbjct: 69  RRKLMPGRIQLW-GHQIAVDWAEPEIDVDED 98

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 40.2 bits (94), Expect = 8e-05
 Identities = 12/87 (13%), Positives = 31/87 (35%), Gaps = 7/87 (8%)

Query: 205 TLFIANLGPNCTEDELKQTLSVY-PGFNMLKM-----RARGGMPVAFADFEEVEQASIAM 258
            LFI  +      +E+ + ++    G   + +             AF ++E    A++A 
Sbjct: 10  RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 69

Query: 259 EGLQDSTLPSSDRGGMHIEYARSKMRK 285
             L    +       + +++A  ++  
Sbjct: 70  RKLMPGRIQLWGH-QIAVDWAEPEIDV 95

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 44.2 bits (105), Expect = 3e-06
 Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 27/99 (27%)

Query: 36  NTLFVSGLPDDVRAREIHNLF---------RRKPGFDFCQLKYTGRGNQVVAFATFVNHQ 86
             LFV  L + V    +   F         ++   +               AF  F    
Sbjct: 12  KVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDY---------------AFIHFDERD 56

Query: 87  TAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
            AV A+ E+NG   +   G  + I  A+   +K+++  +
Sbjct: 57  GAVKAMEEMNGKDLE---GENIEIVFAKPPDQKRKERKA 92

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 44.2 bits (105), Expect = 3e-06
 Identities = 20/65 (30%), Positives = 25/65 (38%), Gaps = 9/65 (13%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM------RARGGMPVAFADFEEVEQA 254
                LFI NL PN +  ELK  +S     N L +        R      + DFE  E  
Sbjct: 15  TTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRK---FGYVDFESAEDL 71

Query: 255 SIAME 259
             A+E
Sbjct: 72  EKALE 76

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 18/109 (16%), Positives = 33/109 (30%), Gaps = 21/109 (19%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL--KYTG-- 71
           P        P+           LF+  L  +    E+          +   +    TG  
Sbjct: 8   PVEGSESTTPF----------NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTN 57

Query: 72  RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           R      +  F + +    AL EL G+K     G+ + +E  +     +
Sbjct: 58  RK---FGYVDFESAEDLEKAL-ELTGLKVF---GNEIKLEKPKGRDGTR 99

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 16/87 (18%), Positives = 35/87 (40%), Gaps = 8/87 (9%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHE 94
            L++  LP  + A E++++F +       ++  T   RG    A+  + +   A  A+  
Sbjct: 10  ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGT---AYVVYEDIFDAKNAVDH 66

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKR 121
           L+G          L +    +N   ++
Sbjct: 67  LSGFNVS---NRYLVVLYYNANRAFQK 90

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 40.0 bits (94), Expect = 9e-05
 Identities = 15/83 (18%), Positives = 33/83 (39%), Gaps = 4/83 (4%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP-VAFADFEEVEQASIAME 259
           +    L+I NL    T +E+      Y     +++         A+  +E++  A  A++
Sbjct: 6   EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVD 65

Query: 260 GLQDSTLPSSDRGGMHIEYARSK 282
            L    +  S+R  + + Y  + 
Sbjct: 66  HLSGFNV--SNR-YLVVLYYNAN 85

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 43.7 bits (104), Expect = 3e-06
 Identities = 24/97 (24%), Positives = 35/97 (36%), Gaps = 12/97 (12%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGR--GNQVVAFATFVNHQTAVA 90
             LFV  L       ++  LF                T +  G    AF TF+  + AV 
Sbjct: 9   GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKG---FAFVTFMFPEHAVK 65

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNS-RKKRKPGSG 126
           A  E++G  F    G +LH+  +       +  P SG
Sbjct: 66  AYAEVDGQVFQ---GRMLHVLPSTIKKEASQSGPSSG 99

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 45.3 bits (108), Expect = 3e-06
 Identities = 18/102 (17%), Positives = 34/102 (33%), Gaps = 7/102 (6%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL--KYTGRGNQVVAFATFVNHQT 87
            +      LF+  L  +    E+          +   +    TG  N+   +  F + + 
Sbjct: 8   SESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGT-NRKFGYVDFESAED 66

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYV 129
              AL EL G+K     G+ + +E  +    KK +       
Sbjct: 67  LEKAL-ELTGLKVF---GNEIKLEKPKGRDSKKVRAARTLLA 104

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 44.5 bits (106), Expect = 7e-06
 Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 5/79 (6%)

Query: 190 EQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP--VAFAD 247
           E+ +      V+   TL   NL  N TEDELK+          +++ ++ G    +A+ +
Sbjct: 86  EKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFE---DALEIRLVSQDGKSKGIAYIE 142

Query: 248 FEEVEQASIAMEGLQDSTL 266
           F+    A   +E  Q + +
Sbjct: 143 FKSEADAEKNLEEKQGAEI 161

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 38.7 bits (91), Expect = 6e-04
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 13/78 (16%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TG--RGNQVVAFATFV 83
            ++     TL    L  ++   E+  +F      D  +++     G  +G   +A+  F 
Sbjct: 93  SKKVRAARTLLAKNLSFNITEDELKEVFE-----DALEIRLVSQDGKSKG---IAYIEFK 144

Query: 84  NHQTAVAALHELNGVKFD 101
           +   A   L E  G + D
Sbjct: 145 SEADAEKNLEEKQGAEID 162

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 45.8 bits (109), Expect = 4e-06
 Identities = 22/99 (22%), Positives = 35/99 (35%), Gaps = 8/99 (8%)

Query: 8   PYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL 67
            Y   P     P V  P        +  + LF+ GLP+ +   ++  L           L
Sbjct: 87  DYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL 146

Query: 68  KY---TG--RGNQVVAFATFVNHQTAVAALHELNGVKFD 101
                TG  +G    AF  +V+      A+  LNG++  
Sbjct: 147 VKDSATGLSKG---YAFCEYVDINVTDQAIAGLNGMQLG 182

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 45.4 bits (108), Expect = 4e-06
 Identities = 31/241 (12%), Positives = 67/241 (27%), Gaps = 84/241 (34%)

Query: 36  NTLFVSGLPDDVRAREIHNLFR--------RKPGFDFCQLKYTGRGNQVVAFATFVNHQT 87
             L+V  +P  +    + + F          +   +        + ++  AF  F +   
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-DKNFAFLEFRSVDE 63

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSA 147
              A+   +G+ F  QS     +++ R +  +     S                  S   
Sbjct: 64  TTQAM-AFDGIIFQGQS-----LKIRRPHDYQPLPGMSE---------------NPSVYV 102

Query: 148 DGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLF 207
            G   T        +       F+                                    
Sbjct: 103 PGVVSTVVPDSAHKL-------FI------------------------------------ 119

Query: 208 IANLGPNCTEDELKQTLSVYP---GFNMLK----MRARGGMPVAFADFEEVEQASIAMEG 260
              L     +D++K+ L+ +     FN++K      ++G    AF ++ ++     A+ G
Sbjct: 120 -GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG---YAFCEYVDINVTDQAIAG 175

Query: 261 L 261
           L
Sbjct: 176 L 176

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 44.0 bits (104), Expect = 4e-06
 Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 3/83 (3%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           V     + +  L  +  E +L + L  +     + M        A  +FE ++ A   + 
Sbjct: 12  VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ--ALVEFENIDSAKECVT 69

Query: 260 GLQDSTLPSSDRGGMHIEYARSK 282
              D  +  + +      Y+ SK
Sbjct: 70  FAADVPVYIAGQ-QAFFNYSTSK 91

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 45.3 bits (108), Expect = 4e-06
 Identities = 15/95 (15%), Positives = 35/95 (36%), Gaps = 14/95 (14%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDF-----CQL---KYTGRG-NQVVAFATFVNHQT 87
            +FV  +P     +++  LF +     +       +   +      ++   F TF   + 
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQ-----YGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 59

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
           A+ A + L+ +K  P     + ++ A S      +
Sbjct: 60  ALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVE 94

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 17/83 (20%), Positives = 31/83 (37%), Gaps = 13/83 (15%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGF---DFCQL--KYTG--RGNQVVAFATFVNHQTAVA 90
           LF+  +       +I  +F     F   + C++     G  RG    AF TF     A  
Sbjct: 98  LFIGMISKKCTENDIRVMFSS---FGQIEECRILRGPDGLSRG---CAFVTFTTRAMAQT 151

Query: 91  ALHELNGVKFDPQSGSVLHIELA 113
           A+  ++  +      S + ++ A
Sbjct: 152 AIKAMHQAQTMEGCSSPMVVKFA 174

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 8/80 (10%)

Query: 185 VAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLK-MRARGGMP- 242
           + P + +     E        LFI  +   CTE++++   S +      + +R   G+  
Sbjct: 82  MKPADSEKNNAVED-----RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR 136

Query: 243 -VAFADFEEVEQASIAMEGL 261
             AF  F     A  A++ +
Sbjct: 137 GCAFVTFTTRAMAQTAIKAM 156

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 46.1 bits (110), Expect = 4e-06
 Identities = 19/116 (16%), Positives = 43/116 (37%), Gaps = 11/116 (9%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRK-PGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALH 93
            TL+++  P     R I +L +         +L       ++  A+    + + A   + 
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 177

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGA-----YVV-IDKRTKTEANVQE 143
           +LNG+K +   G  L  +++    + KR   +        +  +      E  ++E
Sbjct: 178 KLNGLKIE---GYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRE 230

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 12/82 (14%), Positives = 28/82 (34%), Gaps = 10/82 (12%)

Query: 25  PYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF-----CQLKYTGRGNQVVAF 79
                 ++  + T+ V  LP      +++  F+              +  + + N   A 
Sbjct: 31  ANEALTRNRELTTVLVKNLPKSYNQNKVYKYFK-----HCGPIIHVDVADSLKKNFRFAR 85

Query: 80  ATFVNHQTAVAALHELNGVKFD 101
             F  +  A+AA+ + + V   
Sbjct: 86  IEFARYDGALAAITKTHKVVGQ 107

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 4/67 (5%)

Query: 204 STLFIANLGPNCTEDELKQTLSVY-PGFNMLKM-RARGGMP--VAFADFEEVEQASIAME 259
            TL++ N  P+ T+  ++  L         +++   R       A+ D    E A   +E
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 177

Query: 260 GLQDSTL 266
            L    +
Sbjct: 178 KLNGLKI 184

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Length = 164

 Score = 44.7 bits (105), Expect = 5e-06
 Identities = 17/111 (15%), Positives = 34/111 (30%), Gaps = 3/111 (2%)

Query: 174 QSERATDSGNAVAPINEQSEKPYEGGVQPCSTLF--IANLGPNCTEDELKQTLSVYPGFN 231
           Q+  +  SGN     +  +             L   + NL    T D L Q  S +    
Sbjct: 15  QAVNSVQSGNLALAASAAAVDAGMAMAGQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVL 74

Query: 232 MLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
            +    +     A   + +   A  A   L    +  +    + I++++  
Sbjct: 75  KIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNI-YNACCTLRIDFSKLT 124

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 43.8 bits (104), Expect = 5e-06
 Identities = 21/116 (18%), Positives = 45/116 (38%), Gaps = 12/116 (10%)

Query: 16  PPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGR 72
               PV  P  +   ++    T+F   L   +R R++ + F         ++   + + R
Sbjct: 6   SGKSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR 65

Query: 73  --GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             G   +A+  F   Q+   A+  L G +     G  + ++ +++   +   P SG
Sbjct: 66  SKG---IAYVEFCEIQSVPLAI-GLTGQRLL---GVPIIVQASQAEKNRLSGPSSG 114

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 43.3 bits (102), Expect = 8e-06
 Identities = 22/119 (18%), Positives = 40/119 (33%), Gaps = 14/119 (11%)

Query: 3   HPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGF 62
           H  +    L P       +P   Y           + +  LP+    +++ +L R     
Sbjct: 6   HHHHHSSGLVPRGSHMSKLPAKRY----------RITMKNLPEGCSWQDLKDLAREN-SL 54

Query: 63  DFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           +        R         F + +  V AL  LN ++F    GSV+ +E   +    +R
Sbjct: 55  ETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFR---GSVITVERDDNPPPIRR 110

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 42.9 bits (101), Expect = 9e-06
 Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 3/87 (3%)

Query: 196 YEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQAS 255
           + G   P   + I  L  + TE E+      +     L M        AF +    E A+
Sbjct: 9   HHGSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQ--AFIEMNTEEAAN 66

Query: 256 IAMEGLQDSTLPSSDRGGMHIEYARSK 282
             +      T     +  ++I+++  K
Sbjct: 67  TMVNYYTSVTPVLRGQ-PIYIQFSNHK 92

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 42.8 bits (101), Expect = 9e-06
 Identities = 18/94 (19%), Positives = 33/94 (35%), Gaps = 5/94 (5%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV-VAFATFVNHQTA 88
           + D    ++++ G P D    +I      K      Q++ T         F  F + ++A
Sbjct: 6   KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESA 65

Query: 89  VAALHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
              + E  G K+     + L I        KK +
Sbjct: 66  KKFV-ETPGQKYK---ETDLLILFKDDYFAKKNE 95

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMR---ARGGMPVAFADFEEVEQASIAME 259
           +++I     + T D++K+ L        ++MR    +      F  F+ +E A   +E
Sbjct: 13  SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE 70

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 42.6 bits (101), Expect = 1e-05
 Identities = 28/105 (26%), Positives = 39/105 (37%), Gaps = 17/105 (16%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRR-------KPGFDFCQLKYTGRGNQVVAFAT 81
            + D    TL+V  L  DV    I  LF +       K   +      +        F  
Sbjct: 9   MEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITE----HTSNDP---YCFVE 61

Query: 82  FVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           F  H+ A AAL  +NG K     G  + +  A + S +K  P SG
Sbjct: 62  FYEHRDAAAALAAMNGRKIL---GKEVKVNWATTPSSQKSGPSSG 103

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 41.8 bits (99), Expect = 2e-05
 Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 11/96 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGR--GNQVVAFATFVNHQTAVA 90
             LFV GL  D   + +  +F +        +   + T R  G     F TF N   A  
Sbjct: 13  GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRG---FGFVTFENIDDAKD 69

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           A+  +NG   D   G  + ++ A  +S  +  P SG
Sbjct: 70  AMMAMNGKSVD---GRQIRVDQAGKSSDNRSGPSSG 102

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 3/82 (3%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
            P   + I  L  + TE E+      +     L M        AF +    E A+  +  
Sbjct: 29  VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQ--AFIEMNTEEAANTMVNY 86

Query: 261 LQDSTLPSSDRGGMHIEYARSK 282
               T     +  ++I+++  K
Sbjct: 87  YTSVTPVLRGQ-PIYIQFSNHK 107

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 24/102 (23%), Positives = 38/102 (37%), Gaps = 17/102 (16%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY----TGRGNQVVAFATFVN 84
           ++     NTL+V G   D+    +   F       F  +        R     AF T+  
Sbjct: 9   RRAPRKGNTLYVYGE--DMTPTLLRGAFSP-----FGNIIDLSMDPPRN---CAFVTYEK 58

Query: 85  HQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            ++A  A+ ELNG + +      L + +AR        P SG
Sbjct: 59  MESADQAVAELNGTQVE---SVQLKVNIARKQPMLDSGPSSG 97

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 42.9 bits (102), Expect = 2e-05
 Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 10/75 (13%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPG-------FNMLKMRARGGMPVAFADFEEVEQASI 256
           + L++ NL    T+D+L      Y          + L  R RG   VAF  + + E+A  
Sbjct: 90  TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRG---VAFVRYNKREEAQE 146

Query: 257 AMEGLQDSTLPSSDR 271
           A+  L +       +
Sbjct: 147 AISALNNVIPEGGSQ 161

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 39.5 bits (93), Expect = 3e-04
 Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFV 83
             +      L+V+ LP  +   ++  +F +        +   K TG  RG   VAF  + 
Sbjct: 83  GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRG---VAFVRYN 139

Query: 84  NHQTAVAALHELNGVKFDPQS 104
             + A  A+  LN V  +  S
Sbjct: 140 KREEAQEAISALNNVIPEGGS 160

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 41.4 bits (98), Expect = 3e-05
 Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 11/96 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVA 90
             L+V GL ++V  + +H  F         Q+     T   RG    AF  F   + A A
Sbjct: 13  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRG---FAFVEFELAEDAAA 69

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           A+  +N  +     G  + + LA+    K+  P SG
Sbjct: 70  AIDNMNESELF---GRTIRVNLAKPMRIKESGPSSG 102

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 42.2 bits (100), Expect = 4e-05
 Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 10/73 (13%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPG-------FNMLKMRARGGMPVAFADFEEVEQASIAM 258
           L+++ L    T+ EL+Q  S Y          + +   +RG   V F  F++  +A  A+
Sbjct: 91  LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRG---VGFIRFDKRIEAEEAI 147

Query: 259 EGLQDSTLPSSDR 271
           +GL       +  
Sbjct: 148 KGLNGQKPSGATE 160

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 39.9 bits (94), Expect = 3e-04
 Identities = 22/81 (27%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFV 83
                    L+VSGLP  +  +E+  LF +       ++   + TG  RG   V F  F 
Sbjct: 82  SSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRG---VGFIRFD 138

Query: 84  NHQTAVAALHELNGVKFDPQS 104
               A  A+  LNG K    +
Sbjct: 139 KRIEAEEAIKGLNGQKPSGAT 159

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 41.8 bits (98), Expect = 5e-05
 Identities = 20/133 (15%), Positives = 41/133 (30%), Gaps = 13/133 (9%)

Query: 1   MAHPPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKP 60
            +  P  P    P   P    P   Y +    N    ++V         +++  + R   
Sbjct: 21  QSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIG 80

Query: 61  GFDFCQLKY-----TGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA 113
            +D  +LK+      G+  G    A     +  +    L  L G   +   G  + +  A
Sbjct: 81  VYDVVELKFAENRANGQSKG---YAEVVVASENSVHKLLELLPGKVLN---GEKVDVRPA 134

Query: 114 RSNSRKKRKPGSG 126
              +  + +  + 
Sbjct: 135 TRQNLSQFEAQAR 147

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 40.6 bits (95), Expect = 5e-05
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 7/84 (8%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGF--NMLKMRARGGMPVAFADFEEVEQASIAM 258
            P   L I  L    TE E+      + G   N+L ++ +     AF +    E A   +
Sbjct: 13  APSRVLHIRKLPGEVTETEVIALGLPF-GKVTNILMLKGKN---QAFLELATEEAAITMV 68

Query: 259 EGLQDSTLPSSDRGGMHIEYARSK 282
                 T    ++  ++I+Y+  K
Sbjct: 69  NYYSAVTPHLRNQ-PIYIQYSNHK 91

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 40.4 bits (95), Expect = 6e-05
 Identities = 26/98 (26%), Positives = 35/98 (35%), Gaps = 13/98 (13%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL----KYTG--RGNQVVAFATFVNHQTAV 89
           + + V  +P     REI  LF         +L      TG  RG     F  F+  Q A 
Sbjct: 16  SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRG---FGFVDFITKQDAK 72

Query: 90  AALHEL-NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            A + L +        G  L +E A S    +  P SG
Sbjct: 73  KAFNALCHSTHLY---GRRLVLEWADSEVTVQSGPSSG 107

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 5/70 (7%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVY---PGFNMLKMRARGGMPV--AFADFEEVEQAS 255
           Q  S + + N+     + E+++  S +       + K     G      F DF   + A 
Sbjct: 13  QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 72

Query: 256 IAMEGLQDST 265
            A   L  ST
Sbjct: 73  KAFNALCHST 82

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 40.3 bits (95), Expect = 6e-05
 Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 13/95 (13%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL--KYTGR--GNQVVAFATFVNHQTAVAA 91
            TL +S L        +  +F +     F ++     G+  G    AF  F + + A  A
Sbjct: 16  KTLVLSNLSYSATEETLQEVFEK---ATFIKVPQNQNGKSKG---YAFIEFASFEDAKEA 69

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           L+  N  + +   G  + +EL          P SG
Sbjct: 70  LNSCNKREIE---GRAIRLELQGPRGSPNSGPSSG 101

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 40.0 bits (94), Expect = 7e-05
 Identities = 16/88 (18%), Positives = 37/88 (42%), Gaps = 10/88 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGR--GNQVVAFATFVNHQTAVAA 91
           + LF+SGLP      E+  + +        +L     G+  G   +A+  + N   A  A
Sbjct: 18  HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKG---LAYVEYENESQASQA 74

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRK 119
           + +++G+       +++ + ++ S    
Sbjct: 75  VMKMDGMTIK---ENIIKVAISNSGPSS 99

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 39.9 bits (94), Expect = 8e-05
 Identities = 19/114 (16%), Positives = 39/114 (34%), Gaps = 35/114 (30%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLF-----------------RRKPGFDFCQLKYTGR 72
            + N   T++V GL + V    +  LF                  +  G+          
Sbjct: 10  SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGY---------- 59

Query: 73  GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
                 F  F++ + A  A+  ++ +K     G  + +  A ++++    P SG
Sbjct: 60  -----GFVEFLSEEDADYAIKIMDMIKLY---GKPIRVNKASAHNKNLSGPSSG 105

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 39.5 bits (93), Expect = 8e-05
 Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 9/67 (13%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARG-GMPVAFADFEEVEQ 253
               +F+ +L P  T   +    + +   +  ++       +++G G  V+F +  + E 
Sbjct: 5   SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGF-VSFFNKWDAEN 63

Query: 254 ASIAMEG 260
           A   M G
Sbjct: 64  AIQQMGG 70

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 41.4 bits (98), Expect = 8e-05
 Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 9/64 (14%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPG-------FNMLKMRARG-GMPVAFADFEEVEQASI 256
            LF+ +L  N  ++ L+     +P        ++M    +RG G  V+F   ++ + A  
Sbjct: 89  NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGF-VSFTSQDDAQNAMD 147

Query: 257 AMEG 260
           +M+G
Sbjct: 148 SMQG 151

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 41.9 bits (99), Expect = 9e-05
 Identities = 16/116 (13%), Positives = 36/116 (31%), Gaps = 15/116 (12%)

Query: 15  HPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TG 71
                   P      ++    N ++V+ +  D+   +I ++F          L     TG
Sbjct: 105 PSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTG 164

Query: 72  --RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
             +G     F  +   Q++  A+  +N      Q      + + ++       P  
Sbjct: 165 KHKG---YGFIEYEKAQSSQDAVSSMNLFDLGGQY-----LRVGKAV--TPPMPLL 210

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 22/101 (21%), Positives = 38/101 (37%), Gaps = 17/101 (16%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGR--GNQVVAFATFVNHQTAVAA 91
           T+F+  L  D     +  + ++     + ++     T    G    AFA F+  + A   
Sbjct: 17  TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGC---AFAQFMTQEAAQKC 73

Query: 92  LHELN------GVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           L   +      G+K D   G  L ++LA +       P SG
Sbjct: 74  LAAASLEAEGGGLKLD---GRQLKVDLAVTRDEAASGPSSG 111

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 37.3 bits (87), Expect = 8e-04
 Identities = 18/93 (19%), Positives = 34/93 (36%), Gaps = 13/93 (13%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARGGMPVAFADFEEVE 252
           V    T+FI NL  +  E+ L + L  +     +++        ++G    AFA F   E
Sbjct: 12  VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKG---CAFAQFMTQE 68

Query: 253 QASIAMEGLQDSTLPS-SDRGG--MHIEYARSK 282
            A   +               G  + ++ A ++
Sbjct: 69  AAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTR 101

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 40.5 bits (95), Expect = 1e-04
 Identities = 18/103 (17%), Positives = 31/103 (30%), Gaps = 8/103 (7%)

Query: 4   PPYDPYYLPPIHPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFD 63
            P   +                  ++   +    L V GL      R++  +F +     
Sbjct: 15  VPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIA 74

Query: 64  FCQL---KYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFD 101
              +   + +   RG    AF  F N   A  A    NG++ D
Sbjct: 75  DVSIVYDQQSRRSRG---FAFVYFENVDDAKEAKERANGMELD 114

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/102 (14%), Positives = 41/102 (40%), Gaps = 9/102 (8%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY---TGRGNQVVAFATFVNH 85
             + +G+  +F+  L   +  + +++ F        C++       +G     F  F   
Sbjct: 97  SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG---YGFVHFETQ 153

Query: 86  QTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGA 127
           + A  A+ ++NG+  +      + +   +S   ++ + G+ A
Sbjct: 154 EAAERAIEKMNGMLLN---DRKVFVGRFKSRKEREAELGARA 192

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 22/93 (23%), Positives = 34/93 (36%), Gaps = 8/93 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALH 93
            TLFV GL +D     +   F           + TG   G     F  F + + A AA  
Sbjct: 16  KTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKG---FGFVDFNSEEDAKAAKE 72

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            +   + D   G+ + ++ A+        P SG
Sbjct: 73  AMEDGEID---GNKVTLDWAKPKGEGGSGPSSG 102

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 40.6 bits (95), Expect = 1e-04
 Identities = 22/134 (16%), Positives = 48/134 (35%), Gaps = 15/134 (11%)

Query: 145 SSADGDSDTDEASPVRNIDSADK-----GDFVTTQSERATDSGNAVAPINEQSEKPYEGG 199
           ++ + + D D    +  +    K     G    + +  A  S   V   ++   +P    
Sbjct: 9   NAEEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQR 68

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARGGMPVAFADFEEVE 252
                 LF+ ++     EDE+++    Y     + +        ++G    A  ++E  +
Sbjct: 69  SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKG---YALVEYETHK 125

Query: 253 QASIAMEGLQDSTL 266
           QA  A E L  + +
Sbjct: 126 QALAAKEALNGAEI 139

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 11/96 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVA 90
             LFV+ + ++ +  EI   F          L   + TG  +G    A   +  H+ A+A
Sbjct: 73  WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKG---YALVEYETHKQALA 129

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           A   LNG +     G  + ++       K+ K    
Sbjct: 130 AKEALNGAEIM---GQTIQVDWCFVKGPKRVKKSEK 162

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 40.6 bits (95), Expect = 1e-04
 Identities = 16/82 (19%), Positives = 32/82 (39%), Gaps = 10/82 (12%)

Query: 192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQT-------LSVYPGFNMLKMRARGGMPVA 244
             +  E  ++   TL++ NL    TE+++ +          +  G + +K  A G     
Sbjct: 28  DNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACG---FC 84

Query: 245 FADFEEVEQASIAMEGLQDSTL 266
           F ++     A  AM  +  + L
Sbjct: 85  FVEYYSRADAENAMRYINGTRL 106

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 38.6 bits (90), Expect = 5e-04
 Identities = 21/105 (20%), Positives = 35/105 (33%), Gaps = 21/105 (20%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR-------KPGFDFCQLKYTG--RGNQVVAFATFVNHQ 86
            TL+V  L       +I+ LF +         G D    K      G     F  + +  
Sbjct: 40  CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD----KMKKTACG---FCFVEYYSRA 92

Query: 87  TAVAALHELNGVKFDPQSGSVLHIELA--RSNSRKKRKPGSGAYV 129
            A  A+  +NG + D     ++  +        R+  +  SG  V
Sbjct: 93  DAENAMRYINGTRLD---DRIIRTDWDAGFKEGRQYGRGRSGGQV 134

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 16/91 (17%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY----TGRGNQVVAFATFVN 84
             +D  I TL+V GL D +   ++ N F +     F +++       +     AF  F  
Sbjct: 6   SGEDKTITTLYVGGLGDTITETDLRNHFYQ-----FGEIRTITVVQRQQ---CAFIQFAT 57

Query: 85  HQTA-VAALHELNGVKFDPQSGSVLHIELAR 114
            Q A VAA    N +  +   G  L+++  R
Sbjct: 58  RQAAEVAAEKSFNKLIVN---GRRLNVKWGR 85

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 17/96 (17%), Positives = 24/96 (25%), Gaps = 26/96 (27%)

Query: 17  PPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFR-----------RKPGFDFC 65
               +       ++       LFV  LP D+   +   LF            R  GF   
Sbjct: 4   FTIDIKSFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGF--- 60

Query: 66  QLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD 101
                        F    +   A  A  EL+G    
Sbjct: 61  ------------GFIRLESRTLAEIAKAELDGTILK 84

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 27  HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFAT 81
           H  Q   G + LF+ GLP+ +   ++  L           L     TG  +G    AF  
Sbjct: 86  HDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG---YAFCE 142

Query: 82  FVNHQTAVAALHELNGVKFD 101
           +V+      A+  LNG++  
Sbjct: 143 YVDINVTDQAIAGLNGMQLG 162

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 39.1 bits (92), Expect = 4e-04
 Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 10/63 (15%)

Query: 206 LFIANLGPNCTEDELKQTLSVYP---GFNMLK----MRARGGMPVAFADFEEVEQASIAM 258
           LFI  L     +D++K+ L+ +     FN++K      ++G    AF ++ ++     A+
Sbjct: 97  LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG---YAFCEYVDINVTDQAI 153

Query: 259 EGL 261
            GL
Sbjct: 154 AGL 156

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 38.4 bits (90), Expect = 7e-04
 Identities = 13/101 (12%), Positives = 34/101 (33%), Gaps = 15/101 (14%)

Query: 37  TLFVSGLPDDVRAREIHNLFR--------RKPGFDFCQLKYTGRGNQVVAFATFVNHQTA 88
            L+V  +P  +    + + F          +   +        + ++  AF  F +    
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-DKNFAFLEFRSVDET 64

Query: 89  VAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYV 129
             A+   +G+ F  QS     +++ R +  +        ++
Sbjct: 65  TQAM-AFDGIIFQGQS-----LKIRRPHDYQPLPGAHKLFI 99

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 7/63 (11%)

Query: 205 TLFIANLGPNCTEDELKQTLS-VYPGFNMLK-MRARGGMP-----VAFADFEEVEQASIA 257
           +LF+ +L P+  +  L +    VYP     K +  + G+      V F D  E ++A   
Sbjct: 11  SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE 70

Query: 258 MEG 260
            +G
Sbjct: 71  CQG 73

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 20/120 (16%), Positives = 39/120 (32%), Gaps = 9/120 (7%)

Query: 15  HPPPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRG 73
               P            + G   +++ GLP +   + + + F++     D   + Y   G
Sbjct: 6   SGKSPSGQKRSRSRSPHEAG-FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNG 64

Query: 74  NQV-VAFATFVNHQTAVAAL----HELNG--VKFDPQSGSVLHIELARSNSRKKRKPGSG 126
                 F  F N     AAL      +    ++  P +   +  ++     R +  P SG
Sbjct: 65  KATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQSGPSSG 124

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 8/71 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTGR--GNQVVAFATFVNHQTAVA 90
           +T++VS LP  +   +++ +F +        +   K T +  G   VAF  F++  +A  
Sbjct: 17  STVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKG---VAFILFLDKDSAQN 73

Query: 91  ALHELNGVKFD 101
               +N  +  
Sbjct: 74  CTRAINNKQLF 84

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 38.9 bits (91), Expect = 3e-04
 Identities = 13/64 (20%), Positives = 30/64 (46%), Gaps = 9/64 (14%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARG-GMPVAFADFEEVEQASI 256
            +F+ +L P  T +++K   + +   +  ++       +++G G  V+F +  + E A  
Sbjct: 17  HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGF-VSFFNKWDAENAIQ 75

Query: 257 AMEG 260
            M G
Sbjct: 76  QMGG 79

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 38.3 bits (90), Expect = 3e-04
 Identities = 19/85 (22%), Positives = 30/85 (35%), Gaps = 11/85 (12%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVA 90
             L V GL      R++  +F +        +   + +   RG    AF  F N   A  
Sbjct: 16  CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG---FAFVYFENVDDAKE 72

Query: 91  ALHELNGVKFDPQSGSVLHIELARS 115
           A    NG++ D   G  + +    S
Sbjct: 73  AKERANGMELD---GRRIRVSGPSS 94

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 39.0 bits (91), Expect = 3e-04
 Identities = 12/113 (10%), Positives = 30/113 (26%), Gaps = 10/113 (8%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRGNQV-VAFA 80
                    ++      ++ +P  +   ++           +   +     G  +  A  
Sbjct: 3   SGSSGEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALV 62

Query: 81  TFVNHQTAVAALHELNGVKFD-------PQSGSVLHIELARSNSRKKRKPGSG 126
            F N   A  +   L+  K +         +   +        ++ K  P SG
Sbjct: 63  QFKNEDDARKSE-RLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSGPSSG 114

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 38.9 bits (91), Expect = 3e-04
 Identities = 20/123 (16%), Positives = 36/123 (29%), Gaps = 17/123 (13%)

Query: 2   AHPPYDPYYLPPIHPPPPPVPPPPYHHQQQD-----NGINTLFVSGLPDDVRAREIHNLF 56
             P +         P                      G N LF+  LP +    ++ + F
Sbjct: 3   GLPQFGSASALSTSPLASVALSAAAAAAAGKQIEGPEGCN-LFIYHLPQEFTDTDLASTF 61

Query: 57  RRKPGFDFCQL---KYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE 111
                    ++   K T          F +F N  +A  A+  +NG +        L ++
Sbjct: 62  LPFGNVISAKVFIDKQTSLSKC---FGFVSFDNPDSAQVAIKAMNGFQVG---TKRLKVQ 115

Query: 112 LAR 114
           L +
Sbjct: 116 LKK 118

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 37.9 bits (89), Expect = 3e-04
 Identities = 14/63 (22%), Positives = 29/63 (46%), Gaps = 9/63 (14%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKM-------RARG-GMPVAFADFEEVEQASIA 257
           LF+ +L  N  ++ L+     +P +    +        +RG G  V+F   ++ + A  +
Sbjct: 4   LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGF-VSFTSQDDAQNAMDS 62

Query: 258 MEG 260
           M+G
Sbjct: 63  MQG 65

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 37.9 bits (89), Expect = 3e-04
 Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 13/97 (13%)

Query: 33  NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY-TGR--GNQVVAFATFVNHQTAV 89
           +G   +FV  LP D   + + + F       +  +K   G+  G        F + + A 
Sbjct: 6   SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGC---GVVKFESPEVAE 62

Query: 90  AALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            A   +NG+K     G  + + + R+ S     P SG
Sbjct: 63  RACRMMNGMKLS---GREIDVRIDRNASG----PSSG 92

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 38.4 bits (89), Expect = 4e-04
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 4/64 (6%)

Query: 201 QPCSTLFIAN--LGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM 258
               +L +AN  LG   + ++L   L      + L M        +FA +   E++  A 
Sbjct: 23  YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPY--SFARYRTTEESKRAY 80

Query: 259 EGLQ 262
             L 
Sbjct: 81  VTLN 84

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A Length = 130

 Score = 38.9 bits (90), Expect = 4e-04
 Identities = 16/107 (14%), Positives = 32/107 (29%), Gaps = 3/107 (2%)

Query: 178 ATDSGNAVAPINEQSEKPYEGGVQPCSTLF--IANLGPNCTEDELKQTLSVYPGFNMLKM 235
           +  SGN     +  +             L   + NL    T D L Q  S +     +  
Sbjct: 1   SVQSGNLALAASAAAVDAGMAMAGQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIIT 60

Query: 236 RARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
             +     A   + +   A  A   L    +  +    + I++++  
Sbjct: 61  FTKNNQFQALLQYADPVSAQHAKLSLDGQNIY-NACCTLRIDFSKLT 106

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 38.5 bits (90), Expect = 4e-04
 Identities = 26/119 (21%), Positives = 43/119 (36%), Gaps = 20/119 (16%)

Query: 17  PPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRR-------KPGFDFCQLKY 69
                       ++   G N LF+  LP +   +++  +F         K   D    K 
Sbjct: 8   LTQQSIGAAGSQKEGPEGAN-LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID----KQ 62

Query: 70  TGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           T          F ++ N  +A AA+  +NG +        L ++L RS +  K  P SG
Sbjct: 63  TNLSKC---FGFVSYDNPVSAQAAIQSMNGFQIG---MKRLKVQLKRSKNDSKSGPSSG 115

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 37.6 bits (88), Expect = 6e-04
 Identities = 20/89 (22%), Positives = 36/89 (40%), Gaps = 12/89 (13%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM--RARGGMPVAFADFEEVEQASIAM 258
           +   TL   NL  N TEDELK+         ++    +++G   +A+ +F+    A   +
Sbjct: 14  RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKG---IAYIEFKSEADAEKNL 70

Query: 259 EGLQDSTLPSSDRGG--MHIEYARSKMRK 285
           E  Q + +      G  + + Y   K   
Sbjct: 71  EEKQGAEI-----DGRSVSLYYTGEKGGT 94

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 37.7 bits (88), Expect = 9e-04
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 11/96 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL---KYTG--RGNQVVAFATFVNHQTAVA 90
             LFV+G+ ++    +IH+ F          L   + TG  +G        +  ++ A A
Sbjct: 23  WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKG---YTLVEYETYKEAQA 79

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           A+  LNG       G  + ++        K K   G
Sbjct: 80  AMEGLNGQDLM---GQPISVDWCFVRGPPKGKRRGG 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	286
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	100.0
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	100.0
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	100.0
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	100.0
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	100.0
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	100.0
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	100.0
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	100.0
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	100.0
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	100.0
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	100.0
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	100.0
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	100.0
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	100.0
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	100.0
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.97
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.97
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.97
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.97
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.97
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.91
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.9
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.89
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.85
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.85
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.82
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.82
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.82
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.82
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.82
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.82
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.82
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.82
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.82
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.82
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.82
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.81
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.81
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.81
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.81
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.81
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.81
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.81
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.81
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.81
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.81
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.81
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.8
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.8
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.8
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.8
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.8
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.8
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.8
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.8
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.8
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.8
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.8
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.8
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.8
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.8
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.8
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.8
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.8
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.8
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.8
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.8
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.8
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.8
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.8
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.79
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.79
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.79
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.79
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.79
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.79
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.79
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.79
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.79
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.79
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.79
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.79
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.79
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.79
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.79
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.79
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.79
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.79
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.79
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.79
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.79
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.79
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.79
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.79
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.79
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.79
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.79
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.79
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.79
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.79
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.79
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.79
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.79
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.78
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.78
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.78
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.78
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.78
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.78
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.78
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.78
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.78
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.78
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.78
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.78
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.78
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.78
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.78
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.78
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.78
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.78
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.77
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.77
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.77
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.77
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.77
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.77
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.77
2div_A	99	TRNA selenocysteine associated protein; structural	99.77
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.77
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.77
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.77
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.77
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.77
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.77
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.77
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.77
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.77
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.77
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.77
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.77
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.77
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.77
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.77
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.77
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.77
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.77
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.77
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.77
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.77
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.77
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.76
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.76
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.76
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.76
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.76
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.76
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.76
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.76
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.76
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.76
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.76
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.76
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.76
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.76
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.76
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.76
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.76
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.76
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.76
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.76
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.76
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.76
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.76
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.76
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.76
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.76
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.76
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.76
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.76
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.76
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.75
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.75
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.75
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.75
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.75
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.75
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.75
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.75
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.75
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.75
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.75
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.75
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.75
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.75
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.75
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.75
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.75
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.75
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.75
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.75
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.75
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.75
2div_A	99	TRNA selenocysteine associated protein; structural	99.75
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.75
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.75
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.75
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.75
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.74
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.74
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.74
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.74
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.74
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.74
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.74
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.74
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.74
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.74
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.74
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.74
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.74
1x5p_A	97	Negative elongation factor E; structure genomics,	99.74
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.74
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.74
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.74
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.74
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.74
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.74
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.74
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.74
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.73
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.73
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.73
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.73
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.73
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.73
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.73
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.73
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.73
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.73
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.73
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.73
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.73
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.73
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.73
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.73
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.73
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.72
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.72
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.72
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.72
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.72
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.72
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.72
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.72
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.72
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.72
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.72
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.72
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.72
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.72
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.72
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.72
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.72
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.72
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.72
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.72
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.71
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.71
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.71
1x5p_A	97	Negative elongation factor E; structure genomics,	99.71
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.71
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.71
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.71
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.71
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.71
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.71
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.71
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.71
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.71
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.71
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.7
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.7
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.7
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.7
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.7
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.7
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.7
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.7
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.7
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.7
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.69
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.69
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.69
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.69
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.69
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.69
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.69
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.69
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.69
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.69
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.69
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.51
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.69
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.68
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.68
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.68
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.68
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.68
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.67
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.67
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.67
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.67
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.66
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.66
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.66
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.66
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.66
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.66
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.66
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.65
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.65
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.65
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.65
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.65
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.65
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.65
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.65
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.64
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.64
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.64
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.64
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.64
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.63
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.63
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.63
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.63
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.42
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.62
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.61
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.61
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.61
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.61
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.6
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.6
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.6
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.59
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.59
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.59
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.59
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.59
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.59
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.58
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.58
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.58
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.57
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.57
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.56
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.55
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.55
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.54
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.53
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.53
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.52
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.52
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.5
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.5
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.47
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.46
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.41
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.38
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.35
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.35
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.32
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.31
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.16
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	99.15
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.98
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.95
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.73
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.55
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.35
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	98.33
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	98.28
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	98.01
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	98.0
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.91
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.82
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	97.74
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.65
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.61
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.5
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.36
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.18
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	97.0
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	96.98
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.86
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.73
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	95.81
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	94.84
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	93.43
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	91.66

>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=100.00  E-value=2.7e-35  Score=254.02  Aligned_cols=244  Identities=17%  Similarity=0.264  Sum_probs=154.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHH----HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIH----NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~----~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      ++..++++|||+|||.++++++|+    ++|+.||.|.+|++...+ ..++||||+|.+.++|.+|++.|||..|.   |
T Consensus         4 ~~~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g   79 (282)
T 3pgw_A            4 PETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSL-KMRGQAFVIFKEVSSATNALRSMQGFPFY---D   79 (282)
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCCC-CcceEEEEEECCHHHHHHHHHHhcCCeeC---C
Confidence            456679999999999999999976    999999999999887432 34569999999999999999999999998   9


Q ss_pred             CeEEEEEeecCCCCCcCCCCCCceecccccccccccccC-----------CCCCCCCCCC-CCCCCCCCCCCCC------
Q 023143          106 SVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQES-----------SSADGDSDTD-EASPVRNIDSADK------  167 (286)
Q Consensus       106 ~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~-~~~~~~~~~~~~~------  167 (286)
                      +.|+|+|++........ ..+..................           ......+... ............+      
T Consensus        80 ~~l~v~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (282)
T 3pgw_A           80 KPMRIQYAKTDSDIIAK-MKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMP  158 (282)
T ss_pred             cEEEEEEeccCcchhhh-hcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCC
Confidence            99999999765543222 111111111110000000000           0000000000 0000000000000      


Q ss_pred             --CCC-CCCCccccC--CCCCCCC--------ccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEE
Q 023143          168 --GDF-VTTQSERAT--DSGNAVA--------PINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLK  234 (286)
Q Consensus       168 --~~~-~~p~~~~~~--~~~~~~~--------~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~  234 (286)
                        ... ..|...+..  .+....+        ..............+++++|||+|||..+++++|+++|++||.|.+|+
T Consensus       159 g~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~  238 (282)
T 3pgw_A          159 GQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVR  238 (282)
T ss_pred             CCCCCCCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEE
Confidence              000 000000000  0000000        000000111223455789999999999999999999999999999999


Q ss_pred             EeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          235 MRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       235 ~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      +..++ +|||||+|.+.++|.+|++.|||..+.  +|+.|+|+|||.
T Consensus       239 ~~~~~-~g~afV~f~~~~~A~~A~~~l~g~~~~--~g~~l~v~~akk  282 (282)
T 3pgw_A          239 LVPGR-HDIAFVEFDNEVQAGAARDALQGFKIT--QNNAMKISFAKK  282 (282)
T ss_pred             EecCC-CcEEEEEeCCHHHHHHHHHHcCCcEeC--CCCEEEEEEecC
Confidence            99755 589999999999999999999999998  144999999984

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

Probab=100.00  E-value=4.3e-36  Score=248.75  Aligned_cols=167  Identities=19%  Similarity=0.212  Sum_probs=142.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||+++|+++|+++|+.||.|.+|+|..+..  ..++||||+|.+.++|.+|++.+++..+.   |+.++
T Consensus        12 ~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~---g~~i~   88 (213)
T 4f02_A           12 SYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIK---GKPVR   88 (213)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcC---Ccccc
Confidence            34678999999999999999999999999999999985432  23559999999999999999999999998   99999


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccc
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPIN  189 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  189 (286)
                      +.++.......                                                                     
T Consensus        89 ~~~~~~~~~~~---------------------------------------------------------------------   99 (213)
T 4f02_A           89 IMWSQRDPSLR---------------------------------------------------------------------   99 (213)
T ss_dssp             EEECCCCTHHH---------------------------------------------------------------------
T ss_pred             ccccccccccc---------------------------------------------------------------------
Confidence            88764321100                                                                     


Q ss_pred             cCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          190 EQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       190 ~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                                .....+|||+|||.++|+++|+++|++||.|..|+++.  +.++|||||+|.+.++|.+|++.|||..|.
T Consensus       100 ----------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~  169 (213)
T 4f02_A          100 ----------KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN  169 (213)
T ss_dssp             ----------HHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             ----------ccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEEC
Confidence                      00256799999999999999999999999999999987  335789999999999999999999999999


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         |+.|+|+||+.+.
T Consensus       170 ---g~~i~V~~a~~~~  182 (213)
T 4f02_A          170 ---DRKVFVGRFKSRK  182 (213)
T ss_dssp             ---TEECEEEECCCHH
T ss_pred             ---CEEEEEEEcCCCc
Confidence               5599999998653

>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=100.00  E-value=5.2e-35  Score=240.44  Aligned_cols=197  Identities=13%  Similarity=0.144  Sum_probs=144.5

Q ss_pred             CCCCeEEEcCCC-CCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           33 NGINTLFVSGLP-DDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        33 ~~~~~lfV~nLp-~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .++++|||+||| ..+++++|+++|+.||.|.+|++..+.++   ||||+|.+.++|.+|++.|||..+.   |++|+|.
T Consensus         2 ~~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~~g---~afV~f~~~~~A~~Ai~~lng~~~~---g~~l~v~   75 (205)
T 3tyt_A            2 ADSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPG---AAMVEMADGYAVDRAITHLNNNFMF---GQKMNVC   75 (205)
T ss_dssp             CCCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTSTT---CEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCCCC---EEEEEECCHHHHHHHHHHhCCCEEC---CceEEEE
Confidence            468999999999 89999999999999999999999844444   9999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      +++......+.   . .       ...... ......  ..            ........+.                 
T Consensus        76 ~s~~~~~~p~~---~-~-------~~~~~~-~~~~~~--~~------------~~~~r~~~~~-----------------  112 (205)
T 3tyt_A           76 VSKQPAIMPGQ---S-Y-------GLEDGS-CSYKDF--SE------------SRNNRFSTPE-----------------  112 (205)
T ss_dssp             ECSCSCCCCCS---C-C-------BCTTSC-BSEEEC--TT------------CTTCSCSSHH-----------------
T ss_pred             EccCCccCCCc---c-c-------ccccCC-cccccc--CC------------CccccccCcc-----------------
Confidence            98654321110   0 0       000000 000000  00            0000000000                 


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCc--eEEEEeec--CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGF--NMLKMRAR--GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v--~~v~~~~~--~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                       ........+|+++|||+|||.++|+++|+++|++||.|  ..+++...  ..+|+|||+|.+.++|.+||..|||..|.
T Consensus       113 -~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~  191 (205)
T 3tyt_A          113 -QAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMK  191 (205)
T ss_dssp             -HHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEEC
T ss_pred             -cccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCcc
Confidence             00001123568999999999999999999999999999  89998874  34589999999999999999999999999


Q ss_pred             CCCCC-cEEEEEe
Q 023143          268 SSDRG-GMHIEYA  279 (286)
Q Consensus       268 ~~~g~-~l~V~~a  279 (286)
                      ++++. ++.|.||
T Consensus       192 g~~~~~p~~vk~~  204 (205)
T 3tyt_A          192 NPNGPYPYTLKLC  204 (205)
T ss_dssp             CSSSSSCEECEEE
T ss_pred             CCCCCcceEEEec
Confidence            87433 7777775

>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=100.00  E-value=1.5e-34  Score=242.10  Aligned_cols=197  Identities=20%  Similarity=0.315  Sum_probs=148.9

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..++++|||+|||. ++++++|+++|+.||.|..|++....++   ||||+|.+.++|.+|++.|+|..+.   |+.|.|
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~~g---~afV~F~~~~~A~~Ai~~l~g~~~~---g~~l~v  104 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSHLNGHKLH---GKPIRI  104 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSC---CEEEEESCHHHHHHHHHHHTTCBCS---SSBCEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECCCC---EEEEEECCHHHHHHHHHHhCCCeEC---CeEEEE
Confidence            45789999999999 9999999999999999999999855444   9999999999999999999999998   999999


Q ss_pred             EEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcccc
Q 023143          111 ELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINE  190 (286)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~  190 (286)
                      ++++.......+.. ...    .  .....    ....       .          ......+.                
T Consensus       105 ~~a~~~~~~~~~~~-~~~----~--~~~~~----~~~~-------~----------~~~~~~~~----------------  140 (229)
T 2adc_A          105 TLSKHQNVQLPREG-QED----Q--GLTKD----YGNS-------P----------LHRFKKPG----------------  140 (229)
T ss_dssp             ECCSCCCCCCCCSS-SST----T--TTEEE----CTTC-------S----------SCCCCSTT----------------
T ss_pred             EEecCccccCcccc-ccc----c--ccccc----cccC-------c----------ccccCCcc----------------
Confidence            99875433221100 000    0  00000    0000       0          00000000                


Q ss_pred             CCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       191 ~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                        ........+++++|||+|||..+++++|+++|++|| .|..|++... +++||||+|.+.++|.+|++.|||..+.  
T Consensus       141 --~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~-~~g~afV~f~~~~~A~~Ai~~l~g~~~~--  215 (229)
T 2adc_A          141 --SKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK-DRKMALIQMGSVEEAVQALIDLHNHDLG--  215 (229)
T ss_dssp             --SGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS-STTCEEEEESSHHHHHHHHHHHTTCBSS--
T ss_pred             --ccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC-CCcEEEEEECCHHHHHHHHHHHCCCccC--
Confidence              001112245689999999999999999999999999 9999999653 3589999999999999999999999997  


Q ss_pred             CCCcEEEEEecccc
Q 023143          270 DRGGMHIEYARSKM  283 (286)
Q Consensus       270 ~g~~l~V~~ak~~~  283 (286)
                      +|+.|+|+||+.++
T Consensus       216 ~g~~l~v~~a~~~i  229 (229)
T 2adc_A          216 ENHHLRVSFSKSTI  229 (229)
T ss_dssp             SSCBCEEEECSSCC
T ss_pred             CCCeEEEEEecCCC
Confidence            14499999999864

>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=100.00  E-value=3.9e-34  Score=229.06  Aligned_cols=167  Identities=17%  Similarity=0.277  Sum_probs=140.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC----CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG----NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~----~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ++++|||+|||.++|+++|+++|+.||.|.+|++.....+    .++||||+|.+.++|.+|++.|+|..+....++.+.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~   81 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQ   81 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceE
Confidence            5789999999999999999999999999999999855433    355999999999999999999999888544567777


Q ss_pred             EEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccc
Q 023143          110 IELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPIN  189 (286)
Q Consensus       110 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  189 (286)
                      +.++......                                                                      
T Consensus        82 ~~~~~~~~~~----------------------------------------------------------------------   91 (175)
T 3nmr_A           82 MKPADSEKNN----------------------------------------------------------------------   91 (175)
T ss_dssp             EEECGGGCCS----------------------------------------------------------------------
T ss_pred             Eccccccccc----------------------------------------------------------------------
Confidence            7765432100                                                                      


Q ss_pred             cCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCcc
Q 023143          190 EQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTL  266 (286)
Q Consensus       190 ~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~  266 (286)
                                ..+.++|||+|||.++|+++|+++|++||.|..+++...   .++|||||+|.+.++|.+|++.|||..+
T Consensus        92 ----------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~  161 (175)
T 3nmr_A           92 ----------AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQT  161 (175)
T ss_dssp             ----------CGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCC
T ss_pred             ----------cCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcc
Confidence                      013778999999999999999999999999999999873   4567999999999999999999999988


Q ss_pred             CCCCCCcEEEEEec
Q 023143          267 PSSDRGGMHIEYAR  280 (286)
Q Consensus       267 ~~~~g~~l~V~~ak  280 (286)
                      .+..++.|+|+||.
T Consensus       162 ~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          162 MEGCSSPMVVKFAD  175 (175)
T ss_dssp             CTTCSSCCEEEECC
T ss_pred             cCCCCCCeEEEecC
Confidence            74335799999983

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

Probab=100.00  E-value=1.4e-34  Score=229.62  Aligned_cols=161  Identities=19%  Similarity=0.319  Sum_probs=140.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      |+|||+|||.++|+++|+++|+.||.|.+|++.....+ .++||||+|.+.++|.+|++.++|..+.   |+.+.|.++.
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~---g~~i~v~~~~   77 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIE---NNIVKINWAF   77 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEECC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccC---CCeeEEEEcC
Confidence            68999999999999999999999999999999744322 3459999999999999999999999998   9999999874


Q ss_pred             cCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCC
Q 023143          115 SNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEK  194 (286)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~  194 (286)
                      .....                                                                           
T Consensus        78 ~~~~~---------------------------------------------------------------------------   82 (166)
T 3md3_A           78 QSQQS---------------------------------------------------------------------------   82 (166)
T ss_dssp             CCCCC---------------------------------------------------------------------------
T ss_pred             CCCCC---------------------------------------------------------------------------
Confidence            32100                                                                           


Q ss_pred             CCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          195 PYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       195 ~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                          ...++++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.|||..+.   
T Consensus        83 ----~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---  155 (166)
T 3md3_A           83 ----SSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN---  155 (166)
T ss_dssp             ----CCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET---
T ss_pred             ----CCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccC---
Confidence                012478899999999999999999999999999999986    345779999999999999999999999998   


Q ss_pred             CCcEEEEEecc
Q 023143          271 RGGMHIEYARS  281 (286)
Q Consensus       271 g~~l~V~~ak~  281 (286)
                      |+.|+|+||+.
T Consensus       156 g~~i~v~~a~~  166 (166)
T 3md3_A          156 GRPLRINWAAK  166 (166)
T ss_dssp             TEECEEEESCC
T ss_pred             CcEEEEEecCC
Confidence            56999999973

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

Probab=100.00  E-value=5.3e-34  Score=233.34  Aligned_cols=195  Identities=20%  Similarity=0.320  Sum_probs=147.7

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           34 GINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .+++|||+|||. ++++++|+++|+.||.|..|++....++   ||||+|.+.++|.+|++.|+|..+.   |+.|.|.+
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~~g---~afV~f~~~~~a~~A~~~l~~~~~~---g~~l~v~~   75 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSHLNGHKLH---GKPIRITL   75 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTCSS---CCEEECTTTHHHHHHHHHHTTCCCS---SCCCEEEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCCCC---EEEEEECCHHHHHHHHHHhCCCeec---CeEEEEEE
Confidence            478999999999 9999999999999999999998854444   9999999999999999999999998   99999999


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      +........... ...      ......    ...     .  .          ......+                  .
T Consensus        76 a~~~~~~~~~~~-~~~------~~~~~~----~~~-----~--~----------~~r~~~~------------------~  109 (198)
T 1qm9_A           76 SKHQNVQLPREG-QED------QGLTKD----YGN-----S--P----------LHRFKKP------------------G  109 (198)
T ss_dssp             CCCCSCCCSSSS-SSS------SSCEEE----SSC-----C--C----------TTSSSSC------------------C
T ss_pred             ecCCCcCCCCcC-Ccc------cccccc----ccC-----C--c----------hhhccCc------------------c
Confidence            876543221100 000      000000    000     0  0          0000000                  0


Q ss_pred             CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      ........+++++|||+|||..+++++|+++|++|| .|..+++... ++|+|||+|.+.++|.+|++.|||..+.  +|
T Consensus       110 ~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~-~~g~afV~f~~~~~A~~A~~~l~g~~~~--~g  186 (198)
T 1qm9_A          110 SKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK-DRKMALIQMGSVEEAVQALIDLHNHDLG--EN  186 (198)
T ss_dssp             CCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESST-TSSCEEEECSSHHHHHHHHHHHTSSCCS--SC
T ss_pred             ccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeC-CCcEEEEEeCCHHHHHHHHHHhcCCccC--CC
Confidence            001122245799999999999999999999999999 9999999663 2589999999999999999999999997  24


Q ss_pred             CcEEEEEecccc
Q 023143          272 GGMHIEYARSKM  283 (286)
Q Consensus       272 ~~l~V~~ak~~~  283 (286)
                      +.|+|+|++.++
T Consensus       187 ~~l~v~~a~~~i  198 (198)
T 1qm9_A          187 HHLRVSFSKSTI  198 (198)
T ss_dssp             CSCCEEEECCCC
T ss_pred             CeEEEEeecccC
Confidence            499999999864

>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=100.00  E-value=1.4e-33  Score=224.48  Aligned_cols=161  Identities=22%  Similarity=0.337  Sum_probs=140.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||.++++++|+++|+.||.|..|++......  .++||||+|.+.++|.+|++.++|..+.   |+.|.|.
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~---g~~l~v~   78 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVR---NKRLKVS   78 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeC---CcEEEEE
Confidence            4789999999999999999999999999999988754322  2349999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++.....                                                                         
T Consensus        79 ~~~~~~~-------------------------------------------------------------------------   85 (168)
T 1b7f_A           79 YARPGGE-------------------------------------------------------------------------   85 (168)
T ss_dssp             ECCCCSS-------------------------------------------------------------------------
T ss_pred             ecCCCcc-------------------------------------------------------------------------
Confidence            8753210                                                                         


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                              ..+.++|||+|||..+++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|++.|||..+.
T Consensus        86 --------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~  157 (168)
T 1b7f_A           86 --------SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPE  157 (168)
T ss_dssp             --------TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCT
T ss_pred             --------cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEec
Confidence                    013678999999999999999999999999999999873    34679999999999999999999999998


Q ss_pred             CCCCCcEEEEEe
Q 023143          268 SSDRGGMHIEYA  279 (286)
Q Consensus       268 ~~~g~~l~V~~a  279 (286)
                      +. ++.|+|+||
T Consensus       158 g~-~~~l~V~~A  168 (168)
T 1b7f_A          158 GG-SQPLSVRLA  168 (168)
T ss_dssp             TC-SSCCEEEEC
T ss_pred             CC-CeEEEEEeC
Confidence            53 479999997

>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=100.00  E-value=2.9e-33  Score=222.17  Aligned_cols=160  Identities=21%  Similarity=0.359  Sum_probs=139.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..+.   |+.|+|.+
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~---g~~l~v~~   78 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQ---TKTIKVSY   78 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccC---CceEEEEe
Confidence            6899999999999999999999999999999998543  223459999999999999999999999998   99999998


Q ss_pred             eecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCC
Q 023143          113 ARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQS  192 (286)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  192 (286)
                      +.....                                                                          
T Consensus        79 ~~~~~~--------------------------------------------------------------------------   84 (167)
T 1fxl_A           79 ARPSSA--------------------------------------------------------------------------   84 (167)
T ss_dssp             CCCCCG--------------------------------------------------------------------------
T ss_pred             cCCCcc--------------------------------------------------------------------------
Confidence            753210                                                                          


Q ss_pred             CCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       193 ~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                             ..+.++|||+|||..+++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|++.|||..+.+
T Consensus        85 -------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  157 (167)
T 1fxl_A           85 -------SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG  157 (167)
T ss_dssp             -------GGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             -------cCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCC
Confidence                   013677999999999999999999999999999999873    356899999999999999999999999985


Q ss_pred             CCCCcEEEEEe
Q 023143          269 SDRGGMHIEYA  279 (286)
Q Consensus       269 ~~g~~l~V~~a  279 (286)
                      + ...|+|+||
T Consensus       158 ~-~~~i~v~~A  167 (167)
T 1fxl_A          158 A-TEPITVKFA  167 (167)
T ss_dssp             C-SSCCEEEEC
T ss_pred             C-ccceEEEeC
Confidence            4 346999997

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

Probab=100.00  E-value=5.8e-33  Score=226.83  Aligned_cols=181  Identities=17%  Similarity=0.267  Sum_probs=141.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcC----C-------CccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRK----P-------GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~----G-------~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ..+++|||+|||.++|+++|+++|+.|    |       .|..+.+. ..++   ||||+|.+.++|.+|+ .|+|..|.
T Consensus         2 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~-~~~g---~afV~F~~~~~A~~Al-~l~g~~~~   76 (198)
T 2yh0_A            2 AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN-QDKN---FAFLEFRSVDETTQAM-AFDGIIFQ   76 (198)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEE-TTTT---EEEEEESCSHHHHHHG-GGTTEEET
T ss_pred             CceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEec-CCCC---EEEEEeCCHHHHHHHH-HhcCCEEc
Confidence            458999999999999999999999999    4       55555554 3444   9999999999999999 89999998


Q ss_pred             CCCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCC
Q 023143          102 PQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDS  181 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~  181 (286)
                         |+.|+|.++.........   .            ..    ...                       ..+.       
T Consensus        77 ---g~~i~v~~~~~~~~~~~~---~------------~~----~~~-----------------------~~~~-------  104 (198)
T 2yh0_A           77 ---GQSLKIRRPHDYQPLPGM---S------------EN----PSV-----------------------YVPG-------  104 (198)
T ss_dssp             ---TEEEEEECCCCCCCCCCS---S------------SC----SSC-----------------------CCTT-------
T ss_pred             ---CceEEEeCCCCCCCCCCC---c------------CC----CcC-----------------------CCCC-------
Confidence               999999987643211100   0            00    000                       0000       


Q ss_pred             CCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHH
Q 023143          182 GNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIA  257 (286)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~A  257 (286)
                                  ........+.++|||+|||..+++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|
T Consensus       105 ------------~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A  172 (198)
T 2yh0_A          105 ------------VVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA  172 (198)
T ss_dssp             ------------SSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHH
T ss_pred             ------------CccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHH
Confidence                        000111235899999999999999999999999999999999874    3468999999999999999


Q ss_pred             HHhcCCCccCCCCCCcEEEEEeccccCC
Q 023143          258 MEGLQDSTLPSSDRGGMHIEYARSKMRK  285 (286)
Q Consensus       258 l~~lng~~~~~~~g~~l~V~~ak~~~~~  285 (286)
                      ++.|||..+.   |+.|+|+||+.+.++
T Consensus       173 ~~~l~g~~~~---g~~l~v~~a~~~~~~  197 (198)
T 2yh0_A          173 IAGLNGMQLG---DKKLLVQRASVGAKN  197 (198)
T ss_dssp             HHHHTTCEET---TEECEEEESCCCCCC
T ss_pred             HHHcCCCEEC---CEEEEEEECCCCCCC
Confidence            9999999998   569999999987653

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

Probab=100.00  E-value=9.6e-34  Score=234.57  Aligned_cols=175  Identities=11%  Similarity=0.196  Sum_probs=142.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||.++|+++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.|.|.
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~---g~~l~v~  103 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLG---GRNIKVG  103 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC----CCCEEE
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeC---CeeEEEe
Confidence            56899999999999999999999999999999987432  123449999999999999999999999998   9999997


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++........            .   ....   .                                              
T Consensus       104 ~~~~~~~~~~------------~---~~~~---~----------------------------------------------  119 (216)
T 2qfj_A          104 RPSNIGQAQP------------I---IDQL---A----------------------------------------------  119 (216)
T ss_dssp             CCSCCGGGHH------------H---HHHH---H----------------------------------------------
T ss_pred             cCCCccccch------------h---hhhh---h----------------------------------------------
Confidence            6543211000            0   0000   0                                              


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                            ....+.++|||+|||.++++++|+++|++||.|..|++...    .++|||||+|.+.++|.+|++.|||..|+
T Consensus       120 ------~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~  193 (216)
T 2qfj_A          120 ------EEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLG  193 (216)
T ss_dssp             ------HHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             ------cccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeC
Confidence                  00124789999999999999999999999999999999874    45789999999999999999999999998


Q ss_pred             CCCCCcEEEEEeccccC
Q 023143          268 SSDRGGMHIEYARSKMR  284 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~~  284 (286)
                         |+.|+|+||+.+..
T Consensus       194 ---g~~i~V~~a~~~~~  207 (216)
T 2qfj_A          194 ---GQYLRVGKAVTPPM  207 (216)
T ss_dssp             ---SSBCEEEECSSCSS
T ss_pred             ---CcEEEEEEecCCCC
Confidence               55999999998754

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=100.00  E-value=1e-32  Score=224.99  Aligned_cols=171  Identities=17%  Similarity=0.280  Sum_probs=139.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...++++|||+|||.++|+++|+++|+.||.|.+|++.....  ..++||||+|.+.++|.+|++. ++..+.   |+.|
T Consensus         9 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~---g~~l   84 (196)
T 1l3k_A            9 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVD---GRVV   84 (196)
T ss_dssp             CCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEET---TEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEEC---CEEe
Confidence            355789999999999999999999999999999999985432  2355999999999999999976 889898   9999


Q ss_pred             EEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcc
Q 023143          109 HIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPI  188 (286)
Q Consensus       109 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~  188 (286)
                      .|.++.........                                                                  
T Consensus        85 ~v~~~~~~~~~~~~------------------------------------------------------------------   98 (196)
T 1l3k_A           85 EPKRAVSREDSQRP------------------------------------------------------------------   98 (196)
T ss_dssp             EEEECCC-------------------------------------------------------------------------
T ss_pred             eeecccCccccccc------------------------------------------------------------------
Confidence            99987542110000                                                                  


Q ss_pred             ccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          189 NEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       189 ~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                               ....+.++|||+|||.++|+++|+++|+.||.|..|++...    .++|||||+|.+.++|.+|++. +|.
T Consensus        99 ---------~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~  168 (196)
T 1l3k_A           99 ---------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYH  168 (196)
T ss_dssp             -------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCC
T ss_pred             ---------ccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCc
Confidence                     00124689999999999999999999999999999999873    4578999999999999999987 799


Q ss_pred             ccCCCCCCcEEEEEeccccC
Q 023143          265 TLPSSDRGGMHIEYARSKMR  284 (286)
Q Consensus       265 ~~~~~~g~~l~V~~ak~~~~  284 (286)
                      .+.   |+.|.|+||..+.+
T Consensus       169 ~~~---G~~i~v~~a~~k~~  185 (196)
T 1l3k_A          169 TVN---GHNCEVRKALSKQE  185 (196)
T ss_dssp             EET---TEECEEEECC----
T ss_pred             EEC---CEEEEEEecCChhH
Confidence            998   55999999987643

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=100.00  E-value=1e-33  Score=227.02  Aligned_cols=166  Identities=20%  Similarity=0.260  Sum_probs=137.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEe-cCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY-TGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~-~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +...+.++|||+|||.++|+++|+++|+.||.+..+.+.. .....++||||+|.+.++|.+|++ |+|..+.   |+.|
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l~g~~~~---g~~l   83 (175)
T 1fje_B            8 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVF---GNEI   83 (175)
T ss_dssp             SSCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEET---TEEE
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHh-cCCCEeC---CeEE
Confidence            3456789999999999999999999999999875522221 111123399999999999999995 9999998   9999


Q ss_pred             EEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCcc
Q 023143          109 HIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPI  188 (286)
Q Consensus       109 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~  188 (286)
                      .|.++......                                                                     
T Consensus        84 ~v~~~~~~~~~---------------------------------------------------------------------   94 (175)
T 1fje_B           84 KLEKPKGRDSK---------------------------------------------------------------------   94 (175)
T ss_dssp             EEECCCCSSCS---------------------------------------------------------------------
T ss_pred             EEecCCCcccc---------------------------------------------------------------------
Confidence            99987542100                                                                     


Q ss_pred             ccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          189 NEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       189 ~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                                ...++++|||+|||.++++++|+++|++||.|..+ ...+.++|||||+|.+.++|.+|++.|||..+. 
T Consensus        95 ----------~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~-  162 (175)
T 1fje_B           95 ----------KVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEID-  162 (175)
T ss_dssp             ----------TTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE-CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEET-
T ss_pred             ----------ccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe-cCCCCCceEEEEEECCHHHHHHHHHHhCCCEEC-
Confidence                      01147899999999999999999999999999877 444778899999999999999999999999999 


Q ss_pred             CCCCcEEEEEeccc
Q 023143          269 SDRGGMHIEYARSK  282 (286)
Q Consensus       269 ~~g~~l~V~~ak~~  282 (286)
                        |+.|+|+||+.+
T Consensus       163 --g~~i~v~~a~~k  174 (175)
T 1fje_B          163 --GRSVSLYYTGEK  174 (175)
T ss_dssp             --TEEEEEEECSSC
T ss_pred             --CeEEEEEecCCC
Confidence              569999999876

>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=100.00  E-value=1.9e-32  Score=218.83  Aligned_cols=154  Identities=18%  Similarity=0.349  Sum_probs=133.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcC----C-------CccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCC
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRK----P-------GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDP  102 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~----G-------~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~  102 (286)
                      ++++|||+|||.++|+++|+++|+.|    |       .|..+++. ..++   ||||+|.+.++|.+|+ .++|..+. 
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~-~~~g---~afV~f~~~~~A~~A~-~~~~~~~~-   76 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN-QDKN---FAFLEFRSVDETTQAM-AFDGIIFQ-   76 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEE-TTTT---EEEEEESSHHHHHHHG-GGTTCEET-
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEec-CCCC---EEEEEeCCHHHHHHHH-HhCCcEec-
Confidence            57999999999999999999999999    6       66666665 3444   9999999999999999 89999998 


Q ss_pred             CCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCC
Q 023143          103 QSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSG  182 (286)
Q Consensus       103 ~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~  182 (286)
                        |+.|.|.++.....                                                                
T Consensus        77 --g~~i~v~~~~~~~~----------------------------------------------------------------   90 (172)
T 2g4b_A           77 --GQSLKIRRPHDYQP----------------------------------------------------------------   90 (172)
T ss_dssp             --TEECEEECCSSCCC----------------------------------------------------------------
T ss_pred             --CceeeecCCcccCC----------------------------------------------------------------
Confidence              99999986432100                                                                


Q ss_pred             CCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHH
Q 023143          183 NAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAM  258 (286)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al  258 (286)
                                       ....++|||+|||..+++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|+
T Consensus        91 -----------------~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~  153 (172)
T 2g4b_A           91 -----------------LPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI  153 (172)
T ss_dssp             -----------------CTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHH
T ss_pred             -----------------CCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHH
Confidence                             012677999999999999999999999999999999874    34689999999999999999


Q ss_pred             HhcCCCccCCCCCCcEEEEEe
Q 023143          259 EGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       259 ~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +.|||..+.   |+.|+|+||
T Consensus       154 ~~l~g~~~~---g~~l~V~~A  171 (172)
T 2g4b_A          154 AGLNGMQLG---DKKLLVQRA  171 (172)
T ss_dssp             HHHTTCEET---TEECEEEEC
T ss_pred             HHcCCCEEC---CeEEEEEeC
Confidence            999999999   559999997

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=100.00  E-value=1.3e-32  Score=218.78  Aligned_cols=159  Identities=12%  Similarity=0.206  Sum_probs=135.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||.++|+++|+++|+.||.|.+|++....  ...++||||+|.+.++|.+|++.  +..+.   |+.+.+.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~---g~~i~v~   76 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILD---GKVIDPK   76 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEET---TEECCCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccC---CeEcccc
Confidence            57999999999999999999999999999999987442  22345999999999999999984  56776   8888777


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++.....                                                                         
T Consensus        77 ~~~~~~~-------------------------------------------------------------------------   83 (167)
T 2cjk_A           77 RAIPRDE-------------------------------------------------------------------------   83 (167)
T ss_dssp             ECCCHHH-------------------------------------------------------------------------
T ss_pred             cccchhh-------------------------------------------------------------------------
Confidence            6532100                                                                         


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                              ..+.++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++ +||..+.
T Consensus        84 --------~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~  154 (167)
T 2cjk_A           84 --------QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFK  154 (167)
T ss_dssp             --------HHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSS
T ss_pred             --------ccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeC
Confidence                    00266899999999999999999999999999999876    4567899999999999999998 8999999


Q ss_pred             CCCCCcEEEEEeccc
Q 023143          268 SSDRGGMHIEYARSK  282 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~  282 (286)
                         |+.|+|+||+.+
T Consensus       155 ---g~~i~V~~a~pk  166 (167)
T 2cjk_A          155 ---DRKIEIKRAEPR  166 (167)
T ss_dssp             ---SSCEEEEECCCC
T ss_pred             ---CeEEEEeecCCC
Confidence               559999999875

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.97  E-value=7.9e-31  Score=226.22  Aligned_cols=166  Identities=18%  Similarity=0.249  Sum_probs=143.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||.++++++|+++|+.||.|..+++.....  ..++||||+|.+.++|.+|++.|+|..+.   |+.|.|.
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~---g~~i~v~  170 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLG---PRTLYVH  170 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeC---CcEEEEE
Confidence            468999999999999999999999999999999875432  23559999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++......  .                                                                     
T Consensus       171 ~a~~~~~~--~---------------------------------------------------------------------  179 (284)
T 3smz_A          171 WTDAGQLT--P---------------------------------------------------------------------  179 (284)
T ss_dssp             ECCGGGCC--T---------------------------------------------------------------------
T ss_pred             ECCCCCCC--c---------------------------------------------------------------------
Confidence            97542100  0                                                                     


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCC-CHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNC-TEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~-te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                             ...++++|||+|||.++ ++++|+++|+.||.|..+++..   +.++|+|||+|.+.++|.+|++.|||..+.
T Consensus       180 -------~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~  252 (284)
T 3smz_A          180 -------ALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLG  252 (284)
T ss_dssp             -------TTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             -------ccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccC
Confidence                   01247889999999995 9999999999999999999887   445789999999999999999999999998


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         |+.|+|+|++.+.
T Consensus       253 ---g~~l~v~~a~~~~  265 (284)
T 3smz_A          253 ---GSHLRVSFCAPGP  265 (284)
T ss_dssp             ---TEECEEEECCSSS
T ss_pred             ---CeEEEEEEecCCC
Confidence               5699999998764

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.97  E-value=1.8e-30  Score=221.42  Aligned_cols=157  Identities=22%  Similarity=0.269  Sum_probs=138.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++++|||+|||.++|+++|+++|+.||.|..|.+. ..++   ||||+|.+.++|.+|++.++|..+.   |+.|.|.
T Consensus        19 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~-~~kg---~afV~f~~~~~A~~A~~~l~g~~i~---g~~l~v~   91 (261)
T 3sde_A           19 YTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFIN-RDRG---FGFIRLESRTLAEIAKAELDGTILK---SRPLRIR   91 (261)
T ss_dssp             SCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEE-TTTT---EEEEECSSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEe-CCCc---EEEEEECCHHHHHHHHHHcCCcEEC---CceeEee
Confidence            4567899999999999999999999999999999987 4455   9999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++.                                                                             
T Consensus        92 ~a~-----------------------------------------------------------------------------   94 (261)
T 3sde_A           92 FAT-----------------------------------------------------------------------------   94 (261)
T ss_dssp             ECC-----------------------------------------------------------------------------
T ss_pred             ecc-----------------------------------------------------------------------------
Confidence            863                                                                             


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcC-CCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQ-DSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~ln-g~~~~  267 (286)
                                ++++|||+|||..+|+++|+++|+.||.|..|++..   +.++|||||+|.+.++|.+|++.|| |..+.
T Consensus        95 ----------~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~  164 (261)
T 3sde_A           95 ----------HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLL  164 (261)
T ss_dssp             ----------CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEES
T ss_pred             ----------cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEe
Confidence                      145799999999999999999999999999999887   3457899999999999999999995 44444


Q ss_pred             CCCCCcEEEEEeccc
Q 023143          268 SSDRGGMHIEYARSK  282 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~  282 (286)
                      ...+++|.|.+++..
T Consensus       165 ~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          165 TTTPRPVIVEPMEQF  179 (261)
T ss_dssp             SSSCCBCEEEECCCE
T ss_pred             cCCCceEEEeecccc
Confidence            334679999998754

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.97  E-value=7.4e-31  Score=227.31  Aligned_cols=169  Identities=20%  Similarity=0.270  Sum_probs=140.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCC-CccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKP-GFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G-~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||..+++++|+++|+.|| .|..|++.....+ .++||||+|.+.++|.+|++.|+|..+.   |+.|.|.
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~  192 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIE---GYTLVTK  192 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeC---CcEEEEE
Confidence            478999999999999999999999999 9999988743211 3449999999999999999999999998   9999999


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++.......+.                                                                     
T Consensus       193 ~a~~~~~~~~~---------------------------------------------------------------------  203 (292)
T 2ghp_A          193 VSNPLEKSKRT---------------------------------------------------------------------  203 (292)
T ss_dssp             ECCCC---------------------------------------------------------------------------
T ss_pred             ECCCCcccccc---------------------------------------------------------------------
Confidence            88643211000                                                                     


Q ss_pred             CCCCCCCCCCCccEEEEccCCCC-CCHHHHHHHHhcCCCceEEEEee-----cCCccEEEEEECCHHHHHHHHHhcCCCc
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPN-CTEDELKQTLSVYPGFNMLKMRA-----RGGMPVAFADFEEVEQASIAMEGLQDST  265 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~-~te~~L~~~F~~~G~v~~v~~~~-----~~~~~~afV~f~~~e~A~~Al~~lng~~  265 (286)
                           .....++++|||+|||.+ +++++|+++|++||.|..|++..     +.++|||||+|.+.++|.+|+ .|||..
T Consensus       204 -----~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~  277 (292)
T 2ghp_A          204 -----DSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSL  277 (292)
T ss_dssp             --------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEE
T ss_pred             -----cccCCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCE
Confidence                 000225889999999999 99999999999999999999986     445789999999999999999 999999


Q ss_pred             cCCCCCCcEEEEEecccc
Q 023143          266 LPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       266 ~~~~~g~~l~V~~ak~~~  283 (286)
                      |.   |+.|+|+||+.+.
T Consensus       278 ~~---g~~i~V~~a~~k~  292 (292)
T 2ghp_A          278 LG---NREISVSLADKKP  292 (292)
T ss_dssp             ET---TEEEEEEECCCCC
T ss_pred             EC---CcEEEEEEecCCC
Confidence            99   5699999999863

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.97  E-value=1.5e-30  Score=225.37  Aligned_cols=157  Identities=15%  Similarity=0.175  Sum_probs=137.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++++|||+|||.++|+++|+++|+.||.|..|++..+..++++||||+|.+.++|.+|++ ++|..+.   |+.|.|.
T Consensus        38 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~-~~~~~~~---g~~i~v~  113 (292)
T 2ghp_A           38 NRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVG---QNEIIVS  113 (292)
T ss_dssp             ----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEET---TEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHH-hCCcEeC---CcEEEEE
Confidence            55789999999999999999999999999999999987655567799999999999999995 9999998   9999998


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ++                                                                              
T Consensus       114 ~~------------------------------------------------------------------------------  115 (292)
T 2ghp_A          114 HL------------------------------------------------------------------------------  115 (292)
T ss_dssp             EC------------------------------------------------------------------------------
T ss_pred             EC------------------------------------------------------------------------------
Confidence            62                                                                              


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                                +.++|||+|||..+++++|+++|+.|| .|..|++..   +.++|||||+|.+.++|.+|++.|||..+.
T Consensus       116 ----------~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~  185 (292)
T 2ghp_A          116 ----------TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIE  185 (292)
T ss_dssp             ----------CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             ----------CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence                      167899999999999999999999999 999999977   447889999999999999999999999998


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         |+.|.|.|+..+.
T Consensus       186 ---g~~l~v~~a~~~~  198 (292)
T 2ghp_A          186 ---GYTLVTKVSNPLE  198 (292)
T ss_dssp             ---TEECEEEECCCC-
T ss_pred             ---CcEEEEEECCCCc
Confidence               5699999987553

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.97  E-value=7.2e-30  Score=220.20  Aligned_cols=152  Identities=20%  Similarity=0.376  Sum_probs=137.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++++|||+|||.++|+++|+++|+.|| |..|.+. ..++   ||||+|.+.++|.+|++.|+|..+.   |+.|.|+++
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~~-~~~g---~afV~f~~~~~A~~A~~~l~~~~~~---g~~i~v~~~   92 (284)
T 3smz_A           21 NRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD-KYKG---TAFVTLLNGEQAEAAINAFHQSRLR---ERELSVQLQ   92 (284)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEEe-cCCC---EEEEEeCCHHHHHHHHHHcCCCeeC---CeEEEEEec
Confidence            578999999999999999999999999 9888884 4445   9999999999999999999999998   999999862


Q ss_pred             ecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCC
Q 023143          114 RSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSE  193 (286)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  193 (286)
                      .                                                                               
T Consensus        93 ~-------------------------------------------------------------------------------   93 (284)
T 3smz_A           93 P-------------------------------------------------------------------------------   93 (284)
T ss_dssp             C-------------------------------------------------------------------------------
T ss_pred             C-------------------------------------------------------------------------------
Confidence            1                                                                               


Q ss_pred             CCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       194 ~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                              +.++|||+|||.++++++|+++|+.||.|..+++..    +.++|||||+|.+.++|.+|++.|||..+.  
T Consensus        94 --------~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~--  163 (284)
T 3smz_A           94 --------TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLG--  163 (284)
T ss_dssp             --------CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET--
T ss_pred             --------CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeC--
Confidence                    146799999999999999999999999999999876    445789999999999999999999999998  


Q ss_pred             CCCcEEEEEecccc
Q 023143          270 DRGGMHIEYARSKM  283 (286)
Q Consensus       270 ~g~~l~V~~ak~~~  283 (286)
                       |+.|.|.|++.+.
T Consensus       164 -g~~i~v~~a~~~~  176 (284)
T 3smz_A          164 -PRTLYVHWTDAGQ  176 (284)
T ss_dssp             -TEECEEEECCGGG
T ss_pred             -CcEEEEEECCCCC
Confidence             5599999998754

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.91  E-value=1e-23  Score=164.68  Aligned_cols=146  Identities=18%  Similarity=0.221  Sum_probs=114.1

Q ss_pred             EEEecCCCCeeEEEEEEcCHHHHHHHHHHh-CCCccCCCCCCeEEEEEeecCCCCCcCCCCCCceecccccccccccccC
Q 023143           66 QLKYTGRGNQVVAFATFVNHQTAVAALHEL-NGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQES  144 (286)
Q Consensus        66 ~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l-~g~~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (286)
                      .+.+++..-+++++|+|.+.++|++|++.+ ||..+.   | .+.+.++..........                     
T Consensus         4 al~l~g~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~---G-~~~~~~a~~~~~~~~~~---------------------   58 (150)
T 2i2y_A            4 KLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVD---G-EWTYDDATKTFTVTEGS---------------------   58 (150)
T ss_dssp             EEEECCSSSCEEEEEECSSHHHHTTTHHHHHHHHTCC---C-EEEEETTTTEEEEECSS---------------------
T ss_pred             EeeeccccccccceeeecCHHHHHHHHHHHhcCCCCC---C-ceecccccCcccccccc---------------------
Confidence            445566666779999999999999999999 999998   8 88888654321110000                     


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccCCCCCCCCCCCCccEEEEccCCCCCCHHHHHHHH
Q 023143          145 SSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTL  224 (286)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F  224 (286)
                      ....                                            .........+.++|||+|||.++|+++|+++|
T Consensus        59 ~~~~--------------------------------------------~~~~~~~~~~~~~l~V~nl~~~~t~~~l~~~F   94 (150)
T 2i2y_A           59 HHHH--------------------------------------------HHMHRDSCPLDCKVYVGNLGNNGNKTELERAF   94 (150)
T ss_dssp             SSCC--------------------------------------------CCSCSSSSTTSCEEEEESCCSCCSCHHHHHHH
T ss_pred             cccc--------------------------------------------ccccccCCCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            0000                                            00001112358999999999999999999999


Q ss_pred             hcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccccC
Q 023143          225 SVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMR  284 (286)
Q Consensus       225 ~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~~  284 (286)
                      ++||.|..|++..+ ++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||+.+.+
T Consensus        95 ~~~G~i~~v~i~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~~a~~~~r  150 (150)
T 2i2y_A           95 GYYGPLRSVWVARN-PPGFAFVEFEDPRDAADAVRELDGRTLC---GCRVRVELSNGEKR  150 (150)
T ss_dssp             HHHSCEEEEEECSS-SCSEEEEEESSHHHHHHHHHHHSSSCSS---SSCCEEEECCCCCC
T ss_pred             HhhCCEEEEEEeeC-CCcEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEEcCCCCC
Confidence            99999999999886 5699999999999999999999999998   56999999988753

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

Probab=99.90  E-value=7.2e-23  Score=161.23  Aligned_cols=79  Identities=19%  Similarity=0.287  Sum_probs=73.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||.++++++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~  145 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD---GRELRVQ  145 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESS---SSEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEEE
Confidence            488999999999999999999999999999999976    457889999999999999999999999998   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus       146 ~a~~~~  151 (158)
T 2kn4_A          146 MARYGR  151 (158)
T ss_dssp             EECCSS
T ss_pred             ECCCCC
Confidence            998764

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.89  E-value=3.1e-23  Score=154.59  Aligned_cols=78  Identities=15%  Similarity=0.338  Sum_probs=72.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      +.+|||+|||+++|+++|+++|+.||.|.+|+|..+....++||||+|.+.++|.+|++.|+|..|.   |+.|+|.++.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~---g~~i~V~~a~   81 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN---DRKVFVGRFK   81 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEESS
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEECC
Confidence            5689999999999999999999999999999998665555679999999999999999999999998   9999999876


Q ss_pred             c
Q 023143          115 S  115 (286)
Q Consensus       115 ~  115 (286)
                      .
T Consensus        82 ~   82 (115)
T 4f25_A           82 S   82 (115)
T ss_dssp             C
T ss_pred             C
Confidence            4

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.85  E-value=2.3e-21  Score=140.41  Aligned_cols=78  Identities=22%  Similarity=0.309  Sum_probs=72.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ..+++|||+|||.++|+++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~---gr~l~V   93 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQ---SKTIKV   93 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            3588999999999999999999999999999999986    456789999999999999999999999999   559999


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      +|||.
T Consensus        94 ~~AkP   98 (99)
T 4fxv_A           94 SYARP   98 (99)
T ss_dssp             EECCB
T ss_pred             EEeeC
Confidence            99974

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

Probab=99.85  E-value=3.1e-21  Score=138.56  Aligned_cols=79  Identities=18%  Similarity=0.251  Sum_probs=72.5

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCc--cCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDST--LPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~--~~~~~g~~l~V~  277 (286)
                      .+|+++|||+|||.++|+++|+++|++||.|.+|++++.  ||||||+|++.++|.+|++.|||..  +.   |++|+|+
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~--kg~AFVef~~~~~A~~Av~~ln~~~~~i~---Gr~i~V~   92 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK--KRQALVEFEDVLGACNAVNYAADNQIYIA---GHPAFVN   92 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETT--TTEEEEEESSHHHHHHHHHHHHHSCEEET---TEEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcC--CCEEEEEECCHHHHHHHHHHhcCCCceeC---CcEEEEE
Confidence            467999999999999999999999999999999999865  4999999999999999999999987  66   6699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus        93 ~S~~k~   98 (100)
T 3r27_A           93 YSTSQK   98 (100)
T ss_dssp             ECSCSC
T ss_pred             eccccc
Confidence            998864

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=5.4e-20  Score=134.06  Aligned_cols=80  Identities=18%  Similarity=0.231  Sum_probs=72.0

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCc--cCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDST--LPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~--~~~~~g~~l~V~  277 (286)
                      .+|+++|||+|||.++++++|+++|++||.|..|.++++  ++||||+|++.++|.+|++.|||..  +.   |+.|+|+
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~--kg~aFVef~~~~~A~~Ai~~l~~~~~~i~---Gr~l~V~   86 (104)
T 1wex_A           12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF--KRQALVEFENIDSAKECVTFAADVPVYIA---GQQAFFN   86 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT--TTEEEEEESSHHHHHHHHHHHHHSCCBSS---SSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC--CCEEEEEECCHHHHHHHHHHhccCCceEC---CEEEEEE
Confidence            457899999999999999999999999999999998875  4999999999999999999997765  66   6699999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus        87 ~a~~~~~   93 (104)
T 1wex_A           87 YSTSKRI   93 (104)
T ss_dssp             ECSSSSC
T ss_pred             EccCccc
Confidence            9987653

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

Probab=99.82  E-value=3.7e-20  Score=132.92  Aligned_cols=81  Identities=12%  Similarity=0.185  Sum_probs=71.6

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCc--cCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVK--FDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~--~~~~~g~  106 (286)
                      .....++++|||+|||+++|+++|+++|++||.|.+|++. ..++   ||||+|.+.++|.+|++.|+|..  +.   |+
T Consensus        15 ~~~~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~-~~kg---~AFVef~~~~~A~~Av~~ln~~~~~i~---Gr   87 (100)
T 3r27_A           15 PHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVM-PKKR---QALVEFEDVLGACNAVNYAADNQIYIA---GH   87 (100)
T ss_dssp             --CCCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHHHSCEEET---TE
T ss_pred             cccCCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEE-cCCC---EEEEEECCHHHHHHHHHHhcCCCceeC---Cc
Confidence            4445679999999999999999999999999999999887 4555   99999999999999999999886  66   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      +|+|+|++.+
T Consensus        88 ~i~V~~S~~k   97 (100)
T 3r27_A           88 PAFVNYSTSQ   97 (100)
T ss_dssp             EEEEEECSCS
T ss_pred             EEEEEecccc
Confidence            9999998754

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

Probab=99.82  E-value=2.5e-20  Score=137.38  Aligned_cols=82  Identities=22%  Similarity=0.341  Sum_probs=74.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++..+..+.++||||+|.+.++|.+|++.|+|..+.   |+.|+|+
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~  102 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIEVN  102 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            6678999999999999999999999999999999998554444559999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      +++..
T Consensus       103 ~a~~~  107 (109)
T 2err_A          103 NATAR  107 (109)
T ss_dssp             ECCCS
T ss_pred             ECCCC
Confidence            98653

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=3.6e-20  Score=136.13  Aligned_cols=80  Identities=10%  Similarity=0.129  Sum_probs=71.2

Q ss_pred             CCCccEEEEccCCCC-CCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCC--ccCCCCCCcEEE
Q 023143          200 VQPCSTLFIANLGPN-CTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDS--TLPSSDRGGMHI  276 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~-~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~--~~~~~~g~~l~V  276 (286)
                      .+++++|||+|||.+ +++++|+++|++||.|.+|++++.  ++||||+|++.++|.+|++.||+.  .+.   |+.|+|
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~--kg~aFVef~~~~~A~~Ai~~l~~~~~~l~---Gr~l~V   96 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM--KSQAFIEMETREDAMAMVDHCLKKALWFQ---GRCVKV   96 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT--TTEEEEECSSHHHHHHHHHHHHHSCCCSS---SSCCEE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecC--CCEEEEEECCHHHHHHHHHHhccCCceEC---CEEEEE
Confidence            457999999999998 999999999999999999999865  599999999999999999998654  477   669999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus        97 ~~a~~~~~  104 (112)
T 1x4f_A           97 DLSEKYKK  104 (112)
T ss_dssp             EEECSCSS
T ss_pred             EECccccc
Confidence            99987543

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

Probab=99.82  E-value=3.5e-20  Score=136.67  Aligned_cols=79  Identities=18%  Similarity=0.170  Sum_probs=73.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++.++|||+||+.++++++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~---gr~i~V   80 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVM---GNIIHA   80 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEE
Confidence            4689999999999999999999999999999999986    456789999999999999999999999999   559999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      ++|+..
T Consensus        81 ~~a~~~   86 (110)
T 3s8s_A           81 QLDIKG   86 (110)
T ss_dssp             EECSTT
T ss_pred             EECCCC
Confidence            999764

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.82  E-value=6.1e-20  Score=132.84  Aligned_cols=79  Identities=22%  Similarity=0.353  Sum_probs=71.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.|||..|.   |++|+|+
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~---gr~l~V~   94 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQ---SKTIKVS   94 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEE
Confidence            568899999999999999999999999999999985432  23459999999999999999999999998   9999999


Q ss_pred             Eeec
Q 023143          112 LARS  115 (286)
Q Consensus       112 ~~~~  115 (286)
                      |+++
T Consensus        95 ~AkP   98 (99)
T 4fxv_A           95 YARP   98 (99)
T ss_dssp             ECCB
T ss_pred             EeeC
Confidence            9864

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.82  E-value=2.9e-20  Score=138.43  Aligned_cols=78  Identities=23%  Similarity=0.313  Sum_probs=71.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec--CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR--GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~--~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +++|||+|||.++|+++|+++|++||.|.+|+++.+  .++|||||+|.+.++|.+||+.|||..+.   |+.|+|+|++
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~---g~~i~V~~a~   81 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN---DRKVFVGRFK   81 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEESS
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEECC
Confidence            678999999999999999999999999999999873  35789999999999999999999999999   5599999998


Q ss_pred             ccc
Q 023143          281 SKM  283 (286)
Q Consensus       281 ~~~  283 (286)
                      .+.
T Consensus        82 ~~~   84 (115)
T 4f25_A           82 SRK   84 (115)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            754

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

Probab=99.82  E-value=2e-20  Score=135.67  Aligned_cols=79  Identities=19%  Similarity=0.179  Sum_probs=71.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCC--CccCCCCCCcEEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD--STLPSSDRGGMHIEY  278 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng--~~~~~~~g~~l~V~~  278 (286)
                      +++++|||+|||.++|+++|+++|++||.|.+|+++++  +|||||+|++.++|.+|++.|++  ..+.   |++|+|+|
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~--kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~---Gr~l~V~~   88 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG--KNQAFIEMNTEEAANTMVNYYTSVTPVLR---GQPIYIQF   88 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT--TTEEEEEESSHHHHHHHHHHHTTSCCEET---TEECCBCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CCEEEEEECCHHHHHHHHHHhccCCceEC---CEEEEEEE
Confidence            46899999999999999999999999999999999986  49999999999999999998864  6788   66999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        89 A~~~~~   94 (105)
T 1sjq_A           89 SNHKEL   94 (105)
T ss_dssp             CSSSSC
T ss_pred             cCCCCC
Confidence            987653

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

Probab=99.82  E-value=1.2e-20  Score=134.56  Aligned_cols=79  Identities=16%  Similarity=0.257  Sum_probs=70.6

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEee----cCCccEEEEEECCHHHHHHHHHhc-CCCccCCCCCCcEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGL-QDSTLPSSDRGGMHI  276 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~l-ng~~~~~~~g~~l~V  276 (286)
                      +++|||+|||.++|+++|+++|++|| .|.+|++++    +.++|||||+|.+.++|.+|++.+ |+..+.   |+.|+|
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~---gr~i~V   77 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNIL---GQKVSM   77 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEET---TEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEEC---CEEEEE
Confidence            57899999999999999999999999 799999876    567899999999999999999988 466788   569999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+.+
T Consensus        78 ~~a~~~~~   85 (91)
T 2lxi_A           78 HYSDPKPK   85 (91)
T ss_dssp             ECCCSCCC
T ss_pred             EEcCCCCC
Confidence            99987654

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=3.1e-20  Score=134.50  Aligned_cols=78  Identities=10%  Similarity=0.092  Sum_probs=71.1

Q ss_pred             CCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCc--cCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDST--LPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~--~~~~~g~~l~V~  277 (286)
                      .++++|||+|||. ++|+++|+++|++||.|.+|++++.+  +||||+|++.++|.+|++.|||..  +.   |+.|+|+
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k--g~aFVef~~~~~A~~Ai~~l~~~~~~~~---Gr~l~V~   87 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI--NEAFIEMATTEDAQAAVDYYTTTPALVF---GKPVRVH   87 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS--SCEEEEESSHHHHHHHHHHHHHSCCEET---TEECEEE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC--CEEEEEECCHHHHHHHHHHHcCCCceEC---CcEEEEE
Confidence            3699999999999 99999999999999999999998765  899999999999999999998765  77   6699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus        88 ~a~~~~   93 (102)
T 1x4d_A           88 LSQKYK   93 (102)
T ss_dssp             EECCCT
T ss_pred             ECCCCC
Confidence            999654

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.82  E-value=1.2e-19  Score=131.51  Aligned_cols=80  Identities=20%  Similarity=0.164  Sum_probs=72.0

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC--CCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ--DSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln--g~~~~~~~g~~l~V~  277 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|.++++  +|||||+|++.++|.+|++.|+  +..+.   |+.|+|+
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~--kg~aFVef~~~~~A~~Ai~~l~~~~~~~~---Gr~l~V~   86 (101)
T 2cq1_A           12 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG--KNQAFLELATEEAAITMVNYYSAVTPHLR---NQPIYIQ   86 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT--TTEEEEEESSHHHHHHHHHHHHHSCCEET---TEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC--CCEEEEEECCHHHHHHHHHHhccCCceEC---CcEEEEE
Confidence            457999999999999999999999999999999998876  5999999999999999999874  66788   6699999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus        87 ~a~~~~~   93 (101)
T 2cq1_A           87 YSNHKEL   93 (101)
T ss_dssp             ECSCSSC
T ss_pred             EcCcccC
Confidence            9997654

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

Probab=99.81  E-value=3.6e-20  Score=132.74  Aligned_cols=77  Identities=21%  Similarity=0.354  Sum_probs=69.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCC--ceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCc----cCCCCC
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPG--FNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDST----LPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~--v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~----~~~~~g  271 (286)
                      .-.||||+|||+++|+++|+++|++||.  +.+|++++    ++++|||||+|.+.++|.+|++.|||..    +.   |
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~---G   84 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKID---G   84 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEET---T
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceEC---C
Confidence            4688999999999999999999999995  66888876    5678999999999999999999999974    66   6


Q ss_pred             CcEEEEEecc
Q 023143          272 GGMHIEYARS  281 (286)
Q Consensus       272 ~~l~V~~ak~  281 (286)
                      +.|.|+|||+
T Consensus        85 r~i~V~~Aks   94 (95)
T 2lkz_A           85 KTIGVDFAKS   94 (95)
T ss_dssp             EEEEEEECCC
T ss_pred             EEEEEEEccC
Confidence            6999999997

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.81  E-value=9.5e-20  Score=135.34  Aligned_cols=80  Identities=19%  Similarity=0.163  Sum_probs=72.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCC--CccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD--STLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng--~~~~~~~g~~l~V~  277 (286)
                      .+++++|||+|||.++|+++|+++|++||.|.+|+++++  +|||||+|++.++|.+|++.|++  ..+.   |+.|+|+
T Consensus        28 ~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~--kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~---Gr~l~V~  102 (119)
T 2ad9_A           28 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG--KNQAFIEMNTEEAANTMVNYYTSVTPVLR---GQPIYIQ  102 (119)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG--GTEEEEECSCHHHHHHHHHHHHHHCCCBT---TBCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC--CCEEEEEECCHHHHHHHHHHhccCCceEC---CeEEEEE
Confidence            456899999999999999999999999999999999987  49999999999999999999985  5787   6699999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus       103 ~a~~k~~  109 (119)
T 2ad9_A          103 FSNHKEL  109 (119)
T ss_dssp             ECSSSSC
T ss_pred             EccCCCC
Confidence            9987654

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.81  E-value=2.5e-19  Score=131.10  Aligned_cols=86  Identities=14%  Similarity=0.216  Sum_probs=75.5

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+++++|||+|||.++++++|+++|++||.|..|++..+   .+++||||+|.+.++|.+|++.|||..+.+..++.|+|
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V   91 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVV   91 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEE
Confidence            346899999999999999999999999999999999874   34689999999999999999999999998411269999


Q ss_pred             EEeccccCC
Q 023143          277 EYARSKMRK  285 (286)
Q Consensus       277 ~~ak~~~~~  285 (286)
                      +||+.+.++
T Consensus        92 ~~a~~~~~~  100 (105)
T 2dnh_A           92 KFADTDKES  100 (105)
T ss_dssp             EESCSSCCC
T ss_pred             EECccCccc
Confidence            999887653

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

Probab=99.81  E-value=2.1e-19  Score=128.98  Aligned_cols=81  Identities=21%  Similarity=0.273  Sum_probs=74.6

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||..+++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V   79 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELA---GRPMRV   79 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSS---SSCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeC---CcEEEE
Confidence            3589999999999999999999999999999999987    446789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +|++.+..
T Consensus        80 ~~a~~~~~   87 (95)
T 2dnz_A           80 GHVTERLD   87 (95)
T ss_dssp             EESSCCCC
T ss_pred             EEcccccC
Confidence            99998764

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

Probab=99.81  E-value=1.8e-19  Score=129.07  Aligned_cols=78  Identities=21%  Similarity=0.227  Sum_probs=72.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   89 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLF---GRVIK   89 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEET---TEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeC---CcEEE
Confidence            34689999999999999999999999999999999987    456789999999999999999999999999   55999


Q ss_pred             EEEec
Q 023143          276 IEYAR  280 (286)
Q Consensus       276 V~~ak  280 (286)
                      |+|||
T Consensus        90 v~~ak   94 (94)
T 2e5h_A           90 ASIAI   94 (94)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            99996

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

Probab=99.81  E-value=1.3e-19  Score=136.82  Aligned_cols=81  Identities=16%  Similarity=0.262  Sum_probs=73.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHH----HHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          200 VQPCSTLFIANLGPNCTEDELK----QTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~----~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                      .+++++|||+|||..+++++|+    ++|++||.|.+|.+.. ++++|||||+|.+.++|.+|++.|||..+.   |+.|
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~---gr~l  102 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQ---GNPL  102 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCT---TSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeC---CCEE
Confidence            3468999999999999999876    6999999999998866 577899999999999999999999999999   5599


Q ss_pred             EEEEecccc
Q 023143          275 HIEYARSKM  283 (286)
Q Consensus       275 ~V~~ak~~~  283 (286)
                      +|+||+.+.
T Consensus       103 ~V~~a~~~~  111 (127)
T 2a3j_A          103 VITFSETPQ  111 (127)
T ss_dssp             EEEECCCCC
T ss_pred             EEEEccCcc
Confidence            999998764

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.81  E-value=2.7e-19  Score=131.79  Aligned_cols=81  Identities=22%  Similarity=0.438  Sum_probs=74.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .+.++|||+|||.++|+++|+++|++||.|..|++.. +.+++||||+|.+.++|.+|++.|||..|.   |+.|+|+|+
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V~~a   96 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYD---GYRLRVEFP   96 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEET---TEECEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEEc
Confidence            3589999999999999999999999999999999977 445789999999999999999999999998   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+.+
T Consensus        97 ~~~~~  101 (109)
T 1x4a_A           97 RSGRG  101 (109)
T ss_dssp             CCCCC
T ss_pred             ccCCC
Confidence            88754

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.81  E-value=3.5e-19  Score=129.82  Aligned_cols=86  Identities=29%  Similarity=0.410  Sum_probs=76.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +...+.++|||+|||.++++++|+++|+.||.|..|++.......++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   86 (103)
T 2cqi_A           10 EDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKIL---GKEVK   86 (103)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEET---TEEEE
T ss_pred             CCCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcC---CCeEE
Confidence            345678999999999999999999999999999999998654445569999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+|++....
T Consensus        87 V~~a~~~~~   95 (103)
T 2cqi_A           87 VNWATTPSS   95 (103)
T ss_dssp             EEECCCTTC
T ss_pred             EEECCCCcc
Confidence            999987543

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

Probab=99.81  E-value=7.4e-20  Score=132.67  Aligned_cols=77  Identities=16%  Similarity=0.169  Sum_probs=69.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC--CCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN--GVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~--g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||+++|+++|+++|++||.|.+|+|. ..++   ||||+|.+.++|.+|++.++  +..|.   |++|+|+
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~-~~kG---faFVeF~~~~~A~~Ai~~l~~~~~~l~---Gr~l~V~   87 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLML-KGKN---QAFIEMNTEEAANTMVNYYTSVTPVLR---GQPIYIQ   87 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHTTSCCEET---TEECCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE-cCCC---EEEEEECCHHHHHHHHHHhccCCceEC---CEEEEEE
Confidence            47899999999999999999999999999999988 3455   99999999999999999886  47887   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      |++.+.
T Consensus        88 ~A~~~~   93 (105)
T 1sjq_A           88 FSNHKE   93 (105)
T ss_dssp             CCSSSS
T ss_pred             EcCCCC
Confidence            987643

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.81  E-value=1.1e-19  Score=127.62  Aligned_cols=77  Identities=17%  Similarity=0.323  Sum_probs=71.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   81 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIRV   81 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEE
Confidence            4689999999999999999999999999999999866    345789999999999999999999999998   569999


Q ss_pred             EEec
Q 023143          277 EYAR  280 (286)
Q Consensus       277 ~~ak  280 (286)
                      +|||
T Consensus        82 ~~ak   85 (85)
T 3mdf_A           82 NLAK   85 (85)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            9996

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.81  E-value=1.1e-19  Score=128.17  Aligned_cols=79  Identities=14%  Similarity=0.203  Sum_probs=70.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v   80 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG---GRQIRT   80 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEE
Confidence            35889999999999999999999999999999999873    35689999999999999999999999999   559999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      +||+.+
T Consensus        81 ~~a~~k   86 (87)
T 3bs9_A           81 NWATRK   86 (87)
T ss_dssp             EEEC--
T ss_pred             EecCCC
Confidence            999876

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=6.6e-19  Score=128.36  Aligned_cols=86  Identities=21%  Similarity=0.322  Sum_probs=76.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|++.....+.++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   86 (103)
T 2cq3_A           10 ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIE   86 (103)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            345578999999999999999999999999999999998655445669999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++.....
T Consensus        87 v~~a~~~~~   95 (103)
T 2cq3_A           87 VNNATARVM   95 (103)
T ss_dssp             EEECCSSCC
T ss_pred             EEEcccCCC
Confidence            999976543

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.80  E-value=2.2e-19  Score=133.58  Aligned_cols=82  Identities=16%  Similarity=0.195  Sum_probs=74.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .++.++|||+|||.++++++|+++|++||.|..|+++.    +.+++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   98 (115)
T 2cpz_A           22 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIG---MKRLK   98 (115)
T ss_dssp             CSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            34689999999999999999999999999999999987    345679999999999999999999999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+|++.+..
T Consensus        99 V~~a~~~~~  107 (115)
T 2cpz_A           99 VQLKRSKND  107 (115)
T ss_dssp             EECCCCSCC
T ss_pred             EEEcCCCCc
Confidence            999987654

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=3.2e-19  Score=130.03  Aligned_cols=82  Identities=21%  Similarity=0.263  Sum_probs=74.5

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..+.++|||+|||..+++++|+++|++||.|..|++..  ..+++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~   88 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKIL---GKEVKVN   88 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEET---TEEEEEE
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcC---CCeEEEE
Confidence            34689999999999999999999999999999999987  335689999999999999999999999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      |++.+..
T Consensus        89 ~a~~~~~   95 (103)
T 2cqi_A           89 WATTPSS   95 (103)
T ss_dssp             ECCCTTC
T ss_pred             ECCCCcc
Confidence            9987653

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

Probab=99.80  E-value=3.6e-19  Score=129.05  Aligned_cols=82  Identities=21%  Similarity=0.270  Sum_probs=74.8

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ..+.++|||+|||.++++++|+++|++||.|..|++..   +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   90 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIK---ENIIKV   90 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESS---SCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            34688999999999999999999999999999999988   445689999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+.+
T Consensus        91 ~~a~~~~~   98 (100)
T 2do4_A           91 AISNSGPS   98 (100)
T ss_dssp             EECCCCSC
T ss_pred             EECCCCCC
Confidence            99998764

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

Probab=99.80  E-value=1.5e-18  Score=133.51  Aligned_cols=89  Identities=20%  Similarity=0.304  Sum_probs=77.6

Q ss_pred             CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           26 YHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        26 ~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      ....+...+.++|||+|||.++++++|+++|+.||.|..|++.....+  .++||||+|.+.++|.+|++.|+|..|.  
T Consensus        33 ~~~~~~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~--  110 (139)
T 1u6f_A           33 TQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL--  110 (139)
T ss_dssp             SCSSCCTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECS--
T ss_pred             cccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC--
Confidence            334455677899999999999999999999999999999999855332  3559999999999999999999999998  


Q ss_pred             CCCeEEEEEeecCC
Q 023143          104 SGSVLHIELARSNS  117 (286)
Q Consensus       104 ~g~~l~v~~~~~~~  117 (286)
                       |+.|+|++++...
T Consensus       111 -g~~l~v~~a~~~~  123 (139)
T 1u6f_A          111 -NKRLKVALAASGH  123 (139)
T ss_dssp             -SCEEEEEESSCCC
T ss_pred             -CeEEEEEECCCCC
Confidence             9999999997654

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=3.9e-19  Score=130.02  Aligned_cols=82  Identities=15%  Similarity=0.125  Sum_probs=74.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||..+++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   89 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY---GKPIRV   89 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCS---SCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEE
Confidence            4689999999999999999999999999999999977    346789999999999999999999999999   559999


Q ss_pred             EEeccccCC
Q 023143          277 EYARSKMRK  285 (286)
Q Consensus       277 ~~ak~~~~~  285 (286)
                      +||+.+.+.
T Consensus        90 ~~a~~~~~~   98 (105)
T 1x5u_A           90 NKASAHNKN   98 (105)
T ss_dssp             EETTTTSCC
T ss_pred             EECCCCCcC
Confidence            999887553

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.80  E-value=1.6e-19  Score=129.97  Aligned_cols=79  Identities=19%  Similarity=0.245  Sum_probs=73.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      |+++|||+|||..+++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~   77 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLG---SRFLKCG   77 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEE
Confidence            478999999999999999999999999999999986    345789999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus        78 ~a~~~~   83 (96)
T 2x1f_A           78 YSSNSD   83 (96)
T ss_dssp             ECSCSS
T ss_pred             EcCCCC
Confidence            998764

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.80  E-value=3.7e-19  Score=128.30  Aligned_cols=80  Identities=20%  Similarity=0.302  Sum_probs=73.6

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +.+++|||+|||..+++++|+++|++||.|. ++++.+.+++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~~a~   92 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLG---TDTLRVALAR   92 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSS---SSCCEEEECC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEEcC
Confidence            3588999999999999999999999999997 77778888899999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        93 ~~~~   96 (97)
T 2e5j_A           93 QQRD   96 (97)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8754

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

Probab=99.80  E-value=1.2e-19  Score=125.78  Aligned_cols=74  Identities=16%  Similarity=0.138  Sum_probs=69.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+..|||+||+..+||++|+++|.+||.|.++++..  ++|||||+|.+.++|.+|++.|||..+.   |++|+|.+|.
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~--~kGfaFVey~~~~eA~~Ai~~Ln~~~l~---gr~I~V~~A~   79 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL--NQGIALCKYTTREEANKAQMALNNCVLA---NTTIFAESPS   79 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET--TTTEEEEEESSHHHHHHHHHHHTTEEET---TEEEEEECCC
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC--CCcEEEEEECCHHHHHHHHHHhcCCEEC---CcEEEEEECC
Confidence            488999999999999999999999999999999876  5699999999999999999999999999   5599999985

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=5.7e-19  Score=128.70  Aligned_cols=82  Identities=16%  Similarity=0.246  Sum_probs=74.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec--CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR--GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~--~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..+.++|||+|||.++++++|+++|++||.|..|+++.+  .+++||||+|.+.++|.+|++.|||..|.   |+.|+|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~   88 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIEVN   88 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEE
Confidence            345899999999999999999999999999999999873  35789999999999999999999999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      |++.+..
T Consensus        89 ~a~~~~~   95 (103)
T 2cq3_A           89 NATARVM   95 (103)
T ss_dssp             ECCSSCC
T ss_pred             EcccCCC
Confidence            9988754

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.80  E-value=2.1e-19  Score=129.58  Aligned_cols=79  Identities=22%  Similarity=0.280  Sum_probs=70.7

Q ss_pred             CCCCCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           29 QQQDNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      .....++++|||+|||. ++++++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..+.   |+.
T Consensus        16 ~~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~---~g---~afV~f~~~~~A~~Ai~~l~g~~~~---g~~   86 (97)
T 2xnq_A           16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---NA---FGFIQFDNPQSVRDAIEXESQEMNF---GKK   86 (97)
T ss_dssp             ---CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC---SS---EEEEEESSHHHHHHHHHHHTTSEET---TEE
T ss_pred             cCCCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---CC---EEEEEECCHHHHHHHHHHcCCCEEC---CEE
Confidence            34455789999999998 99999999999999999999885   55   9999999999999999999999998   999


Q ss_pred             EEEEEeecC
Q 023143          108 LHIELARSN  116 (286)
Q Consensus       108 l~v~~~~~~  116 (286)
                      |+|++++.+
T Consensus        87 l~V~~a~~~   95 (97)
T 2xnq_A           87 LILEVSSSN   95 (97)
T ss_dssp             CEEEECCCC
T ss_pred             EEEEecCCC
Confidence            999998754

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

Probab=99.80  E-value=3.4e-19  Score=129.89  Aligned_cols=81  Identities=16%  Similarity=0.268  Sum_probs=74.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec--CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR--GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~--~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++++|||+|||.++|+++|+++|++||.|..|++...  .+++||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V~~   89 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVA---TKPLYVAL   89 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSS---SSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeC---CcEEEEEE
Confidence            36899999999999999999999999999999999874  56789999999999999999999999998   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        90 a~~~~~   95 (103)
T 2d9p_A           90 AQRKEE   95 (103)
T ss_dssp             CSSCCC
T ss_pred             eccccc
Confidence            987754

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

Probab=99.80  E-value=1.8e-19  Score=132.53  Aligned_cols=82  Identities=24%  Similarity=0.405  Sum_probs=71.9

Q ss_pred             CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           26 YHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        26 ~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      ........++++|||+|||.++++++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..+.   |
T Consensus        22 ~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~---kg---~afV~f~~~~~A~~Ai~~l~g~~~~---g   92 (108)
T 2jvo_A           22 HHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL---NG---FAFVEFEEAESAAKAIEEVHGKSFA---N   92 (108)
T ss_dssp             ------CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE---TT---EEEEECSSHHHHHHHHHHHTTCEET---T
T ss_pred             ccccCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE---CC---EEEEEECCHHHHHHHHHHcCCCEEC---C
Confidence            4445557788999999999999999999999999999999988   55   9999999999999999999999998   9


Q ss_pred             CeEEEEEeecC
Q 023143          106 SVLHIELARSN  116 (286)
Q Consensus       106 ~~l~v~~~~~~  116 (286)
                      +.|+|+|++..
T Consensus        93 ~~l~V~~a~~~  103 (108)
T 2jvo_A           93 QPLEVVYSKLP  103 (108)
T ss_dssp             EECEEESCSCC
T ss_pred             eEEEEEEecCC
Confidence            99999998764

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

Probab=99.80  E-value=5.5e-19  Score=132.03  Aligned_cols=78  Identities=15%  Similarity=0.238  Sum_probs=71.4

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+++++|||+|||.++++++|+++|++||.|..|+++.    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~  113 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVG---TKRLK  113 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEET---TEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            44689999999999999999999999999999999976    456789999999999999999999999999   55999


Q ss_pred             EEEec
Q 023143          276 IEYAR  280 (286)
Q Consensus       276 V~~ak  280 (286)
                      |+|+|
T Consensus       114 V~~ak  118 (118)
T 2khc_A          114 VQLKK  118 (118)
T ss_dssp             EEEC-
T ss_pred             EEecC
Confidence            99986

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.80  E-value=4.3e-19  Score=128.37  Aligned_cols=81  Identities=21%  Similarity=0.267  Sum_probs=74.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||.++++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V   82 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ---GRMLHV   82 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESS---SCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEE
Confidence            3589999999999999999999999999999999976    446789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +|++.+..
T Consensus        83 ~~a~~~~~   90 (99)
T 1whw_A           83 LPSTIKKE   90 (99)
T ss_dssp             EECCCCST
T ss_pred             EEcCCCcc
Confidence            99988754

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

Probab=99.80  E-value=9.2e-19  Score=127.58  Aligned_cols=87  Identities=18%  Similarity=0.289  Sum_probs=76.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....+.++|||+|||.++|+++|+++|+.||.|..|++.......++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   86 (103)
T 2d9p_A           10 ITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVA---TKPLY   86 (103)
T ss_dssp             CCCSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSS---SSBCE
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeC---CcEEE
Confidence            345578999999999999999999999999999999998653334559999999999999999999999998   99999


Q ss_pred             EEEeecCCCC
Q 023143          110 IELARSNSRK  119 (286)
Q Consensus       110 v~~~~~~~~~  119 (286)
                      |+|++.....
T Consensus        87 V~~a~~~~~~   96 (103)
T 2d9p_A           87 VALAQRKEER   96 (103)
T ss_dssp             EEECSSCCCC
T ss_pred             EEEecccccC
Confidence            9999865443

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.80  E-value=2.4e-19  Score=125.38  Aligned_cols=78  Identities=19%  Similarity=0.331  Sum_probs=71.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +.+|||+|||.++++++|+++|++||.|..++++.    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~   77 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN---GRPLRINW   77 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeC---CcEEEEEe
Confidence            36899999999999999999999999999999986    344789999999999999999999999998   56999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      |+.+.
T Consensus        78 a~~~~   82 (83)
T 3md1_A           78 AAKLE   82 (83)
T ss_dssp             CCCCC
T ss_pred             cCcCC
Confidence            99764

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

Probab=99.80  E-value=1.7e-19  Score=132.89  Aligned_cols=81  Identities=17%  Similarity=0.273  Sum_probs=73.9

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++++|||+|||.++++++|+++|++||.|..|++..  +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~  102 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIEVN  102 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            44689999999999999999999999999999999987  345789999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus       103 ~a~~~~  108 (109)
T 2err_A          103 NATARV  108 (109)
T ss_dssp             ECCCSC
T ss_pred             ECCCCc
Confidence            998763

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

Probab=99.80  E-value=2.3e-19  Score=128.73  Aligned_cols=79  Identities=24%  Similarity=0.252  Sum_probs=72.4

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   88 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GRRIR   88 (95)
T ss_dssp             CCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            34689999999999999999999999999999999986    345679999999999999999999999999   55999


Q ss_pred             EEEecc
Q 023143          276 IEYARS  281 (286)
Q Consensus       276 V~~ak~  281 (286)
                      |+||++
T Consensus        89 v~~a~~   94 (95)
T 2cqc_A           89 VSGPSS   94 (95)
T ss_dssp             EECCSC
T ss_pred             EEecCC
Confidence            999985

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.80  E-value=5.6e-19  Score=127.29  Aligned_cols=82  Identities=17%  Similarity=0.369  Sum_probs=74.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .+++++|||+|||.++++++|+++|++||.|..|++..+  ++||||+|.+.++|.+|++.|||..+.+. |+.|+|+||
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~~~-g~~l~V~~a   90 (97)
T 1why_A           14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG--DSFAYIQYESLDAAQAACAKMRGFPLGGP-DRRLRVDFA   90 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS--SCCEEEEESSHHHHHHHHHHHTTCBCSSS-SCBCEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC--CCEEEEEECCHHHHHHHHHHHCCCEeCCC-CcEEEEEEC
Confidence            346899999999999999999999999999999999876  48999999999999999999999999832 449999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+..
T Consensus        91 ~~~~~   95 (97)
T 1why_A           91 KSGPS   95 (97)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            98754

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.80  E-value=1.5e-19  Score=130.96  Aligned_cols=80  Identities=11%  Similarity=0.065  Sum_probs=71.0

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCC--ccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGV--KFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~--~~~~~~g~~l  108 (286)
                      .+++++|||+|||+ ++|+++|+++|++||.|.+|.|. ..++   ||||+|.+.++|.+|++.|++.  .|.   |++|
T Consensus        12 ~~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~-~~kg---~aFVef~~~~~A~~Ai~~l~~~~~~~~---Gr~l   84 (102)
T 1x4d_A           12 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLIL-NKIN---EAFIEMATTEDAQAAVDYYTTTPALVF---GKPV   84 (102)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEEC-SSSS---CEEEEESSHHHHHHHHHHHHHSCCEET---TEEC
T ss_pred             CCCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEE-cCCC---EEEEEECCHHHHHHHHHHHcCCCceEC---CcEE
Confidence            45789999999999 99999999999999999999887 4444   9999999999999999998865  477   9999


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      +|+|++....
T Consensus        85 ~V~~a~~~~~   94 (102)
T 1x4d_A           85 RVHLSQKYKR   94 (102)
T ss_dssp             EEEEECCCTT
T ss_pred             EEEECCCCCC
Confidence            9999986543

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=4.6e-19  Score=131.64  Aligned_cols=82  Identities=15%  Similarity=0.163  Sum_probs=72.3

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCC--CccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG--VKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g--~~~~~~~g~  106 (286)
                      .....++++|||+|||+++|+++|+++|++||.|.+|+|. ..++   ||||+|.+.++|.+|++.+++  ..|.   |+
T Consensus        25 ~~~~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~-~~kG---~AFVeF~~~e~A~~Ai~~l~~~~~~l~---Gr   97 (119)
T 2ad9_A           25 RSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLML-KGKN---QAFIEMNTEEAANTMVNYYTSVTPVLR---GQ   97 (119)
T ss_dssp             TSCSSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEE-GGGT---EEEEECSCHHHHHHHHHHHHHHCCCBT---TB
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEe-CCCC---EEEEEECCHHHHHHHHHHhccCCceEC---Ce
Confidence            4446678999999999999999999999999999999988 3345   999999999999999998874  6787   99


Q ss_pred             eEEEEEeecCC
Q 023143          107 VLHIELARSNS  117 (286)
Q Consensus       107 ~l~v~~~~~~~  117 (286)
                      +|+|+|++...
T Consensus        98 ~l~V~~a~~k~  108 (119)
T 2ad9_A           98 PIYIQFSNHKE  108 (119)
T ss_dssp             CCEEEECSSSS
T ss_pred             EEEEEEccCCC
Confidence            99999997643

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

Probab=99.80  E-value=4.7e-19  Score=128.90  Aligned_cols=82  Identities=18%  Similarity=0.295  Sum_probs=74.4

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .++.++|||+|||.++++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   85 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVD---GRQIR   85 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTT---SCCCE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CeEEE
Confidence            34689999999999999999999999999999999987    346789999999999999999999999998   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+..
T Consensus        86 v~~a~~~~~   94 (102)
T 1x5s_A           86 VDQAGKSSD   94 (102)
T ss_dssp             EEEEECCCC
T ss_pred             EEECCCCCC
Confidence            999987653

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

Probab=99.79  E-value=3.4e-19  Score=129.87  Aligned_cols=82  Identities=17%  Similarity=0.290  Sum_probs=74.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++++|||+|||..+++++|+++|++||.|..|++...    .+++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   88 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD---HLILN   88 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeC---CcEEE
Confidence            346899999999999999999999999999999999873    45679999999999999999999999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+|++.+..
T Consensus        89 v~~a~~~~~   97 (103)
T 2cq0_A           89 VEWAKPSTN   97 (103)
T ss_dssp             EEESSCCCC
T ss_pred             EEECCCCCC
Confidence            999987754

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

Probab=99.79  E-value=2.7e-19  Score=135.06  Aligned_cols=86  Identities=14%  Similarity=0.257  Sum_probs=74.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHH----HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIH----NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~----~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      .+...++++|||+|||+.+++++|+    ++|+.||.|.+|.+..+ ...++||||+|.+.++|.+|++.|||..|.   
T Consensus        23 ~~~~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~-~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~---   98 (127)
T 2a3j_A           23 PPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS-DDNSGKAYIVFATQESAQAFVEAFQGYPFQ---   98 (127)
T ss_dssp             CCCCSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCC-CSSCCCEEEEESSHHHHHHHHHHSTTCCCT---
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccC-CCcCCEEEEEECCHHHHHHHHHHHCCCEeC---
Confidence            3456678999999999999999876    79999999998887632 233559999999999999999999999998   


Q ss_pred             CCeEEEEEeecCCC
Q 023143          105 GSVLHIELARSNSR  118 (286)
Q Consensus       105 g~~l~v~~~~~~~~  118 (286)
                      |++|+|+|++....
T Consensus        99 gr~l~V~~a~~~~~  112 (127)
T 2a3j_A           99 GNPLVITFSETPQS  112 (127)
T ss_dssp             TSCCEEEECCCCCH
T ss_pred             CCEEEEEEccCcch
Confidence            99999999986543

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.79  E-value=8.4e-19  Score=127.75  Aligned_cols=81  Identities=14%  Similarity=0.149  Sum_probs=70.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCc--cCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVK--FDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~--~~~~~g~~  107 (286)
                      ....++++|||+|||+++++++|+++|++||.|..|.+. ..++   ||||+|.+.++|.+|++.|++..  +.   |++
T Consensus        10 ~~~~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~-~~kg---~aFVef~~~~~A~~Ai~~l~~~~~~i~---Gr~   82 (104)
T 1wex_A           10 HKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMM-PFKR---QALVEFENIDSAKECVTFAADVPVYIA---GQQ   82 (104)
T ss_dssp             CCCCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHHHSCCBSS---SSB
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE-CCCC---EEEEEECCHHHHHHHHHHhccCCceEC---CEE
Confidence            345578999999999999999999999999999999887 4455   99999999999999999887654  76   999


Q ss_pred             EEEEEeecCC
Q 023143          108 LHIELARSNS  117 (286)
Q Consensus       108 l~v~~~~~~~  117 (286)
                      |+|+|++.+.
T Consensus        83 l~V~~a~~~~   92 (104)
T 1wex_A           83 AFFNYSTSKR   92 (104)
T ss_dssp             CEEEECSSSS
T ss_pred             EEEEEccCcc
Confidence            9999997643

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.79  E-value=5.2e-19  Score=127.95  Aligned_cols=80  Identities=23%  Similarity=0.323  Sum_probs=73.7

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|++.+.  ++||||+|.+.++|.+|++.|||..+.   |+.|+|+|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~--kg~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~a   86 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD--KGFGFIRLETRTLAEIAKVELDNMPLR---GKQLRVRFA   86 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT--TTEEEEECSSSHHHHHHHHHHTTCCBT---TBCCEEEES
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC--CCEEEEEECCHHHHHHHHHHhCCCEeC---CceEEEEEc
Confidence            456899999999999999999999999999999999866  499999999999999999999999999   569999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+..
T Consensus        87 ~~~~~   91 (99)
T 2cpj_A           87 CHSAS   91 (99)
T ss_dssp             SCCSC
T ss_pred             CCCCC
Confidence            88653

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=8.8e-19  Score=126.88  Aligned_cols=82  Identities=13%  Similarity=0.173  Sum_probs=71.7

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh--CCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL--NGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l--~g~~~~~~~g~  106 (286)
                      .....++++|||+|||+++++++|+++|++||.|..|.+. ..++   ||||+|.+.++|.+|++.|  ++..+.   |+
T Consensus         9 ~~~~~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~-~~kg---~aFVef~~~~~A~~Ai~~l~~~~~~~~---Gr   81 (101)
T 2cq1_A            9 KMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILML-KGKN---QAFLELATEEAAITMVNYYSAVTPHLR---NQ   81 (101)
T ss_dssp             CCCSSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHHHSCCEET---TE
T ss_pred             CccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE-CCCC---EEEEEECCHHHHHHHHHHhccCCceEC---Cc
Confidence            3445678999999999999999999999999999999877 4455   9999999999999999977  467787   99


Q ss_pred             eEEEEEeecCC
Q 023143          107 VLHIELARSNS  117 (286)
Q Consensus       107 ~l~v~~~~~~~  117 (286)
                      +|+|+|++...
T Consensus        82 ~l~V~~a~~~~   92 (101)
T 2cq1_A           82 PIYIQYSNHKE   92 (101)
T ss_dssp             ECEEEECSCSS
T ss_pred             EEEEEEcCccc
Confidence            99999997643

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

Probab=99.79  E-value=6e-19  Score=131.22  Aligned_cols=82  Identities=15%  Similarity=0.220  Sum_probs=74.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..+.++|||+|||..+++++|+++|++||.|..|+++..    .+++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   88 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG---GRQIR   88 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEET---TEECE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            346899999999999999999999999999999999873    34679999999999999999999999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+..
T Consensus        89 V~~a~~~~~   97 (115)
T 2dgo_A           89 TNWATRKPP   97 (115)
T ss_dssp             EEESSCCCC
T ss_pred             EEEccCCCC
Confidence            999987653

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.79  E-value=3.9e-19  Score=125.62  Aligned_cols=79  Identities=18%  Similarity=0.294  Sum_probs=72.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC-----CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-----GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~-----~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+++|||+|||.++++++|+++|++||.|..+++....     ++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   79 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQID---GQEITA   79 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeEC---CeEEEE
Confidence            47899999999999999999999999999999997743     6789999999999999999999999999   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      ++++.+.
T Consensus        80 ~~a~~~~   86 (88)
T 4a8x_A           80 TAVLAPW   86 (88)
T ss_dssp             EEECCCC
T ss_pred             EECCCCC
Confidence            9998764

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

Probab=99.79  E-value=2.8e-19  Score=130.10  Aligned_cols=81  Identities=16%  Similarity=0.286  Sum_probs=74.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||..+++++|+++|++||.|..|+++.    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V   86 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIRV   86 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEE
Confidence            4689999999999999999999999999999999976    456789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +|++.+..
T Consensus        87 ~~a~~~~~   94 (102)
T 2cqb_A           87 NLAKPMRI   94 (102)
T ss_dssp             EECCCCCC
T ss_pred             EeCCCCCC
Confidence            99988754

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

Probab=99.79  E-value=8.4e-19  Score=126.85  Aligned_cols=80  Identities=15%  Similarity=0.270  Sum_probs=73.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+.++|||+|||..+++++|+++|++||.|..|+++.    +.+++||||+|.+.++|.+|++ |||..+.   |+.|+|
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~---g~~l~V   83 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIM---GKKVEV   83 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSS---SCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEEC---CeEEEE
Confidence            4689999999999999999999999999999999986    4467899999999999999998 9999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +|++.+..
T Consensus        84 ~~a~~~~~   91 (99)
T 2dgs_A           84 KRAEPRDS   91 (99)
T ss_dssp             EECCCCCC
T ss_pred             EECCCCcc
Confidence            99987654

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.79  E-value=1.7e-18  Score=127.22  Aligned_cols=85  Identities=21%  Similarity=0.326  Sum_probs=75.0

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .+...+.++|||+|||..+++++|+++|+.||.|..|++......  .++||||+|.+.++|.+|++.|+|..+.   |+
T Consensus        20 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~---g~   96 (108)
T 2jrs_A           20 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELA---GR   96 (108)
T ss_dssp             CCSCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSS---SS
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CE
Confidence            444667899999999999999999999999999999999855332  3459999999999999999999999998   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      .|+|++++..
T Consensus        97 ~l~V~~a~~k  106 (108)
T 2jrs_A           97 PMKVGHVTER  106 (108)
T ss_dssp             CCEEECSCSS
T ss_pred             EEEEEEcccC
Confidence            9999998754

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.79  E-value=5e-19  Score=127.55  Aligned_cols=78  Identities=22%  Similarity=0.282  Sum_probs=71.6

Q ss_pred             CCCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          200 VQPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       200 ~~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .+++++|||+|||. ++++++|+++|++||.|..+++.    +|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~----~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~~   91 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK----NAFGFIQFDNPQSVRDAIEXESQEMNF---GKKLILEV   91 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC----SSEEEEEESSHHHHHHHHHHHTTSEET---TEECEEEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe----CCEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEe
Confidence            45699999999998 99999999999999999999984    589999999999999999999999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      ++.+.|
T Consensus        92 a~~~~r   97 (97)
T 2xnq_A           92 SSSNAR   97 (97)
T ss_dssp             CCCCC-
T ss_pred             cCCCCC
Confidence            998753

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

Probab=99.79  E-value=4.1e-19  Score=129.47  Aligned_cols=81  Identities=20%  Similarity=0.249  Sum_probs=74.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||.++++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V   87 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELD---GRELRV   87 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBT---TBCCEE
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEEC---CcEEEE
Confidence            3589999999999999999999999999999999986    446789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus        88 ~~a~~~~~   95 (103)
T 2dnm_A           88 QVARYGRR   95 (103)
T ss_dssp             EECSSCCS
T ss_pred             EECCcCCC
Confidence            99987643

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

Probab=99.79  E-value=6.9e-19  Score=127.31  Aligned_cols=78  Identities=14%  Similarity=0.224  Sum_probs=71.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceE--------EEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNM--------LKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~--------v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      .++.++|||+|||.++++++|+++|++||.|..        +++..+    +++|||||+|.+.++|.+|++.|||..+.
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            346899999999999999999999999999999        888763    45789999999999999999999999999


Q ss_pred             CCCCCcEEEEEec
Q 023143          268 SSDRGGMHIEYAR  280 (286)
Q Consensus       268 ~~~g~~l~V~~ak  280 (286)
                         |+.|+|+||+
T Consensus        90 ---g~~l~V~~A~   99 (99)
T 2la6_A           90 ---GNPIKVSFAT   99 (99)
T ss_dssp             ---SSBCEEEECC
T ss_pred             ---CcEEEEEecC
Confidence               5599999985

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.79  E-value=4.7e-19  Score=124.46  Aligned_cols=75  Identities=20%  Similarity=0.394  Sum_probs=70.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhc-CCCccCCCCCCcEEEEEe
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL-QDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~l-ng~~~~~~~g~~l~V~~a  279 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++...+  +||||+|.+.++|.+|++.| ||..+.   |+.|+|+||
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~k--g~afV~f~~~~~A~~a~~~l~~~~~~~---g~~l~v~~a   84 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQ--QCAFIQFATRQAAEVAAEKSFNKLIVN---GRRLNVKWG   84 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGG--TEEEEEESSHHHHHHHHHTTTTTCEET---TEECCEEEC
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCC--CEEEEEECCHHHHHHHHHHhcCCeeEC---CCEEEEEec
Confidence            458999999999999999999999999999999999864  89999999999999999999 999999   559999998


Q ss_pred             c
Q 023143          280 R  280 (286)
Q Consensus       280 k  280 (286)
                      |
T Consensus        85 k   85 (85)
T 2ytc_A           85 R   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            6

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

Probab=99.79  E-value=7.1e-19  Score=124.97  Aligned_cols=77  Identities=22%  Similarity=0.298  Sum_probs=71.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+.++|||+|||.++++++|+++|++||.|..|++.    ++||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v~~a~   78 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII----KNYGFVHIEDKTAAEDAIRNLHHYKLH---GVNINVEASK   78 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE----TTEEEEEESSHHHHHHHHHHHTTCBCS---SCBCEEECSS
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE----CCEEEEEECCHHHHHHHHHHhcCCccC---CcEEEEEECC
Confidence            468999999999999999999999999999999998    489999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        79 ~~~~   82 (90)
T 2dnq_A           79 NKSK   82 (90)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            7754

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

Probab=99.79  E-value=7.4e-19  Score=125.32  Aligned_cols=83  Identities=20%  Similarity=0.352  Sum_probs=74.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++.......++||||+|.+.++|.+|++.|+|..+.   |+.|+|+
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~   81 (92)
T 2dgv_A            5 SSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLS---GREIDVR   81 (92)
T ss_dssp             SSSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBT---TBCCCCE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEE
Confidence            4568999999999999999999999999999999998643334569999999999999999999999998   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      +++...
T Consensus        82 ~a~~~~   87 (92)
T 2dgv_A           82 IDRNAS   87 (92)
T ss_dssp             ECSCCS
T ss_pred             EcCCCC
Confidence            987654

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

Probab=99.79  E-value=5.5e-19  Score=127.56  Aligned_cols=83  Identities=18%  Similarity=0.365  Sum_probs=73.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC-----CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR-----GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-----~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|++.....     ..++||||+|.+.++|.+|++.|+|..|.   |+.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   79 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD---GHK   79 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET---TEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeC---CeE
Confidence            4689999999999999999999999999999999885432     23459999999999999999999999998   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|++++....
T Consensus        80 l~V~~a~~~~~   90 (98)
T 2cpf_A           80 LEVRISERATK   90 (98)
T ss_dssp             CEEECSSCSSC
T ss_pred             EEEEEccCCCC
Confidence            99999876543

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

Probab=99.79  E-value=1e-18  Score=128.13  Aligned_cols=81  Identities=19%  Similarity=0.347  Sum_probs=73.8

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-----CCccEEEEEECCHHHHHHHHHhc-CCCccCCCCCCc
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-----GGMPVAFADFEEVEQASIAMEGL-QDSTLPSSDRGG  273 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-----~~~~~afV~f~~~e~A~~Al~~l-ng~~~~~~~g~~  273 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|++...     .+++||||+|.+.++|.+|++.| ||..+.   |+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~---g~~   88 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY---GRR   88 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS---SCB
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeEC---CCE
Confidence            346899999999999999999999999999999999764     35789999999999999999999 999999   559


Q ss_pred             EEEEEecccc
Q 023143          274 MHIEYARSKM  283 (286)
Q Consensus       274 l~V~~ak~~~  283 (286)
                      |+|+||+.+.
T Consensus        89 l~v~~a~~~~   98 (107)
T 2cph_A           89 LVLEWADSEV   98 (107)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEeCCCCC
Confidence            9999998764

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.79  E-value=8.6e-19  Score=130.56  Aligned_cols=80  Identities=20%  Similarity=0.223  Sum_probs=73.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +.++|||+|||.++++++|+++|++||.|..|++..   +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~---g~~l~V~~   82 (116)
T 2fy1_A            6 HPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLH---GKAIKVEQ   82 (116)
T ss_dssp             SCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCS---SSBCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            578999999999999999999999999999999987   456789999999999999999999999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        83 a~~~~~   88 (116)
T 2fy1_A           83 AKKPSF   88 (116)
T ss_dssp             CCCSSC
T ss_pred             CCCCCC
Confidence            987653

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=1e-18  Score=128.64  Aligned_cols=85  Identities=27%  Similarity=0.452  Sum_probs=75.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +...+.++|||+|||.++++++|+++|+.||.|..|++.... ..++||||+|.+.++|.+|++.||+..|.   |+.|+
T Consensus        17 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   92 (109)
T 1x4a_A           17 PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR-GGPPFAFVEFEDPRDAEDAVYGRDGYDYD---GYRLR   92 (109)
T ss_dssp             CCCCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS-SSSCCEEEEESCHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcEEEEEECCHHHHHHHHHHcCCCEEC---CeEEE
Confidence            345678999999999999999999999999999999987433 34569999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+|++....
T Consensus        93 V~~a~~~~~  101 (109)
T 1x4a_A           93 VEFPRSGRG  101 (109)
T ss_dssp             EECCCCCCC
T ss_pred             EEEcccCCC
Confidence            999876543

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

Probab=99.79  E-value=3.3e-19  Score=128.23  Aligned_cols=80  Identities=25%  Similarity=0.329  Sum_probs=73.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEE-EEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNML-KMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v-~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++++|||+|||.++++++|+++|++||.|..+ ++..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v   80 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC---NRPITV   80 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET---TEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEE
Confidence            58999999999999999999999999999999 8876    446789999999999999999999999998   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus        81 ~~a~~~~~   88 (96)
T 1x5t_A           81 SYAFKKDS   88 (96)
T ss_dssp             EESCCCCC
T ss_pred             EEecccCC
Confidence            99987654

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

Probab=99.79  E-value=2.6e-19  Score=129.26  Aligned_cols=81  Identities=25%  Similarity=0.333  Sum_probs=73.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-------CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      +++++|||+|||.++++++|+++|++||.|..|++...       .+++||||+|.+.++|.+|++.|||..+.   |+.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   79 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD---GHK   79 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET---TEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeC---CeE
Confidence            35899999999999999999999999999999999862       45689999999999999999999999999   559


Q ss_pred             EEEEEeccccC
Q 023143          274 MHIEYARSKMR  284 (286)
Q Consensus       274 l~V~~ak~~~~  284 (286)
                      |+|+|++.+..
T Consensus        80 l~V~~a~~~~~   90 (98)
T 2cpf_A           80 LEVRISERATK   90 (98)
T ss_dssp             CEEECSSCSSC
T ss_pred             EEEEEccCCCC
Confidence            99999987654

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=8.8e-19  Score=130.29  Aligned_cols=81  Identities=23%  Similarity=0.294  Sum_probs=74.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCc----eEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v----~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||.++|+++|+++|++||.|    ..+++..+.++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~v   99 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLY---GKILVI   99 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCS---SCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeC---CcEEEE
Confidence            468999999999999999999999999998    6777777888899999999999999999999999998   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus       100 ~~a~~~~~  107 (115)
T 2cpx_A          100 EFGKNKKQ  107 (115)
T ss_dssp             EECCCCSC
T ss_pred             EEccCCCC
Confidence            99988754

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.79  E-value=2.2e-19  Score=132.20  Aligned_cols=79  Identities=15%  Similarity=0.124  Sum_probs=72.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCC-CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYP-GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G-~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+.+|||+|||.++++++|+++|++|| .|..+.+....++|||||+|.+.++|.+||+.|||..+.   |+.|+|++++
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~---Gr~i~V~~a~  103 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFR---GSVITVERDD  103 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEET---TEEEEEEESC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEECC
Confidence            478999999999999999999999999 999999976678899999999999999999999999999   5599999998


Q ss_pred             ccc
Q 023143          281 SKM  283 (286)
Q Consensus       281 ~~~  283 (286)
                      .+.
T Consensus       104 ~~p  106 (111)
T 2jvr_A          104 NPP  106 (111)
T ss_dssp             C--
T ss_pred             CCC
Confidence            653

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

Probab=99.79  E-value=1.3e-18  Score=127.57  Aligned_cols=86  Identities=22%  Similarity=0.334  Sum_probs=75.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec---CCCCeeEEEEEEcCHHHHHHHHHHh-CCCccCCCCC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT---GRGNQVVAFATFVNHQTAVAALHEL-NGVKFDPQSG  105 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~---~~~~~~~aFV~F~~~~~A~~A~~~l-~g~~~~~~~g  105 (286)
                      +...+.++|||+|||..+++++|+++|+.||.|..|++...   ....++||||+|.+.++|.+|++.| +|..|.   |
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~---g   86 (107)
T 2cph_A           10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY---G   86 (107)
T ss_dssp             CCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS---S
T ss_pred             ccCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeEC---C
Confidence            34567899999999999999999999999999999998744   2223449999999999999999999 999998   9


Q ss_pred             CeEEEEEeecCCC
Q 023143          106 SVLHIELARSNSR  118 (286)
Q Consensus       106 ~~l~v~~~~~~~~  118 (286)
                      +.|+|+|++....
T Consensus        87 ~~l~v~~a~~~~~   99 (107)
T 2cph_A           87 RRLVLEWADSEVT   99 (107)
T ss_dssp             CBCEEEECCCCCC
T ss_pred             CEEEEEeCCCCCC
Confidence            9999999987544

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

Probab=99.79  E-value=1.3e-18  Score=123.59  Aligned_cols=79  Identities=23%  Similarity=0.467  Sum_probs=72.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..+.   |+.|+|
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~---~g---~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v   74 (90)
T 2dnq_A            4 GSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII---KN---YGFVHIEDKTAAEDAIRNLHHYKLH---GVNINV   74 (90)
T ss_dssp             CSSCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE---TT---EEEEEESSHHHHHHHHHHHTTCBCS---SCBCEE
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE---CC---EEEEEECCHHHHHHHHHHhcCCccC---CcEEEE
Confidence            34568999999999999999999999999999999988   55   9999999999999999999999998   999999


Q ss_pred             EEeecCCC
Q 023143          111 ELARSNSR  118 (286)
Q Consensus       111 ~~~~~~~~  118 (286)
                      ++++....
T Consensus        75 ~~a~~~~~   82 (90)
T 2dnq_A           75 EASKNKSK   82 (90)
T ss_dssp             ECSSCCCC
T ss_pred             EECCCCCC
Confidence            99876543

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.79  E-value=7.1e-19  Score=128.85  Aligned_cols=85  Identities=21%  Similarity=0.206  Sum_probs=74.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .++.++|||+|||.++++++|+++|++||.|..|+++.    +.+++||||+|.+.++|.+|++.|||..+...+|+.|+
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            34689999999999999999999999999999999987    45678999999999999999999999987211267999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+.+
T Consensus        90 v~~a~~~~~   98 (106)
T 2dgp_A           90 VKPADSESR   98 (106)
T ss_dssp             EEECCCCSC
T ss_pred             EEECCcccc
Confidence            999987654

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.79  E-value=4.7e-19  Score=130.31  Aligned_cols=80  Identities=20%  Similarity=0.253  Sum_probs=73.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||..+++++|+++|++||.|..|++...    .++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~---g~~l~V  100 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELA---GRPMKV  100 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSS---SSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEE
Confidence            45899999999999999999999999999999999863    45689999999999999999999999999   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +|++.+-
T Consensus       101 ~~a~~k~  107 (108)
T 2jrs_A          101 GHVTERT  107 (108)
T ss_dssp             ECSCSSC
T ss_pred             EEcccCC
Confidence            9998763

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

Probab=99.79  E-value=1.7e-18  Score=125.27  Aligned_cols=78  Identities=23%  Similarity=0.339  Sum_probs=70.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccE--------EEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDF--------CQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      +.++|||+|||.++++++|+++|+.||.|..        |++..+..  ..++||||+|.+.++|.+|++.|+|..+.  
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~--   89 (99)
T 2la6_A           12 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS--   89 (99)
T ss_dssp             CCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS--
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC--
Confidence            4789999999999999999999999999998        88875432  23559999999999999999999999998  


Q ss_pred             CCCeEEEEEee
Q 023143          104 SGSVLHIELAR  114 (286)
Q Consensus       104 ~g~~l~v~~~~  114 (286)
                       |+.|+|++++
T Consensus        90 -g~~l~V~~A~   99 (99)
T 2la6_A           90 -GNPIKVSFAT   99 (99)
T ss_dssp             -SSBCEEEECC
T ss_pred             -CcEEEEEecC
Confidence             9999999874

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

Probab=99.79  E-value=3.3e-19  Score=131.06  Aligned_cols=79  Identities=20%  Similarity=0.379  Sum_probs=72.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ..++++|||+|||.++++++|+++|++||.|..|++.    +|||||+|.+.++|.+|++.|||..+.   |+.|+|+|+
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~----kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~~a  100 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL----NGFAFVEFEEAESAAKAIEEVHGKSFA---NQPLEVVYS  100 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE----TTEEEEECSSHHHHHHHHHHHTTCEET---TEECEEESC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE----CCEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEEe
Confidence            4468999999999999999999999999999999998    589999999999999999999999998   569999999


Q ss_pred             ccccCC
Q 023143          280 RSKMRK  285 (286)
Q Consensus       280 k~~~~~  285 (286)
                      +.+..+
T Consensus       101 ~~~~~r  106 (108)
T 2jvo_A          101 KLPAKR  106 (108)
T ss_dssp             SCCC--
T ss_pred             cCCCCC
Confidence            887643

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

Probab=99.79  E-value=7.2e-19  Score=128.82  Aligned_cols=81  Identities=16%  Similarity=0.276  Sum_probs=73.8

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||..+++++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V   97 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM---GQPISV   97 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSS---SSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEEC---CcEEEE
Confidence            3589999999999999999999999999999999987    344789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus        98 ~~a~~~~~  105 (106)
T 1p27_B           98 DWCFVRGP  105 (106)
T ss_dssp             EESEESSC
T ss_pred             EeecCCCC
Confidence            99987653

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

Probab=99.79  E-value=9.8e-19  Score=128.89  Aligned_cols=79  Identities=16%  Similarity=0.245  Sum_probs=71.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||+++++++|+++|++||.|.+|+|..+..  ..++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~---gr~i~V~   81 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVM---GNIIHAQ   81 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEEE
Confidence            478999999999999999999999999999999986543  23569999999999999999999999998   9999999


Q ss_pred             Eeec
Q 023143          112 LARS  115 (286)
Q Consensus       112 ~~~~  115 (286)
                      ++..
T Consensus        82 ~a~~   85 (110)
T 3s8s_A           82 LDIK   85 (110)
T ss_dssp             ECST
T ss_pred             ECCC
Confidence            9864

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

Probab=99.79  E-value=6e-19  Score=125.80  Aligned_cols=81  Identities=16%  Similarity=0.153  Sum_probs=73.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++..  +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~   82 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLS---GREIDVRI   82 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBT---TBCCCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEE
Confidence            3589999999999999999999999999999999987  445789999999999999999999999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      ++.+..
T Consensus        83 a~~~~~   88 (92)
T 2dgv_A           83 DRNASG   88 (92)
T ss_dssp             CSCCSS
T ss_pred             cCCCCC
Confidence            987643

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.78  E-value=3.9e-19  Score=127.55  Aligned_cols=78  Identities=18%  Similarity=0.178  Sum_probs=71.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++.++|||+|||..+++++|+++|++||.|..|++...   .+++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~   90 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLY---GRPINVS   90 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEEC---CCEEEEE
Confidence            35899999999999999999999999999999999873   45679999999999999999999999999   5599999


Q ss_pred             Eecc
Q 023143          278 YARS  281 (286)
Q Consensus       278 ~ak~  281 (286)
                      ||++
T Consensus        91 ~a~~   94 (95)
T 2ywk_A           91 GPSS   94 (95)
T ss_dssp             CCCC
T ss_pred             EcCC
Confidence            9975

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

Probab=99.78  E-value=2.5e-19  Score=137.12  Aligned_cols=79  Identities=19%  Similarity=0.287  Sum_probs=72.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++++|||+|||.++|+++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        46 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~---g~~l~V~  122 (135)
T 2lea_A           46 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD---GRELRVQ  122 (135)
T ss_dssp             GCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSS---SSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            478899999999999999999999999999999975    456789999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |++.+.
T Consensus       123 ~a~~~~  128 (135)
T 2lea_A          123 MARYGR  128 (135)
T ss_dssp             ECCCCC
T ss_pred             ECCCCC
Confidence            998754

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=7.2e-19  Score=126.50  Aligned_cols=80  Identities=11%  Similarity=0.131  Sum_probs=72.8

Q ss_pred             CccEEEEccCCCCCCHHHHH----HHHhcCCCceEEEEeecC-CccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELK----QTLSVYPGFNMLKMRARG-GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~----~~F~~~G~v~~v~~~~~~-~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+++|||+|||..+++++|+    ++|++||.|.+|++..+. +++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~---gr~l~V   84 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIG---SKKILV   84 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEE
Confidence            47899999999999999999    999999999999998632 2789999999999999999999999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus        85 ~~a~~~~~   92 (96)
T 2dgx_A           85 SLATGASG   92 (96)
T ss_dssp             EECCCSSC
T ss_pred             EEcCCCCC
Confidence            99987654

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.78  E-value=9.1e-19  Score=136.56  Aligned_cols=80  Identities=15%  Similarity=0.139  Sum_probs=73.0

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      ..+|||+||+..+|+++|+++|++||.|.+|++..+.+++||||+|.+.++|.+|++.|||..|.+. ++.|+|+|||.+
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~-g~~L~V~~Ak~~  124 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNA-CCTLRIDFSKLT  124 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSS-CSCEEEEECSSS
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCC-CcEEEEEEecCC
Confidence            4668899999999999999999999999999998776678999999999999999999999999743 579999999976


Q ss_pred             c
Q 023143          283 M  283 (286)
Q Consensus       283 ~  283 (286)
                      .
T Consensus       125 ~  125 (164)
T 1sjr_A          125 S  125 (164)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.78  E-value=5.5e-19  Score=134.06  Aligned_cols=81  Identities=23%  Similarity=0.290  Sum_probs=74.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+++++|||+|||.++++++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~---g~~l~  119 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GRRIR  119 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSS---SSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            34689999999999999999999999999999999986    467889999999999999999999999999   55999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |+|++.+.
T Consensus       120 V~~a~~~~  127 (129)
T 2kxn_B          120 VDFSITKR  127 (129)
T ss_dssp             ESCCSSSS
T ss_pred             EEEecCCC
Confidence            99998764

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

Probab=99.78  E-value=4.7e-18  Score=130.66  Aligned_cols=82  Identities=17%  Similarity=0.240  Sum_probs=74.4

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|+++.+    .++|||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~  115 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL---NKRLK  115 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECS---SCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEE
Confidence            345899999999999999999999999999999999874    34789999999999999999999999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+.+
T Consensus       116 v~~a~~~~~  124 (139)
T 1u6f_A          116 VALAASGHQ  124 (139)
T ss_dssp             EEESSCCCC
T ss_pred             EEECCCCCC
Confidence            999998754

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.78  E-value=2.5e-18  Score=127.82  Aligned_cols=86  Identities=19%  Similarity=0.308  Sum_probs=75.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|+|.....  ..++||||+|.+.++|.+|++.|||..|.   |+.
T Consensus        20 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   96 (115)
T 2cpz_A           20 KEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIG---MKR   96 (115)
T ss_dssp             CCCSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEE
T ss_pred             cCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEEC---CEE
Confidence            3455779999999999999999999999999999999985532  23459999999999999999999999998   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|+|++....
T Consensus        97 l~V~~a~~~~~  107 (115)
T 2cpz_A           97 LKVQLKRSKND  107 (115)
T ss_dssp             CEEECCCCSCC
T ss_pred             EEEEEcCCCCc
Confidence            99999976544

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

Probab=99.78  E-value=4.2e-19  Score=128.95  Aligned_cols=78  Identities=15%  Similarity=0.268  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ....+++|||+|||.++++++|+++|+.||.|..|++. ..++   ||||+|.+.++|.+|++.|+|..+.   |+.|+|
T Consensus        23 ~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~-~~~g---~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V   95 (101)
T 2la4_A           23 APPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY-PEKG---CCFIKYDTHEQAAVCIVALANFPFQ---GRNLRT   95 (101)
T ss_dssp             SCSSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEE-TTTT---EEEEECSSHHHHHHHHHHHTTCEET---TEECCC
T ss_pred             CCCCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEe-cCCC---EEEEEECCHHHHHHHHHHhCCCeEC---CeEEEE
Confidence            34457899999999999999999999999999999988 4455   9999999999999999999999998   999999


Q ss_pred             EEeec
Q 023143          111 ELARS  115 (286)
Q Consensus       111 ~~~~~  115 (286)
                      .|++.
T Consensus        96 ~~a~~  100 (101)
T 2la4_A           96 GWGKE  100 (101)
T ss_dssp             CBCCC
T ss_pred             EeccC
Confidence            98864

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

Probab=99.78  E-value=3.6e-19  Score=129.30  Aligned_cols=76  Identities=16%  Similarity=0.250  Sum_probs=71.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||.++++++|+++|++||.|.++++..  +++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+.
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~--~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~~a~~  100 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP--EKGCCFIKYDTHEQAAVCIVALANFPFQ---GRNLRTGWGKE  100 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET--TTTEEEEECSSHHHHHHHHHHHTTCEET---TEECCCCBCCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec--CCCEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEEeccC
Confidence            478999999999999999999999999999999984  4599999999999999999999999999   55999999987


Q ss_pred             c
Q 023143          282 K  282 (286)
Q Consensus       282 ~  282 (286)
                      +
T Consensus       101 ~  101 (101)
T 2la4_A          101 R  101 (101)
T ss_dssp             C
T ss_pred             C
Confidence            5

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=7.6e-19  Score=129.04  Aligned_cols=81  Identities=15%  Similarity=0.188  Sum_probs=71.4

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCC--CccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG--VKFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g--~~~~~~~g~~l  108 (286)
                      ..++++|||+|||++ +++++|+++|++||.|.+|+|. ..++   ||||+|.+.++|.+|++.|++  ..|.   |++|
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~-~~kg---~aFVef~~~~~A~~Ai~~l~~~~~~l~---Gr~l   94 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILM-RMKS---QAFIEMETREDAMAMVDHCLKKALWFQ---GRCV   94 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEE-TTTT---EEEEECSSHHHHHHHHHHHHHSCCCSS---SSCC
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEe-cCCC---EEEEEECCHHHHHHHHHHhccCCceEC---CEEE
Confidence            557899999999998 9999999999999999999987 4455   999999999999999998864  5577   9999


Q ss_pred             EEEEeecCCCC
Q 023143          109 HIELARSNSRK  119 (286)
Q Consensus       109 ~v~~~~~~~~~  119 (286)
                      +|+|++.....
T Consensus        95 ~V~~a~~~~~~  105 (112)
T 1x4f_A           95 KVDLSEKYKKL  105 (112)
T ss_dssp             EEEEECSCSSS
T ss_pred             EEEECcccccc
Confidence            99999765444

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.78  E-value=7e-19  Score=129.78  Aligned_cols=81  Identities=17%  Similarity=0.256  Sum_probs=74.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||..+++++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V  100 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTIQV  100 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC---CcEEEE
Confidence            3589999999999999999999999999999999976    445789999999999999999999999998   569999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +||+.+..
T Consensus       101 ~~a~~~~~  108 (110)
T 1oo0_B          101 DWCFVKGP  108 (110)
T ss_dssp             EESEESSC
T ss_pred             EEcccCCC
Confidence            99987754

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

Probab=99.78  E-value=1e-18  Score=125.72  Aligned_cols=78  Identities=23%  Similarity=0.331  Sum_probs=70.7

Q ss_pred             CCCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          200 VQPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       200 ~~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .+++++|||+|||. .+++++|+++|++||.|..|++.    ++||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V~~   79 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK----NAFGFIQFDNPQSVRDAIECESQEMNF---GKKLILEV   79 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE----TTEEEEEESCHHHHHHHHHHHTCSSCB---TTTBCEEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe----CCEEEEEECCHHHHHHHHHHcCCCeeC---CcEEEEEE
Confidence            45799999999998 99999999999999999999985    589999999999999999999999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      ++.+.+
T Consensus        80 a~~~~~   85 (96)
T 2kvi_A           80 SSSNAR   85 (96)
T ss_dssp             EECCCC
T ss_pred             cCcCCC
Confidence            987643

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=7.6e-19  Score=129.80  Aligned_cols=78  Identities=18%  Similarity=0.186  Sum_probs=71.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||..+++++|+++|++||.|..|.+...  ++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+.
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~~a~~   83 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEG--GITAIVEFLEPLEARKAFRHLAYSKFH---HVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSS--SSCEEEEESCHHHHHHHHHHHTTCBSS---SSBCEEEEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC--CCEEEEEeCCHHHHHHHHHHhCCCEEC---CeEEEEEECCC
Confidence            4789999999999999999999999999999998864  489999999999999999999999999   55999999987


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      ...
T Consensus        84 ~~~   86 (111)
T 1whx_A           84 GVF   86 (111)
T ss_dssp             TTT
T ss_pred             Ccc
Confidence            643

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.78  E-value=1.2e-18  Score=122.24  Aligned_cols=80  Identities=23%  Similarity=0.341  Sum_probs=71.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++..+...  .++||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus         4 ~~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   80 (85)
T 3mdf_A            4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIR   80 (85)
T ss_dssp             CCCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEEC---CcEEE
Confidence            346899999999999999999999999999999988754222  2339999999999999999999999998   99999


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      |+|++
T Consensus        81 v~~ak   85 (85)
T 3mdf_A           81 VNLAK   85 (85)
T ss_dssp             EEECC
T ss_pred             EEEcC
Confidence            99974

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

Probab=99.78  E-value=2.3e-18  Score=122.78  Aligned_cols=79  Identities=22%  Similarity=0.388  Sum_probs=72.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         6 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~---~~---~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V   76 (92)
T 2dgt_A            6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV---KD---YAFVHMERAEDAVEAIRGLDNTEFQ---GKRMHV   76 (92)
T ss_dssp             CCCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC---SS---EEEEEESCHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE---CC---EEEEEECCHHHHHHHHHHhCCCeeC---CcEEEE
Confidence            35578999999999999999999999999999999888   55   9999999999999999999999998   999999


Q ss_pred             EEeecCCC
Q 023143          111 ELARSNSR  118 (286)
Q Consensus       111 ~~~~~~~~  118 (286)
                      ++++....
T Consensus        77 ~~a~~~~~   84 (92)
T 2dgt_A           77 QLSTSRLR   84 (92)
T ss_dssp             EESSCCCS
T ss_pred             EEccCCCC
Confidence            99976543

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.78  E-value=3.4e-19  Score=128.37  Aligned_cols=81  Identities=27%  Similarity=0.353  Sum_probs=73.5

Q ss_pred             CCCccEEEEccCCCCCCHHHHH----HHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          200 VQPCSTLFIANLGPNCTEDELK----QTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~----~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                      .+++++|||+|||.++++++|+    ++|++||.|..|++.. +.++|||||+|.+.++|.+|++.|||..+.   |+.|
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l   81 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFY---DKPM   81 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEET---TEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCEEC---CcEE
Confidence            3469999999999999999999    9999999999999875 455689999999999999999999999998   5699


Q ss_pred             EEEEecccc
Q 023143          275 HIEYARSKM  283 (286)
Q Consensus       275 ~V~~ak~~~  283 (286)
                      +|+||+.+.
T Consensus        82 ~v~~a~~~~   90 (97)
T 1nu4_A           82 RIQYAKTDS   90 (97)
T ss_dssp             EEEECSSCC
T ss_pred             EEEEccCCC
Confidence            999998764

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=1.8e-18  Score=127.71  Aligned_cols=81  Identities=20%  Similarity=0.291  Sum_probs=73.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcC------CCccCCCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQ------DSTLPSSD  270 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~ln------g~~~~~~~  270 (286)
                      .++++|||+|||.++++++|+++|++||.|..|+++.    +.+++||||+|.+.++|.+|++.||      |..+.   
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~---   89 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLD---   89 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESS---
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEc---
Confidence            4689999999999999999999999999999999986    3567899999999999999999999      99998   


Q ss_pred             CCcEEEEEeccccC
Q 023143          271 RGGMHIEYARSKMR  284 (286)
Q Consensus       271 g~~l~V~~ak~~~~  284 (286)
                      |+.|+|+|++.+..
T Consensus        90 g~~l~v~~a~~~~~  103 (111)
T 1x4h_A           90 GRQLKVDLAVTRDE  103 (111)
T ss_dssp             SCEEEEECCCCCCC
T ss_pred             CEEEEEEECCCCcc
Confidence            55999999987643

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.78  E-value=1.3e-18  Score=122.68  Aligned_cols=81  Identities=16%  Similarity=0.215  Sum_probs=70.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..+.   |+.|+|
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v   80 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG---GRQIRT   80 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEE
Confidence            357899999999999999999999999999999998542  223559999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|++.+
T Consensus        81 ~~a~~k   86 (87)
T 3bs9_A           81 NWATRK   86 (87)
T ss_dssp             EEEC--
T ss_pred             EecCCC
Confidence            998753

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

Probab=99.77  E-value=2.7e-19  Score=129.72  Aligned_cols=78  Identities=6%  Similarity=0.039  Sum_probs=71.8

Q ss_pred             CccEEEEccCCC------CCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          202 PCSTLFIANLGP------NCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~------~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      .+++|||+|||.      ++++++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+|++.|||..+.   |
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~---g   81 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD---L   81 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSS---S
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccC---C
Confidence            378999999999      999999999999999999999986    446789999999999999999999999999   5


Q ss_pred             -CcEEEEEeccc
Q 023143          272 -GGMHIEYARSK  282 (286)
Q Consensus       272 -~~l~V~~ak~~  282 (286)
                       +.|+|++|+.+
T Consensus        82 ~r~l~V~~a~~~   93 (100)
T 3ns6_A           82 KHRLFLYTMKDV   93 (100)
T ss_dssp             SCBCEEEESHHH
T ss_pred             CeEEEEEECchh
Confidence             59999999764

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

Probab=99.77  E-value=6.8e-19  Score=127.82  Aligned_cols=76  Identities=20%  Similarity=0.243  Sum_probs=69.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      ++|||+|||.++|+++|+++|+.||.|..|++....+   +||||+|.+.++|.+|++.|+|..+.   |+.|+|++++.
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~~a~~   74 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPP---GFAFVEFEDPRDAEDAVRGLDGKVIC---GSRVRVELSTG   74 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESSSS---SEEEEECSSHHHHHHHHHHHHHSCSS---SCCCEEEESSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCC---CEEEEEECCHHHHHHHHHHHCCCeEC---CcEEEEEEccC
Confidence            4799999999999999999999999999999884433   49999999999999999999999998   99999999876


Q ss_pred             CC
Q 023143          116 NS  117 (286)
Q Consensus       116 ~~  117 (286)
                      ..
T Consensus        75 ~~   76 (101)
T 2hvz_A           75 MP   76 (101)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.77  E-value=3e-18  Score=123.88  Aligned_cols=86  Identities=23%  Similarity=0.347  Sum_probs=75.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ....++++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.
T Consensus         3 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   79 (99)
T 1whw_A            3 SGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ---GRM   79 (99)
T ss_dssp             CCCCSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESS---SCE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEEC---CcE
Confidence            345678999999999999999999999999999999887442  122349999999999999999999999998   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|++++....
T Consensus        80 l~V~~a~~~~~   90 (99)
T 1whw_A           80 LHVLPSTIKKE   90 (99)
T ss_dssp             EEEEECCCCST
T ss_pred             EEEEEcCCCcc
Confidence            99999987543

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

Probab=99.77  E-value=2.2e-18  Score=127.87  Aligned_cols=81  Identities=20%  Similarity=0.177  Sum_probs=73.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+++++|||+|||..+++++|+++|++||.|..|++...   .+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   88 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLF---DRPMHV   88 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC---CCEEEE
Confidence            346899999999999999999999999999999999873   34679999999999999999999999998   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +|++...
T Consensus        89 ~~a~~~~   95 (114)
T 2do0_A           89 KMDERAL   95 (114)
T ss_dssp             EECSCCC
T ss_pred             EEcccCC
Confidence            9997543

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

Probab=99.77  E-value=2.3e-18  Score=124.56  Aligned_cols=78  Identities=19%  Similarity=0.283  Sum_probs=71.0

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcC--CCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVY--PGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~--G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++++|||+|||..+++++|+++|++|  |.|..|++.    ++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v~   84 (99)
T 2cpd_A           12 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI----RDYAFVHFSNREDAVEAMKALNGKVLD---GSPIEVT   84 (99)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC----SSEEEEEESSHHHHHHHHHHHSSEEET---TEEEEEE
T ss_pred             cCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe----CCeEEEEeCCHHHHHHHHHHhCCCEeC---CcEEEEE
Confidence            4468999999999999999999999999  899988765    479999999999999999999999998   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+.+
T Consensus        85 ~a~~~~~   91 (99)
T 2cpd_A           85 LAKPVDK   91 (99)
T ss_dssp             CCCCCCC
T ss_pred             ECCCCCC
Confidence            9988754

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

Probab=99.77  E-value=3.9e-18  Score=122.31  Aligned_cols=83  Identities=20%  Similarity=0.304  Sum_probs=73.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V   79 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELA---GRPMRV   79 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSS---SSCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeC---CcEEEE
Confidence            3578999999999999999999999999999999985422  22449999999999999999999999998   999999


Q ss_pred             EEeecCCC
Q 023143          111 ELARSNSR  118 (286)
Q Consensus       111 ~~~~~~~~  118 (286)
                      +++.....
T Consensus        80 ~~a~~~~~   87 (95)
T 2dnz_A           80 GHVTERLD   87 (95)
T ss_dssp             EESSCCCC
T ss_pred             EEcccccC
Confidence            99976543

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.77  E-value=1.5e-18  Score=127.39  Aligned_cols=78  Identities=17%  Similarity=0.241  Sum_probs=71.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .++++|||+|||..+++++|+++|++||.|..|++..   +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~  103 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLD---GRPMNIQ  103 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeC---CcEEEEE
Confidence            4689999999999999999999999999999999987   355679999999999999999999999998   5599999


Q ss_pred             Eecc
Q 023143          278 YARS  281 (286)
Q Consensus       278 ~ak~  281 (286)
                      ||.+
T Consensus       104 ~a~s  107 (107)
T 3ulh_A          104 LVTS  107 (107)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            9864

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

Probab=99.77  E-value=1.2e-18  Score=125.95  Aligned_cols=80  Identities=15%  Similarity=0.287  Sum_probs=72.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCce-EEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc--
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFN-MLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG--  273 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~-~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~--  273 (286)
                      .++++|||+|||.++++++|+++|++||.|. .|+++..    .+++||||+|.+.++|.+|++.|||..+.+   +.  
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g---~~~~   83 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPG---ATPA   83 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESS---CSSC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCC---CCcc
Confidence            3589999999999999999999999999999 9999873    456899999999999999999999999994   47  


Q ss_pred             --EEEEEecccc
Q 023143          274 --MHIEYARSKM  283 (286)
Q Consensus       274 --l~V~~ak~~~  283 (286)
                        |+|+||+...
T Consensus        84 ~~l~v~~a~~~~   95 (99)
T 2div_A           84 KRFKLNYATYSG   95 (99)
T ss_dssp             EECCEEETTCCS
T ss_pred             eeEEEeecCCCC
Confidence              9999998653

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

Probab=99.77  E-value=2.6e-18  Score=124.87  Aligned_cols=86  Identities=22%  Similarity=0.326  Sum_probs=75.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus         8 ~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l   84 (102)
T 1x5s_A            8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVD---GRQI   84 (102)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTT---SCCC
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CeEE
Confidence            355789999999999999999999999999999999984321  13449999999999999999999999998   9999


Q ss_pred             EEEEeecCCCC
Q 023143          109 HIELARSNSRK  119 (286)
Q Consensus       109 ~v~~~~~~~~~  119 (286)
                      +|++++.....
T Consensus        85 ~v~~a~~~~~~   95 (102)
T 1x5s_A           85 RVDQAGKSSDN   95 (102)
T ss_dssp             EEEEEECCCCC
T ss_pred             EEEECCCCCCC
Confidence            99999876543

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.77  E-value=1.2e-18  Score=123.45  Aligned_cols=79  Identities=14%  Similarity=0.255  Sum_probs=72.6

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|+ .|||..+.   |+.|+|++
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~---g~~l~V~~   81 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFR---GRQIKVIP   81 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEET---TEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEEC---CcEEEEEE
Confidence            68999999999999999999999999999999986    345789999999999999999 99999999   55999999


Q ss_pred             eccccCC
Q 023143          279 ARSKMRK  285 (286)
Q Consensus       279 ak~~~~~  285 (286)
                      ++.++..
T Consensus        82 a~~~~pg   88 (89)
T 3ucg_A           82 KRTNRPG   88 (89)
T ss_dssp             TTTTSCC
T ss_pred             ccCCCCC
Confidence            9987643

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.77  E-value=1.5e-18  Score=129.04  Aligned_cols=78  Identities=17%  Similarity=0.239  Sum_probs=72.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ++++|||+|||..+++++|+++|++||.|..|.+.. +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v~~a~   83 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVS---NRYLVVLYYN   83 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSS---SCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEEec
Confidence            589999999999999999999999999999999977 556789999999999999999999999998   5599999998


Q ss_pred             cc
Q 023143          281 SK  282 (286)
Q Consensus       281 ~~  282 (286)
                      .+
T Consensus        84 ~~   85 (115)
T 3lqv_A           84 AN   85 (115)
T ss_dssp             HH
T ss_pred             CC
Confidence            53

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

Probab=99.77  E-value=1.2e-18  Score=126.90  Aligned_cols=76  Identities=17%  Similarity=0.224  Sum_probs=70.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +.++|||+|||.++|+++|+++|++||.|.+|+++.   +.++|||||+|.+.++|.+|++ +||..+.   |+.|.|.|
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~---gr~l~V~~   85 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYK---ETDLLILF   85 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCT---TTTCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEEC---CEEEEEEE
Confidence            589999999999999999999999999999999987   5578999999999999999999 8999999   55999999


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      +++
T Consensus        86 ~~~   88 (103)
T 1s79_A           86 KDD   88 (103)
T ss_dssp             HHH
T ss_pred             chH
Confidence            876

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

Probab=99.77  E-value=5.9e-18  Score=125.79  Aligned_cols=87  Identities=15%  Similarity=0.234  Sum_probs=75.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .....+.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~   85 (115)
T 2dgo_A            9 KKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG---GR   85 (115)
T ss_dssp             CCCSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEET---TE
T ss_pred             CCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CE
Confidence            3345678999999999999999999999999999999998542  223459999999999999999999999998   99


Q ss_pred             eEEEEEeecCCC
Q 023143          107 VLHIELARSNSR  118 (286)
Q Consensus       107 ~l~v~~~~~~~~  118 (286)
                      .|+|+|++....
T Consensus        86 ~l~V~~a~~~~~   97 (115)
T 2dgo_A           86 QIRTNWATRKPP   97 (115)
T ss_dssp             ECEEEESSCCCC
T ss_pred             EEEEEEccCCCC
Confidence            999999976543

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.77  E-value=1.6e-18  Score=126.37  Aligned_cols=77  Identities=26%  Similarity=0.390  Sum_probs=70.8

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++++|||+|||.++|+++|+++|++||.|..|++.+    +||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~----~~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~~a~   81 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLK----DYAFIHFDERDGAVKAMEEMNGKDLE---GENIEIVFAK   81 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECS----SCEEEEESSHHHHHHHHHHHTTEEET---TEEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC----CEEEEEeCCHHHHHHHHHHHCCCccC---CCEEEEEEcC
Confidence            3589999999999999999999999999999999873    58999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        82 ~~~~   85 (103)
T 2dgu_A           82 PPDQ   85 (103)
T ss_dssp             CCCC
T ss_pred             CCcc
Confidence            7654

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.77  E-value=8.2e-18  Score=122.91  Aligned_cols=84  Identities=26%  Similarity=0.360  Sum_probs=74.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC---Ce
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSG---SV  107 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g---~~  107 (286)
                      ..++++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..+.   |   +.
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---gg~~~~   88 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTM---PGASSS   88 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCC---TTCSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccC---CCCCcc
Confidence            456899999999999999999999999999999999854322 2459999999999999999999999997   6   99


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|+|++....
T Consensus        89 l~V~~a~~~~~   99 (105)
T 2dnh_A           89 LVVKFADTDKE   99 (105)
T ss_dssp             CEEEESCSSCC
T ss_pred             EEEEECccCcc
Confidence            99999986543

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

Probab=99.77  E-value=7.9e-18  Score=121.90  Aligned_cols=84  Identities=18%  Similarity=0.354  Sum_probs=74.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..+.   |+.|
T Consensus        12 ~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l   88 (100)
T 2do4_A           12 STSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIK---ENII   88 (100)
T ss_dssp             SSCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESS---SCEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEEC---CEEE
Confidence            34567899999999999999999999999999999999855422 2459999999999999999999999998   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|++++..
T Consensus        89 ~v~~a~~~   96 (100)
T 2do4_A           89 KVAISNSG   96 (100)
T ss_dssp             EEEECCCC
T ss_pred             EEEECCCC
Confidence            99998764

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1e-18  Score=125.73  Aligned_cols=80  Identities=20%  Similarity=0.223  Sum_probs=72.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH----HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           33 NGINTLFVSGLPDDVRAREIH----NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~----~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      .++++|||+|||+++++++|+    ++|+.||.|.+|++..+..+ ++||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-rg~afV~f~~~~~A~~Ai~~l~g~~~~---gr~l   82 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIG---SKKI   82 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEET---TEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC-CeEEEEEECCHHHHHHHHHHhCCCEEC---CeEE
Confidence            357899999999999999999    99999999999999855433 559999999999999999999999998   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|++++..
T Consensus        83 ~V~~a~~~   90 (96)
T 2dgx_A           83 LVSLATGA   90 (96)
T ss_dssp             EEEECCCS
T ss_pred             EEEEcCCC
Confidence            99998654

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

Probab=99.77  E-value=2.1e-18  Score=123.02  Aligned_cols=77  Identities=26%  Similarity=0.503  Sum_probs=71.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++++|||+|||.++++++|+++|++||.|..|++.+    +||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~----~~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~~a~   80 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK----DYAFVHMERAEDAVEAIRGLDNTEFQ---GKRMHVQLST   80 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS----SEEEEEESCHHHHHHHHHHHTTEEET---TEEEEEEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC----CEEEEEECCHHHHHHHHHHhCCCeeC---CcEEEEEEcc
Confidence            3589999999999999999999999999999999884    48999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+.+
T Consensus        81 ~~~~   84 (92)
T 2dgt_A           81 SRLR   84 (92)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8754

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

Probab=99.77  E-value=9.2e-19  Score=133.30  Aligned_cols=81  Identities=21%  Similarity=0.354  Sum_probs=72.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceE--EEEee----cCCccEEEEEECCHHHHHHHHHhcCCC----ccCCCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNM--LKMRA----RGGMPVAFADFEEVEQASIAMEGLQDS----TLPSSD  270 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~--v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~----~~~~~~  270 (286)
                      .++++|||+|||.++|+++|+++|++||.|..  |+++.    ++++|||||+|.+. +|.+|++.|||.    .+.   
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~---   96 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTID---   96 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGG---
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCC---
Confidence            45889999999999999999999999999976  88876    45789999999999 999999999999    998   


Q ss_pred             CCcEEEEEeccccCC
Q 023143          271 RGGMHIEYARSKMRK  285 (286)
Q Consensus       271 g~~l~V~~ak~~~~~  285 (286)
                      |+.|+|+||+.+.++
T Consensus        97 gr~l~V~~a~~~~~~  111 (131)
T 2m2b_A           97 GKTINVEFAKGSKRD  111 (131)
T ss_dssp             GCCCCCEECCCSCCC
T ss_pred             CEEEEEEECCCCCCC
Confidence            559999999887543

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

Probab=99.77  E-value=1e-18  Score=125.16  Aligned_cols=82  Identities=16%  Similarity=0.270  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC--ccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCc----cCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPG--FDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVK----FDP  102 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~--i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~----~~~  102 (286)
                      .....+||||+|||+++|+++|+++|++||.  |.+|++..+.  ...++||||+|.+.++|.+|++.|||..    |. 
T Consensus         5 ~~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~-   83 (95)
T 2lkz_A            5 HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKID-   83 (95)
T ss_dssp             SSCCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEET-
T ss_pred             cCCccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceEC-
Confidence            3556899999999999999999999999996  5677776432  2234599999999999999999999974    76 


Q ss_pred             CCCCeEEEEEeec
Q 023143          103 QSGSVLHIELARS  115 (286)
Q Consensus       103 ~~g~~l~v~~~~~  115 (286)
                        ||+|.|+|+++
T Consensus        84 --Gr~i~V~~Aks   94 (95)
T 2lkz_A           84 --GKTIGVDFAKS   94 (95)
T ss_dssp             --TEEEEEEECCC
T ss_pred             --CEEEEEEEccC
Confidence              99999999874

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

Probab=99.77  E-value=3e-18  Score=127.61  Aligned_cols=79  Identities=10%  Similarity=0.117  Sum_probs=72.0

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..+.++|||+|||.++++++|+++|++||.|..|++..    +.+++||||+|.+.++|.+|++.||+ .+.   |+.|+
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~---g~~l~   89 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IID---GRKAN   89 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCC---CEEEE
Confidence            34689999999999999999999999999999999987    44678999999999999999999999 888   56999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |+||+.+
T Consensus        90 V~~a~~~   96 (116)
T 2cqd_A           90 VNLAYLG   96 (116)
T ss_dssp             EEESTTT
T ss_pred             EEEcccC
Confidence            9999764

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

Probab=99.77  E-value=2.2e-18  Score=125.55  Aligned_cols=85  Identities=21%  Similarity=0.317  Sum_probs=74.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|.+.....  ..++||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l   85 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELD---GREL   85 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBT---TBCC
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEEC---CcEE
Confidence            455789999999999999999999999999999998874422  22349999999999999999999999998   9999


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      +|++++....
T Consensus        86 ~V~~a~~~~~   95 (103)
T 2dnm_A           86 RVQVARYGRR   95 (103)
T ss_dssp             EEEECSSCCS
T ss_pred             EEEECCcCCC
Confidence            9999976543

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.77  E-value=1.6e-18  Score=121.24  Aligned_cols=76  Identities=14%  Similarity=0.178  Sum_probs=66.7

Q ss_pred             CCCccE-EEEccCCCCCCHHH----HHHHHhcCC-CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          200 VQPCST-LFIANLGPNCTEDE----LKQTLSVYP-GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       200 ~~~~~~-L~v~NL~~~~te~~----L~~~F~~~G-~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      .+|+.| |||+|||..+++++    |+++|++|| .|.+|      ..|+|||+|.+.++|.+|++.|||+.+.   |+.
T Consensus         5 ~~p~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V------tgG~AfV~F~~~esA~~A~~~l~G~~l~---gr~   75 (96)
T 2diu_A            5 SSGCHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI------TGCSAILRFINQDSAERAQKRMENEDVF---GNR   75 (96)
T ss_dssp             CCCSSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC------CTTCEEEEESSHHHHHHHHHHHTTCCSS---SSC
T ss_pred             CCCcceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE------ecCEEEEEECCHHHHHHHHHHhcCCccC---Cce
Confidence            346777 99999999999988    558999995 99888      1289999999999999999999999999   559


Q ss_pred             EEEEEeccccC
Q 023143          274 MHIEYARSKMR  284 (286)
Q Consensus       274 l~V~~ak~~~~  284 (286)
                      |+|+||+.+..
T Consensus        76 i~v~~A~~~sd   86 (96)
T 2diu_A           76 IIVSFTPKNRE   86 (96)
T ss_dssp             CEEESSCCSCC
T ss_pred             EEEEecCCCcc
Confidence            99999998764

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.77  E-value=1.1e-18  Score=126.63  Aligned_cols=82  Identities=17%  Similarity=0.233  Sum_probs=71.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ..++++|||+|||.++++++|+++|++||.|..+....+++++||||+|.+.++|.+|++.|||..+.   |+.|+|+|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v~~a   88 (101)
T 2fc9_A           12 SGESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIE---GRAIRLELQ   88 (101)
T ss_dssp             SCCCSEEEEESCCTTCCHHHHHHHCSSCSEEECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEET---TEEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeC---CeEEEEEEc
Confidence            34689999999999999999999999999884333333567889999999999999999999999999   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+.+
T Consensus        89 ~~~~~   93 (101)
T 2fc9_A           89 GPRGS   93 (101)
T ss_dssp             SSCCC
T ss_pred             CCCCC
Confidence            87654

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

Probab=99.77  E-value=3.4e-18  Score=122.60  Aligned_cols=83  Identities=22%  Similarity=0.264  Sum_probs=73.6

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ....++++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|+|..+.   |+.
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~   86 (95)
T 2cqc_A           10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GRR   86 (95)
T ss_dssp             CSCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CEE
Confidence            3455789999999999999999999999999999999985533  23459999999999999999999999998   999


Q ss_pred             EEEEEeec
Q 023143          108 LHIELARS  115 (286)
Q Consensus       108 l~v~~~~~  115 (286)
                      |+|+|+++
T Consensus        87 l~v~~a~~   94 (95)
T 2cqc_A           87 IRVSGPSS   94 (95)
T ss_dssp             EEEECCSC
T ss_pred             EEEEecCC
Confidence            99999864

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.77  E-value=1.1e-18  Score=126.03  Aligned_cols=81  Identities=14%  Similarity=0.071  Sum_probs=71.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+..++|||+|||..+++++|+++|++||.|..++++.    +++++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~   88 (98)
T 2cqp_A           12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVK   88 (98)
T ss_dssp             CCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeC---CeEEE
Confidence            34578999999999999999999999999998666654    345789999999999999999999999999   55999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |+|++.+.
T Consensus        89 V~~a~~~~   96 (98)
T 2cqp_A           89 LVLGSGPS   96 (98)
T ss_dssp             EEESSCSS
T ss_pred             EEEcCCCC
Confidence            99998753

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

Probab=99.77  E-value=7.9e-19  Score=127.46  Aligned_cols=77  Identities=22%  Similarity=0.385  Sum_probs=71.9

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecccc
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~  283 (286)
                      ++|||+|||.++|+++|+++|++||.|..|++..+ +++||||+|.+.++|.+|++.|||..+.   |+.|+|+|++.+.
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~~a~~~~   76 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-PPGFAFVEFEDPRDAEDAVRGLDGKVIC---GSRVRVELSTGMP   76 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS-SSSEEEEECSSHHHHHHHHHHHHHSCSS---SCCCEEEESSSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC-CCCEEEEEECCHHHHHHHHHHHCCCeEC---CcEEEEEEccCCC
Confidence            57999999999999999999999999999999887 6799999999999999999999999998   5599999998765


Q ss_pred             C
Q 023143          284 R  284 (286)
Q Consensus       284 ~  284 (286)
                      +
T Consensus        77 ~   77 (101)
T 2hvz_A           77 R   77 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=4.6e-18  Score=124.24  Aligned_cols=85  Identities=19%  Similarity=0.274  Sum_probs=74.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      +...+.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   86 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY---GKP   86 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCS---SCB
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeEC---CeE
Confidence            345678999999999999999999999999999999887542  223449999999999999999999999998   999


Q ss_pred             EEEEEeecCC
Q 023143          108 LHIELARSNS  117 (286)
Q Consensus       108 l~v~~~~~~~  117 (286)
                      |+|+++....
T Consensus        87 l~v~~a~~~~   96 (105)
T 1x5u_A           87 IRVNKASAHN   96 (105)
T ss_dssp             CEEEETTTTS
T ss_pred             EEEEECCCCC
Confidence            9999987654

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.77  E-value=3.4e-19  Score=126.64  Aligned_cols=78  Identities=14%  Similarity=0.104  Sum_probs=65.8

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCC--CceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYP--GFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G--~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+|||+|||.++|+++|+++|++||  .|.+++++.    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~---gr~i~V~   78 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH---GQNPVVT   78 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSS---SCCCEEC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeC---CEEEEEE
Confidence            4799999999999999999999999  999999887    356789999999999999999999999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      +++.+..
T Consensus        79 ~~~~~~~   85 (90)
T 3p5t_L           79 PSNKLEH   85 (90)
T ss_dssp             CC-----
T ss_pred             ECCCCcc
Confidence            9987643

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.77  E-value=9.7e-19  Score=129.26  Aligned_cols=79  Identities=11%  Similarity=0.224  Sum_probs=72.8

Q ss_pred             CccEEEEccCCCCCCHHHHH---HHHhcCCCceEEEEeec-------CCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          202 PCSTLFIANLGPNCTEDELK---QTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~---~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      +.++|||+|||.++++++|+   ++|++||.|..|++...       .++|||||+|.+.++|.+|++.|||..+.   |
T Consensus        14 ~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~---g   90 (111)
T 2cpi_A           14 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVD---G   90 (111)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEET---T
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEEC---C
Confidence            57899999999999999999   99999999999999863       34579999999999999999999999998   5


Q ss_pred             CcEEEEEecccc
Q 023143          272 GGMHIEYARSKM  283 (286)
Q Consensus       272 ~~l~V~~ak~~~  283 (286)
                      +.|+|+||+.+.
T Consensus        91 r~l~V~~a~~k~  102 (111)
T 2cpi_A           91 RTLKASLGTTKY  102 (111)
T ss_dssp             EEEEEESCCCCS
T ss_pred             EEEEEEeccccc
Confidence            599999999876

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

Probab=99.76  E-value=2.8e-18  Score=128.14  Aligned_cols=82  Identities=17%  Similarity=0.270  Sum_probs=71.8

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|||..|.   |+.
T Consensus        35 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~  111 (118)
T 2khc_A           35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVG---TKR  111 (118)
T ss_dssp             CCCCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEET---TEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEEC---CEE
Confidence            3456779999999999999999999999999999999874421  23459999999999999999999999998   999


Q ss_pred             EEEEEee
Q 023143          108 LHIELAR  114 (286)
Q Consensus       108 l~v~~~~  114 (286)
                      |+|+|++
T Consensus       112 l~V~~ak  118 (118)
T 2khc_A          112 LKVQLKK  118 (118)
T ss_dssp             CCEEEC-
T ss_pred             EEEEecC
Confidence            9999874

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

Probab=99.76  E-value=6.6e-18  Score=122.09  Aligned_cols=85  Identities=18%  Similarity=0.311  Sum_probs=73.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      +...+.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++ |++..|.   |+.
T Consensus         5 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~---g~~   80 (99)
T 2dgs_A            5 SSGSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIM---GKK   80 (99)
T ss_dssp             CCCSSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSS---SCB
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEEC---CeE
Confidence            3455789999999999999999999999999999999974421  134499999999999999998 9999998   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|+++.....
T Consensus        81 l~V~~a~~~~~   91 (99)
T 2dgs_A           81 VEVKRAEPRDS   91 (99)
T ss_dssp             CEEEECCCCCC
T ss_pred             EEEEECCCCcc
Confidence            99999976543

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

Probab=99.76  E-value=3.2e-18  Score=124.72  Aligned_cols=79  Identities=14%  Similarity=0.283  Sum_probs=71.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+.++|||+|||.++++++|+++|++|| |..|+++..    .++|||||+|.+.++|.+|+ .|||..|.   |+.|+|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~V   87 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLG---DRSLRV   87 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEET---TEECEE
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeEC---CeEEEE
Confidence            3589999999999999999999999996 999999873    45789999999999999999 99999999   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      +|++.+..
T Consensus        88 ~~a~~~~~   95 (103)
T 2dng_A           88 DIAEGRKQ   95 (103)
T ss_dssp             EECCCCCC
T ss_pred             EEecCCCC
Confidence            99987654

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.5e-18  Score=127.73  Aligned_cols=79  Identities=14%  Similarity=0.228  Sum_probs=73.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ++.++|||+|||..+++++|+++|++||.|..|++...  ++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~--~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~~a~   97 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE--KGYSFVRFSTHESAAHAIVSVNGTTIE---GHVVKCYWGK   97 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT--TTEEEEEESSHHHHHHHHHHHTTCEET---TEECEEECCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC--CCEEEEEECCHHHHHHHHHHcCCCEEC---CcEEEEEecC
Confidence            35899999999999999999999999999999999887  499999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        98 ~~~~  101 (109)
T 1x4g_A           98 ESPD  101 (109)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8653

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

Probab=99.76  E-value=2.4e-18  Score=127.48  Aligned_cols=81  Identities=17%  Similarity=0.214  Sum_probs=73.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCce--------EEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFN--------MLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~--------~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      .++++|||+|||.++++++|+++|++||.|.        .|++..    +.+++||||+|.+.++|.+|++.|||..|. 
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~-   91 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ-   91 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET-
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccC-
Confidence            4689999999999999999999999999998        688876    345789999999999999999999999999 


Q ss_pred             CCCCcEEEEEeccccC
Q 023143          269 SDRGGMHIEYARSKMR  284 (286)
Q Consensus       269 ~~g~~l~V~~ak~~~~  284 (286)
                        |+.|+|+|++.+..
T Consensus        92 --g~~l~V~~a~~~~~  105 (113)
T 2cpe_A           92 --GSKLKVSLARKKPP  105 (113)
T ss_dssp             --TEECEEECSSCCCC
T ss_pred             --CCEEEEEECCCCCC
Confidence              55999999987653

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

Probab=99.76  E-value=2.7e-18  Score=123.48  Aligned_cols=79  Identities=23%  Similarity=0.272  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+++++|||+|||. .+++++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus         6 ~~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~---~g---~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   76 (96)
T 2kvi_A            6 NIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---NA---FGFIQFDNPQSVRDAIECESQEMNF---GKKLI   76 (96)
T ss_dssp             ---CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE---TT---EEEEEESCHHHHHHHHHHHTCSSCB---TTTBC
T ss_pred             cCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---CC---EEEEEECCHHHHHHHHHHcCCCeeC---CcEEE
Confidence            456789999999998 99999999999999999999886   55   9999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |++++....
T Consensus        77 V~~a~~~~~   85 (96)
T 2kvi_A           77 LEVSSSNAR   85 (96)
T ss_dssp             EEEEECCCC
T ss_pred             EEEcCcCCC
Confidence            999986543

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.2e-18  Score=129.41  Aligned_cols=77  Identities=17%  Similarity=0.316  Sum_probs=71.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||..+++++|+++|++||.|..|+++.    +.++|||||+|.+.++|.+|+ .|||..|.   |+.|+|+
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~V~   99 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLL---GVPIIVQ   99 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEET---TEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeC---CeEEEEE
Confidence            478999999999999999999999999999999986    456789999999999999999 99999998   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      |++.+
T Consensus       100 ~a~~~  104 (114)
T 2cq4_A          100 ASQAE  104 (114)
T ss_dssp             EHHHH
T ss_pred             ecCCC
Confidence            99865

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=6.4e-18  Score=122.19  Aligned_cols=79  Identities=23%  Similarity=0.352  Sum_probs=72.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++. ..++   ||||+|.+.++|.+|++.|+|..|.   |+.|+|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~-~~kg---~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~   84 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH-KDKG---FGFIRLETRTLAEIAKVELDNMPLR---GKQLRVR   84 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEE-TTTT---EEEEECSSSHHHHHHHHHHTTCCBT---TBCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEe-cCCC---EEEEEECCHHHHHHHHHHhCCCEeC---CceEEEE
Confidence            4467899999999999999999999999999999988 4445   9999999999999999999999998   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      |++...
T Consensus        85 ~a~~~~   90 (99)
T 2cpj_A           85 FACHSA   90 (99)
T ss_dssp             ESSCCS
T ss_pred             EcCCCC
Confidence            997654

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.76  E-value=2.8e-18  Score=129.71  Aligned_cols=80  Identities=16%  Similarity=0.283  Sum_probs=73.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||..+|+++|+++|++||.|..|.++.    +.+++||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v   96 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM---GQPISV   96 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSS---SSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeC---CeEEEE
Confidence            3588999999999999999999999999999999975    445789999999999999999999999998   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +||+.+.
T Consensus        97 ~~a~~~~  103 (126)
T 3ex7_B           97 DWCFVRG  103 (126)
T ss_dssp             EESEESS
T ss_pred             EEecCCC
Confidence            9998764

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

Probab=99.76  E-value=1.8e-18  Score=119.90  Aligned_cols=74  Identities=15%  Similarity=0.233  Sum_probs=68.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .+.-|||+||++.+||++|+++|++||+|.++++.. .+|   ||||+|.++++|.+|++.||+..+.   |++|+|+++
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-~kG---faFVey~~~~eA~~Ai~~Ln~~~l~---gr~I~V~~A   78 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-NQG---IALCKYTTREEANKAQMALNNCVLA---NTTIFAESP   78 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-TTT---EEEEEESSHHHHHHHHHHHTTEEET---TEEEEEECC
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-CCc---EEEEEECCHHHHHHHHHHhcCCEEC---CcEEEEEEC
Confidence            366799999999999999999999999999999874 455   9999999999999999999999999   999999988


Q ss_pred             e
Q 023143          114 R  114 (286)
Q Consensus       114 ~  114 (286)
                      .
T Consensus        79 ~   79 (89)
T 2wbr_A           79 S   79 (89)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.76  E-value=3.8e-19  Score=126.64  Aligned_cols=79  Identities=14%  Similarity=0.184  Sum_probs=68.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCC-CccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHh-CCCccCCCCCCeEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKP-GFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHEL-NGVKFDPQSGSVLHI  110 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G-~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l-~g~~~~~~~g~~l~v  110 (286)
                      +++|||+|||+++|+++|+++|+.|| .|.+|+|..+.  ...++||||+|.+.++|.+|++.+ ++..+.   |++|+|
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~---gr~i~V   77 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNIL---GQKVSM   77 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEET---TEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEEC---CEEEEE
Confidence            57999999999999999999999999 79999887432  223459999999999999999987 566788   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|+...
T Consensus        78 ~~a~~~   83 (91)
T 2lxi_A           78 HYSDPK   83 (91)
T ss_dssp             ECCCSC
T ss_pred             EEcCCC
Confidence            998754

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=4.7e-18  Score=124.93  Aligned_cols=80  Identities=11%  Similarity=0.192  Sum_probs=72.1

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC--CCCcEEEEEe
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS--DRGGMHIEYA  279 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~--~g~~l~V~~a  279 (286)
                      ..++|||+|||.++++++|+++|++||.|..|++..+   +||||+|.+.++|.+||+.|||..|.+.  +++.|+|++|
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~---g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a   90 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD---GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   90 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT---TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC---CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeC
Confidence            4889999999999999999999999999999999887   8999999999999999999999999841  0159999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+.+
T Consensus        91 ~~~~~   95 (108)
T 1x4c_A           91 GPRSP   95 (108)
T ss_dssp             SCCSC
T ss_pred             CCCCC
Confidence            87653

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

Probab=99.76  E-value=9.3e-18  Score=125.60  Aligned_cols=80  Identities=24%  Similarity=0.165  Sum_probs=70.3

Q ss_pred             CCccE--EEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccE-EEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          201 QPCST--LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPV-AFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~--L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~-afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +++++  |||+||+..+|+++|+++|++||.|.+|++...  .|| |||+|.+.++|.+|+++|||..|.+. ++.|+|+
T Consensus        21 ~ps~vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~--~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~-~~~l~V~   97 (124)
T 2e5i_A           21 GGNKVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR--NGIQAMVEFESVLCAQKAKAALNGADIYAG-CCTLKIE   97 (124)
T ss_dssp             CCCSEEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES--SSEEEEEEESSHHHHHHHHHHHTTCCCBTT-BSEEEEE
T ss_pred             CCCcEEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC--CCCEEEEEECCHHHHHHHHHHhCCCEecCC-CeEEEEE
Confidence            34555  568999999999999999999999999999775  386 99999999999999999999999853 4699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |||.+-
T Consensus        98 ~Ak~~~  103 (124)
T 2e5i_A           98 YARPTR  103 (124)
T ss_dssp             CCSCSC
T ss_pred             EecCCc
Confidence            998763

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=3.4e-18  Score=124.78  Aligned_cols=79  Identities=19%  Similarity=0.331  Sum_probs=71.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+.++|||+|||.++++++|+++|+.|| |..|+++..     .+++||||+|.+.++|.+|| .|||..+.   |+.|+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~   87 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NKRIR   87 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEET---TEECE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeC---CcEEE
Confidence            3589999999999999999999999999 999999863     44789999999999999999 99999998   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+..
T Consensus        88 V~~a~~~~~   96 (104)
T 1wi8_A           88 VDVADQAQD   96 (104)
T ss_dssp             EEECCCCCC
T ss_pred             EEEccCCCC
Confidence            999988754

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

Probab=99.76  E-value=7.9e-18  Score=121.68  Aligned_cols=79  Identities=27%  Similarity=0.391  Sum_probs=71.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcC--CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRK--PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~--G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...++++|||+|||.++++++|+++|+.|  |.|..|++.   ++   ||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~---~g---~afV~f~~~~~A~~A~~~l~g~~~~---g~~l   81 (99)
T 2cpd_A           11 TMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI---RD---YAFVHFSNREDAVEAMKALNGKVLD---GSPI   81 (99)
T ss_dssp             CSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC---SS---EEEEEESSHHHHHHHHHHHSSEEET---TEEE
T ss_pred             ccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe---CC---eEEEEeCCHHHHHHHHHHhCCCEeC---CcEE
Confidence            34568999999999999999999999999  889888765   55   9999999999999999999999998   9999


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      +|++++....
T Consensus        82 ~v~~a~~~~~   91 (99)
T 2cpd_A           82 EVTLAKPVDK   91 (99)
T ss_dssp             EEECCCCCCC
T ss_pred             EEEECCCCCC
Confidence            9999976543

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

Probab=99.76  E-value=1.8e-18  Score=126.26  Aligned_cols=81  Identities=20%  Similarity=0.250  Sum_probs=73.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhc-CCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCc-cCCCCCCcEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSV-YPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDST-LPSSDRGGMH  275 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~-~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~-~~~~~g~~l~  275 (286)
                      .++++|||+|||.++|+++|+++|++ ||.|..|+++.   +.+++||||+|.+.++|.+|++.|||.. +.   |+.|+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~---g~~l~   83 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLG---SKPVR   83 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSS---SSCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccC---CEeEE
Confidence            35899999999999999999999999 99999999987   3456899999999999999999999999 98   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+|++.+..
T Consensus        84 v~~a~~~~~   92 (104)
T 2dhg_A           84 LSVAIPKAS   92 (104)
T ss_dssp             CCBCCCCCS
T ss_pred             EEEccCCCc
Confidence            999976543

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

Probab=99.76  E-value=2.6e-18  Score=122.04  Aligned_cols=77  Identities=17%  Similarity=0.267  Sum_probs=71.0

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++.+    +||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~----~~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~~a~   79 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK----DYAFVHMEKEADAKAAIAQLNGKEVK---GKRINVELST   79 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS----SCEEEEESCHHHHHHHHHHHTTCEET---TEECEEEESC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC----CEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEECC
Confidence            4689999999999999999999999999999999984    48999999999999999999999999   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        80 ~~~~   83 (90)
T 2dnp_A           80 KGQK   83 (90)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            7654

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.3e-18  Score=127.98  Aligned_cols=80  Identities=16%  Similarity=0.268  Sum_probs=70.8

Q ss_pred             CCccEEEE--ccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCcc-C--CCCCCcEE
Q 023143          201 QPCSTLFI--ANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTL-P--SSDRGGMH  275 (286)
Q Consensus       201 ~~~~~L~v--~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~-~--~~~g~~l~  275 (286)
                      .|+++|||  +||+.++++++|+++|++||.|..|.+..+  +|||||+|.+.++|.+|++.|||..+ .  +. |++|.
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~--rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~-g~~l~   99 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN--KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQ-KITLY   99 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT--CSCEEEEESSHHHHHHHHHHTTTCEEECTTSC-EEECE
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC--CCEEEEEECCHHHHHHHHHHhCCCEEccccCC-CcEEE
Confidence            46889999  669999999999999999999999988765  59999999999999999999999988 2  22 66999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |.|++...
T Consensus       100 v~~a~~~p  107 (114)
T 2cq2_A          100 LNFVEKVQ  107 (114)
T ss_dssp             EEEESCCC
T ss_pred             EEecccCc
Confidence            99998654

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.76  E-value=2.8e-18  Score=120.40  Aligned_cols=76  Identities=26%  Similarity=0.401  Sum_probs=69.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh-CCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL-NGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l-~g~~~~~~~g~~l~v  110 (286)
                      ..++++|||+|||.++++++|+++|+.||.|..|++. ..++   ||||+|.+.++|.+|++.| +|..+.   |+.|+|
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~-~~kg---~afV~f~~~~~A~~a~~~l~~~~~~~---g~~l~v   81 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV-QRQQ---CAFIQFATRQAAEVAAEKSFNKLIVN---GRRLNV   81 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEE-GGGT---EEEEEESSHHHHHHHHHTTTTTCEET---TEECCE
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEE-CCCC---EEEEEECCHHHHHHHHHHhcCCeeEC---CCEEEE
Confidence            4567899999999999999999999999999999988 3344   9999999999999999998 999998   999999


Q ss_pred             EEee
Q 023143          111 ELAR  114 (286)
Q Consensus       111 ~~~~  114 (286)
                      +|++
T Consensus        82 ~~ak   85 (85)
T 2ytc_A           82 KWGR   85 (85)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            9974

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

Probab=99.76  E-value=2.1e-18  Score=126.18  Aligned_cols=78  Identities=9%  Similarity=0.058  Sum_probs=71.5

Q ss_pred             CccEEEEccCCCCC------CHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCC-
Q 023143          202 PCSTLFIANLGPNC------TEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG-  272 (286)
Q Consensus       202 ~~~~L~v~NL~~~~------te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~-  272 (286)
                      .+++|||+|||..+      |+++|+++|++||.|..|++.+  +.++|||||+|.+.++|.+|++.|||..+.   |+ 
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~---g~~   90 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD---KQH   90 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECS---TTC
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccC---CCc
Confidence            47899999999999      7899999999999999999885  456789999999999999999999999998   76 


Q ss_pred             cEEEEEeccc
Q 023143          273 GMHIEYARSK  282 (286)
Q Consensus       273 ~l~V~~ak~~  282 (286)
                      .|+|+||...
T Consensus        91 ~l~V~~a~~~  100 (105)
T 2nlw_A           91 TFRVNLFTDF  100 (105)
T ss_dssp             EEEEECSCCC
T ss_pred             eEEEEEcchH
Confidence            9999999754

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.76  E-value=2.9e-18  Score=121.11  Aligned_cols=81  Identities=16%  Similarity=0.233  Sum_probs=71.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC---CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG---NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~---~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .+.++|||+|||.++++++|+++|+.||.|..|++......   .++||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus         2 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   78 (88)
T 4a8x_A            2 MKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQID---GQEIT   78 (88)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeEC---CeEEE
Confidence            35789999999999999999999999999999988744321   2349999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus        79 v~~a~~~   85 (88)
T 4a8x_A           79 ATAVLAP   85 (88)
T ss_dssp             EEEECCC
T ss_pred             EEECCCC
Confidence            9998653

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

Probab=99.76  E-value=3.3e-18  Score=122.93  Aligned_cols=83  Identities=14%  Similarity=0.223  Sum_probs=72.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEE-EEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFC-QLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v-~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .++++|||+|||.++++++|+++|+.||.|..| ++..+.  ...++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   79 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC---NRPIT   79 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET---TEECE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            358999999999999999999999999999998 887431  122449999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++.....
T Consensus        80 v~~a~~~~~   88 (96)
T 1x5t_A           80 VSYAFKKDS   88 (96)
T ss_dssp             EEESCCCCC
T ss_pred             EEEecccCC
Confidence            999976543

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

Probab=99.76  E-value=4e-18  Score=121.98  Aligned_cols=80  Identities=19%  Similarity=0.286  Sum_probs=70.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   89 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLF---GRVIK   89 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEET---TEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeC---CcEEE
Confidence            44678999999999999999999999999999999874422  12349999999999999999999999998   99999


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      |+|++
T Consensus        90 v~~ak   94 (94)
T 2e5h_A           90 ASIAI   94 (94)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            99974

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.76  E-value=6e-18  Score=124.08  Aligned_cols=82  Identities=26%  Similarity=0.337  Sum_probs=73.3

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +...++++|||+|||..+++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..|.   |+.|
T Consensus        24 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l  100 (107)
T 3ulh_A           24 AGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLD---GRPM  100 (107)
T ss_dssp             CCCCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeC---CcEE
Confidence            34567899999999999999999999999999999999865433 2459999999999999999999999998   9999


Q ss_pred             EEEEee
Q 023143          109 HIELAR  114 (286)
Q Consensus       109 ~v~~~~  114 (286)
                      +|+++.
T Consensus       101 ~V~~a~  106 (107)
T 3ulh_A          101 NIQLVT  106 (107)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            999975

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.6e-18  Score=126.51  Aligned_cols=79  Identities=19%  Similarity=0.296  Sum_probs=72.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||..+++++|+++|++||.|..+++...    .++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~   83 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFS---GRALRVD   83 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCS---SSCBEEE
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeC---CcEEEEE
Confidence            4789999999999999999999999999999999863    34689999999999999999999999998   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus        84 ~a~~~~   89 (104)
T 1p1t_A           84 NAASEK   89 (104)
T ss_dssp             ETTCTT
T ss_pred             eCCCcc
Confidence            998764

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.76  E-value=2.6e-18  Score=136.08  Aligned_cols=79  Identities=18%  Similarity=0.275  Sum_probs=72.1

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++++|||+|||..+++++|+.+|++||.|..|.++..    .++|||||+|.+.++|.+||+.|||..|.   |+.|+|.
T Consensus        71 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~  147 (165)
T 1rk8_A           71 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTIQVD  147 (165)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEE
Confidence            5889999999999999999999999999999999873    35789999999999999999999999998   5699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus       148 ~a~~~~  153 (165)
T 1rk8_A          148 WCFVKG  153 (165)
T ss_dssp             ESEECC
T ss_pred             EecCCC
Confidence            998654

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=9.3e-18  Score=124.51  Aligned_cols=82  Identities=17%  Similarity=0.253  Sum_probs=72.8

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCccCCC-----CCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTLPSS-----DRG  272 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~~~~-----~g~  272 (286)
                      .+.++|||+|||.++++++|+++|++||.|..++++.+   .+++||||+|.+.++|.+|++.|||..+.++     .++
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~  102 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE  102 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCC
Confidence            45889999999999999999999999999999999873   4568999999999999999999999999543     156


Q ss_pred             cEEEEEeccc
Q 023143          273 GMHIEYARSK  282 (286)
Q Consensus       273 ~l~V~~ak~~  282 (286)
                      +|.|.||+.+
T Consensus       103 ~l~v~~a~p~  112 (114)
T 1x5o_A          103 PLLCKFSGPS  112 (114)
T ss_dssp             CBEEEECCCS
T ss_pred             ceeEEccCCC
Confidence            8999999854

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=8.1e-18  Score=124.17  Aligned_cols=86  Identities=20%  Similarity=0.352  Sum_probs=74.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhC------CCccCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELN------GVKFDP  102 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~------g~~~~~  102 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|+      |..|. 
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~-   89 (111)
T 1x4h_A           11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLD-   89 (111)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESS-
T ss_pred             cCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEc-
Confidence            355789999999999999999999999999999999885422  234499999999999999999999      99998 


Q ss_pred             CCCCeEEEEEeecCCCC
Q 023143          103 QSGSVLHIELARSNSRK  119 (286)
Q Consensus       103 ~~g~~l~v~~~~~~~~~  119 (286)
                        |+.|+|+++......
T Consensus        90 --g~~l~v~~a~~~~~~  104 (111)
T 1x4h_A           90 --GRQLKVDLAVTRDEA  104 (111)
T ss_dssp             --SCEEEEECCCCCCCC
T ss_pred             --CEEEEEEECCCCccC
Confidence              999999999765443

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

Probab=99.76  E-value=2.9e-18  Score=134.24  Aligned_cols=79  Identities=10%  Similarity=0.073  Sum_probs=70.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCC--CccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKP--GFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G--~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.++|||+|||+++|+++|+++|+.||  .|..|++..+.  ...++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~---Gr~l~  130 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLN---GEKVD  130 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEET---TEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CeEeE
Confidence            568999999999999999999999999  89999988553  223569999999999999999999999998   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |.++..
T Consensus       131 V~~a~~  136 (156)
T 3n9u_C          131 VRPATR  136 (156)
T ss_dssp             EEECCH
T ss_pred             EEEcCC
Confidence            999864

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.76  E-value=6.6e-18  Score=117.93  Aligned_cols=79  Identities=22%  Similarity=0.368  Sum_probs=70.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +.+|||+|||.++++++|+++|+.||.|..+++.....  ..++||||+|.+.++|.+|++.|+|..+.   |+.|+|++
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~   77 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN---GRPLRINW   77 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeC---CcEEEEEe
Confidence            35899999999999999999999999999999885522  23559999999999999999999999998   99999999


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      ++..
T Consensus        78 a~~~   81 (83)
T 3md1_A           78 AAKL   81 (83)
T ss_dssp             CCCC
T ss_pred             cCcC
Confidence            8754

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

Probab=99.75  E-value=3.1e-18  Score=128.74  Aligned_cols=79  Identities=15%  Similarity=0.156  Sum_probs=69.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccE-EEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPV-AFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~-afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      --.|||+||+..+|+++|+++|++||.|.+|++.... ++| |||+|.+.++|.+|++.|||..|.+. .+.|+|+|||.
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~-~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~-~~~LrI~~ak~  105 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-NQFQALLQYADPVSAQHAKLSLDGQNIYNA-CCTLRIDFSKL  105 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET-TEEEEEEEESCHHHHHHHHHHHTTCEEETT-EEEEEEEECSC
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC-CCcEEEEEECCHHHHHHHHHHcCCCeecCC-CcEEEEEecCC
Confidence            3456699999999999999999999999999887753 577 99999999999999999999999852 36999999987


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus       106 ~~  107 (130)
T 3zzy_A          106 TS  107 (130)
T ss_dssp             SS
T ss_pred             Cc
Confidence            53

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.75  E-value=3.9e-18  Score=122.61  Aligned_cols=81  Identities=15%  Similarity=0.275  Sum_probs=72.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ++++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|+|..+.   |+.|+|+
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~   77 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLG---SRFLKCG   77 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEE
Confidence            478999999999999999999999999999999874421  22449999999999999999999999998   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      +++.+.
T Consensus        78 ~a~~~~   83 (96)
T 2x1f_A           78 YSSNSD   83 (96)
T ss_dssp             ECSCSS
T ss_pred             EcCCCC
Confidence            997654

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.75  E-value=4.3e-18  Score=119.10  Aligned_cols=80  Identities=19%  Similarity=0.234  Sum_probs=69.3

Q ss_pred             CCCCCCe-EEEcCCCCCCCHHH----HHHHhhcC-CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           31 QDNGINT-LFVSGLPDDVRARE----IHNLFRRK-PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        31 ~~~~~~~-lfV~nLp~~~te~~----L~~~F~~~-G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      ..+++.| |||+|||+++++++    |+++|+.| |.|..|    . .+   +|||.|.+.++|.+|++.|+|..+.   
T Consensus         4 ~~~p~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V----t-gG---~AfV~F~~~esA~~A~~~l~G~~l~---   72 (96)
T 2diu_A            4 GSSGCHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI----T-GC---SAILRFINQDSAERAQKRMENEDVF---   72 (96)
T ss_dssp             SCCCSSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC----C-TT---CEEEEESSHHHHHHHHHHHTTCCSS---
T ss_pred             CCCCcceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE----e-cC---EEEEEECCHHHHHHHHHHhcCCccC---
Confidence            3445777 99999999999998    55899999 499877    2 24   9999999999999999999999998   


Q ss_pred             CCeEEEEEeecCCCCCc
Q 023143          105 GSVLHIELARSNSRKKR  121 (286)
Q Consensus       105 g~~l~v~~~~~~~~~~~  121 (286)
                      ||+|+|.|++.+.+...
T Consensus        73 gr~i~v~~A~~~sd~~~   89 (96)
T 2diu_A           73 GNRIIVSFTPKNRELCE   89 (96)
T ss_dssp             SSCCEEESSCCSCCCCC
T ss_pred             CceEEEEecCCCcceeE
Confidence            99999999998776543

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

Probab=99.75  E-value=7.9e-18  Score=122.57  Aligned_cols=84  Identities=23%  Similarity=0.379  Sum_probs=74.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...++++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l   87 (103)
T 2cq0_A           11 RADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD---HLIL   87 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEET---TEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeC---CcEE
Confidence            35678999999999999999999999999999999998542  223459999999999999999999999998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      +|+|++...
T Consensus        88 ~v~~a~~~~   96 (103)
T 2cq0_A           88 NVEWAKPST   96 (103)
T ss_dssp             EEEESSCCC
T ss_pred             EEEECCCCC
Confidence            999987654

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

Probab=99.75  E-value=4.6e-18  Score=123.60  Aligned_cols=84  Identities=21%  Similarity=0.308  Sum_probs=73.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   85 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIR   85 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEET---TEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CcEEE
Confidence            45689999999999999999999999999999998874321  23449999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |++++....
T Consensus        86 V~~a~~~~~   94 (102)
T 2cqb_A           86 VNLAKPMRI   94 (102)
T ss_dssp             EEECCCCCC
T ss_pred             EEeCCCCCC
Confidence            999876543

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.75  E-value=7.1e-18  Score=123.47  Aligned_cols=87  Identities=21%  Similarity=0.278  Sum_probs=73.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|+|..+....|+.|+
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            45689999999999999999999999999999999874322  2344999999999999999999999987222399999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |.++.....
T Consensus        90 v~~a~~~~~   98 (106)
T 2dgp_A           90 VKPADSESR   98 (106)
T ss_dssp             EEECCCCSC
T ss_pred             EEECCcccc
Confidence            999976543

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.75  E-value=4.6e-18  Score=121.93  Aligned_cols=82  Identities=22%  Similarity=0.332  Sum_probs=73.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus        12 ~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   88 (95)
T 2ywk_A           12 QEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLY---GRPIN   88 (95)
T ss_dssp             CTTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEEC---CCEEE
Confidence            3456899999999999999999999999999999999855433 2459999999999999999999999998   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |+++++
T Consensus        89 V~~a~~   94 (95)
T 2ywk_A           89 VSGPSS   94 (95)
T ss_dssp             EECCCC
T ss_pred             EEEcCC
Confidence            999864

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.75  E-value=8.1e-18  Score=123.67  Aligned_cols=78  Identities=19%  Similarity=0.365  Sum_probs=71.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC-----C
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG-----S  106 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g-----~  106 (286)
                      ....++|||+|||+++++++|+++|+.||.|..|+|..+  +   ||||+|.+.++|.+|++.|||..|.   |     +
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~--g---~afV~f~~~~~a~~Ai~~l~g~~~~---g~~~~~~   83 (108)
T 1x4c_A           12 RRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--G---TGVVEFVRKEDMTYAVRKLDNTKFR---SHEGETA   83 (108)
T ss_dssp             CSCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT--T---EEEEEESSHHHHHHHHHHSSSEEEE---CTTSCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC--C---EEEEEECCHHHHHHHHHHHCcCCcc---CCcCcce
Confidence            456789999999999999999999999999999998843  4   9999999999999999999999998   8     9


Q ss_pred             eEEEEEeecCC
Q 023143          107 VLHIELARSNS  117 (286)
Q Consensus       107 ~l~v~~~~~~~  117 (286)
                      .|+|+++....
T Consensus        84 ~i~V~~a~~~~   94 (108)
T 1x4c_A           84 YIRVKVDGPRS   94 (108)
T ss_dssp             EEEEEESSCCS
T ss_pred             EEEEEeCCCCC
Confidence            99999987643

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

Probab=99.75  E-value=7.6e-18  Score=126.94  Aligned_cols=80  Identities=16%  Similarity=0.248  Sum_probs=73.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .++++|||+|||..+++++|+++|++||.|..|++..   +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~  109 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD---GRPMDIQ  109 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESS---SCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEEC---CcEEEEE
Confidence            3589999999999999999999999999999999987   446789999999999999999999999998   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||....
T Consensus       110 ~a~~~~  115 (124)
T 2kt5_A          110 LVASQI  115 (124)
T ss_dssp             EECCTT
T ss_pred             EeCCCC
Confidence            998754

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

Probab=99.75  E-value=1e-17  Score=122.60  Aligned_cols=82  Identities=20%  Similarity=0.267  Sum_probs=73.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||.++++++|+++|+.||.|..|.+.....  ..++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        20 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   96 (106)
T 1p27_B           20 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM---GQPIS   96 (106)
T ss_dssp             BTTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSS---SSBCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEEC---CcEEE
Confidence            45679999999999999999999999999999999985432  23459999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus        97 V~~a~~~  103 (106)
T 1p27_B           97 VDWCFVR  103 (106)
T ss_dssp             EEESEES
T ss_pred             EEeecCC
Confidence            9998764

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.75  E-value=5e-18  Score=123.69  Aligned_cols=78  Identities=23%  Similarity=0.388  Sum_probs=71.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++++|||+|||.++|+++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..|.   |+.|+|+
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~---~~---~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~   78 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL---KD---YAFIHFDERDGAVKAMEEMNGKDLE---GENIEIV   78 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC---SS---CEEEEESSHHHHHHHHHHHTTEEET---TEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE---CC---EEEEEeCCHHHHHHHHHHHCCCccC---CCEEEEE
Confidence            4467999999999999999999999999999999887   55   9999999999999999999999998   9999999


Q ss_pred             EeecCCC
Q 023143          112 LARSNSR  118 (286)
Q Consensus       112 ~~~~~~~  118 (286)
                      +++....
T Consensus        79 ~a~~~~~   85 (103)
T 2dgu_A           79 FAKPPDQ   85 (103)
T ss_dssp             ECCCCCC
T ss_pred             EcCCCcc
Confidence            9976543

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

Probab=99.75  E-value=1.6e-18  Score=120.68  Aligned_cols=71  Identities=10%  Similarity=0.097  Sum_probs=64.7

Q ss_pred             ccEEEEccCCCCC------CHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCC-c
Q 023143          203 CSTLFIANLGPNC------TEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG-G  273 (286)
Q Consensus       203 ~~~L~v~NL~~~~------te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~-~  273 (286)
                      +++|||+|||..+      ++++|+++|++||.|..+++.+  ++++|||||+|.+.++|.+|++.|||..+.   |+ .
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~---g~~~   77 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD---KQHT   77 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCS---SSSC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccC---Ccee
Confidence            4789999999999      7799999999999999999875  456789999999999999999999999998   66 7


Q ss_pred             EEE
Q 023143          274 MHI  276 (286)
Q Consensus       274 l~V  276 (286)
                      |+|
T Consensus        78 l~V   80 (81)
T 2krb_A           78 FRV   80 (81)
T ss_dssp             CCC
T ss_pred             EEe
Confidence            776

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=7e-18  Score=124.20  Aligned_cols=81  Identities=16%  Similarity=0.290  Sum_probs=73.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ....++|||+|||.++++++|+++|+.||.|..|++... ++   ||||+|.+.++|.+|++.|+|..|.   |+.|+|.
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-~g---~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~   94 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-KG---YSFVRFSTHESAAHAIVSVNGTTIE---GHVVKCY   94 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-TT---EEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC-CC---EEEEEECCHHHHHHHHHHcCCCEEC---CcEEEEE
Confidence            446789999999999999999999999999999998833 44   9999999999999999999999998   9999999


Q ss_pred             EeecCCCC
Q 023143          112 LARSNSRK  119 (286)
Q Consensus       112 ~~~~~~~~  119 (286)
                      |++.....
T Consensus        95 ~a~~~~~~  102 (109)
T 1x4g_A           95 WGKESPDM  102 (109)
T ss_dssp             CCCCCCSS
T ss_pred             ecCCCCCC
Confidence            99875443

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.75  E-value=1.5e-18  Score=125.72  Aligned_cols=78  Identities=19%  Similarity=0.337  Sum_probs=69.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ...++|||+|||.++++++|+++|+.|| |..|++...     +++|||||+|.+.++|.+|+ .|||..+.   |+.|+
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~---g~~l~   91 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NRRIR   91 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBT---TBCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEEC---CeEEE
Confidence            4589999999999999999999999999 999999763     35789999999999999999 99999999   55999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |+||+.+-
T Consensus        92 V~~a~~~~   99 (100)
T 2j76_E           92 VDVADQAQ   99 (100)
T ss_dssp             CEECCCSC
T ss_pred             EEeccCCC
Confidence            99998764

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

Probab=99.75  E-value=4.8e-18  Score=120.65  Aligned_cols=76  Identities=24%  Similarity=0.441  Sum_probs=71.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.++|||+|||.++|+++|+++|+.||.|..|++.   ++   ||||+|.+.++|.+|++.|+|..+.   |+.|+|+
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~---~~---~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~   76 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV---KD---YAFVHMEKEADAKAAIAQLNGKEVK---GKRINVE   76 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC---SS---CEEEEESCHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE---CC---EEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEE
Confidence            4568899999999999999999999999999999888   55   9999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      +++..
T Consensus        77 ~a~~~   81 (90)
T 2dnp_A           77 LSTKG   81 (90)
T ss_dssp             ESCCC
T ss_pred             ECCCC
Confidence            98765

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.75  E-value=6.4e-18  Score=132.53  Aligned_cols=81  Identities=16%  Similarity=0.217  Sum_probs=73.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++++|||+|||..+|+++|+++|++||.|..|+++..    .+++||||+|.+.++|.+||+.|||..|.   |+.|+
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~  112 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLD---DRIIR  112 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEE
Confidence            346899999999999999999999999999999999873    35679999999999999999999999998   55999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |+||+.+.
T Consensus       113 V~~a~~~~  120 (156)
T 1h2v_Z          113 TDWDAGFK  120 (156)
T ss_dssp             EEEESCCC
T ss_pred             EEECCCCC
Confidence            99998754

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.75  E-value=8.3e-18  Score=123.99  Aligned_cols=75  Identities=20%  Similarity=0.253  Sum_probs=69.5

Q ss_pred             CccEEEEccCCCC-CCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPN-CTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~-~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ++++|||+|||.. +++++|+++|++||.|..|++    +++||||+|.+.++|.+|++.|||..+.   |+.|+|+|++
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i----~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V~~a~   98 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV----HKGYAFVQYSNERHARAAVLGENGRVLA---GQTLDINMAG   98 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE----ETTEEEEECSSSHHHHHHHHHHTTCEET---TEECCEEESC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE----eCCEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEECC
Confidence            4789999999999 999999999999999999998    4589999999999999999999999999   5599999998


Q ss_pred             ccc
Q 023143          281 SKM  283 (286)
Q Consensus       281 ~~~  283 (286)
                      .+.
T Consensus        99 ~~~  101 (110)
T 1wf1_A           99 EPK  101 (110)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.75  E-value=2.5e-18  Score=126.97  Aligned_cols=80  Identities=24%  Similarity=0.239  Sum_probs=71.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ...+++|||+|||+++++++|+++|+.||.|..|.+. ..++   ||||+|.+.++|.+|++.|||..+.   |++|.|+
T Consensus         7 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~-~~~g---~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~   79 (111)
T 1whx_A            7 GRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLP-EGGI---TAIVEFLEPLEARKAFRHLAYSKFH---HVPLYLE   79 (111)
T ss_dssp             SEEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECC-SSSS---CEEEEESCHHHHHHHHHHHTTCBSS---SSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEe-CCCC---EEEEEeCCHHHHHHHHHHhCCCEEC---CeEEEEE
Confidence            3457899999999999999999999999999988876 3444   9999999999999999999999998   9999999


Q ss_pred             EeecCCC
Q 023143          112 LARSNSR  118 (286)
Q Consensus       112 ~~~~~~~  118 (286)
                      |+.....
T Consensus        80 ~a~~~~~   86 (111)
T 1whx_A           80 WAPIGVF   86 (111)
T ss_dssp             EEETTTT
T ss_pred             ECCCCcc
Confidence            9986543

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=2.3e-18  Score=123.05  Aligned_cols=78  Identities=27%  Similarity=0.306  Sum_probs=69.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCC-ceEEEEeecCCccEEEEEECCHHHHHHHHHhcCC-CccCCCCCCcEEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPG-FNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD-STLPSSDRGGMHIEY  278 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~-v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng-~~~~~~~g~~l~V~~  278 (286)
                      .+.++|||+|||.++|+++|+++|++||. |..+.+.   +++||||+|.+.++|.+|++.||| ..+.   |+.|+|+|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~---g~~l~v~~   79 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL---KSGYAFVDYPDQNWAIRAIETLSGKVELH---GKIMEVDY   79 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE---ETTEEEECCSCHHHHHHHHHHHTTTCEET---TEECEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc---CCCEEEEEECCHHHHHHHHHHccCCeeEC---CEEEEEEE
Confidence            35889999999999999999999999999 6666553   348999999999999999999999 9998   56999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        80 a~~~~~   85 (93)
T 2cqh_A           80 SVSKKL   85 (93)
T ss_dssp             CCCCCC
T ss_pred             ccCccc
Confidence            987654

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

Probab=99.75  E-value=5.2e-19  Score=124.23  Aligned_cols=78  Identities=22%  Similarity=0.212  Sum_probs=70.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      +++++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~~~~   79 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQ---AQMAKQ   79 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCC---EESCCS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEe---eEEEee
Confidence            3689999999999999999999999999999999876    455789999999999999999999999999   559988


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      +|+++
T Consensus        80 ~~~~s   84 (85)
T 1x4e_A           80 SGPSS   84 (85)
T ss_dssp             SCCCC
T ss_pred             cCCCC
Confidence            87764

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=7.2e-18  Score=120.44  Aligned_cols=79  Identities=24%  Similarity=0.471  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC-ccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCC-CccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPG-FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG-VKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~-i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g-~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||.++|+++|+++|+.||. |..+.+.  .++   ||||+|.+.++|.+|++.||| ..+.   |+.|
T Consensus         4 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~--~~g---~afV~f~~~~~A~~A~~~l~g~~~~~---g~~l   75 (93)
T 2cqh_A            4 GSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL--KSG---YAFVDYPDQNWAIRAIETLSGKVELH---GKIM   75 (93)
T ss_dssp             CCCCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE--ETT---EEEECCSCHHHHHHHHHHHTTTCEET---TEEC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc--CCC---EEEEEECCHHHHHHHHHHccCCeeEC---CEEE
Confidence            3456789999999999999999999999999 6666654  244   999999999999999999999 9998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      +|++++...
T Consensus        76 ~v~~a~~~~   84 (93)
T 2cqh_A           76 EVDYSVSKK   84 (93)
T ss_dssp             EEEECCCCC
T ss_pred             EEEEccCcc
Confidence            999997653

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

Probab=99.75  E-value=7.4e-18  Score=121.09  Aligned_cols=79  Identities=19%  Similarity=0.234  Sum_probs=71.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEE-EeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLK-MRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~-~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+++|||+|||.++++++|+++|++||.|..++ ++.....+.|||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~V~~a~   90 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLE---NFTLKVAYIP   90 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCS---SCBCEEEECC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEEEcC
Confidence            478999999999999999999999999999995 777655567999999999999999999999999   5599999998


Q ss_pred             ccc
Q 023143          281 SKM  283 (286)
Q Consensus       281 ~~~  283 (286)
                      .+.
T Consensus        91 ~~~   93 (96)
T 2e44_A           91 DEM   93 (96)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            873

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

Probab=99.75  E-value=9.1e-18  Score=121.32  Aligned_cols=83  Identities=17%  Similarity=0.195  Sum_probs=73.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCcc-EEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFD-FCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~-~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ...++++|||+|||.++++++|+++|+.||.|. .|++....  ...++||||+|.+.++|.+|++.|||..+.   |+.
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~   81 (99)
T 2div_A            5 SSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLP---GAT   81 (99)
T ss_dssp             CCSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEES---SCS
T ss_pred             CCCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccC---CCC
Confidence            355789999999999999999999999999999 99988543  223459999999999999999999999998   998


Q ss_pred             ----EEEEEeecC
Q 023143          108 ----LHIELARSN  116 (286)
Q Consensus       108 ----l~v~~~~~~  116 (286)
                          |+|+|++..
T Consensus        82 ~~~~l~v~~a~~~   94 (99)
T 2div_A           82 PAKRFKLNYATYS   94 (99)
T ss_dssp             SCEECCEEETTCC
T ss_pred             cceeEEEeecCCC
Confidence                999998754

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.75  E-value=1e-18  Score=126.62  Aligned_cols=80  Identities=21%  Similarity=0.322  Sum_probs=68.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG---RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ....++|||+|||.++++++|+++|+.|| |..|++....   ...++||||+|.+.++|.+|+ .|+|..|.   |+.|
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~---g~~l   90 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NRRI   90 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBT---TBCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEEC---CeEE
Confidence            45689999999999999999999999999 9999887443   223459999999999999999 89999998   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|++++..
T Consensus        91 ~V~~a~~~   98 (100)
T 2j76_E           91 RVDVADQA   98 (100)
T ss_dssp             CCEECCCS
T ss_pred             EEEeccCC
Confidence            99998754

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.75  E-value=5.4e-18  Score=128.57  Aligned_cols=85  Identities=20%  Similarity=0.293  Sum_probs=74.5

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .....++++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|+|..|.   |+
T Consensus        40 ~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~---g~  116 (129)
T 2kxn_B           40 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GR  116 (129)
T ss_dssp             SSCCCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSS---SS
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CE
Confidence            34466789999999999999999999999999999999984422  23449999999999999999999999998   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      .|+|+|+..+
T Consensus       117 ~l~V~~a~~~  126 (129)
T 2kxn_B          117 RIRVDFSITK  126 (129)
T ss_dssp             CCEESCCSSS
T ss_pred             EEEEEEecCC
Confidence            9999998754

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

Probab=99.75  E-value=3.4e-18  Score=133.83  Aligned_cols=78  Identities=13%  Similarity=0.077  Sum_probs=70.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCC--CceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYP--GFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G--~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++|||+|||.++|+++|+++|++||  .|..|+++.    ++++|||||+|.+.++|.+||+.|||..|.   |+.|+
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~---Gr~l~  130 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLN---GEKVD  130 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEET---TEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CeEeE
Confidence            478999999999999999999999999  999999976    456789999999999999999999999999   56999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |+||+.+
T Consensus       131 V~~a~~~  137 (156)
T 3n9u_C          131 VRPATRQ  137 (156)
T ss_dssp             EEECCHH
T ss_pred             EEEcCCC
Confidence            9999653

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.75  E-value=1.6e-17  Score=119.57  Aligned_cols=82  Identities=20%  Similarity=0.301  Sum_probs=71.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....++++|||+|||.++++++|+++|+.||.|..|.+. ..++   ||||+|.+.++|.+|++.|||..+. ..|+.|+
T Consensus        12 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~-~~~g---~afV~f~~~~~A~~A~~~l~g~~~~-~~g~~l~   86 (97)
T 1why_A           12 GKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV-KGDS---FAYIQYESLDAAQAACAKMRGFPLG-GPDRRLR   86 (97)
T ss_dssp             CCCCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEEC-SSSC---CEEEEESSHHHHHHHHHHHTTCBCS-SSSCBCE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe-CCCC---EEEEEECCHHHHHHHHHHHCCCEeC-CCCcEEE
Confidence            345568999999999999999999999999999999887 3344   9999999999999999999999883 2279999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|++..
T Consensus        87 V~~a~~~   93 (97)
T 1why_A           87 VDFAKSG   93 (97)
T ss_dssp             EEECCCC
T ss_pred             EEECCCC
Confidence            9998764

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

Probab=99.74  E-value=9.6e-18  Score=126.08  Aligned_cols=81  Identities=16%  Similarity=0.146  Sum_probs=70.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeE-EEEEEcCHHHHHHHHHHhCCCccCCCCC--CeEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVV-AFATFVNHQTAVAALHELNGVKFDPQSG--SVLHI  110 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~-aFV~F~~~~~A~~A~~~l~g~~~~~~~g--~~l~v  110 (286)
                      ....|||+||++.+|+++|+++|++||.|.+|++..+.   ++| |||+|.+.++|.+|++.|||..|.   |  +.|+|
T Consensus        27 ~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~---~gfqAFVef~~~~~A~~Ai~~LnG~~i~---g~~~~LrI  100 (130)
T 3zzy_A           27 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---NQFQALLQYADPVSAQHAKLSLDGQNIY---NACCTLRI  100 (130)
T ss_dssp             SEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET---TEEEEEEEESCHHHHHHHHHHHTTCEEE---TTEEEEEE
T ss_pred             ceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC---CCcEEEEEECCHHHHHHHHHHcCCCeec---CCCcEEEE
Confidence            34557799999999999999999999999999887433   236 999999999999999999999997   6  89999


Q ss_pred             EEeecCCCCC
Q 023143          111 ELARSNSRKK  120 (286)
Q Consensus       111 ~~~~~~~~~~  120 (286)
                      +|++...-..
T Consensus       101 ~~ak~~~l~v  110 (130)
T 3zzy_A          101 DFSKLTSLNV  110 (130)
T ss_dssp             EECSCSSCCC
T ss_pred             EecCCCceeE
Confidence            9998765433

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

Probab=99.74  E-value=4.1e-18  Score=125.43  Aligned_cols=87  Identities=13%  Similarity=0.208  Sum_probs=68.2

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           27 HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        27 ~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      .......+.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.+ +..+.   
T Consensus        17 ~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~---   92 (109)
T 2rs2_A           17 RGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELD---   92 (109)
T ss_dssp             ---------CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEET---
T ss_pred             cccccCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCC---
Confidence            334456678999999999999999999999999999999988542  223449999999999999999986 58887   


Q ss_pred             CCeEEEEEeecCC
Q 023143          105 GSVLHIELARSNS  117 (286)
Q Consensus       105 g~~l~v~~~~~~~  117 (286)
                      |+.|+|+++....
T Consensus        93 g~~l~V~~a~~~~  105 (109)
T 2rs2_A           93 SKTIDPKVAFPRR  105 (109)
T ss_dssp             TEEEEEEECCCCC
T ss_pred             CEEEEEEEccCCC
Confidence            9999999987643

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

Probab=99.74  E-value=2.1e-18  Score=123.95  Aligned_cols=81  Identities=23%  Similarity=0.306  Sum_probs=72.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ..++++|||+|||..+++++|+++|+.||.|..+ ...+.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|+
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v~~a   88 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEID---GRSVSLYYT   88 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-EETTEEEEEEEEEESSHHHHHHHHHHTTEEEET---TEEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-CCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEEEEc
Confidence            3468999999999999999999999999999877 444667789999999999999999999999998   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+-+
T Consensus        89 ~~~~~   93 (96)
T 1fjc_A           89 GEKGG   93 (96)
T ss_dssp             SSSCC
T ss_pred             CCCCC
Confidence            87654

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.74  E-value=1.4e-18  Score=124.70  Aligned_cols=78  Identities=15%  Similarity=0.090  Sum_probs=68.7

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++.++|||+|||..+++++|+++|++||.|..+.++.    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---gr~l~v   89 (95)
T 2ek1_A           13 PGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVKL   89 (95)
T ss_dssp             --CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeEC---CcEEEE
Confidence            3579999999999999999999999999998777765    345689999999999999999999999999   559999


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      +++.+
T Consensus        90 ~~a~s   94 (95)
T 2ek1_A           90 SGPSS   94 (95)
T ss_dssp             ECCC-
T ss_pred             EeccC
Confidence            99864

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.74  E-value=7.9e-18  Score=125.10  Aligned_cols=80  Identities=18%  Similarity=0.264  Sum_probs=72.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|.+..+++ .++||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~-~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~v~~   81 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE-TRGTAYVVYEDIFDAKNAVDHLSGFNVS---NRYLVVLY   81 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTT-TTTCEEEEESSHHHHHHHHHHHTTCBSS---SCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCC-CCcEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEEE
Confidence            3578999999999999999999999999999999984433 3559999999999999999999999998   99999999


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      +...
T Consensus        82 a~~~   85 (115)
T 3lqv_A           82 YNAN   85 (115)
T ss_dssp             CCHH
T ss_pred             ecCC
Confidence            8753

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.74  E-value=2e-17  Score=123.10  Aligned_cols=83  Identities=23%  Similarity=0.359  Sum_probs=73.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .++.++|||+|||.++++++|+++|+.||.|..|.+.... ...++||||+|.+.++|.+|++.|+|..|.   |+.|+|
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~---g~~l~V   80 (116)
T 2fy1_A            4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLH---GKAIKV   80 (116)
T ss_dssp             TCSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCS---SSBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            4567899999999999999999999999999999998543 122349999999999999999999999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      ++++...
T Consensus        81 ~~a~~~~   87 (116)
T 2fy1_A           81 EQAKKPS   87 (116)
T ss_dssp             EECCCSS
T ss_pred             EECCCCC
Confidence            9997654

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.74  E-value=5.2e-18  Score=120.16  Aligned_cols=81  Identities=23%  Similarity=0.231  Sum_probs=64.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .++..+|||+|||.++|+++|+++|++||.|.+|+++.. ++|||||+|.+.++|.    .|+|..+... |+.|.|.+|
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~-srGfaFV~F~~~~~A~----~~~~~~~~~~-g~~v~v~~a   81 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP-FRAFAFVTFADDKVAQ----SLCGEDLIIK-GISVHISNA   81 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS-CCSEEEEEESCHHHHH----HHTTCEEEET-TEEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC-CCCEEEEEECCHHHHH----HHcCCCcccC-CEEEEEEEc
Confidence            346899999999999999999999999999999999875 7799999999999998    3567766544 779999999


Q ss_pred             ccccCCC
Q 023143          280 RSKMRKL  286 (286)
Q Consensus       280 k~~~~~~  286 (286)
                      +.+-.+|
T Consensus        82 ~~k~~~~   88 (89)
T 3d2w_A           82 EPKHNKL   88 (89)
T ss_dssp             C------
T ss_pred             CCCCcCC
Confidence            8876553

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=8.4e-18  Score=123.72  Aligned_cols=80  Identities=15%  Similarity=0.198  Sum_probs=71.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCC-ceEEEEe-e----cCCccEEEEEECCHHHHHHHHHhcC--CCccCCCCCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPG-FNMLKMR-A----RGGMPVAFADFEEVEQASIAMEGLQ--DSTLPSSDRG  272 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~-v~~v~~~-~----~~~~~~afV~f~~~e~A~~Al~~ln--g~~~~~~~g~  272 (286)
                      .++++|||+|||..+++++|+++|++||. |..|.++ .    +.++|||||+|.+.++|.+|++.||  +..+.   |+
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~---g~   82 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW---GH   82 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBT---TB
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceec---CC
Confidence            35899999999999999999999999998 9999987 3    3567899999999999999999996  58898   56


Q ss_pred             cEEEEEecccc
Q 023143          273 GMHIEYARSKM  283 (286)
Q Consensus       273 ~l~V~~ak~~~  283 (286)
                      .|+|+||+.+.
T Consensus        83 ~l~V~~a~~~~   93 (109)
T 2dis_A           83 QIAVDWAEPEI   93 (109)
T ss_dssp             CCEEEESCSSC
T ss_pred             eEEEEEcCCCC
Confidence            99999998764

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

Probab=99.74  E-value=4e-18  Score=124.63  Aligned_cols=81  Identities=14%  Similarity=0.177  Sum_probs=73.2

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .++.++|||+|||..+++++|+++|++||.|..|+++..    .+++||||+|.+.++|.+||+. ||..|.   |+.|+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~---g~~l~   88 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLD---GRNID   88 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEET---TEEEB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeEC---CEEEE
Confidence            346899999999999999999999999999999999873    4567999999999999999999 999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+|++.+..
T Consensus        89 V~~a~~~~~   97 (105)
T 2dh8_A           89 PKPCTPRGM   97 (105)
T ss_dssp             CCCSCCSSC
T ss_pred             EEEccCCCC
Confidence            999987653

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.74  E-value=5.1e-18  Score=125.39  Aligned_cols=83  Identities=22%  Similarity=0.340  Sum_probs=73.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHH---HHhhcCCCccEEEEEecCC-----CCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           32 DNGINTLFVSGLPDDVRAREIH---NLFRRKPGFDFCQLKYTGR-----GNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~---~~F~~~G~i~~v~i~~~~~-----~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      ..+.++|||+|||+++++++|+   ++|+.||.|..|++.....     ..++||||+|.+.++|.+|++.|||..|.  
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~--   89 (111)
T 2cpi_A           12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVD--   89 (111)
T ss_dssp             CCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEET--
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEEC--
Confidence            3457899999999999999999   9999999999999874322     23469999999999999999999999998  


Q ss_pred             CCCeEEEEEeecCC
Q 023143          104 SGSVLHIELARSNS  117 (286)
Q Consensus       104 ~g~~l~v~~~~~~~  117 (286)
                       |+.|+|+++....
T Consensus        90 -gr~l~V~~a~~k~  102 (111)
T 2cpi_A           90 -GRTLKASLGTTKY  102 (111)
T ss_dssp             -TEEEEEESCCCCS
T ss_pred             -CEEEEEEeccccc
Confidence             9999999987654

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

Probab=99.74  E-value=1.3e-17  Score=118.59  Aligned_cols=78  Identities=15%  Similarity=0.158  Sum_probs=71.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..++|||+|||.++++++|+++|+.| .|..|+++.   ++++|||||+|.+.++|.+|++ |||..+.   |+.|+|.+
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~---gr~i~v~~   83 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMG---GRYIEVFR   83 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEET---TEEEEEEE
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeC---CcEEEEEE
Confidence            58899999999999999999999999 999999987   3457899999999999999999 9999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        84 a~~~~~   89 (91)
T 2dgw_A           84 EKSGPS   89 (91)
T ss_dssp             ESSCCC
T ss_pred             CCcCCC
Confidence            988753

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

Probab=99.74  E-value=1.2e-17  Score=128.34  Aligned_cols=77  Identities=17%  Similarity=0.311  Sum_probs=70.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .++.++|||+|||..+++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~  136 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIR  136 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEET---TEEEE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            34689999999999999999999999999999999976    456789999999999999999999999999   55999


Q ss_pred             EEEe
Q 023143          276 IEYA  279 (286)
Q Consensus       276 V~~a  279 (286)
                      |+||
T Consensus       137 v~~A  140 (140)
T 2ku7_A          137 VNLA  140 (140)
T ss_dssp             EEC-
T ss_pred             EEeC
Confidence            9986

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

Probab=99.74  E-value=7.4e-18  Score=124.06  Aligned_cols=80  Identities=11%  Similarity=0.146  Sum_probs=70.2

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|++..    +.++|||||+|.+.++|.+|++.+ |..+.   |+.|+|
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~---g~~l~V   98 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELD---SKTIDP   98 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEET---TEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCC---CEEEEE
Confidence            4589999999999999999999999999999999987    456789999999999999999987 58888   569999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      ++|+.+..
T Consensus        99 ~~a~~~~~  106 (109)
T 2rs2_A           99 KVAFPRRA  106 (109)
T ss_dssp             EECCCCCC
T ss_pred             EEccCCCC
Confidence            99987654

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

Probab=99.74  E-value=1.8e-17  Score=119.40  Aligned_cols=77  Identities=21%  Similarity=0.278  Sum_probs=69.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++++|||+||  ++++++|+++|++||.|..|++.  .+++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~--~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~v~~a~   85 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD--PPRNCAFVTYEKMESADQAVAELNGTQVE---SVQLKVNIAR   85 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE--TTTTEEEEEESSHHHHHHHHHHTTTEEET---TEEEEEECCS
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec--CCCCEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEEECC
Confidence            35899999996  89999999999999999999985  45599999999999999999999999998   5699999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        86 ~~~~   89 (97)
T 1x5p_A           86 KQPM   89 (97)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7654

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.74  E-value=2.9e-18  Score=121.77  Aligned_cols=78  Identities=6%  Similarity=-0.012  Sum_probs=66.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCC--CccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKP--GFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G--~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+|||+|||+++|+++|+++|+.||  .|.+|++..+.  ...++||||+|.+.++|.+|++.|||..+.   |+.|+|.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~---gr~i~V~   78 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH---GQNPVVT   78 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSS---SCCCEEC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeC---CEEEEEE
Confidence            4799999999999999999999999  99999988643  234569999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      ++...
T Consensus        79 ~~~~~   83 (90)
T 3p5t_L           79 PSNKL   83 (90)
T ss_dssp             CC---
T ss_pred             ECCCC
Confidence            88754

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

Probab=99.74  E-value=1.5e-17  Score=123.20  Aligned_cols=85  Identities=24%  Similarity=0.386  Sum_probs=73.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCcc--------EEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCcc
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFD--------FCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKF  100 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~--------~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~  100 (286)
                      ...++++|||+|||.++++++|+++|+.||.|.        .|++.....  ..++||||+|.+.++|.+|++.|||..|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   90 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDF   90 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            456789999999999999999999999999998        588875422  2244999999999999999999999999


Q ss_pred             CCCCCCeEEEEEeecCCC
Q 023143          101 DPQSGSVLHIELARSNSR  118 (286)
Q Consensus       101 ~~~~g~~l~v~~~~~~~~  118 (286)
                      .   |+.|+|++++....
T Consensus        91 ~---g~~l~V~~a~~~~~  105 (113)
T 2cpe_A           91 Q---GSKLKVSLARKKPP  105 (113)
T ss_dssp             T---TEECEEECSSCCCC
T ss_pred             C---CCEEEEEECCCCCC
Confidence            8   99999999876543

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.74  E-value=9.7e-18  Score=126.68  Aligned_cols=85  Identities=18%  Similarity=0.239  Sum_probs=74.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...++++|||+|||.++|+++|+++|+.||.|..|.+....  ...++||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus        18 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l   94 (126)
T 3ex7_B           18 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM---GQPI   94 (126)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSS---SSBC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeC---CeEE
Confidence            34568999999999999999999999999999999887542  222449999999999999999999999998   9999


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      .|+|+.....
T Consensus        95 ~v~~a~~~~~  104 (126)
T 3ex7_B           95 SVDWCFVRGP  104 (126)
T ss_dssp             EEEESEESSS
T ss_pred             EEEEecCCCC
Confidence            9999986543

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.74  E-value=9.2e-18  Score=118.33  Aligned_cols=75  Identities=11%  Similarity=0.211  Sum_probs=67.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+.++|||+|||..+++++|+++|++||.|..++++.    +.++|||||+|.+.++|.+|++. +|..+.   |+.|.|
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-~~~~~~---g~~i~v   84 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQ-KEHRLD---GRVIDP   84 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHS-SCEEET---TEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHh-CCCEEC---CEEEEE
Confidence            4689999999999999999999999999999999986    44578999999999999999965 788888   569999


Q ss_pred             EEe
Q 023143          277 EYA  279 (286)
Q Consensus       277 ~~a  279 (286)
                      ++|
T Consensus        85 ~~A   87 (87)
T 3s7r_A           85 KKA   87 (87)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            986

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

Probab=99.74  E-value=1.6e-17  Score=121.14  Aligned_cols=85  Identities=19%  Similarity=0.278  Sum_probs=74.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhc-CCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCc-cCCCCCCe
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVK-FDPQSGSV  107 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~-~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~-~~~~~g~~  107 (286)
                      ...++++|||+|||.++|+++|+++|+. ||.|..|++.....+ .++||||+|.+.++|.+|++.|+|.. +.   |+.
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~---g~~   81 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLG---SKP   81 (104)
T ss_dssp             CSSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSS---SSC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccC---CEe
Confidence            3456899999999999999999999999 999999999855322 35599999999999999999999999 98   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|+++.....
T Consensus        82 l~v~~a~~~~~   92 (104)
T 2dhg_A           82 VRLSVAIPKAS   92 (104)
T ss_dssp             CCCCBCCCCCS
T ss_pred             EEEEEccCCCc
Confidence            99999876543

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

Probab=99.74  E-value=2.7e-17  Score=121.98  Aligned_cols=83  Identities=18%  Similarity=0.210  Sum_probs=73.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...++++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        11 ~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   87 (114)
T 2do0_A           11 AGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLF---DRPMH   87 (114)
T ss_dssp             CCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC---CCEEE
Confidence            3556899999999999999999999999999999998855333 2459999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |++++..
T Consensus        88 v~~a~~~   94 (114)
T 2do0_A           88 VKMDERA   94 (114)
T ss_dssp             EEECSCC
T ss_pred             EEEcccC
Confidence            9998653

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=6.1e-18  Score=123.37  Aligned_cols=82  Identities=23%  Similarity=0.475  Sum_probs=72.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++......  .++||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus         5 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~   81 (104)
T 1p1t_A            5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFS---GRALR   81 (104)
T ss_dssp             HHHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCS---SSCBE
T ss_pred             CCCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeC---CcEEE
Confidence            345789999999999999999999999999999999855322  2459999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus        82 v~~a~~~   88 (104)
T 1p1t_A           82 VDNAASE   88 (104)
T ss_dssp             EEETTCT
T ss_pred             EEeCCCc
Confidence            9998754

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.74  E-value=1.1e-17  Score=123.38  Aligned_cols=84  Identities=20%  Similarity=0.289  Sum_probs=73.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...++++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|+|..|.   |+.|
T Consensus        22 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l   98 (110)
T 1oo0_B           22 RSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTI   98 (110)
T ss_dssp             CBTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEET---TEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC---CcEE
Confidence            355689999999999999999999999999999998874421  22449999999999999999999999998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      +|+|+....
T Consensus        99 ~V~~a~~~~  107 (110)
T 1oo0_B           99 QVDWCFVKG  107 (110)
T ss_dssp             EEEESEESS
T ss_pred             EEEEcccCC
Confidence            999997653

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

Probab=99.73  E-value=7.7e-18  Score=126.86  Aligned_cols=79  Identities=14%  Similarity=0.263  Sum_probs=72.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||.++|+++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|+ .|||..|.   |+.|+|+
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~V~  110 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFR---GRTIKVL  110 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEET---TEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeEC---CeEEEEE
Confidence            378999999999999999999999999999999976    456789999999999999999 89999998   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      |++.+..
T Consensus       111 ~a~~~~~  117 (124)
T 2jwn_A          111 PKRTNMP  117 (124)
T ss_dssp             ESSCCCS
T ss_pred             ECCCCCC
Confidence            9998764

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.73  E-value=7.7e-18  Score=130.12  Aligned_cols=81  Identities=21%  Similarity=0.313  Sum_probs=71.8

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceE--------EEEe-ecCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNM--------LKMR-ARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~--------v~~~-~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                      ..++++|||+|||.++|+++|+++|++||.|..        +++. .+.++|||||+|.+.++|.+|++.|||..+.   
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~---  118 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLF---  118 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEET---
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeC---
Confidence            346899999999999999999999999999876        4443 3778899999999999999999999999998   


Q ss_pred             CCcEEEEEecccc
Q 023143          271 RGGMHIEYARSKM  283 (286)
Q Consensus       271 g~~l~V~~ak~~~  283 (286)
                      |+.|+|+||+...
T Consensus       119 g~~l~V~~a~~~~  131 (143)
T 3egn_A          119 GKPMVVQFARSAR  131 (143)
T ss_dssp             TEECEEEECCCSC
T ss_pred             CcEEEEEECCCCC
Confidence            5699999998754

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.73  E-value=6.1e-18  Score=122.95  Aligned_cols=82  Identities=26%  Similarity=0.420  Sum_probs=68.6

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEe-ecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMR-ARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~-~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .+++++|||+|||.++++++|+++|+.|+.|..+... .+.+++||||+|.+.++|.+||+.|||..|.   |+.|+|+|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V~~   88 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEID---GNKVTLDW   88 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCeEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEEE
Confidence            3468999999999999999999999988644333221 2455789999999999999999999999999   55999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+.+
T Consensus        89 a~~~~~   94 (102)
T 2fc8_A           89 AKPKGE   94 (102)
T ss_dssp             CCCCCS
T ss_pred             ecCCCC
Confidence            988754

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.73  E-value=5.2e-18  Score=119.95  Aligned_cols=76  Identities=16%  Similarity=0.220  Sum_probs=70.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||.++++++|+++|++| .|..+++.  +++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||+.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~--~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~V~~a~~   77 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD--RNKRTAFVTLLNGEQAQNAIQMFHQYSFR---GKDLIVQLQPT   77 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE--GGGTEEEECCSCHHHHHHHHHHHTTEEET---TEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe--CCCcEEEEEECCHHHHHHHHHHhCCCeEC---CcEEEEEEcCC
Confidence            47899999999999999999999999 99999886  56699999999999999999999999999   55999999987


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      ..
T Consensus        78 ~~   79 (88)
T 1wg1_A           78 DA   79 (88)
T ss_dssp             CC
T ss_pred             Cc
Confidence            64

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

Probab=99.73  E-value=5.2e-18  Score=116.14  Aligned_cols=71  Identities=14%  Similarity=0.194  Sum_probs=65.3

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++ |||..+.   |+.|+|.||
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~---g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEIN---NKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSS---SCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEEC---CEEEEEEeC
Confidence            489999999999999999999999999999876    4567899999999999999998 9999999   559999986

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=6.3e-18  Score=125.47  Aligned_cols=81  Identities=16%  Similarity=0.322  Sum_probs=71.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|+ .|+|..|.   |+.|+
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~   97 (114)
T 2cq4_A           22 ERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLL---GVPII   97 (114)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEET---TEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeC---CeEEE
Confidence            45678999999999999999999999999999999984432  23449999999999999999 99999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |++++..
T Consensus        98 V~~a~~~  104 (114)
T 2cq4_A           98 VQASQAE  104 (114)
T ss_dssp             EEEHHHH
T ss_pred             EEecCCC
Confidence            9998754

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

Probab=99.73  E-value=8.9e-18  Score=125.03  Aligned_cols=79  Identities=15%  Similarity=0.215  Sum_probs=72.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||..+++++|+++|+.||.|..|+++.    +.++|||||+|.+.++|.+||+. ||..|.   |+.|+|+
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~---g~~l~V~  101 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSID---GRVVEPK  101 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEET---TEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEEC---CEEEEEE
Confidence            479999999999999999999999999999999987    44678999999999999999998 999998   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus       102 ~a~~~~~  108 (116)
T 1x4b_A          102 RAVAREE  108 (116)
T ss_dssp             CCSSCCC
T ss_pred             ECCCCcc
Confidence            9987653

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

Probab=99.73  E-value=7.3e-18  Score=122.13  Aligned_cols=80  Identities=14%  Similarity=0.180  Sum_probs=71.4

Q ss_pred             CCCCeEEEcCCCC------CCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           33 NGINTLFVSGLPD------DVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        33 ~~~~~lfV~nLp~------~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      ..+++|||+|||+      ++++++|+++|+.||.|.+|+|.....  ..++||||+|.+.++|.+|++.|||..|.   
T Consensus         4 ~~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~---   80 (100)
T 3ns6_A            4 GSDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD---   80 (100)
T ss_dssp             CGGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSS---
T ss_pred             CcCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccC---
Confidence            3478999999999      999999999999999999999885543  13349999999999999999999999998   


Q ss_pred             C-CeEEEEEeec
Q 023143          105 G-SVLHIELARS  115 (286)
Q Consensus       105 g-~~l~v~~~~~  115 (286)
                      | +.|+|.++..
T Consensus        81 g~r~l~V~~a~~   92 (100)
T 3ns6_A           81 LKHRLFLYTMKD   92 (100)
T ss_dssp             SSCBCEEEESHH
T ss_pred             CCeEEEEEECch
Confidence            9 9999999864

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=1.5e-17  Score=119.91  Aligned_cols=81  Identities=19%  Similarity=0.157  Sum_probs=70.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....++|||+|||.++++++|+++|+.||.|..+.+......  .++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~   88 (98)
T 2cqp_A           12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVK   88 (98)
T ss_dssp             CCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeC---CeEEE
Confidence            445688999999999999999999999999987766644222  3459999999999999999999999998   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |+++..
T Consensus        89 V~~a~~   94 (98)
T 2cqp_A           89 LVLGSG   94 (98)
T ss_dssp             EEESSC
T ss_pred             EEEcCC
Confidence            999864

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

Probab=99.73  E-value=3.2e-17  Score=119.33  Aligned_cols=82  Identities=16%  Similarity=0.255  Sum_probs=71.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.|| |..|++.....  ..++||||+|.+.++|.+|+ .|+|..|.   |+.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~   86 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLG---DRSLR   86 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEET---TEECE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeEC---CeEEE
Confidence            44678999999999999999999999997 99999985532  23459999999999999999 89999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++.....
T Consensus        87 V~~a~~~~~   95 (103)
T 2dng_A           87 VDIAEGRKQ   95 (103)
T ss_dssp             EEECCCCCC
T ss_pred             EEEecCCCC
Confidence            999976543

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.73  E-value=1.4e-17  Score=117.90  Aligned_cols=79  Identities=15%  Similarity=0.264  Sum_probs=70.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|+ .++|..+.   |+.|+|+
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~---g~~l~V~   80 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFR---GRQIKVI   80 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEET---TEECEEE
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEEC---CcEEEEE
Confidence            46899999999999999999999999999999998543  223559999999999999999 99999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      +++.+
T Consensus        81 ~a~~~   85 (89)
T 3ucg_A           81 PKRTN   85 (89)
T ss_dssp             ETTTT
T ss_pred             EccCC
Confidence            98764

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.73  E-value=2.3e-18  Score=122.30  Aligned_cols=77  Identities=17%  Similarity=0.259  Sum_probs=67.5

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.+ |.+|++.|||..+.   |+.|+|+||
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~---g~~l~V~~a   77 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFM---GRTIRVTEA   77 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCS---SSSCSEEEC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEEC---CeEEEEEEc
Confidence            5899999999999999999999999999999986    456789999999999 99999999999999   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      ..+..
T Consensus        78 ~~~~~   82 (90)
T 2ki2_A           78 NPKKS   82 (90)
T ss_dssp             -----
T ss_pred             CCCCC
Confidence            87643

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.73  E-value=3.7e-17  Score=120.52  Aligned_cols=76  Identities=24%  Similarity=0.420  Sum_probs=70.0

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...+++|||+|||.+ +++++|+++|+.||.|..|.+.   ++   ||||+|.+.++|.+|++.|+|..|.   |+.|+|
T Consensus        24 ~~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i~---~g---~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V   94 (110)
T 1wf1_A           24 KSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVH---KG---YAFVQYSNERHARAAVLGENGRVLA---GQTLDI   94 (110)
T ss_dssp             TTCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEEE---TT---EEEEECSSSHHHHHHHHHHTTCEET---TEECCE
T ss_pred             CCCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEe---CC---EEEEEECCHHHHHHHHHHcCCCEEC---CeEEEE
Confidence            445689999999999 9999999999999999999883   55   9999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      ++++..
T Consensus        95 ~~a~~~  100 (110)
T 1wf1_A           95 NMAGEP  100 (110)
T ss_dssp             EESCCC
T ss_pred             EECCCC
Confidence            998754

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=3.3e-17  Score=121.68  Aligned_cols=83  Identities=28%  Similarity=0.385  Sum_probs=70.9

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCcc----EEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFD----FCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~----~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      ...++++|||+|||.++|+++|+++|+.||.|.    .+++.  ....++||||+|.+.++|.+|++.|+|..|.   |+
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---g~   95 (115)
T 2cpx_A           21 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM--TGRMRGQAFITFPNKEIAWQALHLVNGYKLY---GK   95 (115)
T ss_dssp             CCSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE--CSSSCSEEEEECSSHHHHHHHHHHSTTCBCS---SC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC--CCccceEEEEEECCHHHHHHHHHHhCCCEeC---Cc
Confidence            355789999999999999999999999999994    44444  2223459999999999999999999999998   99


Q ss_pred             eEEEEEeecCCC
Q 023143          107 VLHIELARSNSR  118 (286)
Q Consensus       107 ~l~v~~~~~~~~  118 (286)
                      .|+|+|++....
T Consensus        96 ~l~v~~a~~~~~  107 (115)
T 2cpx_A           96 ILVIEFGKNKKQ  107 (115)
T ss_dssp             BCEEEECCCCSC
T ss_pred             EEEEEEccCCCC
Confidence            999999986543

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=1.6e-17  Score=121.25  Aligned_cols=81  Identities=21%  Similarity=0.315  Sum_probs=70.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC---CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR---GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~---~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .+.++|||+|||.++++++|+++|+.|| |..|++.....   ..++||||+|.+.++|.+|+ .|+|..|.   |+.|+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~   87 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NKRIR   87 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEET---TEECE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeC---CcEEE
Confidence            4568999999999999999999999999 99999875432   22459999999999999999 99999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++.....
T Consensus        88 V~~a~~~~~   96 (104)
T 1wi8_A           88 VDVADQAQD   96 (104)
T ss_dssp             EEECCCCCC
T ss_pred             EEEccCCCC
Confidence            999976543

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.73  E-value=2.5e-17  Score=128.38  Aligned_cols=81  Identities=19%  Similarity=0.181  Sum_probs=69.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ...+|||+||++.+|+++|+++|++||.|.+|++..+  ..++||||+|.+.++|.+|++.|||..|. +.++.|+|+|+
T Consensus        45 ~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k--~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~-g~g~~L~V~~A  121 (164)
T 1sjr_A           45 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIY-NACCTLRIDFS  121 (164)
T ss_dssp             CEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEES--SSCEEEEEEESCHHHHHHHHHHSTTBCSS-SSCSCEEEEEC
T ss_pred             ceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeC--CCCCEEEEEECCHHHHHHHHHHhCCCEec-CCCcEEEEEEe
Confidence            3466899999999999999999999999999998632  23559999999999999999999999995 12499999999


Q ss_pred             ecCC
Q 023143          114 RSNS  117 (286)
Q Consensus       114 ~~~~  117 (286)
                      +...
T Consensus       122 k~~~  125 (164)
T 1sjr_A          122 KLTS  125 (164)
T ss_dssp             SSSS
T ss_pred             cCCc
Confidence            8754

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

Probab=99.73  E-value=7.8e-18  Score=115.83  Aligned_cols=72  Identities=13%  Similarity=0.188  Sum_probs=66.4

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ++|||+|||.++++++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.++ ..+.   |+.|+|++|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~---g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELD---SKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCS---SCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccC---CEEEEEEec
Confidence            4799999999999999999999999999999976    4457899999999999999999999 8888   559999987

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

Probab=99.72  E-value=2e-17  Score=120.96  Aligned_cols=81  Identities=17%  Similarity=0.211  Sum_probs=70.5

Q ss_pred             CCCCCeEEEcCCCCCC------CHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           32 DNGINTLFVSGLPDDV------RAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~------te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      ...+++|||+|||+.+      ++++|+++|+.||.|..|.+.......++||||+|.+.++|.+|++.|||..|.   |
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~---g   88 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD---K   88 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECS---T
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccC---C
Confidence            3447899999999999      789999999999999999887322233459999999999999999999999998   9


Q ss_pred             C-eEEEEEeec
Q 023143          106 S-VLHIELARS  115 (286)
Q Consensus       106 ~-~l~v~~~~~  115 (286)
                      + .|+|+++..
T Consensus        89 ~~~l~V~~a~~   99 (105)
T 2nlw_A           89 QHTFRVNLFTD   99 (105)
T ss_dssp             TCEEEEECSCC
T ss_pred             CceEEEEEcch
Confidence            8 999999864

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

Probab=99.72  E-value=1.9e-16  Score=119.20  Aligned_cols=83  Identities=25%  Similarity=0.325  Sum_probs=73.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...++++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~  107 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD---GRPMD  107 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESS---SCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEEC---CcEEE
Confidence            4567789999999999999999999999999999999854322 2449999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus       108 V~~a~~~  114 (124)
T 2kt5_A          108 IQLVASQ  114 (124)
T ss_dssp             EEEECCT
T ss_pred             EEEeCCC
Confidence            9998754

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=1.3e-17  Score=123.68  Aligned_cols=78  Identities=15%  Similarity=0.117  Sum_probs=70.9

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCc-eEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGF-NMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v-~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+.++|||+|||.++|+++|+++|+.||.| ..|+++.   ++++|||||+|.+.++|.+||+. ||..|.   |+.|+|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~---gr~i~v   88 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLN---GREAFV   88 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEET---TEEEEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccC---CeEEEE
Confidence            358899999999999999999999999999 8888876   55788999999999999999988 999999   559999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      .+|+.+
T Consensus        89 ~~a~~~   94 (114)
T 2cpy_A           89 HVVTLE   94 (114)
T ss_dssp             EEECHH
T ss_pred             EECCHH
Confidence            998764

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=1e-17  Score=126.22  Aligned_cols=77  Identities=8%  Similarity=0.021  Sum_probs=67.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++|+++|+++|+.||.|..+.++.    ++++|||||+|.+.++|.+||+ |||..|.   |+.|.|.
T Consensus        24 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~---gr~i~V~   99 (124)
T 1wel_A           24 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMG---NRFIQVH   99 (124)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCST---TSCBEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeEC---CcEEEEE
Confidence            478999999999999999999999999987633332    5567899999999999999999 9999999   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      +|+.+
T Consensus       100 ~a~~~  104 (124)
T 1wel_A          100 PITKK  104 (124)
T ss_dssp             EECHH
T ss_pred             ECCHH
Confidence            98754

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.72  E-value=8e-18  Score=123.85  Aligned_cols=79  Identities=22%  Similarity=0.346  Sum_probs=69.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCC-CccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKP-GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G-~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ....+|||+|||+++++++|+++|+.|| .|..+.+..  +..++||||+|.+.++|.+|++.|||..|.   |+.|+|+
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~--~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~---Gr~i~V~  100 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNT--RDFDGTGALEFPSEEILVEALERLNNIEFR---GSVITVE  100 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSS--CSSSCCEEEEESSHHHHHHHHHHTTTEEET---TEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEc--CCCCCEEEEEECCHHHHHHHHHHcCCCEEC---CeEEEEE
Confidence            3467899999999999999999999999 899888752  123449999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      ++...
T Consensus       101 ~a~~~  105 (111)
T 2jvr_A          101 RDDNP  105 (111)
T ss_dssp             ESCC-
T ss_pred             ECCCC
Confidence            98643

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=6.3e-18  Score=124.24  Aligned_cols=81  Identities=17%  Similarity=0.244  Sum_probs=69.3

Q ss_pred             CCCCCCeEEE--cCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCcc-C-CCCCC
Q 023143           31 QDNGINTLFV--SGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKF-D-PQSGS  106 (286)
Q Consensus        31 ~~~~~~~lfV--~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~-~-~~~g~  106 (286)
                      ...++++|||  +||++++++++|+++|++||.|..|.+. .+++   ||||+|.+.++|.+|++.|||..+ . .+.|+
T Consensus        21 ~~~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~-~~rg---faFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~   96 (114)
T 2cq2_A           21 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMP-PNKP---YSFARYRTTEESKRAYVTLNGKEVVDDLGQKI   96 (114)
T ss_dssp             CSSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECC-TTCS---CEEEEESSHHHHHHHHHHTTTCEEECTTSCEE
T ss_pred             CCCCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEe-CCCC---EEEEEECCHHHHHHHHHHhCCCEEccccCCCc
Confidence            3456899999  7799999999999999999999988776 4444   999999999999999999999987 1 11288


Q ss_pred             eEEEEEeec
Q 023143          107 VLHIELARS  115 (286)
Q Consensus       107 ~l~v~~~~~  115 (286)
                      +|.|.|++.
T Consensus        97 ~l~v~~a~~  105 (114)
T 2cq2_A           97 TLYLNFVEK  105 (114)
T ss_dssp             ECEEEEESC
T ss_pred             EEEEEeccc
Confidence            999999864

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

Probab=99.72  E-value=5.2e-18  Score=118.02  Aligned_cols=73  Identities=16%  Similarity=0.218  Sum_probs=63.7

Q ss_pred             CCeEEEcCCCCCC------CHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC-e
Q 023143           35 INTLFVSGLPDDV------RAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS-V  107 (286)
Q Consensus        35 ~~~lfV~nLp~~~------te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~-~  107 (286)
                      +++|||+|||..+      ++++|+++|+.||.|.+|++.......++||||+|.+.++|.+|++.|||..+.   |+ +
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~---g~~~   77 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD---KQHT   77 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCS---SSSC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccC---Ccee
Confidence            4789999999999      789999999999999999887322233459999999999999999999999998   88 7


Q ss_pred             EEE
Q 023143          108 LHI  110 (286)
Q Consensus       108 l~v  110 (286)
                      |+|
T Consensus        78 l~V   80 (81)
T 2krb_A           78 FRV   80 (81)
T ss_dssp             CCC
T ss_pred             EEe
Confidence            765

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.72  E-value=3.5e-17  Score=115.34  Aligned_cols=80  Identities=19%  Similarity=0.366  Sum_probs=68.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      +...+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++. ++..+.   |+.
T Consensus         6 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-~~~~~~---g~~   81 (87)
T 3s7r_A            6 KNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQ-KEHRLD---GRV   81 (87)
T ss_dssp             -CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHS-SCEEET---TEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHh-CCCEEC---CEE
Confidence            3455789999999999999999999999999999999985532  2355999999999999999964 778898   999


Q ss_pred             EEEEEe
Q 023143          108 LHIELA  113 (286)
Q Consensus       108 l~v~~~  113 (286)
                      |.|+++
T Consensus        82 i~v~~A   87 (87)
T 3s7r_A           82 IDPKKA   87 (87)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            999875

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.72  E-value=9.8e-18  Score=120.65  Aligned_cols=83  Identities=19%  Similarity=0.310  Sum_probs=71.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHH----HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIH----NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~----~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      +..++++|||+|||.++++++|+    ++|+.||.|..|.+...+ ..++||||+|.+.++|.+|++.|+|..+.   |+
T Consensus         4 ~~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~   79 (97)
T 1nu4_A            4 ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSL-KMRGQAFVIFKEVSSATNALRSMQGFPFY---DK   79 (97)
T ss_dssp             --CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHH-HHTTCEEEEESSHHHHHHHHHHHTTCEET---TE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCC-CcCcEEEEEeCCHHHHHHHHHHhCCCEEC---Cc
Confidence            44568999999999999999999    999999999998876221 11239999999999999999999999998   99


Q ss_pred             eEEEEEeecCC
Q 023143          107 VLHIELARSNS  117 (286)
Q Consensus       107 ~l~v~~~~~~~  117 (286)
                      .|+|+|++...
T Consensus        80 ~l~v~~a~~~~   90 (97)
T 1nu4_A           80 PMRIQYAKTDS   90 (97)
T ss_dssp             ECEEEECSSCC
T ss_pred             EEEEEEccCCC
Confidence            99999997654

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=3e-17  Score=119.50  Aligned_cols=78  Identities=22%  Similarity=0.242  Sum_probs=69.6

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+.++|||+|||..+++++|+++|++||.|..|+++.    +.++|||||+|.+.++|.+|++.  +..+.   |+.|+|
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~---g~~l~v   87 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMID---GRWCDC   87 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEET---TEEEEE
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHc--CCeeC---CeEEEE
Confidence            4588999999999999999999999999999999987    34578999999999999999994  67887   569999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      .|++.+.
T Consensus        88 ~~a~~~~   94 (103)
T 2cqg_A           88 KLPNSKQ   94 (103)
T ss_dssp             ECCCTTC
T ss_pred             EecCCCC
Confidence            9998764

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

Probab=99.72  E-value=3.6e-17  Score=121.73  Aligned_cols=86  Identities=21%  Similarity=0.291  Sum_probs=73.7

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           27 HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        27 ~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      +......+.++|||+|||.++++++|+++|+.||.|..|+|....  ...++||||+|.+.++|.+|++.+++ .|.   
T Consensus         9 ~~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~---   84 (116)
T 2cqd_A            9 HGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IID---   84 (116)
T ss_dssp             CCCCCSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EET---
T ss_pred             CCCcCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCC---
Confidence            334456678999999999999999999999999999999988432  12344999999999999999999999 787   


Q ss_pred             CCeEEEEEeecC
Q 023143          105 GSVLHIELARSN  116 (286)
Q Consensus       105 g~~l~v~~~~~~  116 (286)
                      |+.|+|+++...
T Consensus        85 g~~l~V~~a~~~   96 (116)
T 2cqd_A           85 GRKANVNLAYLG   96 (116)
T ss_dssp             TEECEEEESTTT
T ss_pred             CEEEEEEEcccC
Confidence            999999998754

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.72  E-value=2.6e-18  Score=155.90  Aligned_cols=79  Identities=19%  Similarity=0.302  Sum_probs=72.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||..+|+++|+.+|++||.|..|.|+.    +.++|||||+|.+.++|.+||..|||..|.   |+.|.|.
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~---gr~i~V~  177 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKID---GRRVLVD  177 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            578999999999999999999999999999999975    456789999999999999999999999998   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+.
T Consensus       178 ~a~~~~  183 (437)
T 3pgw_S          178 VERGRT  183 (437)
T ss_pred             EeCCCC
Confidence            998653

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.72  E-value=1.5e-17  Score=136.25  Aligned_cols=78  Identities=12%  Similarity=0.164  Sum_probs=71.8

Q ss_pred             CCccEEEEccCC-CCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          201 QPCSTLFIANLG-PNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       201 ~~~~~L~v~NL~-~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +++++|||+||| ..+++++|+++|++||.|.+|+++.. .+|||||+|.+.++|.+||+.|||..+.   |+.|+|.|+
T Consensus         2 ~~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~-~~g~afV~f~~~~~A~~Ai~~lng~~~~---g~~l~v~~s   77 (205)
T 3tyt_A            2 ADSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS-KPGAAMVEMADGYAVDRAITHLNNNFMF---GQKMNVCVS   77 (205)
T ss_dssp             CCCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT-STTCEEEEESSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC-CCCEEEEEECCHHHHHHHHHHhCCCEEC---CceEEEEEc
Confidence            368999999999 89999999999999999999999875 3699999999999999999999999999   559999999


Q ss_pred             ccc
Q 023143          280 RSK  282 (286)
Q Consensus       280 k~~  282 (286)
                      +.+
T Consensus        78 ~~~   80 (205)
T 3tyt_A           78 KQP   80 (205)
T ss_dssp             SCS
T ss_pred             cCC
Confidence            753

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.72  E-value=1.2e-17  Score=119.77  Aligned_cols=81  Identities=19%  Similarity=0.140  Sum_probs=68.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..+.+......  .++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~---gr~l~   88 (95)
T 2ek1_A           12 KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVK   88 (95)
T ss_dssp             ---CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeEC---CcEEE
Confidence            335689999999999999999999999999987777754332  3459999999999999999999999998   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |+++.+
T Consensus        89 v~~a~s   94 (95)
T 2ek1_A           89 LSGPSS   94 (95)
T ss_dssp             EECCC-
T ss_pred             EEeccC
Confidence            998753

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

Probab=99.72  E-value=3.5e-17  Score=117.52  Aligned_cols=83  Identities=17%  Similarity=0.308  Sum_probs=71.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEE-EEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQ-LKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~-i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      .+....+++|||+|||+++++++|+++|+.||.|..|+ +......  +.|||+|.+.++|.+|++.|||..|.   |+.
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~--~~afV~f~~~~~a~~Ai~~l~g~~~~---g~~   83 (96)
T 2e44_A            9 VPKRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET--AVVNVTYSSKDQARQALDKLNGFQLE---NFT   83 (96)
T ss_dssp             CCCCCSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSS--EEEEEEESSHHHHHHHHHHHTTCBCS---SCB
T ss_pred             CCCCCCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCC--CEEEEEECCHHHHHHHHHHhCCCEEC---CcE
Confidence            34445678999999999999999999999999999995 5533222  24999999999999999999999998   999


Q ss_pred             EEEEEeecC
Q 023143          108 LHIELARSN  116 (286)
Q Consensus       108 l~v~~~~~~  116 (286)
                      |+|+++...
T Consensus        84 l~V~~a~~~   92 (96)
T 2e44_A           84 LKVAYIPDE   92 (96)
T ss_dssp             CEEEECCCC
T ss_pred             EEEEEcCcc
Confidence            999998765

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

Probab=99.72  E-value=1.4e-16  Score=119.26  Aligned_cols=78  Identities=18%  Similarity=0.124  Sum_probs=68.2

Q ss_pred             CCCe--EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeE-EEEEEcCHHHHHHHHHHhCCCccCCCCC--CeE
Q 023143           34 GINT--LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVV-AFATFVNHQTAVAALHELNGVKFDPQSG--SVL  108 (286)
Q Consensus        34 ~~~~--lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~-aFV~F~~~~~A~~A~~~l~g~~~~~~~g--~~l  108 (286)
                      ++++  |||+||++.+++++|+++|+.||.|.+|+|.. ..   +| |||+|.+.++|.+|++.|||..|.   |  +.|
T Consensus        22 ps~vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~-~~---Gf~aFVef~~~~~A~~A~~~LnG~~i~---g~~~~l   94 (124)
T 2e5i_A           22 GNKVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK-RN---GIQAMVEFESVLCAQKAKAALNGADIY---AGCCTL   94 (124)
T ss_dssp             CCSEEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE-SS---SEEEEEEESSHHHHHHHHHHHTTCCCB---TTBSEE
T ss_pred             CCcEEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe-CC---CCEEEEEECCHHHHHHHHHHhCCCEec---CCCeEE
Confidence            4544  67999999999999999999999999999863 22   46 999999999999999999999997   6  699


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      +|++++...-
T Consensus        95 ~V~~Ak~~~l  104 (124)
T 2e5i_A           95 KIEYARPTRL  104 (124)
T ss_dssp             EEECCSCSCC
T ss_pred             EEEEecCCcc
Confidence            9999987653

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

Probab=99.72  E-value=1.8e-17  Score=120.55  Aligned_cols=81  Identities=19%  Similarity=0.238  Sum_probs=71.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..+.++|||+|||+++|+++|+++|+.||.|.+|++..+.. ..++||||+|.+.++|.+|+. ++|..+.   |+.|.|
T Consensus         8 ~~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~---gr~l~V   83 (103)
T 1s79_A            8 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYK---ETDLLI   83 (103)
T ss_dssp             CSGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCT---TTTCEE
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEEC---CEEEEE
Confidence            44679999999999999999999999999999999984422 234599999999999999999 8999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .++...
T Consensus        84 ~~~~~~   89 (103)
T 1s79_A           84 LFKDDY   89 (103)
T ss_dssp             EEHHHH
T ss_pred             EEchHH
Confidence            987653

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.72  E-value=6.2e-17  Score=116.51  Aligned_cols=79  Identities=23%  Similarity=0.411  Sum_probs=68.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ...+++|||+|||.++++++|+++|+.||.|. +.+...  ..++||||+|.+.++|.+|++.|||..|.   |+.|+|+
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~V~   89 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ--GPRRRAFLHYPDSAAAQQAVSCLQGLRLG---TDTLRVA   89 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE--TTTTEEEEECSSHHHHHHHHHHHTTCCSS---SSCCEEE
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC--CCCcEEEEEECCHHHHHHHHHHhCCCEEC---CcEEEEE
Confidence            34578999999999999999999999999996 555532  12339999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      +++..
T Consensus        90 ~a~~~   94 (97)
T 2e5j_A           90 LARQQ   94 (97)
T ss_dssp             ECCCC
T ss_pred             EcCCC
Confidence            98754

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.72  E-value=2.9e-17  Score=127.93  Aligned_cols=80  Identities=20%  Similarity=0.267  Sum_probs=72.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...+.++|||+|||+++++++|+++|+.||.|.+|++....++   ||||+|.+.++|.+|++.|||..|.   |++|+|
T Consensus        69 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g---~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~v  142 (150)
T 2i2y_A           69 SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG---FAFVEFEDPRDAADAVRELDGRTLC---GCRVRV  142 (150)
T ss_dssp             SSTTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSSCS---EEEEEESSHHHHHHHHHHHSSSCSS---SSCCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCCCc---EEEEEECCHHHHHHHHHHcCCCEEC---CeEEEE
Confidence            3557899999999999999999999999999999999854344   9999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|++..
T Consensus       143 ~~a~~~  148 (150)
T 2i2y_A          143 ELSNGE  148 (150)
T ss_dssp             EECCCC
T ss_pred             EEcCCC
Confidence            998754

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

Probab=99.72  E-value=7.5e-18  Score=122.25  Aligned_cols=79  Identities=27%  Similarity=0.310  Sum_probs=69.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEe---ecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMR---ARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~---~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +.++|||+|||.++|+++|+++|++||.|..+.+.   .+.++|||||+|.+.++|.+|++ |||..+.   |+.|+|+|
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~---g~~l~V~~   91 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVF---GNEIKLEK   91 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBT---TBCCEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEEC---CcEEEEEE
Confidence            58899999999999999999999999988762222   26778999999999999999998 9999999   56999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+..
T Consensus        92 a~~~~~   97 (101)
T 1fj7_A           92 PKGRDG   97 (101)
T ss_dssp             CSCCCC
T ss_pred             cCCCCC
Confidence            987643

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.71  E-value=3.4e-17  Score=115.71  Aligned_cols=78  Identities=24%  Similarity=0.532  Sum_probs=70.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ..+++|||+|||.++++++|+++|+.| .|..|++. ..++   ||||+|.+.++|.+|++.|||..+.   |+.|+|++
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~-~~~g---~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~V~~   74 (88)
T 1wg1_A            3 SGSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD-RNKR---TAFVTLLNGEQAQNAIQMFHQYSFR---GKDLIVQL   74 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE-GGGT---EEEECCSCHHHHHHHHHHHTTEEET---TEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe-CCCc---EEEEEECCHHHHHHHHHHhCCCeEC---CcEEEEEE
Confidence            457899999999999999999999999 99999885 4444   9999999999999999999999998   99999999


Q ss_pred             eecCCC
Q 023143          113 ARSNSR  118 (286)
Q Consensus       113 ~~~~~~  118 (286)
                      +.....
T Consensus        75 a~~~~~   80 (88)
T 1wg1_A           75 QPTDAL   80 (88)
T ss_dssp             CCCCCC
T ss_pred             cCCCce
Confidence            876543

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=2.6e-17  Score=121.09  Aligned_cols=84  Identities=19%  Similarity=0.270  Sum_probs=71.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC-ccEEEEE-ecCC--CCeeEEEEEEcCHHHHHHHHHHhC--CCccCCCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPG-FDFCQLK-YTGR--GNQVVAFATFVNHQTAVAALHELN--GVKFDPQS  104 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~-i~~v~i~-~~~~--~~~~~aFV~F~~~~~A~~A~~~l~--g~~~~~~~  104 (286)
                      .+.++++|||+|||.++++++|+++|+.||. |..|.+. ....  ..++||||+|.+.++|.+|++.|+  +..+.   
T Consensus         4 ~s~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~---   80 (109)
T 2dis_A            4 GSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW---   80 (109)
T ss_dssp             CCCCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBT---
T ss_pred             cccCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceec---
Confidence            3456899999999999999999999999998 9999876 2211  234599999999999999999996  58898   


Q ss_pred             CCeEEEEEeecCC
Q 023143          105 GSVLHIELARSNS  117 (286)
Q Consensus       105 g~~l~v~~~~~~~  117 (286)
                      |+.|+|+|++...
T Consensus        81 g~~l~V~~a~~~~   93 (109)
T 2dis_A           81 GHQIAVDWAEPEI   93 (109)
T ss_dssp             TBCCEEEESCSSC
T ss_pred             CCeEEEEEcCCCC
Confidence            9999999997643

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=1.3e-16  Score=116.00  Aligned_cols=85  Identities=19%  Similarity=0.250  Sum_probs=72.5

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      .....+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++  ++..|.   |+
T Consensus         9 ~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~---g~   83 (103)
T 2cqg_A            9 KRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMID---GR   83 (103)
T ss_dssp             SCCCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEET---TE
T ss_pred             CCccCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeC---Ce
Confidence            34456789999999999999999999999999999999985532  234599999999999999998  467887   99


Q ss_pred             eEEEEEeecCCC
Q 023143          107 VLHIELARSNSR  118 (286)
Q Consensus       107 ~l~v~~~~~~~~  118 (286)
                      .|.|+++.....
T Consensus        84 ~l~v~~a~~~~~   95 (103)
T 2cqg_A           84 WCDCKLPNSKQS   95 (103)
T ss_dssp             EEEEECCCTTCC
T ss_pred             EEEEEecCCCCc
Confidence            999999876544

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

Probab=99.71  E-value=1.4e-16  Score=114.69  Aligned_cols=77  Identities=26%  Similarity=0.352  Sum_probs=69.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++++|||+||  ++++++|+++|+.||.|..|.+. ..++   ||||+|.+.++|.+|++.|+|..|.   |+.|+|+
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~-~~~g---~afV~f~~~~~a~~Ai~~l~g~~~~---g~~l~v~   82 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD-PPRN---CAFVTYEKMESADQAVAELNGTQVE---SVQLKVN   82 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHTTTEEET---TEEEEEE
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec-CCCC---EEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEE
Confidence            456799999996  89999999999999999999886 4455   9999999999999999999999998   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      |++...
T Consensus        83 ~a~~~~   88 (97)
T 1x5p_A           83 IARKQP   88 (97)
T ss_dssp             CCSSCC
T ss_pred             ECCCCC
Confidence            987654

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

Probab=99.71  E-value=2.7e-17  Score=118.16  Aligned_cols=82  Identities=16%  Similarity=0.292  Sum_probs=70.9

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      .+...+.++|||+|||..+++++|+++|+.||.|..+  . .....++||||+|.+.++|.+|++.|+|..|.   |+.|
T Consensus        10 ~~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~--~-~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l   83 (96)
T 1fjc_A           10 SKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV--S-QDGKSKGIAYIEFKSEADAEKNLEEKQGAEID---GRSV   83 (96)
T ss_dssp             TSTTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE--E-ETTEEEEEEEEEESSHHHHHHHHHHTTEEEET---TEEE
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe--C-CCCCcceEEEEEECCHHHHHHHHHHhCCCEEC---CeEE
Confidence            3445678999999999999999999999999998776  3 22334569999999999999999999999998   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|+++...
T Consensus        84 ~v~~a~~~   91 (96)
T 1fjc_A           84 SLYYTGEK   91 (96)
T ss_dssp             EEEECSSS
T ss_pred             EEEEcCCC
Confidence            99998654

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=2.8e-17  Score=119.23  Aligned_cols=81  Identities=19%  Similarity=0.292  Sum_probs=68.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec-CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT-GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~-~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|   ++... ....++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   84 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIE---GRAIR   84 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEET---TEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeC---CeEEE
Confidence            35578999999999999999999999999987   33322 2223449999999999999999999999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |++++...
T Consensus        85 v~~a~~~~   92 (101)
T 2fc9_A           85 LELQGPRG   92 (101)
T ss_dssp             EEECSSCC
T ss_pred             EEEcCCCC
Confidence            99987653

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

Probab=99.71  E-value=4e-17  Score=119.24  Aligned_cols=85  Identities=15%  Similarity=0.213  Sum_probs=73.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++. ++..|.   |+.
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~---g~~   86 (105)
T 2dh8_A           11 SGADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLD---GRN   86 (105)
T ss_dssp             CCSSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEET---TEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeEC---CEE
Confidence            3456789999999999999999999999999999999985422  2345999999999999999998 999998   999


Q ss_pred             EEEEEeecCCC
Q 023143          108 LHIELARSNSR  118 (286)
Q Consensus       108 l~v~~~~~~~~  118 (286)
                      |+|+++.....
T Consensus        87 l~V~~a~~~~~   97 (105)
T 2dh8_A           87 IDPKPCTPRGM   97 (105)
T ss_dssp             EBCCCSCCSSC
T ss_pred             EEEEEccCCCC
Confidence            99999876543

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=7.5e-17  Score=117.61  Aligned_cols=77  Identities=16%  Similarity=0.140  Sum_probs=69.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++|+++|+++|++||.|.. |++..   ++++|||||+|.+.++|.+||+. ||..++   |+.|+|.
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~---gr~i~v~   89 (104)
T 1wg5_A           14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIG---HRYIEIF   89 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSS---SSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhC---CcEEEEE
Confidence            5789999999999999999999999999987 77764   56688999999999999999998 999998   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      ++..+
T Consensus        90 ~~~~~   94 (104)
T 1wg5_A           90 KSSRA   94 (104)
T ss_dssp             EECTT
T ss_pred             ECCHH
Confidence            98654

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

Probab=99.71  E-value=3e-17  Score=124.83  Aligned_cols=83  Identities=17%  Similarity=0.241  Sum_probs=72.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE--EEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCC----ccC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF--CQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGV----KFD  101 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~----~~~  101 (286)
                      ....++++|||+|||+++|+++|+++|+.||.|..  |+|..+.  ...++||||+|.+. +|.+|++.|||.    .+.
T Consensus        18 ~~~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~   96 (131)
T 2m2b_A           18 SSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTID   96 (131)
T ss_dssp             CCSCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGG
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCC
Confidence            34567899999999999999999999999999966  8887543  22345999999999 999999999999    898


Q ss_pred             CCCCCeEEEEEeecC
Q 023143          102 PQSGSVLHIELARSN  116 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~  116 (286)
                         |+.|+|++++..
T Consensus        97 ---gr~l~V~~a~~~  108 (131)
T 2m2b_A           97 ---GKTINVEFAKGS  108 (131)
T ss_dssp             ---GCCCCCEECCCS
T ss_pred             ---CEEEEEEECCCC
Confidence               999999999764

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.71  E-value=2.3e-17  Score=123.16  Aligned_cols=77  Identities=10%  Similarity=0.116  Sum_probs=69.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCC---ceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPG---FNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~---v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++|||+|||.++|+++|+++|+.||.   |..|+++.   ++++|||||+|.+.++|.+||+ |||..|.   |+.|+
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~---gr~i~   91 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMG---HRYIE   91 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEET---TEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeEC---CeEEE
Confidence            4789999999999999999999999999   88999876   4567899999999999999999 9999998   55999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |.++..+
T Consensus        92 V~~a~~~   98 (118)
T 2db1_A           92 VFKSHRT   98 (118)
T ss_dssp             EEEECHH
T ss_pred             EEECCHH
Confidence            9998643

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

Probab=99.71  E-value=4.1e-17  Score=116.75  Aligned_cols=79  Identities=16%  Similarity=0.243  Sum_probs=68.1

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .....++|||+|||.++++++|+++|+.||.|..| +. .....+ ||||+|.+.++|.+|++ |+|..|.   |+.|+|
T Consensus         4 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v-~~-~~~~g~-~afV~f~~~~~a~~ai~-l~g~~~~---g~~l~V   76 (94)
T 2e5g_A            4 GSSGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV-VM-DKDKGV-FAIVEMGDVGAREAVLS-QSQHSLG---GHRLRV   76 (94)
T ss_dssp             CCTTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE-EE-CSSSCC-EEEEEESSHHHHHHHHT-CSCCEET---TEECCC
T ss_pred             ccCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE-EE-cCCCCc-EEEEEECCHHHHHHHHh-cCCeEEC---CEEEEE
Confidence            34567899999999999999999999999999987 33 322223 99999999999999999 9999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +++...
T Consensus        77 ~~a~~~   82 (94)
T 2e5g_A           77 RPREQK   82 (94)
T ss_dssp             BCSCCS
T ss_pred             EECCcC
Confidence            977543

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

Probab=99.71  E-value=1.3e-16  Score=113.34  Aligned_cols=81  Identities=16%  Similarity=0.209  Sum_probs=71.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...+.++|||+|||+++++++|+++|+.| .|..|++.....+ .++||||+|.+.++|.+|++ |+|..|.   |+.|.
T Consensus         6 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~---gr~i~   80 (91)
T 2dgw_A            6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMG---GRYIE   80 (91)
T ss_dssp             CCCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEET---TEEEE
T ss_pred             CCCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeC---CcEEE
Confidence            34567999999999999999999999999 8999999865322 35599999999999999999 9999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus        81 v~~a~~~   87 (91)
T 2dgw_A           81 VFREKSG   87 (91)
T ss_dssp             EEEESSC
T ss_pred             EEECCcC
Confidence            9998754

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

Probab=99.71  E-value=9.5e-18  Score=126.37  Aligned_cols=81  Identities=14%  Similarity=0.223  Sum_probs=71.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .+.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|+ .|+|..|.   |+.|+|
T Consensus        34 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~---g~~l~V  109 (124)
T 2jwn_A           34 IDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFR---GRTIKV  109 (124)
T ss_dssp             HHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEET---TEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeEC---CeEEEE
Confidence            356899999999999999999999999999999988542  233569999999999999999 79999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      ++++...
T Consensus       110 ~~a~~~~  116 (124)
T 2jwn_A          110 LPKRTNM  116 (124)
T ss_dssp             EESSCCC
T ss_pred             EECCCCC
Confidence            9987643

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

Probab=99.71  E-value=5.5e-18  Score=118.95  Aligned_cols=79  Identities=13%  Similarity=0.146  Sum_probs=68.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|||..+.   |+.+++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~~~~   79 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQ---AQMAKQ   79 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCC---EESCCS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEe---eEEEee
Confidence            4689999999999999999999999999999999885421  22449999999999999999999999998   888877


Q ss_pred             EEee
Q 023143          111 ELAR  114 (286)
Q Consensus       111 ~~~~  114 (286)
                      .+++
T Consensus        80 ~~~~   83 (85)
T 1x4e_A           80 SGPS   83 (85)
T ss_dssp             SCCC
T ss_pred             cCCC
Confidence            6653

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.70  E-value=8.9e-17  Score=116.73  Aligned_cols=81  Identities=20%  Similarity=0.338  Sum_probs=68.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||.++++++|+++|+.|+   .|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~   85 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEID---GNKVT   85 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeEC---CeEEE
Confidence            45789999999999999999999999885   44555332  223459999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+|++....
T Consensus        86 V~~a~~~~~   94 (102)
T 2fc8_A           86 LDWAKPKGE   94 (102)
T ss_dssp             EEECCCCCS
T ss_pred             EEEecCCCC
Confidence            999987544

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.70  E-value=1.8e-16  Score=117.52  Aligned_cols=86  Identities=19%  Similarity=0.284  Sum_probs=72.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCC-----C
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDP-----Q  103 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~-----~  103 (286)
                      ....+.++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.|||..|..     .
T Consensus        20 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~   99 (114)
T 1x5o_A           20 QQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSA   99 (114)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccC
Confidence            44567799999999999999999999999999999999855322 34599999999999999999999999831     1


Q ss_pred             CCCeEEEEEeec
Q 023143          104 SGSVLHIELARS  115 (286)
Q Consensus       104 ~g~~l~v~~~~~  115 (286)
                      .+++|.|.|+..
T Consensus       100 ~~~~l~v~~a~p  111 (114)
T 1x5o_A          100 PTEPLLCKFSGP  111 (114)
T ss_dssp             CSSCBEEEECCC
T ss_pred             CCCceeEEccCC
Confidence            278899999874

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.70  E-value=1.1e-16  Score=125.35  Aligned_cols=83  Identities=16%  Similarity=0.210  Sum_probs=74.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||.++|+++|+++|+.||.|..|.|.....  ..++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~  112 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLD---DRIIR  112 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEE
Confidence            45779999999999999999999999999999999985533  23459999999999999999999999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |+|++...
T Consensus       113 V~~a~~~~  120 (156)
T 1h2v_Z          113 TDWDAGFK  120 (156)
T ss_dssp             EEEESCCC
T ss_pred             EEECCCCC
Confidence            99997643

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

Probab=99.70  E-value=8e-17  Score=128.74  Aligned_cols=81  Identities=17%  Similarity=0.258  Sum_probs=74.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ..++++|||+|||..+++++|+++|++||.|..|.+..   +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        85 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~---Gr~l~V  161 (177)
T 2f3j_A           85 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD---GRPMDI  161 (177)
T ss_dssp             CTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCS---SSBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            34589999999999999999999999999999999987   556789999999999999999999999998   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +||....
T Consensus       162 ~~a~~~~  168 (177)
T 2f3j_A          162 QLVASQI  168 (177)
T ss_dssp             EEESSGG
T ss_pred             EEecCCC
Confidence            9998654

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.70  E-value=8.7e-17  Score=120.00  Aligned_cols=82  Identities=13%  Similarity=0.153  Sum_probs=72.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC---ccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPG---FDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~---i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      +...+.++|||+|||+++|+++|+++|+.||.   |..|+|.....+ .++||||+|.+.++|.+|++ ++|..|.   |
T Consensus        12 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~---g   87 (118)
T 2db1_A           12 PEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMG---H   87 (118)
T ss_dssp             SCBCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEET---T
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeEC---C
Confidence            34556899999999999999999999999999   889998865443 25599999999999999999 9999998   9


Q ss_pred             CeEEEEEeec
Q 023143          106 SVLHIELARS  115 (286)
Q Consensus       106 ~~l~v~~~~~  115 (286)
                      +.|+|.++..
T Consensus        88 r~i~V~~a~~   97 (118)
T 2db1_A           88 RYIEVFKSHR   97 (118)
T ss_dssp             EEEEEEEECH
T ss_pred             eEEEEEECCH
Confidence            9999998864

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

Probab=99.70  E-value=2.4e-17  Score=112.77  Aligned_cols=73  Identities=15%  Similarity=0.273  Sum_probs=65.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++ ++|..+.   |+.|+|+++
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~---g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEIN---NKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSS---SCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEEC---CEEEEEEeC
Confidence            59999999999999999999999999999887442  2234599999999999999998 9999998   999999875

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

Probab=99.70  E-value=5e-17  Score=116.29  Aligned_cols=78  Identities=10%  Similarity=0.188  Sum_probs=67.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      ..++|||+|||.++++++|+++|++||.|..|.+....++ ||||+|.+.++|.+|++ |||..+.   |+.|+|.++..
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~~~~~~g~-~afV~f~~~~~a~~ai~-l~g~~~~---g~~l~V~~a~~   81 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGV-FAIVEMGDVGAREAVLS-QSQHSLG---GHRLRVRPREQ   81 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEEEECSSSCC-EEEEEESSHHHHHHHHT-CSCCEET---TEECCCBCSCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEcCCCCc-EEEEEECCHHHHHHHHh-cCCeEEC---CEEEEEEECCc
Confidence            4789999999999999999999999999999833333333 99999999999999999 9999999   55999999876


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      +..
T Consensus        82 ~~~   84 (94)
T 2e5g_A           82 KEF   84 (94)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            543

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.70  E-value=3.2e-17  Score=125.03  Aligned_cols=77  Identities=9%  Similarity=0.085  Sum_probs=69.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCC---ceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPG---FNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~---v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++|||+|||.++|+++|+++|++||.   |..|+++.   ++++|||||+|.+.++|.+||+ |||..|.   |+.|+
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~---gr~i~  118 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMG---HRYIE  118 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESS---SSEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEEC---CEEEE
Confidence            4789999999999999999999999999   88898876   4567899999999999999999 9999999   55999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |.+|..+
T Consensus       119 V~~a~~~  125 (136)
T 2hgl_A          119 VFKSHRT  125 (136)
T ss_dssp             EEECCHH
T ss_pred             EEECChH
Confidence            9998643

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

Probab=99.70  E-value=1.1e-16  Score=125.68  Aligned_cols=83  Identities=19%  Similarity=0.336  Sum_probs=73.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....++|||+|||+++++++|+++|+.||.|..|++..+  ....++||||+|.+.++|.+|++.|||..|.   |++|+
T Consensus        67 ~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~  143 (158)
T 2kn4_A           67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD---GRELR  143 (158)
T ss_dssp             CCBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESS---SSEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEE
Confidence            455789999999999999999999999999999988754  2224559999999999999999999999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |++++...
T Consensus       144 v~~a~~~~  151 (158)
T 2kn4_A          144 VQMARYGR  151 (158)
T ss_dssp             EEEECCSS
T ss_pred             EEECCCCC
Confidence            99997653

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.69  E-value=3e-17  Score=120.41  Aligned_cols=77  Identities=12%  Similarity=0.029  Sum_probs=69.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCC---ceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPG---FNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~---v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++|||+|||.++|+++|+++|+.||.   |..|+++.   ++++|||||+|.+.++|.+||+ +||..++   |+.|+
T Consensus        10 ~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~---gr~i~   85 (107)
T 2lmi_A           10 DVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMG---QRYVE   85 (107)
T ss_dssp             SCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSS---SSCCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeC---CeEEE
Confidence            5889999999999999999999999888   89999876   5568899999999999999999 9999998   55999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |.++..+
T Consensus        86 V~~a~~~   92 (107)
T 2lmi_A           86 VYEINNE   92 (107)
T ss_dssp             CEECCHH
T ss_pred             EEECCHH
Confidence            9998753

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.69  E-value=3.4e-17  Score=136.25  Aligned_cols=78  Identities=14%  Similarity=0.109  Sum_probs=70.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCC--CceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYP--GFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G--~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..++|||+||+.++|+++|+++|++||  .|..|+|+.    ++++|||||+|.+.++|.+||+.|||..|.   |+.|+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~---Gr~l~  143 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH---GQNPV  143 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBT---TBCCE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeEC---CEEeE
Confidence            478999999999999999999999999  999999987    446789999999999999999999999999   55999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |.||+.+
T Consensus       144 V~~a~~~  150 (229)
T 3q2s_C          144 VTPVNKQ  150 (229)
T ss_dssp             EEECCHH
T ss_pred             EEECCCC
Confidence            9998753

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=1.7e-16  Score=115.75  Aligned_cols=83  Identities=18%  Similarity=0.168  Sum_probs=70.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE-EEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF-CQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~-v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      +...+.++|||+|||+++|+++|+++|+.||.|.. |+|.....+ .++||||+|.+.++|.+|++. ++..|.   |+.
T Consensus        10 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~---gr~   85 (104)
T 1wg5_A           10 PDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIG---HRY   85 (104)
T ss_dssp             SSCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSS---SSC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhC---CcE
Confidence            34556799999999999999999999999999987 777644222 245999999999999999997 999998   999


Q ss_pred             EEEEEeecC
Q 023143          108 LHIELARSN  116 (286)
Q Consensus       108 l~v~~~~~~  116 (286)
                      |.|.++...
T Consensus        86 i~v~~~~~~   94 (104)
T 1wg5_A           86 IEIFKSSRA   94 (104)
T ss_dssp             CEEEEECTT
T ss_pred             EEEEECCHH
Confidence            999987543

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.69  E-value=5.2e-17  Score=125.44  Aligned_cols=82  Identities=24%  Similarity=0.341  Sum_probs=71.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE--------EEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF--------CQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDP  102 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~  102 (286)
                      ...++++|||+|||+++|+++|+++|+.||.|..        +++... ...++||||+|.+.++|.+|++.|||..|. 
T Consensus        41 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~-g~~~g~afV~f~~~~~A~~Ai~~lng~~~~-  118 (143)
T 3egn_A           41 PGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKE-GRMKGQAFIGLPNEKAAAKALKEANGYVLF-  118 (143)
T ss_dssp             CCSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEE-TTTEEEEEEECSSHHHHHHHHHHHTTBEET-
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccC-CCcccEEEEEeCCHHHHHHHHHHhCCCEeC-
Confidence            3567899999999999999999999999999976        333333 334669999999999999999999999998 


Q ss_pred             CCCCeEEEEEeecC
Q 023143          103 QSGSVLHIELARSN  116 (286)
Q Consensus       103 ~~g~~l~v~~~~~~  116 (286)
                        |+.|+|++++..
T Consensus       119 --g~~l~V~~a~~~  130 (143)
T 3egn_A          119 --GKPMVVQFARSA  130 (143)
T ss_dssp             --TEECEEEECCCS
T ss_pred             --CcEEEEEECCCC
Confidence              999999999764

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.69  E-value=5.8e-17  Score=118.95  Aligned_cols=75  Identities=5%  Similarity=0.012  Sum_probs=67.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ...+|||+|||.++|+++|+++|+.| .|..|+|+.   ++++|||||+|.+.++|.+|| .|||..|+   |+.|.|..
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~---gr~i~V~~   89 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMI---QRYVEVSP   89 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEET---TEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeEC---CeEEEEEE
Confidence            36899999999999999999999999 899999876   567889999999999999999 79999999   55999988


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      +..
T Consensus        90 a~~   92 (109)
T 2dnn_A           90 ATE   92 (109)
T ss_dssp             CCH
T ss_pred             CCc
Confidence            754

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

Probab=99.69  E-value=7e-17  Score=120.14  Aligned_cols=83  Identities=18%  Similarity=0.277  Sum_probs=72.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++. ++..|.   |+.|+
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~---g~~l~   99 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSID---GRVVE   99 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEET---TEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEEC---CEEEE
Confidence            34569999999999999999999999999999999985422  2244999999999999999998 999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++.....
T Consensus       100 V~~a~~~~~  108 (116)
T 1x4b_A          100 PKRAVAREE  108 (116)
T ss_dssp             EECCSSCCC
T ss_pred             EEECCCCcc
Confidence            999876543

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=1.2e-16  Score=116.08  Aligned_cols=76  Identities=13%  Similarity=0.112  Sum_probs=67.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..++|||+|||.++|+++|+++|++||.+ .|+++.   ++++|||||+|.+.++|.+|| .+|+..|.   |+.|+|.+
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~---gr~i~V~~   88 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQ---HRYVELFL   88 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSS---SSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHH-HhCCCeEC---CcEEEEEE
Confidence            47899999999999999999999999955 888876   456789999999999999999 57999998   55999998


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      +...
T Consensus        89 ~~~~   92 (102)
T 1wez_A           89 NSTA   92 (102)
T ss_dssp             ECCC
T ss_pred             CCCC
Confidence            8754

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

Probab=99.69  E-value=2.1e-17  Score=119.91  Aligned_cols=81  Identities=16%  Similarity=0.194  Sum_probs=67.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|.. .+...  ....++||||+|.+.++|.+|++ |+|..|.   |+.|
T Consensus        13 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~---g~~l   87 (101)
T 1fj7_A           13 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVF---GNEI   87 (101)
T ss_dssp             TCSCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBT---TBCC
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEEC---CcEE
Confidence            3456789999999999999999999999999876 22211  11123399999999999999999 9999998   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|++++..
T Consensus        88 ~V~~a~~~   95 (101)
T 1fj7_A           88 KLEKPKGR   95 (101)
T ss_dssp             EEECCSCC
T ss_pred             EEEEcCCC
Confidence            99998754

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.69  E-value=9.7e-17  Score=122.39  Aligned_cols=82  Identities=13%  Similarity=0.136  Sum_probs=72.1

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC---ccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPG---FDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~---i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      +...+.++|||+|||+++|+++|+++|+.||.   |..|+|..+..+ .++||||+|.+.++|.+|++ ++|..|.   |
T Consensus        39 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~---g  114 (136)
T 2hgl_A           39 PEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMG---H  114 (136)
T ss_dssp             SSCCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESS---S
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEEC---C
Confidence            34567889999999999999999999999999   889998865443 34599999999999999999 9999998   9


Q ss_pred             CeEEEEEeec
Q 023143          106 SVLHIELARS  115 (286)
Q Consensus       106 ~~l~v~~~~~  115 (286)
                      |.|.|.++..
T Consensus       115 r~i~V~~a~~  124 (136)
T 2hgl_A          115 RYIEVFKSHR  124 (136)
T ss_dssp             SEEEEEECCH
T ss_pred             EEEEEEECCh
Confidence            9999998754

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

Probab=99.69  E-value=1.2e-16  Score=122.70  Aligned_cols=80  Identities=23%  Similarity=0.331  Sum_probs=70.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||..+++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.|
T Consensus        59 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l  135 (140)
T 2ku7_A           59 SATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTI  135 (140)
T ss_dssp             SCSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEET---TEEE
T ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEEC---CEEE
Confidence            35578999999999999999999999999999999887442  223449999999999999999999999998   9999


Q ss_pred             EEEEe
Q 023143          109 HIELA  113 (286)
Q Consensus       109 ~v~~~  113 (286)
                      +|+++
T Consensus       136 ~v~~A  140 (140)
T 2ku7_A          136 RVNLA  140 (140)
T ss_dssp             EEEC-
T ss_pred             EEEeC
Confidence            99875

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

Probab=99.69  E-value=2.9e-17  Score=125.53  Aligned_cols=83  Identities=19%  Similarity=0.336  Sum_probs=73.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||.++|+++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..|.   |+.|+
T Consensus        44 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~---g~~l~  120 (135)
T 2lea_A           44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD---GRELR  120 (135)
T ss_dssp             GGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSS---SSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            4567899999999999999999999999999999887432  223449999999999999999999999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |+|++...
T Consensus       121 V~~a~~~~  128 (135)
T 2lea_A          121 VQMARYGR  128 (135)
T ss_dssp             EEECCCCC
T ss_pred             EEECCCCC
Confidence            99997643

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

Probab=99.51  E-value=2e-18  Score=128.59  Aligned_cols=81  Identities=14%  Similarity=0.227  Sum_probs=73.0

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceE--------EEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNM--------LKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~--------v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      +++++|||+|||.++++++|+++|++||.|..        |+++.    +.+++||||+|.+.++|.+|++.|||..+. 
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~-   83 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS-   83 (116)
Confidence            46899999999999999999999999999998        77765    456789999999999999999999999999 


Q ss_pred             CCCCcEEEEEeccccC
Q 023143          269 SDRGGMHIEYARSKMR  284 (286)
Q Consensus       269 ~~g~~l~V~~ak~~~~  284 (286)
                        |+.|+|+||+.+..
T Consensus        84 --g~~l~V~~a~~~~~   97 (116)
T 2lcw_A           84 --GNPIKVSFATRRAD   97 (116)
Confidence              55999999987643

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.69  E-value=1.7e-17  Score=117.65  Aligned_cols=78  Identities=15%  Similarity=0.290  Sum_probs=67.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++|||+|||.++++++|+++|+.||.|..|++..+.  ...++||||+|.+.+ |.+|++.|||..+.   |+.|+|+++
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~---g~~l~V~~a   77 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFM---GRTIRVTEA   77 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCS---SSSCSEEEC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEEC---CeEEEEEEc
Confidence            689999999999999999999999999999988442  223569999999999 99999999999998   999999998


Q ss_pred             ecCC
Q 023143          114 RSNS  117 (286)
Q Consensus       114 ~~~~  117 (286)
                      ....
T Consensus        78 ~~~~   81 (90)
T 2ki2_A           78 NPKK   81 (90)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            7643

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

Probab=99.68  E-value=8.1e-17  Score=132.70  Aligned_cols=79  Identities=18%  Similarity=0.339  Sum_probs=71.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .|.++|||+|||.++|+++|+++|++||.|.+|++++    ++++|||||+|.+.++|.+|++.+||..+.   |+.|++
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~---g~~i~~   89 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIK---GKPVRI   89 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcC---Cccccc
Confidence            3688999999999999999999999999999999987    456789999999999999999999999999   559999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      .++...
T Consensus        90 ~~~~~~   95 (213)
T 4f02_A           90 MWSQRD   95 (213)
T ss_dssp             EECCCC
T ss_pred             cccccc
Confidence            998754

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

Probab=99.68  E-value=5.2e-17  Score=111.62  Aligned_cols=74  Identities=15%  Similarity=0.256  Sum_probs=65.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.++ ..+.   |+.|+|+++
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~---g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELD---SKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCS---SCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccC---CEEEEEEec
Confidence            4799999999999999999999999999999884422  224599999999999999999999 8888   999999986

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.68  E-value=2.2e-16  Score=124.84  Aligned_cols=84  Identities=20%  Similarity=0.296  Sum_probs=73.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||..+++++|+++|+.||.|..|.|......  .++||||+|.+.++|.+|++.|||..|.   |+.|.
T Consensus        69 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~  145 (165)
T 1rk8_A           69 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTIQ  145 (165)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            456889999999999999999999999999999999854222  3459999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |.|+.....
T Consensus       146 V~~a~~~~~  154 (165)
T 1rk8_A          146 VDWCFVKGP  154 (165)
T ss_dssp             EEESEECC-
T ss_pred             EEEecCCCC
Confidence            999986543

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.68  E-value=3.4e-17  Score=112.03  Aligned_cols=71  Identities=17%  Similarity=0.323  Sum_probs=64.8

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +|||+|||.++++++|+++|++||.|..+.+..    +.++|||||+|.+.++|.+|++. +|..+.   |+.|+|.+|
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~-~~~~~~---g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVG---LSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTT-SSCCBT---TBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHh-CCCeEC---CEEEEEEEC
Confidence            599999999999999999999999999999876    45678999999999999999986 899998   559999886

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.68  E-value=7e-17  Score=119.99  Aligned_cols=75  Identities=19%  Similarity=0.357  Sum_probs=64.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe----
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV----  107 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~----  107 (286)
                      .....+|||+|||+++++++|+++|+.||.|..|.|..+  +   ||||+|.+.++|.+||+.|||..|.   |+.    
T Consensus        13 ~r~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~--g---~afV~f~~~~~a~~Ai~~l~g~~~~---gr~~~~~   84 (115)
T 3beg_B           13 RRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--G---TGVVEFVRKEDMTYAVRKLDNTKFR---SHEGETA   84 (115)
T ss_dssp             ----CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT--S---EEEEEESSHHHHHHHHHHHTTCBCC---CTTSCCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC--C---EEEEEECCHHHHHHHHHHhCCCEEC---CcEeeeE
Confidence            345789999999999999999999999999999988743  3   9999999999999999999999998   988    


Q ss_pred             -EEEEEee
Q 023143          108 -LHIELAR  114 (286)
Q Consensus       108 -l~v~~~~  114 (286)
                       ++|....
T Consensus        85 ~i~v~~~~   92 (115)
T 3beg_B           85 YIRVKVDG   92 (115)
T ss_dssp             BCEEEECC
T ss_pred             EEEeccCC
Confidence             5555443

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.67  E-value=1e-16  Score=119.05  Aligned_cols=74  Identities=12%  Similarity=0.201  Sum_probs=65.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc-----EEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG-----MHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~-----l~V  276 (286)
                      ...+|||+|||.++++++|+++|++||.|..|.++..   +||||+|.+.++|.+||+.|||..|.+   +.     |+|
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~---g~afV~f~~~~~a~~Ai~~l~g~~~~g---r~~~~~~i~v   88 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD---GTGVVEFVRKEDMTYAVRKLDNTKFRS---HEGETAYIRV   88 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT---SEEEEEESSHHHHHHHHHHHTTCBCCC---TTSCCCBCEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC---CEEEEEECCHHHHHHHHHHhCCCEECC---cEeeeEEEEe
Confidence            3788999999999999999999999999999999876   899999999999999999999999994   47     666


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      ..++.
T Consensus        89 ~~~~~   93 (115)
T 3beg_B           89 KVDGP   93 (115)
T ss_dssp             EECC-
T ss_pred             ccCCC
Confidence            66544

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.67  E-value=2.6e-16  Score=114.31  Aligned_cols=80  Identities=19%  Similarity=0.237  Sum_probs=68.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..+.++|||+|||+++|+++|+++|+.||.+ .|+|..+..+ .++||||+|.+.++|.+|++ +++..|.   |+.|.|
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~---gr~i~V   86 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQ---HRYVEL   86 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSS---SSCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCCCeEC---CcEEEE
Confidence            3457899999999999999999999999955 8888865432 34599999999999999995 7999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .++...
T Consensus        87 ~~~~~~   92 (102)
T 1wez_A           87 FLNSTA   92 (102)
T ss_dssp             EEECCC
T ss_pred             EECCCC
Confidence            987643

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

Probab=99.67  E-value=2.4e-16  Score=114.88  Aligned_cols=78  Identities=18%  Similarity=0.132  Sum_probs=68.9

Q ss_pred             CCccEEEEccCCC-----CCCHHHHHHHHhcCCCceEEEEeec-----CCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          201 QPCSTLFIANLGP-----NCTEDELKQTLSVYPGFNMLKMRAR-----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       201 ~~~~~L~v~NL~~-----~~te~~L~~~F~~~G~v~~v~~~~~-----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                      .++++|+|+||..     .-++++|+++|++||.|.+|.+...     .++|||||+|.+.++|.+|++.|||..+.   
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~---   82 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFG---   82 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEET---
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEEC---
Confidence            3699999999973     3478999999999999999999863     56899999999999999999999999998   


Q ss_pred             CCcEEEEEecc
Q 023143          271 RGGMHIEYARS  281 (286)
Q Consensus       271 g~~l~V~~ak~  281 (286)
                      |+.|+|+|+..
T Consensus        83 Gr~i~v~~a~~   93 (105)
T 2pe8_A           83 GRVVKACFYNL   93 (105)
T ss_dssp             TEECEEEECCH
T ss_pred             CcEEEEEEcCH
Confidence            66999999864

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.67  E-value=1.8e-16  Score=119.34  Aligned_cols=81  Identities=14%  Similarity=0.183  Sum_probs=68.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec-CCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT-GRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~-~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||+++|+++|+++|+.||.|..+.++.. ..+ .++||||+|.+.++|.+|++ |||..|.   |+.|.
T Consensus        22 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~---gr~i~   97 (124)
T 1wel_A           22 HEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMG---NRFIQ   97 (124)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCST---TSCBE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeEC---CcEEE
Confidence            456789999999999999999999999999977444432 222 35599999999999999999 9999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus        98 V~~a~~~  104 (124)
T 1wel_A           98 VHPITKK  104 (124)
T ss_dssp             EEEECHH
T ss_pred             EEECCHH
Confidence            9998653

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.66  E-value=2e-16  Score=117.27  Aligned_cols=81  Identities=11%  Similarity=0.169  Sum_probs=70.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCc-cEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGF-DFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i-~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||+++|+++|+++|+.||.| ..|+|..+..+ .++||||+|.+.++|.+|++. ++..|.   |+.|.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~---gr~i~   87 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLN---GREAF   87 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEET---TEEEE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccC---CeEEE
Confidence            4567899999999999999999999999999 88988754322 344999999999999999987 999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus        88 v~~a~~~   94 (114)
T 2cpy_A           88 VHVVTLE   94 (114)
T ss_dssp             EEEECHH
T ss_pred             EEECCHH
Confidence            9998753

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

Probab=99.66  E-value=1.4e-16  Score=132.35  Aligned_cols=82  Identities=16%  Similarity=0.281  Sum_probs=70.6

Q ss_pred             CCCccEEEEccCCCCC---------CHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCC--
Q 023143          200 VQPCSTLFIANLGPNC---------TEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPS--  268 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~---------te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~--  268 (286)
                      ...+++|||+||+..+         ++++|+++|++||.|.+|+++..+  |||||+|.+.++|..|+++|||..|..  
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~k--G~AFV~F~~~~~Ae~A~~am~g~~l~~~~  208 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESK--NCGFVKFKYQANAEFAKEAMSNQTLLLPS  208 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGG--TEEEEEESSHHHHHHHHHHHTTCCCCCTT
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCC--CEEEEEeCCHHHHHHHHHHhCCCEEeccc
Confidence            4468999999999998         799999999999999999998754  999999999999999999999999910  


Q ss_pred             -------CCCCcEEEEEecccc
Q 023143          269 -------SDRGGMHIEYARSKM  283 (286)
Q Consensus       269 -------~~g~~l~V~~ak~~~  283 (286)
                             .+|+.|.|.||+...
T Consensus       209 ~~e~~~~~~gr~L~V~wA~~~p  230 (240)
T 3u1l_A          209 DKEWDDRREGTGLLVKWANEDP  230 (240)
T ss_dssp             STTGGGGGGSCCCEEEECC---
T ss_pred             cccccccCCCCEEEEEEccCCC
Confidence                   026699999998753

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

Probab=99.66  E-value=7.9e-17  Score=117.01  Aligned_cols=77  Identities=14%  Similarity=0.175  Sum_probs=69.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ++++|||+|||.++++++|+++|++||.|..|+++.   +.++|||||+|.+.++|.+|++  +|..+.   |+.|.|.+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~---g~~l~v~~   82 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFH---GKKLKLGP   82 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEET---TEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeEC---CEEEEEEE
Confidence            478999999999999999999999999999999988   3456899999999999999999  999998   55999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      +..+.
T Consensus        83 a~~~~   87 (102)
T 2xs2_A           83 AIRKQ   87 (102)
T ss_dssp             EEECC
T ss_pred             CCcCc
Confidence            87654

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.66  E-value=3e-16  Score=123.63  Aligned_cols=79  Identities=18%  Similarity=0.296  Sum_probs=71.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++++|||+|||.++++++|+++|+.||.|..+++...    .++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         1 s~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~---g~~l~v~   77 (167)
T 1fxl_A            1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQ---TKTIKVS   77 (167)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccC---CceEEEE
Confidence            3689999999999999999999999999999999873    35689999999999999999999999999   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |++...
T Consensus        78 ~~~~~~   83 (167)
T 1fxl_A           78 YARPSS   83 (167)
T ss_dssp             ECCCCC
T ss_pred             ecCCCc
Confidence            998653

>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=99.66  E-value=7.1e-16  Score=113.95  Aligned_cols=79  Identities=15%  Similarity=0.137  Sum_probs=69.4

Q ss_pred             CCccEEEEccCCCCCC-----------HHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          201 QPCSTLFIANLGPNCT-----------EDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~t-----------e~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      .++++|+|+||.....           +++|+++|++||.|..|.+....++|||||+|.+.++|.+|++.|||..+.  
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~--   90 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFG--   90 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEET--
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecCCCCEEEEEEECCHHHHHHHHHHcCCCEEC--
Confidence            4699999999954432           689999999999999998766667899999999999999999999999998  


Q ss_pred             CCCcEEEEEeccc
Q 023143          270 DRGGMHIEYARSK  282 (286)
Q Consensus       270 ~g~~l~V~~ak~~  282 (286)
                       |+.|+|+|++.+
T Consensus        91 -gr~l~v~~a~~~  102 (112)
T 2dit_A           91 -GRQITAQAWDGT  102 (112)
T ss_dssp             -TEECEEEECCSC
T ss_pred             -CcEEEEEEeCCC
Confidence             569999998764

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.66  E-value=2.6e-16  Score=124.26  Aligned_cols=79  Identities=20%  Similarity=0.247  Sum_probs=72.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeec----CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~----~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++++|||+|||.++++++|+++|++||.|.+++++..    .++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~---g~~l~v~   78 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVR---NKRLKVS   78 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeC---CcEEEEE
Confidence            5789999999999999999999999999999998873    35689999999999999999999999998   5599999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      |++.+.
T Consensus        79 ~~~~~~   84 (168)
T 1b7f_A           79 YARPGG   84 (168)
T ss_dssp             ECCCCS
T ss_pred             ecCCCc
Confidence            998654

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.65  E-value=2.7e-16  Score=110.67  Aligned_cols=70  Identities=16%  Similarity=0.301  Sum_probs=64.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcC----C-------CceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVY----P-------GFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~----G-------~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                      +.++|||+|||.++++++|+++|++|    |       .|.++++...  ++||||+|.+.++|.+|+ .|||..+.   
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~--kg~afV~f~~~~~a~~A~-~l~g~~~~---   78 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD--KNFAFLEFRSVDETTQAM-AFDGIIFQ---   78 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS--SSEEEEEESSHHHHHHHG-GGTTCEET---
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC--CcEEEEEcCCHHHHHHHH-hcCCCEEC---
Confidence            58999999999999999999999999    8       8999988866  499999999999999999 99999999   


Q ss_pred             CCcEEEE
Q 023143          271 RGGMHIE  277 (286)
Q Consensus       271 g~~l~V~  277 (286)
                      |+.|+|+
T Consensus        79 g~~l~V~   85 (87)
T 2hzc_A           79 GQSLKIR   85 (87)
T ss_dssp             TEECEEE
T ss_pred             CeEEEEe
Confidence            5599886

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=1.3e-16  Score=112.66  Aligned_cols=78  Identities=23%  Similarity=0.296  Sum_probs=63.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++++|||+|||.++++++|+++|+.||.|..|++..+.++   ||||+|.+.++|.+|    ++..+ ...|+.|.|.+
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~g---~afV~f~~~~~a~~~----~~~~~-~~~g~~l~v~~   74 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA---FAFVTFADDQIAQSL----CGEDL-IIKGISVHISN   74 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCS---CCEEECSCHHHHHHT----TTCEE-EETTEEEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecCCCC---EEEEEECCHHHHHHH----hcCCc-eeCCEEEEEEe
Confidence            46899999999999999999999999999999998744444   999999999999754    44444 12288888888


Q ss_pred             eecCCC
Q 023143          113 ARSNSR  118 (286)
Q Consensus       113 ~~~~~~  118 (286)
                      +.....
T Consensus        75 a~~~~~   80 (88)
T 1wf0_A           75 AEPKHN   80 (88)
T ss_dssp             CCCCCC
T ss_pred             cCCCCC
Confidence            765433

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.65  E-value=3e-16  Score=130.57  Aligned_cols=80  Identities=6%  Similarity=-0.015  Sum_probs=70.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCC--CccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKP--GFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G--~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..++|||+|||+++|+++|+++|+.||  .|..|+|..+.  ...++||||+|.+.++|.+||+.|||..|.   |+.|+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~---Gr~l~  143 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH---GQNPV  143 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBT---TBCCE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeEC---CEEeE
Confidence            567899999999999999999999999  99999998653  223569999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.+++..
T Consensus       144 V~~a~~~  150 (229)
T 3q2s_C          144 VTPVNKQ  150 (229)
T ss_dssp             EEECCHH
T ss_pred             EEECCCC
Confidence            9998643

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.65  E-value=2.6e-16  Score=110.72  Aligned_cols=72  Identities=19%  Similarity=0.405  Sum_probs=65.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcC----C-------CccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRK----P-------GFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~----G-------~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      .+.++|||+|||.++++++|+++|+.|    |       .|.++++. ..++   ||||+|.+.++|.+|+ .|||..+.
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~-~~kg---~afV~f~~~~~a~~A~-~l~g~~~~   78 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN-QDKN---FAFLEFRSVDETTQAM-AFDGIIFQ   78 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEC-SSSS---EEEEEESSHHHHHHHG-GGTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEec-CCCc---EEEEEcCCHHHHHHHH-hcCCCEEC
Confidence            468999999999999999999999999    8       88888877 3344   9999999999999999 99999998


Q ss_pred             CCCCCeEEEEE
Q 023143          102 PQSGSVLHIEL  112 (286)
Q Consensus       102 ~~~g~~l~v~~  112 (286)
                         |+.|+|+.
T Consensus        79 ---g~~l~V~r   86 (87)
T 2hzc_A           79 ---GQSLKIRR   86 (87)
T ss_dssp             ---TEECEEEC
T ss_pred             ---CeEEEEeC
Confidence               99999873

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

Probab=99.65  E-value=9.7e-16  Score=122.42  Aligned_cols=82  Identities=24%  Similarity=0.302  Sum_probs=72.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..++++|||+|||..+++++|+++|+.||.|..|.|..... ..++||||+|.+.++|.+|++.|+|..|.   |+.|+|
T Consensus        85 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~---Gr~l~V  161 (177)
T 2f3j_A           85 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD---GRPMDI  161 (177)
T ss_dssp             CTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCS---SSBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            45678999999999999999999999999999999985431 12449999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|+...
T Consensus       162 ~~a~~~  167 (177)
T 2f3j_A          162 QLVASQ  167 (177)
T ss_dssp             EEESSG
T ss_pred             EEecCC
Confidence            998754

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.65  E-value=3.6e-16  Score=110.59  Aligned_cols=75  Identities=24%  Similarity=0.297  Sum_probs=61.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +..+|||+|||+++|+++|+++|+.||.|.+|++..+.+|   ||||+|.+.++|.+    ++|..+ ...|+.+.|.++
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~srG---faFV~F~~~~~A~~----~~~~~~-~~~g~~v~v~~a   81 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRA---FAFVTFADDKVAQS----LCGEDL-IIKGISVHISNA   81 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSSCCS---EEEEEESCHHHHHH----HTTCEE-EETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeCCCC---EEEEEECCHHHHHH----HcCCCc-ccCCEEEEEEEc
Confidence            4788999999999999999999999999999998855455   99999999999983    566655 234788888887


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus        82 ~~k   84 (89)
T 3d2w_A           82 EPK   84 (89)
T ss_dssp             C--
T ss_pred             CCC
Confidence            643

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.65  E-value=1.4e-15  Score=130.49  Aligned_cols=79  Identities=28%  Similarity=0.444  Sum_probs=70.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++++|||+|||.++++++|+++|+.||.|..|++....   ++||||+|.+.++|.+|++.|||..|.  .|+.|+|
T Consensus       203 ~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~--~g~~l~v  277 (282)
T 3pgw_A          203 ENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR---HDIAFVEFDNEVQAGAARDALQGFKIT--QNNAMKI  277 (282)
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC---CcEEEEEeCCHHHHHHHHHHcCCcEeC--CCCEEEE
Confidence            34567999999999999999999999999999999998333   349999999999999999999999884  3899999


Q ss_pred             EEee
Q 023143          111 ELAR  114 (286)
Q Consensus       111 ~~~~  114 (286)
                      +|++
T Consensus       278 ~~ak  281 (282)
T 3pgw_A          278 SFAK  281 (282)
T ss_pred             EEec
Confidence            9985

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=2.4e-16  Score=111.30  Aligned_cols=77  Identities=25%  Similarity=0.242  Sum_probs=65.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      ++++|||+|||.++++++|+++|++||.|..|++... ++|||||+|.+.++|++    +++..+... |+.|+|.|++.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~-~~g~afV~f~~~~~a~~----~~~~~~~~~-g~~l~v~~a~~   77 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP-FRAFAFVTFADDQIAQS----LCGEDLIIK-GISVHISNAEP   77 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS-CCSCCEEECSCHHHHHH----TTTCEEEET-TEEEEEECCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC-CCCEEEEEECCHHHHHH----HhcCCceeC-CEEEEEEecCC
Confidence            5899999999999999999999999999999999865 67999999999999975    455555333 66999999887


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      +..
T Consensus        78 ~~~   80 (88)
T 1wf0_A           78 KHN   80 (88)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=3.4e-16  Score=114.80  Aligned_cols=79  Identities=18%  Similarity=0.212  Sum_probs=68.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..+..+|||+|||+++|+++|+++|+.| .|..|+|..+..+ .++||||+|.+.++|.+|+ .+|+..|.   ||.|.|
T Consensus        13 ~~~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~---gr~i~V   87 (109)
T 2dnn_A           13 NPDDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMI---QRYVEV   87 (109)
T ss_dssp             CHHHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEET---TEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeEC---CeEEEE
Confidence            3456899999999999999999999999 8999998854332 2459999999999999999 69999998   999999


Q ss_pred             EEeec
Q 023143          111 ELARS  115 (286)
Q Consensus       111 ~~~~~  115 (286)
                      ..+..
T Consensus        88 ~~a~~   92 (109)
T 2dnn_A           88 SPATE   92 (109)
T ss_dssp             EECCH
T ss_pred             EECCc
Confidence            87653

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.64  E-value=1.2e-16  Score=122.18  Aligned_cols=76  Identities=13%  Similarity=0.094  Sum_probs=68.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..++|||+|||.++|+++|+++|++|| +..|+++.   ++++|||||+|.+.++|.+|| .+|+..|.   |+.|+|.+
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~---gR~i~V~~  119 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQ---HRYIELFL  119 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSS---SCCCCCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEEC---CEEEEEEE
Confidence            478999999999999999999999999 66898876   556889999999999999999 88999999   55999998


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      +..+
T Consensus       120 a~~~  123 (139)
T 2hgn_A          120 NSTT  123 (139)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8764

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=2.2e-16  Score=118.29  Aligned_cols=76  Identities=13%  Similarity=0.018  Sum_probs=67.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCc----eEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v----~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                      ...+|||+|||+++|+++|+++|++||.|    ..|+|+.   ++++|||||+|.+.++|.+||+. ||..|+   |+.|
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~---gR~i   97 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLG---KRYI   97 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESS---SCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeC---CeEE
Confidence            47899999999999999999999999975    6788876   55678999999999999999987 999998   5599


Q ss_pred             EEEEecc
Q 023143          275 HIEYARS  281 (286)
Q Consensus       275 ~V~~ak~  281 (286)
                      .|..+..
T Consensus        98 ~V~~a~~  104 (123)
T 2dha_A           98 ELFRSTA  104 (123)
T ss_dssp             CCEEECH
T ss_pred             EEEECCH
Confidence            9988754

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.64  E-value=2.3e-16  Score=115.67  Aligned_cols=81  Identities=12%  Similarity=0.103  Sum_probs=70.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCC---ccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPG---FDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~---i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      ...+.++|||+|||+++|+++|+++|+.||.   |..|+|..+..+ .++||||+|.+.++|.+|++ ++|..+.   |+
T Consensus         7 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~---gr   82 (107)
T 2lmi_A            7 EVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMG---QR   82 (107)
T ss_dssp             CCSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSS---SS
T ss_pred             CCCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeC---Ce
Confidence            3457889999999999999999999999988   889988744322 34599999999999999999 9999998   99


Q ss_pred             eEEEEEeec
Q 023143          107 VLHIELARS  115 (286)
Q Consensus       107 ~l~v~~~~~  115 (286)
                      .|.|.++..
T Consensus        83 ~i~V~~a~~   91 (107)
T 2lmi_A           83 YVEVYEINN   91 (107)
T ss_dssp             CCCCEECCH
T ss_pred             EEEEEECCH
Confidence            999998764

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.64  E-value=1.3e-15  Score=120.88  Aligned_cols=83  Identities=17%  Similarity=0.252  Sum_probs=72.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCC-eeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGN-QVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~-~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..+.++|||+|||..+|+++|+++|+.||.|..|++.....+. ++||||+|.+.++|.+|++.|||..+..+++++|+|
T Consensus        92 ~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V  171 (175)
T 3nmr_A           92 AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVV  171 (175)
T ss_dssp             CGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEE
T ss_pred             cCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEE
Confidence            3467899999999999999999999999999999998554332 559999999999999999999999886455799999


Q ss_pred             EEee
Q 023143          111 ELAR  114 (286)
Q Consensus       111 ~~~~  114 (286)
                      .|+.
T Consensus       172 ~~ad  175 (175)
T 3nmr_A          172 KFAD  175 (175)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            9873

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.63  E-value=5.1e-16  Score=129.32  Aligned_cols=79  Identities=23%  Similarity=0.290  Sum_probs=73.2

Q ss_pred             CCCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          200 VQPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       200 ~~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .+++++|||+|||. ++++++|+++|+.||.|..|++.... +|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~-~g~afV~F~~~~~A~~Ai~~l~g~~~~---g~~l~v~~  106 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-KENALVQMADGNQAQLAMSHLNGHKLH---GKPIRITL  106 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-SCCEEEEESCHHHHHHHHHHHTTCBCS---SSBCEEEC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC-CCEEEEEECCHHHHHHHHHHhCCCeEC---CeEEEEEE
Confidence            34689999999999 99999999999999999999999865 689999999999999999999999998   55999999


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      ++.+
T Consensus       107 a~~~  110 (229)
T 2adc_A          107 SKHQ  110 (229)
T ss_dssp             CSCC
T ss_pred             ecCc
Confidence            9865

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.63  E-value=6e-16  Score=116.21  Aligned_cols=75  Identities=16%  Similarity=0.129  Sum_probs=66.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCce--EEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFN--MLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~--~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ..++|||+|||+++|+++|+++|+.| .|.  .|+++.   ++++|||||+|.+.++|.+||+. ++..|+   |+.|.|
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~-~~~~l~---gR~I~V  115 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGK-HKERIG---HRYIEV  115 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTT-TTCCBT---TBCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHH-CCCEEC---CEEEEE
Confidence            47889999999999999999999999 676  888876   56789999999999999999985 778888   559999


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      ..+..
T Consensus       116 ~~a~~  120 (126)
T 2hgm_A          116 FKSSQ  120 (126)
T ss_dssp             EEECH
T ss_pred             EECCH
Confidence            88754

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

Probab=99.63  E-value=6.2e-16  Score=128.36  Aligned_cols=79  Identities=19%  Similarity=0.306  Sum_probs=70.4

Q ss_pred             CCCCCeEEEcCCCCCC---------CHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCcc--
Q 023143           32 DNGINTLFVSGLPDDV---------RAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKF--  100 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~---------te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~--  100 (286)
                      ..++++|||+||+..+         ++++|+++|+.||.|.+|+|. ..++   ||||+|.+.++|+.|++.|+|..|  
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~-~~kG---~AFV~F~~~~~Ae~A~~am~g~~l~~  206 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYV-ESKN---CGFVKFKYQANAEFAKEAMSNQTLLL  206 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEE-GGGT---EEEEEESSHHHHHHHHHHHTTCCCCC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEE-CCCC---EEEEEeCCHHHHHHHHHHhCCCEEec
Confidence            4578999999999998         799999999999999999988 4455   999999999999999999999999  


Q ss_pred             ----------CCCCCCeEEEEEeecCC
Q 023143          101 ----------DPQSGSVLHIELARSNS  117 (286)
Q Consensus       101 ----------~~~~g~~l~v~~~~~~~  117 (286)
                                .   |+.|.|.|++...
T Consensus       207 ~~~~e~~~~~~---gr~L~V~wA~~~p  230 (240)
T 3u1l_A          207 PSDKEWDDRRE---GTGLLVKWANEDP  230 (240)
T ss_dssp             TTSTTGGGGGG---SCCCEEEECC---
T ss_pred             cccccccccCC---CCEEEEEEccCCC
Confidence                      6   9999999997643

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.63  E-value=1.7e-16  Score=108.43  Aligned_cols=73  Identities=19%  Similarity=0.266  Sum_probs=63.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +|||+|||.++++++|+++|+.||.|..|.+..+..  ..++||||+|.+.++|.+|++. ++..+.   |+.|.|+++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~-~~~~~~---g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVG---LSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTT-SSCCBT---TBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHh-CCCeEC---CEEEEEEEC
Confidence            599999999999999999999999999998874322  2345999999999999999985 888898   999999875

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

Probab=99.42  E-value=2.8e-17  Score=122.35  Aligned_cols=83  Identities=22%  Similarity=0.336  Sum_probs=71.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccE--------EEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDF--------CQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ..++++|||+|||.++++++|+++|+.||.|..        |++.....  ..++||||+|.+.++|.+|++.|||..|.
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (116)
T 2lcw_A            4 NSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   83 (116)
Confidence            346889999999999999999999999999988        77764321  23459999999999999999999999998


Q ss_pred             CCCCCeEEEEEeecCC
Q 023143          102 PQSGSVLHIELARSNS  117 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~~  117 (286)
                         |+.|+|++++...
T Consensus        84 ---g~~l~V~~a~~~~   96 (116)
T 2lcw_A           84 ---GNPIKVSFATRRA   96 (116)
Confidence               9999999987654

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.62  E-value=1.1e-15  Score=114.46  Aligned_cols=78  Identities=17%  Similarity=0.134  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCc----cEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGF----DFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i----~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      .+..+|||+|||+++|+++|+++|+.||.|    ..|+|..+..+ .++||||+|.+.++|.+|++. ++..|.   ||.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~---gR~   96 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLG---KRY   96 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESS---SCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeC---CeE
Confidence            467899999999999999999999999985    68888755333 355999999999999999986 999998   999


Q ss_pred             EEEEEee
Q 023143          108 LHIELAR  114 (286)
Q Consensus       108 l~v~~~~  114 (286)
                      |.|..+.
T Consensus        97 i~V~~a~  103 (123)
T 2dha_A           97 IELFRST  103 (123)
T ss_dssp             ECCEEEC
T ss_pred             EEEEECC
Confidence            8888764

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

Probab=99.61  E-value=7e-16  Score=111.95  Aligned_cols=81  Identities=21%  Similarity=0.310  Sum_probs=70.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ..++++|||+|||.++++++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++  +|..+.   |+.|.|
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~---g~~l~v   80 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFH---GKKLKL   80 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEET---TEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeEC---CEEEEE
Confidence            345789999999999999999999999999999999855322 34599999999999999998  999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      .++....
T Consensus        81 ~~a~~~~   87 (102)
T 2xs2_A           81 GPAIRKQ   87 (102)
T ss_dssp             EEEEECC
T ss_pred             EECCcCc
Confidence            9987543

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.61  E-value=3.1e-15  Score=118.56  Aligned_cols=78  Identities=22%  Similarity=0.359  Sum_probs=70.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|||..+.   |+.|.|
T Consensus        92 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~l~V  168 (172)
T 2g4b_A           92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG---DKKLLV  168 (172)
T ss_dssp             TTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEEC---CeEEEE
Confidence            347899999999999999999999999999999998553  223559999999999999999999999998   999999


Q ss_pred             EEe
Q 023143          111 ELA  113 (286)
Q Consensus       111 ~~~  113 (286)
                      +|+
T Consensus       169 ~~A  171 (172)
T 2g4b_A          169 QRA  171 (172)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            987

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

Probab=99.61  E-value=4.6e-15  Score=116.65  Aligned_cols=81  Identities=21%  Similarity=0.383  Sum_probs=72.2

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ...+.++|||+|||..+++++|+++|+.||.|..+.+.....  ..++||||+|.+.++|.+|++.|||..+.   |+.|
T Consensus        83 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~i  159 (166)
T 3md3_A           83 SSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN---GRPL  159 (166)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET---TEEC
T ss_pred             CCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccC---CcEE
Confidence            345678999999999999999999999999999999985522  23459999999999999999999999998   9999


Q ss_pred             EEEEee
Q 023143          109 HIELAR  114 (286)
Q Consensus       109 ~v~~~~  114 (286)
                      +|.|++
T Consensus       160 ~v~~a~  165 (166)
T 3md3_A          160 RINWAA  165 (166)
T ss_dssp             EEEESC
T ss_pred             EEEecC
Confidence            999985

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

Probab=99.61  E-value=8.5e-15  Score=118.71  Aligned_cols=82  Identities=20%  Similarity=0.323  Sum_probs=73.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||..+++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus       111 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~---g~~l~  187 (198)
T 2yh0_A          111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG---DKKLL  187 (198)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            4677999999999999999999999999999999998553  223559999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus       188 v~~a~~~  194 (198)
T 2yh0_A          188 VQRASVG  194 (198)
T ss_dssp             EEESCCC
T ss_pred             EEECCCC
Confidence            9998764

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

Probab=99.60  E-value=2.3e-15  Score=111.58  Aligned_cols=76  Identities=24%  Similarity=0.298  Sum_probs=60.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC-----CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR-----GNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-----~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      +....+++|||+|||+++++++|+++|+.||.|. +.+.....     ..++||||+|.+.++|.+|++.|++  +.   
T Consensus         3 ~~~~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~--~~---   76 (114)
T 2dnl_A            3 SGSSGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE--ED---   76 (114)
T ss_dssp             CSSSCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE--ET---
T ss_pred             CCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh--cC---
Confidence            3455689999999999999999999999999998 66653321     2245999999999999999999842  44   


Q ss_pred             CCeEEEE
Q 023143          105 GSVLHIE  111 (286)
Q Consensus       105 g~~l~v~  111 (286)
                      |+.+.+.
T Consensus        77 G~~~~~~   83 (114)
T 2dnl_A           77 GKLYLCV   83 (114)
T ss_dssp             TEEEEEE
T ss_pred             CcEEEec
Confidence            5555554

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

Probab=99.60  E-value=1.7e-15  Score=123.16  Aligned_cols=76  Identities=24%  Similarity=0.324  Sum_probs=71.2

Q ss_pred             ccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          203 CSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       203 ~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      +++|||+|||. ++++++|+++|++||.|..|++.... +|||||+|.+.++|.+|++.|||..+.   |+.|+|+|++.
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~-~g~afV~f~~~~~a~~A~~~l~~~~~~---g~~l~v~~a~~   78 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-KENALVQMADGNQAQLAMSHLNGHKLH---GKPIRITLSKH   78 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC-SSCCEEECTTTHHHHHHHHHHTTCCCS---SCCCEEEECCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC-CCEEEEEECCHHHHHHHHHHhCCCeec---CeEEEEEEecC
Confidence            78999999999 99999999999999999999998865 689999999999999999999999998   55999999986


Q ss_pred             c
Q 023143          282 K  282 (286)
Q Consensus       282 ~  282 (286)
                      +
T Consensus        79 ~   79 (198)
T 1qm9_A           79 Q   79 (198)
T ss_dssp             C
T ss_pred             C
Confidence            5

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.60  E-value=3.6e-15  Score=135.23  Aligned_cols=82  Identities=18%  Similarity=0.313  Sum_probs=72.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||+.+|+++|+++|+.||.|..|.|....  ...++||||+|.+.++|.+||+.|||..|.   |+.|.
T Consensus        99 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~---gr~i~  175 (437)
T 3pgw_S           99 GDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKID---GRRVL  175 (437)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEEC---CEEEE
Confidence            4566899999999999999999999999999999987542  223459999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|+...
T Consensus       176 V~~a~~~  182 (437)
T 3pgw_S          176 VDVERGR  182 (437)
T ss_pred             EEEeCCC
Confidence            9999754

>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=99.59  E-value=2.9e-15  Score=109.18  Aligned_cols=78  Identities=18%  Similarity=0.299  Sum_probs=67.6

Q ss_pred             CCccEEEEccCC--CCCC--------HHHHHHHHhcCCCceEEEEeec------CCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          201 QPCSTLFIANLG--PNCT--------EDELKQTLSVYPGFNMLKMRAR------GGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       201 ~~~~~L~v~NL~--~~~t--------e~~L~~~F~~~G~v~~v~~~~~------~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      .|+++|.|+|+-  ..+.        +++|+++|++||.|.+|++.+.      .++|+|||+|.+.++|.+|+++|||.
T Consensus         3 ~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~   82 (105)
T 3v4m_A            3 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   82 (105)
T ss_dssp             SCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCC
Confidence            479999999994  3333        3799999999999999999863      46799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEEecc
Q 023143          265 TLPSSDRGGMHIEYARS  281 (286)
Q Consensus       265 ~~~~~~g~~l~V~~ak~  281 (286)
                      .+.   |+.|+|+|+..
T Consensus        83 ~f~---GR~i~v~~~~~   96 (105)
T 3v4m_A           83 KFA---NRVVVTKYCDP   96 (105)
T ss_dssp             EET---TEECEEEEECH
T ss_pred             EeC---CCEEEEEEeCH
Confidence            999   66999999753

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.59  E-value=3.3e-15  Score=120.94  Aligned_cols=77  Identities=17%  Similarity=0.245  Sum_probs=69.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ++++|||+|||.++|+++|+++|+.||.|.+|+++.    +.++|||||+|.+.++|.+|++. +|..+.   |+.|.|.
T Consensus        12 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~---g~~l~v~   87 (196)
T 1l3k_A           12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVD---GRVVEPK   87 (196)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEET---TEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEEC---CEEeeee
Confidence            589999999999999999999999999999999987    34578999999999999999987 899998   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      ++..+
T Consensus        88 ~~~~~   92 (196)
T 1l3k_A           88 RAVSR   92 (196)
T ss_dssp             ECCC-
T ss_pred             cccCc
Confidence            98764

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.59  E-value=5.7e-16  Score=118.50  Aligned_cols=80  Identities=19%  Similarity=0.224  Sum_probs=67.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ....++|||+|||+++|+++|+++|+.|| |..|+|..+..+ .++||||+|.+.++|.+|+ .+++..|.   |+.|.|
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~---gR~i~V  117 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQ---HRYIEL  117 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSS---SCCCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEEC---CEEEEE
Confidence            34568999999999999999999999999 668888754332 2449999999999999999 78999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .++...
T Consensus       118 ~~a~~~  123 (139)
T 2hgn_A          118 FLNSTT  123 (139)
T ss_dssp             EECCCS
T ss_pred             EECCCC
Confidence            887643

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

Probab=99.59  E-value=7.3e-15  Score=106.98  Aligned_cols=81  Identities=16%  Similarity=0.205  Sum_probs=69.5

Q ss_pred             CCCCeEEEcCCCC-----CCCHHHHHHHhhcCCCccEEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCC
Q 023143           33 NGINTLFVSGLPD-----DVRAREIHNLFRRKPGFDFCQLKYTG---RGNQVVAFATFVNHQTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        33 ~~~~~lfV~nLp~-----~~te~~L~~~F~~~G~i~~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~  104 (286)
                      .++++|+|+||..     +-++++|+++|++||.|.+|.|....   ...++||||+|.+.++|.+|++.|||..+.   
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~---   82 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFG---   82 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEET---
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEEC---
Confidence            4689999999973     23789999999999999999998542   234669999999999999999999999998   


Q ss_pred             CCeEEEEEeecC
Q 023143          105 GSVLHIELARSN  116 (286)
Q Consensus       105 g~~l~v~~~~~~  116 (286)
                      ||.|++.++...
T Consensus        83 Gr~i~v~~a~~~   94 (105)
T 2pe8_A           83 GRVVKACFYNLD   94 (105)
T ss_dssp             TEECEEEECCHH
T ss_pred             CcEEEEEEcCHH
Confidence            999999998753

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.59  E-value=2.1e-15  Score=113.19  Aligned_cols=79  Identities=18%  Similarity=0.161  Sum_probs=66.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCcc--EEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFD--FCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~--~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ..+.++|||+|||+++|+++|+++|+.| .|.  .|+|..+..+ .++||||+|.+.++|.+|++. ++..|.   ||.|
T Consensus        39 ~~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~-~~~~l~---gR~I  113 (126)
T 2hgm_A           39 SANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGK-HKERIG---HRYI  113 (126)
T ss_dssp             SSSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTT-TTCCBT---TBCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHH-CCCEEC---CEEE
Confidence            4567899999999999999999999999 576  7887744332 245999999999999999985 778887   9999


Q ss_pred             EEEEeec
Q 023143          109 HIELARS  115 (286)
Q Consensus       109 ~v~~~~~  115 (286)
                      .|..+..
T Consensus       114 ~V~~a~~  120 (126)
T 2hgm_A          114 EVFKSSQ  120 (126)
T ss_dssp             CCEEECH
T ss_pred             EEEECCH
Confidence            9987753

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

Probab=99.59  E-value=3.1e-15  Score=110.87  Aligned_cols=63  Identities=16%  Similarity=0.247  Sum_probs=56.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-------cCCccEEEEEECCHHHHHHHHHhc---CCCc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-------RGGMPVAFADFEEVEQASIAMEGL---QDST  265 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-------~~~~~~afV~f~~~e~A~~Al~~l---ng~~  265 (286)
                      .+++|||+|||.++++++|+++|++||.|. +.++.       ++++|||||+|.+.++|.+||+.|   +|..
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~   79 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKL   79 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcE
Confidence            478999999999999999999999999999 76655       366899999999999999999998   5553

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

Probab=99.58  E-value=2.6e-15  Score=111.06  Aligned_cols=76  Identities=8%  Similarity=0.073  Sum_probs=66.4

Q ss_pred             cEEEEccC----CCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECC----HHH----HHHHHH--hcCCCc
Q 023143          204 STLFIANL----GPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEE----VEQ----ASIAME--GLQDST  265 (286)
Q Consensus       204 ~~L~v~NL----~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~----~e~----A~~Al~--~lng~~  265 (286)
                      +.|||+||    |+++++++|+++|++||.|.+|.++.    +.++|||||+|.+    +++    |.+|+.  .|||..
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~   82 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCF   82 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCe
Confidence            67999999    99999999999999999999999988    5678899999996    433    888988  899999


Q ss_pred             cCCCCCCcEEEEEeccc
Q 023143          266 LPSSDRGGMHIEYARSK  282 (286)
Q Consensus       266 ~~~~~g~~l~V~~ak~~  282 (286)
                      |.   |+.|+|.+-+..
T Consensus        83 I~---Gr~irV~ln~~g   96 (136)
T 2j8a_A           83 IM---GFKFEVILNKHS   96 (136)
T ss_dssp             ET---TEEEEEEECCTT
T ss_pred             ec---CcEEEEEECccc
Confidence            99   669999987653

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

Probab=99.58  E-value=1.3e-14  Score=119.18  Aligned_cols=82  Identities=16%  Similarity=0.274  Sum_probs=73.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||.++++++|+++|+.||.|..|++.....  ..++||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~---g~~i~V  199 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLG---GQYLRV  199 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCS---SSBCEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeC---CcEEEE
Confidence            4568999999999999999999999999999999985532  23559999999999999999999999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      .|+....
T Consensus       200 ~~a~~~~  206 (216)
T 2qfj_A          200 GKAVTPP  206 (216)
T ss_dssp             EECSSCS
T ss_pred             EEecCCC
Confidence            9987653

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.58  E-value=4.6e-15  Score=120.20  Aligned_cols=78  Identities=17%  Similarity=0.204  Sum_probs=69.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..++|||+|||.++|+++|+++|++||.|..|++..   +.++|||||+|.+.++|.+|++.++ ..+.   |+.|.|.|
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~---Gr~l~V~~  183 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPG-QKYK---ETDLLILF  183 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTT-CEET---TEECEEEE
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCC-CeEC---CEEEEEEE
Confidence            378999999999999999999999999999999987   5567899999999999999998775 4888   66999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      +++-.
T Consensus       184 ~~~y~  188 (193)
T 2voo_A          184 KDDYF  188 (193)
T ss_dssp             TTTC-
T ss_pred             hHHHH
Confidence            87643

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.57  E-value=6.2e-15  Score=128.72  Aligned_cols=79  Identities=19%  Similarity=0.280  Sum_probs=68.7

Q ss_pred             CCCccEEEEcc--CCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCC--cEE
Q 023143          200 VQPCSTLFIAN--LGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG--GMH  275 (286)
Q Consensus       200 ~~~~~~L~v~N--L~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~--~l~  275 (286)
                      .+|+++|||+|  |+..+||++|+++|++||.|..|.+..  +||||||+|.+.++|.+|+++|||..+.+..|+  .|.
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~--~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly   92 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP--NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLY   92 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT--TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC--CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEE
Confidence            45799999999  578999999999999999999998876  569999999999999999999999999432244  688


Q ss_pred             EEEec
Q 023143          276 IEYAR  280 (286)
Q Consensus       276 V~~ak  280 (286)
                      |.|++
T Consensus        93 ~~~~~   97 (345)
T 3tht_A           93 LNFVE   97 (345)
T ss_dssp             EEECS
T ss_pred             EEEee
Confidence            89985

>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=99.57  E-value=1.7e-14  Score=106.49  Aligned_cols=81  Identities=11%  Similarity=0.095  Sum_probs=68.1

Q ss_pred             CCCCeEEEcCCCCCCC-----------HHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           33 NGINTLFVSGLPDDVR-----------AREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~t-----------e~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      .++++|+|+||.....           +++|+++|++||.|..|.|. +. ..++||||+|.+.++|.+|++.|||..+.
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~-~~-~~~G~afV~f~~~~~A~~Ai~~lng~~~~   90 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLF-DR-HPDGVASVSFRDPEEADYCIQTLDGRWFG   90 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEE-TT-CTTCEEEEECSCHHHHHHHHHHSTTCEET
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEe-cC-CCCEEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            4689999999954332           68999999999999999663 32 24559999999999999999999999998


Q ss_pred             CCCCCeEEEEEeecCCC
Q 023143          102 PQSGSVLHIELARSNSR  118 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~~~  118 (286)
                         |++|+|.++.....
T Consensus        91 ---gr~l~v~~a~~~~~  104 (112)
T 2dit_A           91 ---GRQITAQAWDGTTD  104 (112)
T ss_dssp             ---TEECEEEECCSCCC
T ss_pred             ---CcEEEEEEeCCCCC
Confidence               99999999876443

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.56  E-value=1.3e-14  Score=123.10  Aligned_cols=76  Identities=22%  Similarity=0.313  Sum_probs=70.4

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++++|||+|||.++|+++|+++|+.||.|..|++.+.  +|||||+|.+.++|.+|+..|||..+.   |+.|+|.|+.
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~--kg~afV~f~~~~~A~~A~~~l~g~~i~---g~~l~v~~a~   94 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD--RGFGFIRLESRTLAEIAKAELDGTILK---SRPLRIRFAT   94 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETT--TTEEEEECSSHHHHHHHHHHHTTCEET---TEECEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCC--CcEEEEEECCHHHHHHHHHHcCCcEEC---CceeEeeecc
Confidence            45889999999999999999999999999999999765  499999999999999999999999998   5599999987


Q ss_pred             c
Q 023143          281 S  281 (286)
Q Consensus       281 ~  281 (286)
                      .
T Consensus        95 ~   95 (261)
T 3sde_A           95 H   95 (261)
T ss_dssp             C
T ss_pred             c
Confidence            5

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.55  E-value=7.8e-15  Score=115.66  Aligned_cols=79  Identities=19%  Similarity=0.262  Sum_probs=70.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||.++++++|+++|+.||.|..|++....  ...++||||+|.+.++|.+|++ ++|..+.   |+.|.|.
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~---g~~i~V~  161 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFK---DRKIEIK  161 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSS---SSCEEEE
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeC---CeEEEEe
Confidence            46789999999999999999999999999999987442  2345699999999999999998 8999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      |+..+
T Consensus       162 ~a~pk  166 (167)
T 2cjk_A          162 RAEPR  166 (167)
T ss_dssp             ECCCC
T ss_pred             ecCCC
Confidence            98653

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.55  E-value=8.2e-15  Score=116.55  Aligned_cols=79  Identities=16%  Similarity=0.289  Sum_probs=68.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..+.++|||+|||..+++++|+++|+.||.|..+  . .....++||||+|.+.++|.+|++.|+|..|.   |+.|+|.
T Consensus        96 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~--~-~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~---g~~i~v~  169 (175)
T 1fje_B           96 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV--S-QDGKSKGIAYIEFKSEADAEKNLEEKQGAEID---GRSVSLY  169 (175)
T ss_dssp             TGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE--C-SSSSCCSEEEEECSSHHHHHHHHHHHTEEEET---TEEEEEE
T ss_pred             cccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe--c-CCCCCceEEEEEECCHHHHHHHHHHhCCCEEC---CeEEEEE
Confidence            3467899999999999999999999999988766  2 22233459999999999999999999999998   9999999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      |+..+
T Consensus       170 ~a~~k  174 (175)
T 1fje_B          170 YTGEK  174 (175)
T ss_dssp             ECSSC
T ss_pred             ecCCC
Confidence            98653

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

Probab=99.54  E-value=1.6e-14  Score=106.76  Aligned_cols=78  Identities=14%  Similarity=0.184  Sum_probs=66.6

Q ss_pred             CeEEEcCC----CCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcC----HHH----HHHHHH--HhCCCc
Q 023143           36 NTLFVSGL----PDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVN----HQT----AVAALH--ELNGVK   99 (286)
Q Consensus        36 ~~lfV~nL----p~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~----~~~----A~~A~~--~l~g~~   99 (286)
                      +.|||+||    |+.+++++|+++|+.||+|.+|++..+...  .+|||||+|.+    +++    |.+|+.  .++|..
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~   82 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCF   82 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCe
Confidence            67999999    999999999999999999999999976544  34599999996    433    889988  789999


Q ss_pred             cCCCCCCeEEEEEeecC
Q 023143          100 FDPQSGSVLHIELARSN  116 (286)
Q Consensus       100 ~~~~~g~~l~v~~~~~~  116 (286)
                      |.   |++|+|.+.+.+
T Consensus        83 I~---Gr~irV~ln~~g   96 (136)
T 2j8a_A           83 IM---GFKFEVILNKHS   96 (136)
T ss_dssp             ET---TEEEEEEECCTT
T ss_pred             ec---CcEEEEEECccc
Confidence            99   999999987644

>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=99.53  E-value=2.6e-14  Score=105.39  Aligned_cols=77  Identities=10%  Similarity=0.107  Sum_probs=67.9

Q ss_pred             CccEEEEccCCCCCC----------HHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCC
Q 023143          202 PCSTLFIANLGPNCT----------EDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~~~t----------e~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g  271 (286)
                      ++++|.|+||-..-.          ++||++.|++||.|.+|.+.+..++|+|||+|.+.++|.+|++.|||..+.   |
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~---G   82 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFA---G   82 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEECSSHHHHHHHHHHHTTCEET---T
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEECCHHHHHHHHHHhCCCEEC---C
Confidence            588999999974322          368899999999999999988777899999999999999999999999999   6


Q ss_pred             CcEEEEEecc
Q 023143          272 GGMHIEYARS  281 (286)
Q Consensus       272 ~~l~V~~ak~  281 (286)
                      +.|+|+|+..
T Consensus        83 R~i~v~~~~~   92 (114)
T 3s6e_A           83 KMITAAYVPL   92 (114)
T ss_dssp             EECEEEEECH
T ss_pred             EEEEEEEEcH
Confidence            6999999853

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

Probab=99.53  E-value=1.1e-13  Score=99.67  Aligned_cols=76  Identities=17%  Similarity=0.173  Sum_probs=63.9

Q ss_pred             ccEEEEccCC-------CCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          203 CSTLFIANLG-------PNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       203 ~~~L~v~NL~-------~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ..+|.|.-..       ..+++++|+++|++||.|..|.++ ++++|||||+|.+.++|.+|++.++|  +.   |++|+
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~-~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~---g~~l~   83 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLS-SKKPGTAVVEFATVKAAELAVQNEVG--LV---DNPLK   83 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEE-SSSSSEEEEEESCHHHHHHHHHTCCB--CS---SSBCE
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEc-cCCCCEEEEEECCHHHHHHHHHhcCC--CC---CCeEE
Confidence            4567776443       468999999999999999999988 46789999999999999999999766  44   56999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+|++.+..
T Consensus        84 V~~a~~~~~   92 (100)
T 2d9o_A           84 ISWLEGQPQ   92 (100)
T ss_dssp             EECSSCCCC
T ss_pred             EEEccCCCC
Confidence            999988754

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.52  E-value=2.5e-14  Score=124.90  Aligned_cols=80  Identities=16%  Similarity=0.237  Sum_probs=68.0

Q ss_pred             CCCCCCeEEEcC--CCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC--
Q 023143           31 QDNGINTLFVSG--LPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS--  106 (286)
Q Consensus        31 ~~~~~~~lfV~n--Lp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~--  106 (286)
                      .+.++++|||+|  |++.+|+++|+++|++||.|.+|.+. .+|+   ||||+|.+.++|++|++.|||..+....|+  
T Consensus        14 ~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~-~~kg---faFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~   89 (345)
T 3tht_A           14 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMP-PNKP---YSFARYRTTEESKRAYVTLNGKEVVDDLGQKI   89 (345)
T ss_dssp             CSSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECC-TTCS---EEEEEESSHHHHHHHHHHTTTCEEECTTSCEE
T ss_pred             cCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEe-CCCC---EEEEEECCHHHHHHHHHHhCCCccccccCCce
Confidence            366799999999  58999999999999999999988775 3444   999999999999999999999999544566  


Q ss_pred             eEEEEEee
Q 023143          107 VLHIELAR  114 (286)
Q Consensus       107 ~l~v~~~~  114 (286)
                      .+.+.|+.
T Consensus        90 ~ly~~~~~   97 (345)
T 3tht_A           90 TLYLNFVE   97 (345)
T ss_dssp             ECEEEECS
T ss_pred             EEEEEEee
Confidence            56777763

>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=99.52  E-value=2.6e-14  Score=106.12  Aligned_cols=77  Identities=12%  Similarity=0.154  Sum_probs=66.9

Q ss_pred             CccEEEEccCCC-----CCCHHHHHHHHhcCCCceEEEEeec--------CCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          202 PCSTLFIANLGP-----NCTEDELKQTLSVYPGFNMLKMRAR--------GGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       202 ~~~~L~v~NL~~-----~~te~~L~~~F~~~G~v~~v~~~~~--------~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      ++++|+|+||-.     +-.++||++.|++||.|.+|++...        .++|+|||+|.+.++|.+|++.|||+.+. 
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~-   97 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA-   97 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET-
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC-
Confidence            699999999952     2247999999999999999999873        23589999999999999999999999999 


Q ss_pred             CCCCcEEEEEecc
Q 023143          269 SDRGGMHIEYARS  281 (286)
Q Consensus       269 ~~g~~l~V~~ak~  281 (286)
                        |+.|+|+|+..
T Consensus        98 --GR~i~v~~~~~  108 (118)
T 3ue2_A           98 --GRKVVAEVYDQ  108 (118)
T ss_dssp             --TEECEEEEECH
T ss_pred             --CcEEEEEEcCh
Confidence              66999999753

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.50  E-value=6.7e-14  Score=113.31  Aligned_cols=79  Identities=16%  Similarity=0.201  Sum_probs=68.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +.++|||+|||+++|+++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++.++. .+.   |+.|.|.+
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~-~~~---Gr~l~V~~  183 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQ-KYK---ETDLLILF  183 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTC-EET---TEECEEEE
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCC-eEC---CEEEEEEE
Confidence            4689999999999999999999999999999998854322 356999999999999999986654 787   99999998


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      ....
T Consensus       184 ~~~y  187 (193)
T 2voo_A          184 KDDY  187 (193)
T ss_dssp             TTTC
T ss_pred             hHHH
Confidence            7653

>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=99.50  E-value=4.6e-14  Score=102.73  Aligned_cols=82  Identities=12%  Similarity=0.187  Sum_probs=68.2

Q ss_pred             CCCCCeEEEcCC--CCCCC--------HHHHHHHhhcCCCccEEEEEecCC----CCeeEEEEEEcCHHHHHHHHHHhCC
Q 023143           32 DNGINTLFVSGL--PDDVR--------AREIHNLFRRKPGFDFCQLKYTGR----GNQVVAFATFVNHQTAVAALHELNG   97 (286)
Q Consensus        32 ~~~~~~lfV~nL--p~~~t--------e~~L~~~F~~~G~i~~v~i~~~~~----~~~~~aFV~F~~~~~A~~A~~~l~g   97 (286)
                      +.++++|.+.|+  |.++.        +++|++.|++||.|.+|+|.....    ..+++|||+|.+.++|.+|++.|||
T Consensus         2 g~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG   81 (105)
T 3v4m_A            2 GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG   81 (105)
T ss_dssp             CSCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCC
Confidence            346899999998  44443        369999999999999998874321    1245999999999999999999999


Q ss_pred             CccCCCCCCeEEEEEeecC
Q 023143           98 VKFDPQSGSVLHIELARSN  116 (286)
Q Consensus        98 ~~~~~~~g~~l~v~~~~~~  116 (286)
                      +.+.   ||.|++.|+...
T Consensus        82 ~~f~---GR~i~v~~~~~~   97 (105)
T 3v4m_A           82 RKFA---NRVVVTKYCDPD   97 (105)
T ss_dssp             CEET---TEECEEEEECHH
T ss_pred             CEeC---CCEEEEEEeCHH
Confidence            9998   999999998643

>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=99.47  E-value=1.3e-13  Score=102.24  Aligned_cols=79  Identities=18%  Similarity=0.212  Sum_probs=67.3

Q ss_pred             CCCeEEEcCCCC--CC---CHHHHHHHhhcCCCccEEEEEecCCC------CeeEEEEEEcCHHHHHHHHHHhCCCccCC
Q 023143           34 GINTLFVSGLPD--DV---RAREIHNLFRRKPGFDFCQLKYTGRG------NQVVAFATFVNHQTAVAALHELNGVKFDP  102 (286)
Q Consensus        34 ~~~~lfV~nLp~--~~---te~~L~~~F~~~G~i~~v~i~~~~~~------~~~~aFV~F~~~~~A~~A~~~l~g~~~~~  102 (286)
                      ++++|+++|+-.  ++   -+++|++.|++||.|.+|+|.....+      .+++|||+|.+.++|.+|++.|||..+. 
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~-   97 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA-   97 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET-
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC-
Confidence            689999999943  22   36899999999999999998854321      2369999999999999999999999998 


Q ss_pred             CCCCeEEEEEeec
Q 023143          103 QSGSVLHIELARS  115 (286)
Q Consensus       103 ~~g~~l~v~~~~~  115 (286)
                        ||.|++.|+..
T Consensus        98 --GR~i~v~~~~~  108 (118)
T 3ue2_A           98 --GRKVVAEVYDQ  108 (118)
T ss_dssp             --TEECEEEEECH
T ss_pred             --CcEEEEEEcCh
Confidence              99999999864

>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=99.46  E-value=2.1e-14  Score=104.39  Aligned_cols=68  Identities=15%  Similarity=0.212  Sum_probs=57.4

Q ss_pred             ccCCCCCCHHHHHHHH------------hcCCCceEEEEeec---CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc
Q 023143          209 ANLGPNCTEDELKQTL------------SVYPGFNMLKMRAR---GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG  273 (286)
Q Consensus       209 ~NL~~~~te~~L~~~F------------~~~G~v~~v~~~~~---~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~  273 (286)
                      .||+..+++++|++.|            ++||.|.+|++...   +++|||||+|.+.++|.+|++.|||..+.   |+.
T Consensus        21 ~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~---Gr~   97 (104)
T 1jmt_A           21 DGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFN---GQP   97 (104)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEET---TEE
T ss_pred             CCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEEC---CEE
Confidence            4455556666666555            99999999999873   46899999999999999999999999999   569


Q ss_pred             EEEEEe
Q 023143          274 MHIEYA  279 (286)
Q Consensus       274 l~V~~a  279 (286)
                      |+|+|+
T Consensus        98 i~v~~s  103 (104)
T 1jmt_A           98 IHAELS  103 (104)
T ss_dssp             CCEEEC
T ss_pred             EEEEEc
Confidence            999997

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

Probab=99.41  E-value=3.1e-12  Score=91.95  Aligned_cols=76  Identities=14%  Similarity=0.064  Sum_probs=62.4

Q ss_pred             CCCeEEEcCCC-------CCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           34 GINTLFVSGLP-------DDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        34 ~~~~lfV~nLp-------~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      ..++|-|.-..       ..+++++|+++|++||.|..|.|....   ++||||+|.+.++|.+|++.+++  +.   |+
T Consensus         9 ~~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~~~---rGfaFVeF~~~~~A~~Ai~~~~~--~~---g~   80 (100)
T 2d9o_A            9 GTPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSSKK---PGTAVVEFATVKAAELAVQNEVG--LV---DN   80 (100)
T ss_dssp             SSCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEESSS---SSEEEEEESCHHHHHHHHHTCCB--CS---SS
T ss_pred             ccceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEccCC---CCEEEEEECCHHHHHHHHHhcCC--CC---CC
Confidence            35677777655       458999999999999999999987333   44999999999999999998555  45   99


Q ss_pred             eEEEEEeecCC
Q 023143          107 VLHIELARSNS  117 (286)
Q Consensus       107 ~l~v~~~~~~~  117 (286)
                      +|+|.|++...
T Consensus        81 ~l~V~~a~~~~   91 (100)
T 2d9o_A           81 PLKISWLEGQP   91 (100)
T ss_dssp             BCEEECSSCCC
T ss_pred             eEEEEEccCCC
Confidence            99999987653

>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=99.38  E-value=1.9e-13  Score=99.37  Aligned_cols=71  Identities=20%  Similarity=0.242  Sum_probs=59.9

Q ss_pred             EcCCCCCCCHHHHHHHh------------hcCCCccEEEEEecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           40 VSGLPDDVRAREIHNLF------------RRKPGFDFCQLKYTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        40 V~nLp~~~te~~L~~~F------------~~~G~i~~v~i~~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      +.|||..+++++|++.|            ++||.|.+|.|..... ..+|||||+|.+.++|.+|++.|||..+.   ||
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~---Gr   96 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFN---GQ   96 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEET---TE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEEC---CE
Confidence            56788888888777666            9999999999984322 23669999999999999999999999998   99


Q ss_pred             eEEEEEe
Q 023143          107 VLHIELA  113 (286)
Q Consensus       107 ~l~v~~~  113 (286)
                      .|+|+|+
T Consensus        97 ~i~v~~s  103 (104)
T 1jmt_A           97 PIHAELS  103 (104)
T ss_dssp             ECCEEEC
T ss_pred             EEEEEEc
Confidence            9999986

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

Probab=99.35  E-value=3.1e-12  Score=88.62  Aligned_cols=76  Identities=16%  Similarity=0.201  Sum_probs=65.8

Q ss_pred             CCCCccEEEEccCC----CCCCH----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          199 GVQPCSTLFIANLG----PNCTE----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       199 ~~~~~~~L~v~NL~----~~~te----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                      ..||.-||+|...+    .+...    .+|.+.|++||.|..+++..++    +||+|.+.++|.+|++ |||..+.   
T Consensus         3 ~GPpd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~----~fVtF~d~~sAlaAi~-mnG~~v~---   74 (91)
T 2dnr_A            3 SGSSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK----MWVTFLEGSSALNVLS-LNGKELL---   74 (91)
T ss_dssp             CCCSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS----EEEEESSHHHHHHGGG-GTTCEET---
T ss_pred             CCCCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC----EEEEECChHHHHHHHh-cCCeEeC---
Confidence            35788899998766    24444    7788999999999999999987    9999999999999998 9999999   


Q ss_pred             CCcEEEEEeccc
Q 023143          271 RGGMHIEYARSK  282 (286)
Q Consensus       271 g~~l~V~~ak~~  282 (286)
                      |+.|+|++++..
T Consensus        75 Gr~LkV~lkt~d   86 (91)
T 2dnr_A           75 NRTITIALKSPS   86 (91)
T ss_dssp             TEEEEEEECCCS
T ss_pred             CeEEEEEeCCCC
Confidence            569999998864

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=4.5e-12  Score=93.60  Aligned_cols=75  Identities=11%  Similarity=0.017  Sum_probs=66.2

Q ss_pred             CCCccEEEEccCCCC-CCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECC-HHHHHHHHHhcC--CCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPN-CTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE-VEQASIAMEGLQ--DSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~-~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~-~e~A~~Al~~ln--g~~~~~~~g~~l~  275 (286)
                      .+++..|||+||+.. +++++|+++|++||.|..|.+..+.  ..|||+|.+ .++|..|++.||  |..|.   +..+.
T Consensus        15 ~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~--~tgfVrf~~~~~~A~~av~~ln~~~~~i~---g~~~~   89 (121)
T 1owx_A           15 EKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGA--KEGIILFKEKAKEALGKAKDANNGNLQLR---NKEVT   89 (121)
T ss_dssp             CCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTC--SEEEEEESSCHHHHHHHHHHTTTSCBCTT---SSSEE
T ss_pred             ccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CEEEEEECCChHHHHHHHHHhhcCCcEEe---CcEEE
Confidence            457999999999999 9999999999999999999998877  689999999 899999999995  66676   44777


Q ss_pred             EEEe
Q 023143          276 IEYA  279 (286)
Q Consensus       276 V~~a  279 (286)
                      ++..
T Consensus        90 ~evL   93 (121)
T 1owx_A           90 WEVL   93 (121)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            7654

>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=99.32  E-value=7.8e-12  Score=92.04  Aligned_cols=78  Identities=13%  Similarity=0.161  Sum_probs=65.2

Q ss_pred             CCCeEEEcCCCCCCC----------HHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           34 GINTLFVSGLPDDVR----------AREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        34 ~~~~lfV~nLp~~~t----------e~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      ++++|.+.|+=..-.          +++|++.|++||.|.+|.|....  .+|+|||+|.+.++|.+|++.|||..+.  
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~--~~G~~fV~f~~~e~A~~Ai~~lnG~~f~--   81 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS--AQGNVYVKCPSIAAAIAAVNALHGRWFA--   81 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC--TTCCEEEECSSHHHHHHHHHHHTTCEET--
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC--CcEEEEEEECCHHHHHHHHHHhCCCEEC--
Confidence            488999999854322          34789999999999999886321  2459999999999999999999999998  


Q ss_pred             CCCeEEEEEeecC
Q 023143          104 SGSVLHIELARSN  116 (286)
Q Consensus       104 ~g~~l~v~~~~~~  116 (286)
                       ||.|++.|+...
T Consensus        82 -GR~i~v~~~~~~   93 (114)
T 3s6e_A           82 -GKMITAAYVPLP   93 (114)
T ss_dssp             -TEECEEEEECHH
T ss_pred             -CEEEEEEEEcHH
Confidence             999999998643

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=1.5e-11  Score=90.71  Aligned_cols=76  Identities=17%  Similarity=0.226  Sum_probs=65.9

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcC-HHHHHHHHHHhC--CCccCCCCCCe
Q 023143           32 DNGINTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVN-HQTAVAALHELN--GVKFDPQSGSV  107 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~-~~~A~~A~~~l~--g~~~~~~~g~~  107 (286)
                      -..+..|||+||+.. +++++|+++|+.||.|..|.+. .++.   .|||.|.+ .++|..|++.++  |..|.   |..
T Consensus        15 ~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~-~g~~---tgfVrf~~~~~~A~~av~~ln~~~~~i~---g~~   87 (121)
T 1owx_A           15 EKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFV-RGAK---EGIILFKEKAKEALGKAKDANNGNLQLR---NKE   87 (121)
T ss_dssp             CCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECC-TTCS---EEEEEESSCHHHHHHHHHHTTTSCBCTT---SSS
T ss_pred             ccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEe-cCCC---EEEEEECCChHHHHHHHHHhhcCCcEEe---CcE
Confidence            346899999999999 9999999999999999999887 3333   89999999 899999999995  67776   888


Q ss_pred             EEEEEee
Q 023143          108 LHIELAR  114 (286)
Q Consensus       108 l~v~~~~  114 (286)
                      +++++..
T Consensus        88 ~~~evL~   94 (121)
T 1owx_A           88 VTWEVLE   94 (121)
T ss_dssp             EEEEECC
T ss_pred             EEEEECC
Confidence            8888765

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

Probab=99.16  E-value=8.2e-11  Score=81.49  Aligned_cols=74  Identities=19%  Similarity=0.225  Sum_probs=62.4

Q ss_pred             CCCCCeEEEcCCCC----CCCH----HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           32 DNGINTLFVSGLPD----DVRA----REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        32 ~~~~~~lfV~nLp~----~~te----~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      +++..||+|.-++.    .+-.    .+|.+.|+.||.|..+++.   .+   .+||+|.+.++|.+|++ |||..+.  
T Consensus         4 GPpd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~---~d---~~fVtF~d~~sAlaAi~-mnG~~v~--   74 (91)
T 2dnr_A            4 GSSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFV---ED---KMWVTFLEGSSALNVLS-LNGKELL--   74 (91)
T ss_dssp             CCSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEEC---SS---SEEEEESSHHHHHHGGG-GTTCEET--
T ss_pred             CCCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEe---cC---CEEEEECChHHHHHHHh-cCCeEeC--
Confidence            45678899998872    2323    5788999999999999988   34   49999999999999998 9999998  


Q ss_pred             CCCeEEEEEeec
Q 023143          104 SGSVLHIELARS  115 (286)
Q Consensus       104 ~g~~l~v~~~~~  115 (286)
                       ||.|+|+++..
T Consensus        75 -Gr~LkV~lkt~   85 (91)
T 2dnr_A           75 -NRTITIALKSP   85 (91)
T ss_dssp             -TEEEEEEECCC
T ss_pred             -CeEEEEEeCCC
Confidence             99999998764

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.15  E-value=3.4e-11  Score=83.80  Aligned_cols=74  Identities=15%  Similarity=0.167  Sum_probs=63.5

Q ss_pred             CCCCCccEEEEccCCCC-----CCH----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          198 GGVQPCSTLFIANLGPN-----CTE----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~~~-----~te----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      ...||.-||+|..++.+     +..    .+|.+.|+.||.|..+++..++    +||+|.+.++|.+||+ |||..+. 
T Consensus        10 ~~GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~----~fVtF~d~~sAl~AI~-ldG~~v~-   83 (95)
T 1ufw_A           10 FQGPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ----MLVTFADSHSALSVLD-VDGMKVK-   83 (95)
T ss_dssp             CCCCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE----EEEECSCSHHHHHHHH-GGGSEET-
T ss_pred             ecCCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc----EEEEEcChHHHHHHHh-cCCeeeC-
Confidence            44678999999887633     333    6788999999999999999987    9999999999999998 9999999 


Q ss_pred             CCCCcEEEEEe
Q 023143          269 SDRGGMHIEYA  279 (286)
Q Consensus       269 ~~g~~l~V~~a  279 (286)
                        |+.|+|++-
T Consensus        84 --Gr~L~V~~k   92 (95)
T 1ufw_A           84 --GRAVKISGP   92 (95)
T ss_dssp             --TEEEEEECC
T ss_pred             --CeEEEEecc
Confidence              559999863

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

Probab=98.98  E-value=1.9e-09  Score=88.93  Aligned_cols=75  Identities=12%  Similarity=0.155  Sum_probs=62.8

Q ss_pred             ccEEEEccCC-----CCCCHHHHHHHHhcCCCceEEEEee--------cCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          203 CSTLFIANLG-----PNCTEDELKQTLSVYPGFNMLKMRA--------RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       203 ~~~L~v~NL~-----~~~te~~L~~~F~~~G~v~~v~~~~--------~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      ++.+.+.|+-     ..-.+++|++.|++||.|.++.+.+        +.++|++||+|.+.++|.+|++.|||+.+.  
T Consensus       124 s~v~~l~n~v~~~e~~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~--  201 (222)
T 3dxb_A          124 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA--  201 (222)
T ss_dssp             CSEEEEESSCCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSS--
T ss_pred             cccchhhcCCCHHHHHHHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceEC--
Confidence            4455555554     3446789999999999999999975        156789999999999999999999999999  


Q ss_pred             CCCcEEEEEec
Q 023143          270 DRGGMHIEYAR  280 (286)
Q Consensus       270 ~g~~l~V~~ak  280 (286)
                       |+.|.++|+.
T Consensus       202 -gr~i~~~~~~  211 (222)
T 3dxb_A          202 -GRKVVAEVYD  211 (222)
T ss_dssp             -SSBCEEEECC
T ss_pred             -CeEEEEEEcC
Confidence             6699999974

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.95  E-value=1.9e-09  Score=75.01  Aligned_cols=73  Identities=18%  Similarity=0.265  Sum_probs=62.0

Q ss_pred             CCCCCCeEEEcCCCCC------CCH---HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           31 QDNGINTLFVSGLPDD------VRA---REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~------~te---~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      .+++..||+|.-++..      ..+   .+|.+.|+.||.|..+++.   ..   -+||+|.+.++|.+|++ |||..+.
T Consensus        11 ~GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v---~d---~~fVtF~d~~sAl~AI~-ldG~~v~   83 (95)
T 1ufw_A           11 QGPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRIN---QG---QMLVTFADSHSALSVLD-VDGMKVK   83 (95)
T ss_dssp             CCCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEE---TT---EEEEECSCSHHHHHHHH-GGGSEET
T ss_pred             cCCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEe---cC---cEEEEEcChHHHHHHHh-cCCeeeC
Confidence            4667889999998743      232   4688999999999999998   44   49999999999999998 9999998


Q ss_pred             CCCCCeEEEEEe
Q 023143          102 PQSGSVLHIELA  113 (286)
Q Consensus       102 ~~~g~~l~v~~~  113 (286)
                         ||.|+|++-
T Consensus        84 ---Gr~L~V~~k   92 (95)
T 1ufw_A           84 ---GRAVKISGP   92 (95)
T ss_dssp             ---TEEEEEECC
T ss_pred             ---CeEEEEecc
Confidence               999999863

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

Probab=98.73  E-value=2.8e-08  Score=81.88  Aligned_cols=79  Identities=16%  Similarity=0.163  Sum_probs=62.5

Q ss_pred             CCeEEEcCCCC-----CCCHHHHHHHhhcCCCccEEEEEecCC------CCeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           35 INTLFVSGLPD-----DVRAREIHNLFRRKPGFDFCQLKYTGR------GNQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        35 ~~~lfV~nLp~-----~~te~~L~~~F~~~G~i~~v~i~~~~~------~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      .+.+.+.|+-.     +-.+++|++.|++||.|.++.+.....      ..+|++||+|.+.++|.+|++.|||+.+.  
T Consensus       124 s~v~~l~n~v~~~e~~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~--  201 (222)
T 3dxb_A          124 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA--  201 (222)
T ss_dssp             CSEEEEESSCCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSS--
T ss_pred             cccchhhcCCCHHHHHHHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceEC--
Confidence            44455555432     235679999999999999998863322      23459999999999999999999999998  


Q ss_pred             CCCeEEEEEeecC
Q 023143          104 SGSVLHIELARSN  116 (286)
Q Consensus       104 ~g~~l~v~~~~~~  116 (286)
                       ||.|++.|+...
T Consensus       202 -gr~i~~~~~~~~  213 (222)
T 3dxb_A          202 -GRKVVAEVYDQE  213 (222)
T ss_dssp             -SSBCEEEECCHH
T ss_pred             -CeEEEEEEcCHH
Confidence             999999998643

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.55  E-value=2.3e-07  Score=65.77  Aligned_cols=71  Identities=11%  Similarity=0.002  Sum_probs=65.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcC-----CCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVY-----PGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~-----G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .++|=|-|||.+++...|+.+.+.+     |.+..+.+..+.  +=|+|+|.+...|.+|.-+|+|.+|.   |+.|++.
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH--~GAivef~d~~~AgKasLaL~G~ef~---gr~Lr~g   95 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDF--NGAIIIFRDSKFAAKMLMILNGSQFQ---GKVIRSG   95 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT--TEEEEECSCHHHHHHHHHHHSSEEET---TEEEEEE
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC--CceEEEEccchhhHHHHhhcCCeeec---CeEEEec
Confidence            6788899999999999999999999     999999999866  66999999999999999999999999   5599886


Q ss_pred             E
Q 023143          278 Y  278 (286)
Q Consensus       278 ~  278 (286)
                      =
T Consensus        96 T   96 (117)
T 2l9w_A           96 T   96 (117)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.35  E-value=1.6e-06  Score=61.53  Aligned_cols=72  Identities=21%  Similarity=0.190  Sum_probs=64.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcC-----CCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRK-----PGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~-----G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ..++|=+=|||..++...|+.+.+++     |.|..+.+.-+- +   -|+|+|.+...|.+|.=.|+|.+|.   |++|
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH-~---GAivef~d~~~AgKasLaL~G~ef~---gr~L   92 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDF-N---GAIIIFRDSKFAAKMLMILNGSQFQ---GKVI   92 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT-T---EEEEECSCHHHHHHHHHHHSSEEET---TEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC-C---ceEEEEccchhhHHHHhhcCCeeec---CeEE
Confidence            36889999999999999999999999     999988887333 3   6999999999999999999999998   9999


Q ss_pred             EEEE
Q 023143          109 HIEL  112 (286)
Q Consensus       109 ~v~~  112 (286)
                      ++.-
T Consensus        93 r~gT   96 (117)
T 2l9w_A           93 RSGT   96 (117)
T ss_dssp             EEEC
T ss_pred             EecC
Confidence            9873

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.33  E-value=1e-06  Score=62.30  Aligned_cols=73  Identities=14%  Similarity=0.111  Sum_probs=62.3

Q ss_pred             ccEEEEccCCCCC-CH----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          203 CSTLFIANLGPNC-TE----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       203 ~~~L~v~NL~~~~-te----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .++|+|.||+..+ ..    +.++++|..|+........+.-  .-..|.|.+.++|.+|...|||..+.   |+.|+|-
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSF--RRirv~F~~~~~A~~AR~~Lh~~~f~---g~~~r~Y   79 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF--KRVRINFSNPLSAADARLRLHKTEFL---GKEMKLY   79 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT--TEEEEECSSTTHHHHHHHTSTTSEET---TEECEEE
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcc--eEEEEEeCChHHHHHHHHHhccceec---CceeEEE
Confidence            5679999999644 22    5778999999999888777754  46899999999999999999999999   5599999


Q ss_pred             Eec
Q 023143          278 YAR  280 (286)
Q Consensus       278 ~ak  280 (286)
                      ||.
T Consensus        80 Fgq   82 (104)
T 1wey_A           80 FAQ   82 (104)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            986

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=98.28  E-value=6.8e-06  Score=57.11  Aligned_cols=77  Identities=17%  Similarity=0.310  Sum_probs=63.9

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCC------ccEEEEEECCHHHHHHHHHhcCCCccCCCCCC--cEE
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG------MPVAFADFEEVEQASIAMEGLQDSTLPSSDRG--GMH  275 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~------~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~--~l~  275 (286)
                      +.|.|++||+++||+++.+.++..+.+....+..++.      ...|+|.|.+.+++..-.+.++|..+.+.-|+  .-.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~kg~~~~a~   81 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAI   81 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcCCCCEeeeE
Confidence            4588999999999999999999999988888877431      12899999999999999999999999776344  335


Q ss_pred             EEEec
Q 023143          276 IEYAR  280 (286)
Q Consensus       276 V~~ak  280 (286)
                      |+||-
T Consensus        82 VE~AP   86 (91)
T 1uw4_A           82 VEFAP   86 (91)
T ss_dssp             EEECS
T ss_pred             EEEcC
Confidence            77764

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=98.01  E-value=3.2e-05  Score=53.72  Aligned_cols=54  Identities=15%  Similarity=0.290  Sum_probs=44.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN   96 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~   96 (286)
                      ..++| ++|..+...||..+|+.||.|.--.|.   ..   .|||.|.+++.|..|+..+.
T Consensus        17 HVf~l-~FP~ewKt~DI~~lFs~fggv~I~Wid---DT---sAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           17 HVLHV-TFPKEWKTSDLYQLFSAFGNIQISWID---DT---SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             SEEEE-ECCTTCCHHHHHHHHTTTCSCCCEEEE---TT---EEEEECSCHHHHHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHhhccCCEEEEEEc---CC---eEEEEecCHHHHHHHHHhcc
Confidence            34555 999999999999999999987433333   44   99999999999999999764

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.00  E-value=2.4e-05  Score=55.25  Aligned_cols=73  Identities=22%  Similarity=0.186  Sum_probs=62.1

Q ss_pred             CCeEEEcCCCCCC-CH----HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           35 INTLFVSGLPDDV-RA----REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        35 ~~~lfV~nLp~~~-te----~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      -++|+|.||+.++ ..    +.++++|..|+++.......+-|    =.-|.|.++++|.+|...||+..+.   |+.++
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFR----Rirv~F~~~~~A~~AR~~Lh~~~f~---g~~~r   77 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFK----RVRINFSNPLSAADARLRLHKTEFL---GKEMK   77 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTT----EEEEECSSTTHHHHHHHTSTTSEET---TEECE
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcce----EEEEEeCChHHHHHHHHHhccceec---CceeE
Confidence            3679999999876 32    46789999999998887773333    4799999999999999999999998   99999


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      |-++.
T Consensus        78 ~YFgq   82 (104)
T 1wey_A           78 LYFAQ   82 (104)
T ss_dssp             EECCC
T ss_pred             EEecC
Confidence            99987

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=97.91  E-value=0.00011  Score=51.04  Aligned_cols=78  Identities=15%  Similarity=0.278  Sum_probs=58.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec---CC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe--EE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT---GR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV--LH  109 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~---~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~--l~  109 (286)
                      ..|-|++||+.+||+++++.++..+.++-......   .+ ..-.-|||.|.+.+++....+.++|..+.-..|..  -.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~kg~~~~a~   81 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAI   81 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcCCCCEeeeE
Confidence            46889999999999999999999988765555411   11 11128999999999999999999999995223432  23


Q ss_pred             EEEe
Q 023143          110 IELA  113 (286)
Q Consensus       110 v~~~  113 (286)
                      |++|
T Consensus        82 VE~A   85 (91)
T 1uw4_A           82 VEFA   85 (91)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            5554

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=97.82  E-value=3e-05  Score=54.01  Aligned_cols=53  Identities=17%  Similarity=0.328  Sum_probs=43.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN   96 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~   96 (286)
                      .++| ++|..+...||..+|+.||.|   .|.+-...   .|||.|.+++.|..|+..+.
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fggv---~I~WidDT---sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFGNI---QISWIDDT---SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSEEE---EEEEEETT---EEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccCCE---EEEEEcCC---eEEEEecCHHHHHHHHHhcc
Confidence            4555 999999999999999999965   34433344   99999999999999999875

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=97.74  E-value=5.4e-05  Score=52.87  Aligned_cols=78  Identities=17%  Similarity=0.286  Sum_probs=61.2

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecC-C-----ccEEEEEECCHHHHHHHHHhcCCCccCCCCCC--cE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-G-----MPVAFADFEEVEQASIAMEGLQDSTLPSSDRG--GM  274 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~-~-----~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~--~l  274 (286)
                      +-.|.|+.||+++||+++.+.++..-.+....+..++ +     -..|+|.|.+.++...-.+.++|..+.+.-|.  +-
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~kg~~~~a   88 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDSKGLEYPA   88 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECTTCCEEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeCCCCEeee
Confidence            5568999999999999999999887766555554422 1     12799999999999999999999999876344  55


Q ss_pred             EEEEec
Q 023143          275 HIEYAR  280 (286)
Q Consensus       275 ~V~~ak  280 (286)
                      .|+||-
T Consensus        89 ~VE~AP   94 (97)
T 2l08_A           89 VVEFAP   94 (97)
T ss_dssp             EEEECC
T ss_pred             EEEecC
Confidence            577764

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.65  E-value=0.00029  Score=49.50  Aligned_cols=54  Identities=11%  Similarity=0.031  Sum_probs=47.0

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhc---C--CCceEEEEeecCCccEEEEEECCHHHHHHHHHh
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSV---Y--PGFNMLKMRARGGMPVAFADFEEVEQASIAMEG  260 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~---~--G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~  260 (286)
                      .++|.|.|||..+.++.|.-+|+.   -  |.|..++...    +-|+|+|.+.+.|++.|+.
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~----~~AvItF~d~~va~rVL~k   66 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG----CGGVLTFREPADAERVLAQ   66 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET----TEEEEEESSHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC----CcEEEEEcChHHHHHHhcC
Confidence            788999999999999999999987   2  4677777766    4599999999999999987

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.61  E-value=0.00048  Score=48.43  Aligned_cols=72  Identities=21%  Similarity=0.157  Sum_probs=55.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhc-----CCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRR-----KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGS  106 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~-----~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~  106 (286)
                      +.-.++|.|.|||..++++.|.-.|+.     =|+|+.|+..   .+   -|+|+|.+.+.|.+.++. ..-.|.   +.
T Consensus         5 ~~~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~---~~---~AvItF~d~~va~rVL~k-~~H~L~---~~   74 (104)
T 2dhx_A            5 SSGGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRL---GC---GGVLTFREPADAERVLAQ-ADHELH---GA   74 (104)
T ss_dssp             CCCCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEE---TT---EEEEEESSHHHHHHHHTC-SCCBSS---SS
T ss_pred             ccCccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEc---CC---cEEEEEcChHHHHHHhcC-Ccceec---Ce
Confidence            345689999999999999999999986     2567877776   34   899999999999999864 123344   66


Q ss_pred             eEEEEEe
Q 023143          107 VLHIELA  113 (286)
Q Consensus       107 ~l~v~~~  113 (286)
                      +|.|...
T Consensus        75 ~LsV~P~   81 (104)
T 2dhx_A           75 QLSLRPA   81 (104)
T ss_dssp             BCEEEEC
T ss_pred             EEEEEcC
Confidence            7777643

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.50  E-value=0.0005  Score=47.73  Aligned_cols=55  Identities=18%  Similarity=0.262  Sum_probs=47.3

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ  262 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln  262 (286)
                      ..+++| +.|+++-..||.++|+.||.|. |+-+.+.   -|||.|.+++.|..|+..++
T Consensus        16 ~HVf~l-~FP~ewKt~DI~~lFs~fggv~-I~WidDT---sAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           16 DHVLHV-TFPKEWKTSDLYQLFSAFGNIQ-ISWIDDT---SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CSEEEE-ECCTTCCHHHHHHHHTTTCSCC-CEEEETT---EEEEECSCHHHHHHHHHHHH
T ss_pred             CeEEEE-eCChhhhhHHHHHHhhccCCEE-EEEEcCC---eEEEEecCHHHHHHHHHhcc
Confidence            667778 9999999999999999999774 5556654   59999999999999999874

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=97.36  E-value=0.00073  Score=49.04  Aligned_cols=71  Identities=18%  Similarity=0.140  Sum_probs=55.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..+.|-|-+.|... ...+...|+.||.|.+.... ...|   +-.|.|.++.+|++||. .||..|    +..+-|.+.
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~-~~~N---WihI~Y~s~~~A~rAL~-kNG~ii----~g~~mIGV~   92 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMS-NTGN---WMHIRYQSKLQARKALS-KDGRIF----GESIMIGVK   92 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEEC-SSSS---EEEEEESSHHHHHHHHT-TTTCEE----TTTEECEEE
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccC-CCCC---eEEEEeCCHHHHHHHHH-hCCeEe----cCCEEEEEE
Confidence            46779999999985 66777889999999877652 3344   99999999999999996 699988    445555544


Q ss_pred             e
Q 023143          114 R  114 (286)
Q Consensus       114 ~  114 (286)
                      .
T Consensus        93 p   93 (119)
T 1wwh_A           93 P   93 (119)
T ss_dssp             E
T ss_pred             E
Confidence            3

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=97.18  E-value=0.0016  Score=47.28  Aligned_cols=62  Identities=8%  Similarity=-0.002  Sum_probs=53.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                      ..+.|-|-+.|.. ....+...|++||.|.+....  .+..+..|+|.+..+|++||.. ||..+.
T Consensus        23 ~~~wVtVFGFp~~-~~~~VL~~F~~~G~Iv~~~~~--~~~NWihI~Y~s~~~A~rAL~k-NG~ii~   84 (119)
T 1wwh_A           23 DDTWVTVFGFPQA-SASYILLQFAQYGNILKHVMS--NTGNWMHIRYQSKLQARKALSK-DGRIFG   84 (119)
T ss_dssp             GGGEEEEECCCGG-GHHHHHHHHHTTSCEEEEEEC--SSSSEEEEEESSHHHHHHHHTT-TTCEET
T ss_pred             CCCEEEEECCCHH-HHHHHHHHHHhhCcEEEeccC--CCCCeEEEEeCCHHHHHHHHHh-CCeEec
Confidence            3778889999988 478888999999999987763  3337999999999999999977 999986

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=97.00  E-value=0.00057  Score=47.69  Aligned_cols=78  Identities=17%  Similarity=0.283  Sum_probs=54.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCe-----eEEEEEEcCHHHHHHHHHHhCCCccCCCCCC--e
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ-----VVAFATFVNHQTAVAALHELNGVKFDPQSGS--V  107 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~-----~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~--~  107 (286)
                      +-.|-|+.||+.+||+++.+.++..-+++..... .++...     .-|||.|.+.++.....+..+|..+.-.+|.  +
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv-~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~kg~~~~   87 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFF-AADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDSKGLEYP   87 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCC-CCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECTTCCEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEe-CCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeCCCCEee
Confidence            5669999999999999999888876554322211 111111     1799999999999999999999998522333  3


Q ss_pred             EEEEEe
Q 023143          108 LHIELA  113 (286)
Q Consensus       108 l~v~~~  113 (286)
                      -.|++|
T Consensus        88 a~VE~A   93 (97)
T 2l08_A           88 AVVEFA   93 (97)
T ss_dssp             EEEEEC
T ss_pred             eEEEec
Confidence            345554

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=96.98  E-value=0.0015  Score=45.53  Aligned_cols=55  Identities=18%  Similarity=0.251  Sum_probs=47.1

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ  262 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln  262 (286)
                      ..+++| +.|+++-..||.++|+.||.| .|+-+.+.   -|||.|.+++.|..|+..+.
T Consensus         6 ~HV~~l-~FP~ewKt~Di~~lFs~fggv-~I~WidDT---sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            6 DHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDDT---SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEEE-ECCTTCCHHHHHHHTTTSEEE-EEEEEETT---EEEEEEEEECHHHHHHHHHT
T ss_pred             CeEEEE-eCChhhhhHHHHHHHhccCCE-EEEEEcCC---eEEEEecCHHHHHHHHHhcc
Confidence            567778 999999999999999999965 45566654   59999999999999999875

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.86  E-value=0.0005  Score=62.03  Aligned_cols=56  Identities=20%  Similarity=0.173  Sum_probs=43.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHh
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG  260 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~  260 (286)
                      .++|||. .+..+++.+|.+.|++||.|.++.+-..++ .||.|+|.+.++++.+++.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g-~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFG-LYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSS-EEEEEECC---CCHHHHSS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCC-eEEEEEeCCHHHHHHHHhc
Confidence            6899996 799999999999999999999998887552 4999999999999988765

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.73  E-value=0.00089  Score=60.38  Aligned_cols=54  Identities=7%  Similarity=0.143  Sum_probs=41.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHH
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH   93 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~   93 (286)
                      |.|||. .|..+++.+|.+.|+.||.|.++.+-   +.++.||.|+|.+.+++..++.
T Consensus        54 rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~---~~~g~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           54 RTVLIH-CPEKISENKFLKYLSQFGPINNHFFY---ESFGLYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             TEEEEE-ECCC---CHHHHHHGGGSCCCCEEEE---CSSSEEEEEECC---CCHHHHS
T ss_pred             ceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEE---ccCCeEEEEEeCCHHHHHHHHh
Confidence            889998 79999999999999999999988777   3334599999999999886654

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=95.81  E-value=0.013  Score=43.11  Aligned_cols=73  Identities=4%  Similarity=-0.020  Sum_probs=51.9

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee----------------c-CCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA----------------R-GGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~----------------~-~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      ...|.|-+.|.+ ....+.+.|++||.|.+ +...+                . .+..+.-|+|++..+|++||.. ||.
T Consensus         7 e~~VtVFGFp~~-~~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~-NG~   84 (132)
T 3p3d_A            7 ELAILVFGYPET-MANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE-NGA   84 (132)
T ss_dssp             -CEEEEECCCGG-GHHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT-TTC
T ss_pred             ceEEEEEecCHH-HHHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh-CCe
Confidence            345666677766 56778889999999865 21111                0 1346999999999999999966 999


Q ss_pred             ccCCCCCCcEEEEEec
Q 023143          265 TLPSSDRGGMHIEYAR  280 (286)
Q Consensus       265 ~~~~~~g~~l~V~~ak  280 (286)
                      .|.   |..|-|....
T Consensus        85 ii~---G~mIGV~Py~   97 (132)
T 3p3d_A           85 VFN---GVLLGVIPYT   97 (132)
T ss_dssp             EET---TEECEEEECC
T ss_pred             EeC---cEEEEEEECC
Confidence            987   4466666543

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=94.84  E-value=0.068  Score=49.02  Aligned_cols=56  Identities=16%  Similarity=0.288  Sum_probs=45.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCC
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG   97 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g   97 (286)
                      ...++|+ +|..+...+|.++|+.||.|   .|.+-.+.   .|||.|.+.++|..++..+..
T Consensus       440 ~~vl~v~-f~~~~~~~~i~~~fs~fg~v---~V~widdt---~a~V~~~~~~~a~~~l~~~~~  495 (507)
T 3d45_A          440 DHVLHVT-FPKEWKTSDLYQLFSAFGNI---QISWIDDT---SAFVSLSQPEQVQIAVNTSKY  495 (507)
T ss_dssp             GGEEEEE-CCTTCCHHHHHHHGGGGCCC---EEEECSSS---EEEEECSCHHHHHHHHHHHTT
T ss_pred             CcEEEEe-CCCCCCHHHHHHHHHhcCCE---EEEEEcCC---eEEEEECCHHHHHHHHHHHHh
Confidence            4567776 99999999999999999966   33333344   999999999999999998853

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=93.43  E-value=0.091  Score=38.58  Aligned_cols=72  Identities=24%  Similarity=0.330  Sum_probs=50.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccE-EEEE------------------ecCCCCeeEEEEEEcCHHHHHHHHHH
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDF-CQLK------------------YTGRGNQVVAFATFVNHQTAVAALHE   94 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~-v~i~------------------~~~~~~~~~aFV~F~~~~~A~~A~~~   94 (286)
                      ....|.|-+.|.+.+. .+-+.|++||.|.+ +...                  +.+.+   +.-|+|.++.+|.+|+. 
T Consensus         6 ~e~~VtVFGFp~~~~~-~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~N---WikItYds~~~A~rAL~-   80 (132)
T 3p3d_A            6 GELAILVFGYPETMAN-QVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNS---WTKITYDNPASAVDALL-   80 (132)
T ss_dssp             --CEEEEECCCGGGHH-HHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETT---EEEEEBSSHHHHHHHHT-
T ss_pred             CceEEEEEecCHHHHH-HHHHHHHhhceEeeeccccccccccccccccccccCccCCCc---EEEEEcCCHHHHHHHHH-
Confidence            3456888888776554 45578999999965 2110                  01223   99999999999999996 


Q ss_pred             hCCCccCCCCCCeEEEEEe
Q 023143           95 LNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        95 l~g~~~~~~~g~~l~v~~~  113 (286)
                      .||..|.   |..|=|.+.
T Consensus        81 ~NG~ii~---G~mIGV~Py   96 (132)
T 3p3d_A           81 ENGAVFN---GVLLGVIPY   96 (132)
T ss_dssp             TTTCEET---TEECEEEEC
T ss_pred             hCCeEeC---cEEEEEEEC
Confidence            7899996   765555554

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=91.66  E-value=0.48  Score=43.33  Aligned_cols=57  Identities=18%  Similarity=0.250  Sum_probs=46.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      ..+++|+ .+..+...+|.++|+.||.|. |+-+..   ..|||.|.+.+.|..++.+++..
T Consensus       440 ~~vl~v~-f~~~~~~~~i~~~fs~fg~v~-V~widd---t~a~V~~~~~~~a~~~l~~~~~~  496 (507)
T 3d45_A          440 DHVLHVT-FPKEWKTSDLYQLFSAFGNIQ-ISWIDD---TSAFVSLSQPEQVQIAVNTSKYA  496 (507)
T ss_dssp             GGEEEEE-CCTTCCHHHHHHHGGGGCCCE-EEECSS---SEEEEECSCHHHHHHHHHHHTTC
T ss_pred             CcEEEEe-CCCCCCHHHHHHHHHhcCCEE-EEEEcC---CeEEEEECCHHHHHHHHHHHHhC
Confidence            5678886 888999999999999999763 444443   46999999999999999998543

---

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	286
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	4e-12
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	2e-06
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	1e-11
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	4e-07
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	6e-11
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-07
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	6e-11
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	3e-07
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-10
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-08
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	2e-10
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	1e-06
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	2e-10
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	1e-04
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	2e-10
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	4e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	5e-10
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	6e-07
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	5e-10
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-07
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-10
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	9e-05
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	6e-10
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	4e-07
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	7e-10
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	3e-06
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	1e-09
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	4e-06
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	1e-09
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	1e-05
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	1e-09
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	0.001
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	1e-09
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	5e-05
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	2e-09
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	2e-08
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	2e-09
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	9e-09
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	2e-09
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	8e-07
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	2e-09
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	8e-09
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	5e-09
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	7e-07
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	6e-09
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	8e-07
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	7e-09
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	4e-04
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	7e-09
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	3e-06
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	8e-09
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	7e-06
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	9e-09
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	3e-05
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	2e-08
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	1e-05
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	3e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	3e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	3e-06
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	4e-08
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	4e-08
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	2e-05
d2adca1	109	d.58.7.1 (A:335-443) Polypyrimidine tract-binding	4e-08
d2adca1	109	d.58.7.1 (A:335-443) Polypyrimidine tract-binding	6e-05
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-07
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	5e-06
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	1e-07
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	8e-05
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-07
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	4e-06
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-07
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	8e-06
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	3e-07
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	1e-04
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	4e-07
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	6e-07
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	4e-07
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	6e-07
d3begb1	87	d.58.7.1 (B:121-207) Splicing factor, arginine/ser	4e-07
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	4e-07
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-06
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	8e-07
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	0.003
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	1e-06
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	6e-05
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-06
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	1e-06
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	1e-06
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	2e-06
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	7e-04
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	2e-06
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	0.004
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	3e-06
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	6e-06
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-06
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	9e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	4e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	2e-04
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	6e-06
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	6e-06
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	2e-04
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	9e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	9e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	1e-05
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	1e-05
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	1e-05
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	0.003
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	2e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-04
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	2e-05
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	2e-05
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	2e-05
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	0.001
d1wi6a1	75	d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding	3e-05
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	3e-05
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	4e-05
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	3e-05
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	0.003
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-05
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-04
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	4e-05
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.004
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	7e-05
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	2e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	1e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	7e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	2e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	2e-04
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	4e-04
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	7e-04
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	9e-04
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	0.001

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (142), Expect = 4e-12
 Identities = 16/89 (17%), Positives = 39/89 (43%), Gaps = 5/89 (5%)

Query: 33  NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
           +G+  +F+  L   +  + +++ F        C++     G++   F  F   + A  A+
Sbjct: 6   SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAI 65

Query: 93  HELNGVKFDPQSGSVLHIELARSNSRKKR 121
            ++NG+  +      + +   +  SRK+R
Sbjct: 66  EKMNGMLLN---DRKVFVGRFK--SRKER 89

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (101), Expect = 2e-06
 Identities = 18/82 (21%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKM--RARGGMPVAFADFEEVEQASIAMEGLQ 262
            +FI NL  +     L  T S +      K+     G     F  FE  E A  A+E + 
Sbjct: 10  NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 69

Query: 263 DSTLPSSDRGG--MHIEYARSK 282
              L         + +   +S+
Sbjct: 70  GMLL-----NDRKVFVGRFKSR 86

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

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

 Score = 57.4 bits (138), Expect = 1e-11
 Identities = 26/91 (28%), Positives = 37/91 (40%), Gaps = 3/91 (3%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAV 89
           + D    TL+V  L  DV    I  LF +      C++      N    F  F  H+ A 
Sbjct: 3   EDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAA 62

Query: 90  AALHELNGVKFDPQSGSVLHIELARSNSRKK 120
           AAL  +NG K     G  + +  A + S +K
Sbjct: 63  AALAAMNGRKIL---GKEVKVNWATTPSSQK 90

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

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

 Score = 45.0 bits (106), Expect = 4e-07
 Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 5/86 (5%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG--MPVAFADFEEVEQASIAME 259
              TL++ NL  + TE  + Q  S        KM        P  F +F E   A+ A+ 
Sbjct: 7   QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALA 66

Query: 260 GLQDSTLPSSDRGGMHIEYARSKMRK 285
            +    +   +   + + +A +   +
Sbjct: 67  AMNGRKILGKE---VKVNWATTPSSQ 89

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.7 bits (134), Expect = 6e-11
 Identities = 13/88 (14%), Positives = 29/88 (32%), Gaps = 5/88 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALH 93
            TL+V  L       +I+ LF +        +      +      F  + +   A  A+ 
Sbjct: 8   CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMR 67

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKKR 121
            +NG + D     ++  +        ++
Sbjct: 68  YINGTRLD---DRIIRTDWDAGFKEGRQ 92

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.5 bits (110), Expect = 1e-07
 Identities = 14/92 (15%), Positives = 31/92 (33%), Gaps = 11/92 (11%)

Query: 197 EGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM----RARGGMPVAFADFEEVE 252
           E  ++   TL++ NL    TE+++ +  S       + M      +      F ++    
Sbjct: 1   EKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRA 60

Query: 253 QASIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
            A  AM  +  + L         +  ++    
Sbjct: 61  DAENAMRYINGTRL-----DDRIIRTDWDAGF 87

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.3 bits (133), Expect = 6e-11
 Identities = 21/79 (26%), Positives = 30/79 (37%), Gaps = 4/79 (5%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELN 96
           L VS L   V   +I  LF          + Y     +   A   F     A+ A+ + N
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 62

Query: 97  GVKFDPQSGSVLHIELARS 115
           GV  D   G  ++I+L  S
Sbjct: 63  GVPLD---GRPMNIQLVTS 78

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.3 bits (107), Expect = 3e-07
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 10/81 (12%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGF---NMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           L ++NL    ++ ++++  + +       +   R+   +  A   FE    A  AM+   
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 62

Query: 263 DSTLPSSDRGG--MHIEYARS 281
              L      G  M+I+   S
Sbjct: 63  GVPL-----DGRPMNIQLVTS 78

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.6 bits (131), Expect = 2e-10
 Identities = 21/90 (23%), Positives = 32/90 (35%), Gaps = 9/90 (10%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQL----KYTGRGNQVVAFATFVNHQTAVAA 91
           + + V  +P     REI  LF         +L      TG  ++   F  F+  Q A  A
Sbjct: 9   SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGA-HRGFGFVDFITKQDAKKA 67

Query: 92  LHEL-NGVKFDPQSGSVLHIELARSNSRKK 120
            + L +        G  L +E A S    +
Sbjct: 68  FNALCHSTHLY---GRRLVLEWADSEVTVQ 94

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.8 bits (116), Expect = 2e-08
 Identities = 17/90 (18%), Positives = 34/90 (37%), Gaps = 7/90 (7%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM-----RARGGMPVAFADFEEVEQAS 255
           Q  S + + N+     + E+++  S +     +++              F DF   + A 
Sbjct: 6   QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 65

Query: 256 IAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
            A   L  ST     R  + +E+A S++  
Sbjct: 66  KAFNALCHSTHLYGRR--LVLEWADSEVTV 93

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.4 bits (130), Expect = 2e-10
 Identities = 19/90 (21%), Positives = 41/90 (45%), Gaps = 2/90 (2%)

Query: 194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQ 253
           K ++    P +TL ++N+ P+ +E++LK   S   G        +    +A      VE+
Sbjct: 1   KNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEE 60

Query: 254 ASIAMEGLQDSTLPSSDRGGMHIEYARSKM 283
           A  A+  L +  L   +   + + +++S +
Sbjct: 61  AVQALIDLHNHDL--GENHHLRVSFSKSTI 88

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (103), Expect = 1e-06
 Identities = 16/81 (19%), Positives = 31/81 (38%), Gaps = 4/81 (4%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
            TL +S +P  V   ++  LF    G          + ++ +A     + + AV AL +L
Sbjct: 11  ATLHLSNIPPSVSEEDLKVLFSSNGGVVKG--FKFFQKDRKMALIQMGSVEEAVQALIDL 68

Query: 96  NGVKFDPQSGSVLHIELARSN 116
           +           L +  ++S 
Sbjct: 69  HNHDLG--ENHHLRVSFSKST 87

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.3 bits (130), Expect = 2e-10
 Identities = 23/96 (23%), Positives = 34/96 (35%), Gaps = 6/96 (6%)

Query: 34  GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAA 91
           G   LFV  L       ++  LF                    +  AF TF+  + AV A
Sbjct: 7   GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKA 66

Query: 92  LHELNGVKFDPQSGSVLHIELARS-NSRKKRKPGSG 126
             E++G  F    G +LH+  +       +  P SG
Sbjct: 67  YAEVDGQVFQ---GRMLHVLPSTIKKEASQSGPSSG 99

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.2 bits (88), Expect = 1e-04
 Identities = 19/90 (21%), Positives = 31/90 (34%), Gaps = 11/90 (12%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKM----RARGGMPVAFADFEEVEQA 254
           G      LF+ NL    +E++L++  S Y   + L        +     AF  F   E A
Sbjct: 4   GSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHA 63

Query: 255 SIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
             A   +           G  +H+  +  K
Sbjct: 64  VKAYAEVDGQVF-----QGRMLHVLPSTIK 88

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 55.3 bits (132), Expect = 2e-10
 Identities = 25/127 (19%), Positives = 41/127 (32%), Gaps = 8/127 (6%)

Query: 4   PPYDPYYLPPIHP---PPPPVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFR--R 58
             YDPY                 PP     + + +  L V+ +P  V   ++  LF    
Sbjct: 8   SQYDPYGQTAQLQQLQQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYG 67

Query: 59  KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSR 118
                        R ++   F  F +  +A  A+  LNG          L + LA S  +
Sbjct: 68  PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL---NKRLKVALAASGHQ 124

Query: 119 KKRKPGS 125
           +    G+
Sbjct: 125 RPGIAGA 131

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 37.6 bits (86), Expect = 4e-04
 Identities = 18/118 (15%), Positives = 37/118 (31%), Gaps = 12/118 (10%)

Query: 172 TTQSERATDSGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFN 231
           T Q ++         P  + + +P          L +  +     E +L+Q    Y    
Sbjct: 16  TAQLQQLQQQQQQHIPPTQMNPEP-----DVLRNLMVNYIPTTVDEVQLRQLFERYGPIE 70

Query: 232 MLKMRARG----GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
            +K+             F  F+    A  A+ GL    + +     + +  A S  ++
Sbjct: 71  SVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKR---LKVALAASGHQR 125

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 53.0 bits (127), Expect = 5e-10
 Identities = 17/89 (19%), Positives = 31/89 (34%), Gaps = 7/89 (7%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTA 88
           ++     + LFV  LP D+   E+  LF +        +      ++   F        A
Sbjct: 2   EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK----DKGFGFIRLETRTLA 57

Query: 89  VAALHELNGVKFDPQSGSVLHIELARSNS 117
             A  EL+ +      G  L +  A  ++
Sbjct: 58  EIAKVELDNMPLR---GKQLRVRFACHSA 83

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.2 bits (104), Expect = 6e-07
 Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 13/92 (14%)

Query: 193 EKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVE 252
           EK +       S LF+ NL P+ TE+E+++    Y     + +         F   E   
Sbjct: 2   EKTFTQ----RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD--KGFGFIRLETRT 55

Query: 253 QASIAMEGLQDSTLPSSDRGG--MHIEYARSK 282
            A IA   L +  L      G  + + +A   
Sbjct: 56  LAEIAKVELDNMPL-----RGKQLRVRFACHS 82

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.9 bits (129), Expect = 5e-10
 Identities = 14/88 (15%), Positives = 32/88 (36%), Gaps = 4/88 (4%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             L++  LP  + A E++++F +       ++  T       A+  + +   A  A   L
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGT-AYVVYEDIFDAKNACDHL 66

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKP 123
           +G          L +    +N   ++  
Sbjct: 67  SGFNVC---NRYLVVLYYNANRAFQKMD 91

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.5 bits (110), Expect = 2e-07
 Identities = 13/85 (15%), Positives = 29/85 (34%), Gaps = 8/85 (9%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGM-PVAFADFEEVEQASIAME 259
           +    L+I NL    T +E+      Y     +++         A+  +E++  A  A +
Sbjct: 5   EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACD 64

Query: 260 GLQDSTLPSSDRGG--MHIEYARSK 282
            L    +         + + Y  + 
Sbjct: 65  HLSGFNV-----CNRYLVVLYYNAN 84

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.3 bits (128), Expect = 5e-10
 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 10/92 (10%)

Query: 36  NTLFVSGL-PDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           + +F+  L    V+  ++  +F +      C +          AF  +VN + A AA+  
Sbjct: 16  SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKG------FAFVQYVNERNARAAVAG 69

Query: 95  LNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            +G       G VL I LA      +  P SG
Sbjct: 70  EDGRMIA---GQVLDINLAAEPKVNRSGPSSG 98

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.7 bits (90), Expect = 9e-05
 Identities = 15/85 (17%), Positives = 25/85 (29%), Gaps = 12/85 (14%)

Query: 204 STLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           S +FI NL      + +++   S Y       +        AF  +     A  A+ G  
Sbjct: 16  SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH----KGFAFVQYVNERNARAAVAGED 71

Query: 263 DSTLPSSDRGG--MHIEYARSKMRK 285
              +      G  + I  A      
Sbjct: 72  GRMI-----AGQVLDINLAAEPKVN 91

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.1 bits (127), Expect = 6e-10
 Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 5/85 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
            T++V GL + V    +  LF +                 +Q   F  F++ + A  A+ 
Sbjct: 10  ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 69

Query: 94  ELNGVKFDPQSGSVLHIELARSNSR 118
            ++ +K     G  + +  A ++++
Sbjct: 70  IMDMIKLY---GKPIRVNKASAHNK 91

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 4e-07
 Identities = 14/91 (15%), Positives = 28/91 (30%), Gaps = 11/91 (12%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG----MPVAFADFEEVEQASIA 257
             +T+++  L    +E  L +            M             F +F   E A  A
Sbjct: 8   QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYA 67

Query: 258 MEGLQDSTLPSSDRGG--MHIEYARSKMRKL 286
           ++ +    L      G  + +  A +  + L
Sbjct: 68  IKIMDMIKL-----YGKPIRVNKASAHNKNL 93

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

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

 Score = 53.2 bits (127), Expect = 7e-10
 Identities = 18/87 (20%), Positives = 36/87 (41%), Gaps = 5/87 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ--VVAFATFVNHQTAVAALH 93
             LF+  LP +   +++  +F         ++    + N      F ++ N  +A AA+ 
Sbjct: 19  ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQ 78

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKK 120
            +NG +        L ++L RS +  K
Sbjct: 79  SMNGFQIG---MKRLKVQLKRSKNDSK 102

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

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

 Score = 43.1 bits (101), Expect = 3e-06
 Identities = 16/106 (15%), Positives = 34/106 (32%), Gaps = 13/106 (12%)

Query: 181 SGNAVAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG- 239
           +  ++     Q E P        + LFI +L     + +L Q    +      K+     
Sbjct: 2   TQQSIGAAGSQKEGP------EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ 55

Query: 240 ---GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
                   F  ++    A  A++ +    +       + ++  RSK
Sbjct: 56  TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKR---LKVQLKRSK 98

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.4 bits (125), Expect = 1e-09
 Identities = 18/88 (20%), Positives = 37/88 (42%), Gaps = 3/88 (3%)

Query: 28  HQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQT 87
           + +  +    L VS +P   R  ++  +F +       ++ +  RG++   F TF N   
Sbjct: 4   NSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSAD 63

Query: 88  AVAALHELNGVKFDPQSGSVLHIELARS 115
           A  A  +L+G   +   G  + +  A +
Sbjct: 64  ADRAREKLHGTVVE---GRKIEVNNATA 88

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 4e-06
 Identities = 13/84 (15%), Positives = 30/84 (35%), Gaps = 9/84 (10%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP--VAFADFEEVEQASIAMEGLQ 262
            L ++N+     + +L+Q    +     +++           F  FE    A  A E L 
Sbjct: 13  RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 72

Query: 263 DSTLPSSDRGG--MHIEYARSKMR 284
            + +      G  + +  A +++ 
Sbjct: 73  GTVV-----EGRKIEVNNATARVM 91

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.4 bits (125), Expect = 1e-09
 Identities = 19/91 (20%), Positives = 42/91 (46%), Gaps = 5/91 (5%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQ 86
            ++ +   T+ V+ L +D R  ++  LFR        +     T   ++  AF +F   +
Sbjct: 2   NRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRRE 61

Query: 87  TAVAALHELNGVKFDPQSGSVLHIELARSNS 117
            A  A+  ++G  +D     +L++E A+ ++
Sbjct: 62  DAARAIAGVSGFGYD---HLILNVEWAKPST 89

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 1e-05
 Identities = 14/85 (16%), Positives = 30/85 (35%), Gaps = 11/85 (12%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASIAME 259
           +T+ + NL  +  E +L++    +                    AF  F   E A+ A+ 
Sbjct: 9   ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 68

Query: 260 GLQDSTLPSSDRGG--MHIEYARSK 282
           G+              +++E+A+  
Sbjct: 69  GVSGFGY-----DHLILNVEWAKPS 88

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (124), Expect = 1e-09
 Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 8/93 (8%)

Query: 34  GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
           G + + V  LP D   +E+H+L +      +         N+  AF T +N + A  A+ 
Sbjct: 4   GSSGILVKNLPQDSNCQEVHDLLKD-----YDLKYCYVDRNKRTAFVTLLNGEQAQNAIQ 58

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
             +   F    G  L ++L  +++     P SG
Sbjct: 59  MFHQYSFR---GKDLIVQLQPTDALLCSGPSSG 88

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 0.001
 Identities = 14/86 (16%), Positives = 26/86 (30%), Gaps = 10/86 (11%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM 258
           G    S + + NL  +    E+   L  Y        R +      F      EQA  A+
Sbjct: 1   GSSGSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTA---FVTLLNGEQAQNAI 57

Query: 259 EGLQDSTLPSSDRGG--MHIEYARSK 282
           +     +       G  + ++   + 
Sbjct: 58  QMFHQYSF-----RGKDLIVQLQPTD 78

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.9 bits (124), Expect = 1e-09
 Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 7/82 (8%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN 96
            L+V  L        I   F         ++K      +  AF  F N + AV A+  LN
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK----IRDYAFVHFSNREDAVEAMKALN 65

Query: 97  GVKFDPQSGSVLHIELARSNSR 118
           G   D   GS + + LA+   +
Sbjct: 66  GKVLD---GSPIEVTLAKPVDK 84

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 5e-05
 Identities = 16/82 (19%), Positives = 32/82 (39%), Gaps = 9/82 (10%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDS 264
            L++ NL  + +E+ +++  +      +   R +     AF  F   E A  AM+ L   
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIKPGAV--ERVKKIRDYAFVHFSNREDAVEAMKALNGK 67

Query: 265 TLPSSDRGG--MHIEYARSKMR 284
            L      G  + +  A+   +
Sbjct: 68  VL-----DGSPIEVTLAKPVDK 84

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (123), Expect = 2e-09
 Identities = 18/91 (19%), Positives = 38/91 (41%), Gaps = 8/91 (8%)

Query: 36  NTLFVSGLPDDVRAREI----HNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAA 91
           +T++++ L + ++  E+    H +F R        +  +    +  AF  F    +A  A
Sbjct: 4   HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNA 62

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRK 122
           L  + G  F       + I+ A+++S    K
Sbjct: 63  LRSMQGFPFY---DKPMRIQYAKTDSDIIAK 90

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (116), Expect = 2e-08
 Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 8/87 (9%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTL-----SVYPGFNMLKMRARGGMPVAFADFEEVEQAS 255
           +P  T++I NL     +DELK++L           ++L  R+      AF  F+EV  A+
Sbjct: 1   RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSAT 60

Query: 256 IAMEGLQDSTLPSSDRGGMHIEYARSK 282
            A+  +Q           M I+YA++ 
Sbjct: 61  NALRSMQGFPFYDKP---MRIQYAKTD 84

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 51.5 bits (123), Expect = 2e-09
 Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 3/79 (3%)

Query: 37  TLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
            L+V+ LP  +   ++  +F +                  + VAF  +   + A  A+  
Sbjct: 8   NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 67

Query: 95  LNGVKFDPQSGSVLHIELA 113
           LN V  +      L + LA
Sbjct: 68  LNNVIPEG-GSQPLSVRLA 85

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 49.6 bits (118), Expect = 9e-09
 Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 5/80 (6%)

Query: 204 STLFIANLGPNCTEDELKQTLS----VYPGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           + L++ NL    T+D+L         +     +          VAF  + + E+A  A+ 
Sbjct: 7   TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 66

Query: 260 GLQDSTLPSSDRGGMHIEYA 279
            L +       +  + +  A
Sbjct: 67  ALNNVIPEGGSQ-PLSVRLA 85

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 2e-09
 Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 5/82 (6%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQL--KYTGRGNQVVAFATFVNHQTAVAALHE 94
           +L+V  L  DV    ++  F         ++      R +   A+  F     A  AL  
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 95  LNGVKFDPQSGSVLHIELARSN 116
           +N        G  + I  ++ +
Sbjct: 62  MNFDVIK---GKPVRIMWSQRD 80

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.8 bits (103), Expect = 8e-07
 Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 11/82 (13%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFN----MLKMRARGGMPVAFADFEEVEQASIAMEG 260
           +L++ +L P+ TE  L +  S             M  R  +  A+ +F++   A  A++ 
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 261 LQDSTLPSSDRGG--MHIEYAR 280
           +    +      G  + I +++
Sbjct: 62  MNFDVI-----KGKPVRIMWSQ 78

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.6 bits (123), Expect = 2e-09
 Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 3/92 (3%)

Query: 191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE 250
            S K   G   P + L++  LGPN +   L +    +     +          A+  +E 
Sbjct: 5   SSGKIGYGKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG--DSFAYIQYES 62

Query: 251 VEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
           ++ A  A   ++   L   DR  + +++A+S 
Sbjct: 63  LDAAQAACAKMRGFPLGGPDR-RLRVDFAKSG 93

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.1 bits (119), Expect = 8e-09
 Identities = 17/91 (18%), Positives = 28/91 (30%), Gaps = 11/91 (12%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             L+V GL  +     +   F R                   A+  + +   A AA  ++
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK----GDSFAYIQYESLDAAQAACAKM 73

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
            G          L ++ A+S       P SG
Sbjct: 74  RGFPLGGPD-RRLRVDFAKS------GPSSG 97

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 50.4 bits (120), Expect = 5e-09
 Identities = 16/89 (17%), Positives = 26/89 (29%), Gaps = 9/89 (10%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
            TL    L  ++   E+  +F               +G    A+  F +   A   L E 
Sbjct: 17  RTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGI---AYIEFKSEADAEKNLEEK 73

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPG 124
            G + D   G  + +        K    G
Sbjct: 74  QGAEID---GRSVSLYYTG---EKGGTRG 96

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 44.3 bits (104), Expect = 7e-07
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 8/85 (9%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           V+   TL   NL  N TEDELK+         ++  +      +A+ +F+    A   +E
Sbjct: 13  VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLE 71

Query: 260 GLQDSTLPSSDRGG--MHIEYARSK 282
             Q + +      G  + + Y   K
Sbjct: 72  EKQGAEI-----DGRSVSLYYTGEK 91

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

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

 Score = 50.0 bits (119), Expect = 6e-09
 Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 5/85 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALH 93
           + LF+ GLP+ +   ++  L           L        ++  AF  +V+      A+ 
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 94  ELNGVKFDPQSGSVLHIELARSNSR 118
            LNG++        L ++ A   ++
Sbjct: 62  GLNGMQLG---DKKLLVQRASVGAK 83

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

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

 Score = 43.9 bits (103), Expect = 8e-07
 Identities = 15/85 (17%), Positives = 31/85 (36%), Gaps = 11/85 (12%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKM----RARGGMPVAFADFEEVEQASIAMEGL 261
           LFI  L     +D++K+ L+ +       +            AF ++ ++     A+ GL
Sbjct: 4   LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63

Query: 262 QDSTLPSSDRGG--MHIEYARSKMR 284
               L     G   + ++ A    +
Sbjct: 64  NGMQL-----GDKKLLVQRASVGAK 83

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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

 Score = 50.1 bits (119), Expect = 7e-09
 Identities = 20/106 (18%), Positives = 36/106 (33%), Gaps = 7/106 (6%)

Query: 27  HHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVV--AFATFVN 84
           H  Q+D     +FV GLP       +   F      +   +    +  +     F T  +
Sbjct: 2   HGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMAD 61

Query: 85  HQTAVAALHELNGVKFDPQSGSVLHIELARSNSR-KKRKPGSGAYV 129
              A  A  + N +  D   G   ++ LA   ++ +  + G    V
Sbjct: 62  RAAAERACKDPNPI-ID---GRKANVNLAYLGAKPRSLQTGFAIGV 103

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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

 Score = 37.0 bits (85), Expect = 4e-04
 Identities = 7/62 (11%), Positives = 18/62 (29%), Gaps = 4/62 (6%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKM----RARGGMPVAFADFEEVEQASIAMEG 260
            +F+  L  + T+  L++    +       +    +        F    +   A  A + 
Sbjct: 12  KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKD 71

Query: 261 LQ 262
             
Sbjct: 72  PN 73

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 7e-09
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 5/80 (6%)

Query: 37  TLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
            L V+ LP ++   E  +LF    +              +    F  +++ + A  A++ 
Sbjct: 4   NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT 63

Query: 95  LNGVKFDPQSGSVLHIELAR 114
           LNG++        + +  AR
Sbjct: 64  LNGLRLQ---TKTIKVSYAR 80

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 3e-06
 Identities = 13/83 (15%), Positives = 27/83 (32%), Gaps = 11/83 (13%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASIAME 259
           + L +  L  N T++E +              +        +   F ++ + + A  A+ 
Sbjct: 3   TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62

Query: 260 GLQDSTLPSSDRGG--MHIEYAR 280
            L    L         + + YAR
Sbjct: 63  TLNGLRL-----QTKTIKVSYAR 80

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 8e-09
 Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 8/89 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             ++V  LP D+R ++I ++F +        LK   RG    AF  F + + A  A++  
Sbjct: 15  CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGR 73

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPG 124
           +G  +D   G  L +E  RS     R  G
Sbjct: 74  DGYDYD---GYRLRVEFPRS----GRGTG 95

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 7e-06
 Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 8/82 (9%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNML-KMRARGGMPVAFADFEEVEQASIAMEGLQ 262
             +++ NL P+    +++     Y     +     RGG P AF +FE+   A  A+ G  
Sbjct: 15  CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRD 74

Query: 263 DSTLPSSDRGG--MHIEYARSK 282
                     G  + +E+ RS 
Sbjct: 75  GYDY-----DGYRLRVEFPRSG 91

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.1 bits (119), Expect = 9e-09
 Identities = 24/103 (23%), Positives = 48/103 (46%), Gaps = 7/103 (6%)

Query: 32  DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVV--AFATFVNHQTAV 89
           D  + ++FV  +P +    ++ ++F         +L Y     +     F  + + +TA+
Sbjct: 5   DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64

Query: 90  AALHELNGVKFDPQSGSVLHIELARSNSRKK--RKPGSGAYVV 130
           +A+  LNG +F    G  L ++ A S   K+  +  G+GA V+
Sbjct: 65  SAMRNLNGREFS---GRALRVDNAASEKNKEELKSLGTGAPVI 104

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 3e-05
 Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 11/87 (12%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP----VAFADFEEVEQASIAMEG 260
           ++F+ N+    TE++LK   S        ++             F ++++ E A  AM  
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69

Query: 261 LQDSTLPSSDRGG--MHIEYARSKMRK 285
           L           G  + ++ A S+  K
Sbjct: 70  LNGREF-----SGRALRVDNAASEKNK 91

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.9 bits (116), Expect = 2e-08
 Identities = 14/86 (16%), Positives = 28/86 (32%), Gaps = 8/86 (9%)

Query: 38  LFVSGLPDDVRAREIHNLFRR-----KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
           LF+  L        +  +F +            + K     +    F  +   + A  AL
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 93  HELNGVKFDPQSGSVLHIELARSNSR 118
            +L G   D   G  L + ++   ++
Sbjct: 61  KQLQGHTVD---GHKLEVRISERATK 83

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.8 bits (95), Expect = 1e-05
 Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 14/88 (15%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNML-------KMRARGGMPVAFADFEEVEQASIAM 258
           LFI NL  + TE+ LK   S               K      M   F ++++ EQA  A+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 259 EGLQDSTLPSSDRGG--MHIEYARSKMR 284
           + LQ  T+      G  + +  +    +
Sbjct: 61  KQLQGHTV-----DGHKLEVRISERATK 83

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 3e-08
 Identities = 17/96 (17%), Positives = 29/96 (30%), Gaps = 4/96 (4%)

Query: 32  DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVN-HQTAVA 90
            +   T F+  LP DV    I   FR          +      ++  F         ++ 
Sbjct: 12  KSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLL 71

Query: 91  ALHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +   LN           + +++A     K   P SG
Sbjct: 72  SALSLNEESLG---NKRIRVDVADQAQDKDSGPSSG 104

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 47.7 bits (113), Expect = 3e-08
 Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 5/80 (6%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHE 94
            L V+ LP D+  RE++ LFR     + C++    +   +   AF  F +   +  A+  
Sbjct: 4   NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 63

Query: 95  LNGVKFDPQSGSVLHIELAR 114
           LNG+         L +  AR
Sbjct: 64  LNGITVR---NKRLKVSYAR 80

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 42.3 bits (99), Expect = 3e-06
 Identities = 16/81 (19%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 204 STLFIANLGPNCTEDELKQTLS----VYPGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           + L +  L  + T+ EL         +     M   +       AF DF     +  A++
Sbjct: 3   TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 62

Query: 260 GLQDSTLPSSDRGGMHIEYAR 280
            L   T+ +     + + YAR
Sbjct: 63  VLNGITVRNKR---LKVSYAR 80

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.5 bits (115), Expect = 4e-08
 Identities = 14/84 (16%), Positives = 29/84 (34%), Gaps = 1/84 (1%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM 258
           G  P   + + NL    T D L Q  S +     +    +     A   + +   A  A 
Sbjct: 3   GQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAK 62

Query: 259 EGLQDSTLPSSDRGGMHIEYARSK 282
             L    + ++    + I++++  
Sbjct: 63  LSLDGQNIYNACC-TLRIDFSKLT 85

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 47.8 bits (113), Expect = 4e-08
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALH 93
             LFV+ + ++ +  EI   F          L        ++  A   +  H+ A+AA  
Sbjct: 8   WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 67

Query: 94  ELNGVKFDPQSGSVLHIELARS 115
            LNG +     G  + ++    
Sbjct: 68  ALNGAEIM---GQTIQVDWCFV 86

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 40.5 bits (94), Expect = 2e-05
 Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 11/85 (12%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR----GGMPVAFADFEEVEQASIAME 259
             LF+ ++     EDE+++    Y     + +            A  ++E  +QA  A E
Sbjct: 8   WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 67

Query: 260 GLQDSTLPSSDRGG--MHIEYARSK 282
            L  + +      G  + +++   K
Sbjct: 68  ALNGAEI-----MGQTIQVDWCFVK 87

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 109

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 4e-08
 Identities = 20/93 (21%), Positives = 36/93 (38%), Gaps = 7/93 (7%)

Query: 34  GINTLFVSGL-PDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
           G + L VS L P+ V  + +  LF         ++ +     +  A     +   A  A+
Sbjct: 1   GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN---KKENALVQMADGNQAQLAM 57

Query: 93  HELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
             LNG K     G  + I L++  + +  + G 
Sbjct: 58  SHLNGHKLH---GKPIRITLSKHQNVQLPREGQ 87

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 109

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (91), Expect = 6e-05
 Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 5/84 (5%)

Query: 204 STLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           S L ++NL P   T   L     VY     +K+        A     +  QA +AM  L 
Sbjct: 3   SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKIL-FNKKENALVQMADGNQAQLAMSHLN 61

Query: 263 DSTLPSSDRGGMHIEYARSKMRKL 286
              L       + I  ++ +  +L
Sbjct: 62  GHKL---HGKPIRITLSKHQNVQL 82

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 46.9 bits (111), Expect = 1e-07
 Identities = 12/80 (15%), Positives = 30/80 (37%), Gaps = 7/80 (8%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN 96
           T++  G+   +  + +   F         ++       +  +F  F  H++A  A+  +N
Sbjct: 20  TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFP----EKGYSFVRFSTHESAAHAIVSVN 75

Query: 97  GVKFDPQSGSVLHIELARSN 116
           G   +   G V+     + +
Sbjct: 76  GTTIE---GHVVKCYWGKES 92

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 41.9 bits (98), Expect = 5e-06
 Identities = 12/83 (14%), Positives = 31/83 (37%), Gaps = 9/83 (10%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
              T++   +    T+  ++QT S +     +++        +F  F   E A+ A+  +
Sbjct: 17  KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE--KGYSFVRFSTHESAAHAIVSV 74

Query: 262 QDSTLPSSDRGG--MHIEYARSK 282
             +T+      G  +   + +  
Sbjct: 75  NGTTI-----EGHVVKCYWGKES 92

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.7 bits (110), Expect = 1e-07
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 5/87 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALH 93
             LFV GL  D   + +  +F +        +       +     F TF N   A  A+ 
Sbjct: 6   GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 65

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKK 120
            +NG   D   G  + ++ A  +S  +
Sbjct: 66  AMNGKSVD---GRQIRVDQAGKSSDNR 89

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 8e-05
 Identities = 16/84 (19%), Positives = 30/84 (35%), Gaps = 11/84 (13%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP----VAFADFEEVEQASIAMEG 260
            LF+  L  +  E  L+Q  S Y   + + +             F  FE ++ A  AM  
Sbjct: 7   KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 66

Query: 261 LQDSTLPSSDRGG--MHIEYARSK 282
           +   ++      G  + ++ A   
Sbjct: 67  MNGKSV-----DGRQIRVDQAGKS 85

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.3 bits (109), Expect = 1e-07
 Identities = 12/85 (14%), Positives = 26/85 (30%), Gaps = 6/85 (7%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV---VAFATFVNHQTAVAALHE 94
           +F+  L  ++  + +++ F                        AF  F +   + AA+  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 95  LNGVKFDPQSGSVLHIELARSNSRK 119
           +NG          + +  A     K
Sbjct: 61  MNGQYLC---NRPITVSYAFKKDSK 82

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 4e-06
 Identities = 19/82 (23%), Positives = 29/82 (35%), Gaps = 8/82 (9%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARG-----GMPVAFADFEEVEQASIAMEG 260
           +FI NL P   E  L  T S +          R          AF +F   + +  A+E 
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 261 LQDSTLPSSDRGGMHIEYARSK 282
           +    L +     + + YA  K
Sbjct: 61  MNGQYLCNRP---ITVSYAFKK 79

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 3e-07
 Identities = 19/89 (21%), Positives = 36/89 (40%), Gaps = 7/89 (7%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPG--FDFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
             L+V GL ++V  + +H  F            L Y    ++  AF  F   + A AA+ 
Sbjct: 6   RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65

Query: 94  ELNGVKFDPQSGSVLHIELARSNSRKKRK 122
            +N  +     G  + + LA+    + ++
Sbjct: 66  NMNESELF---GRTIRVNLAK--PMRIKE 89

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 8e-06
 Identities = 16/87 (18%), Positives = 29/87 (33%), Gaps = 11/87 (12%)

Query: 205 TLFIANLGPNCTEDELKQTLS----VYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
            L++  L     +  L         +      L          AF +FE  E A+ A++ 
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66

Query: 261 LQDSTLPSSDRGG--MHIEYARSKMRK 285
           + +S L      G  + +  A+    K
Sbjct: 67  MNESEL-----FGRTIRVNLAKPMRIK 88

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 3e-07
 Identities = 20/95 (21%), Positives = 31/95 (32%), Gaps = 8/95 (8%)

Query: 32  DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAA 91
            +G + +FV     D+   E+   F +        +    R     AF TF + Q A + 
Sbjct: 2   SSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA---FAFVTFADDQIAQSL 58

Query: 92  LHELNGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
                 +      G  +HI  A         P SG
Sbjct: 59  CG--EDLIIK---GISVHISNAEPKHNSNSGPSSG 88

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 1e-04
 Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM 258
           G    S +F+     + TEDEL++  S Y     + +  +     AF  F + + A    
Sbjct: 1   GSSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIP-KPFRAFAFVTFADDQIAQSLC 59

Query: 259 E 259
            
Sbjct: 60  G 60

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (106), Expect = 4e-07
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGF--DFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
            L+VSGLP  +  +E+  LF +          +      ++ V F  F     A  A+  
Sbjct: 8   NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 67

Query: 95  LNGVKFD 101
           LNG K  
Sbjct: 68  LNGQKPS 74

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 6e-07
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 5/80 (6%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASIAME 259
           + L+++ L    T+ EL+Q  S Y        ++         V F  F++  +A  A++
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 66

Query: 260 GLQDSTLPSSDRGGMHIEYA 279
           GL       +    + +++A
Sbjct: 67  GLNGQKPSGATE-PITVKFA 85

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 44.8 bits (105), Expect = 4e-07
 Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 9/90 (10%)

Query: 191 QSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEE 250
           Q+E+P      P   LF+ NL     E  L    + +PGF            +AF +F  
Sbjct: 2   QTEQP------PNQILFLTNLPEETNEMMLSMLFNQFPGFKE-VRLVPNRHDIAFVEFTT 54

Query: 251 VEQASIAMEGLQDSTLPSSDRGGMHIEYAR 280
             Q++ A E LQ   +  +    M I +A+
Sbjct: 55  ELQSNAAKEALQGFKITPTHA--MKITFAK 82

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 44.5 bits (104), Expect = 6e-07
 Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 5/86 (5%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTA 88
           Q +      LF++ LP++     +  LF + PGF   +L         +AF  F     +
Sbjct: 2   QTEQPPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN---RHDIAFVEFTTELQS 58

Query: 89  VAALHELNGVKFDPQSGSVLHIELAR 114
            AA   L G K  P     + I  A+
Sbjct: 59  NAAKEALQGFKITP--THAMKITFAK 82

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (105), Expect = 4e-07
 Identities = 17/91 (18%), Positives = 28/91 (30%), Gaps = 8/91 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
           N + VSGLP     +++ +  R      +  +              FV  +    A+ +L
Sbjct: 1   NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR-----DGTGVVEFVRKEDMTYAVRKL 55

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +  KF             R      R P  G
Sbjct: 56  DNTKFR---SHEGETAYIRVKVDGPRSPSYG 83

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 4e-07
 Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 5/77 (6%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGF--DFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
             L V GL      R++  +F +               R ++  AF  F N   A  A  
Sbjct: 10  CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 69

Query: 94  ELNGVKFDPQSGSVLHI 110
             NG++ D   G  + +
Sbjct: 70  RANGMELD---GRRIRV 83

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.8 bits (100), Expect = 2e-06
 Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 4/70 (5%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASI 256
            P   L +  L    TE +L++  S Y        +   ++R     AF  FE V+ A  
Sbjct: 7   DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 66

Query: 257 AMEGLQDSTL 266
           A E      L
Sbjct: 67  AKERANGMEL 76

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 8e-07
 Identities = 17/101 (16%), Positives = 34/101 (33%), Gaps = 8/101 (7%)

Query: 23  PPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFA 80
            P    +++      LF+ GL  +     + N + +      C +       +     F 
Sbjct: 8   VPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV 67

Query: 81  TFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           TF +     AA+        D   G V+  + A   +R++ 
Sbjct: 68  TFSSMAEVDAAM-AARPHSID---GRVVEPKRAV--AREES 102

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.7 bits (79), Expect = 0.003
 Identities = 12/79 (15%), Positives = 22/79 (27%), Gaps = 9/79 (11%)

Query: 185 VAPINEQSEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMP-- 242
             P+  +  +      +    LFI  L    TE+ L+     +       +         
Sbjct: 7   TVPLERKKREK-----EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRS 61

Query: 243 --VAFADFEEVEQASIAME 259
               F  F  + +   AM 
Sbjct: 62  RGFGFVTFSSMAEVDAAMA 80

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.4 bits (102), Expect = 1e-06
 Identities = 11/78 (14%), Positives = 24/78 (30%), Gaps = 6/78 (7%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALHEL 95
           +F+ GL        +   F +      C +       +     F TF++       L   
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-AQ 61

Query: 96  NGVKFDPQSGSVLHIELA 113
           +  + D      +  ++A
Sbjct: 62  SRHELD---SKTIDPKVA 76

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.4 bits (89), Expect = 6e-05
 Identities = 7/58 (12%), Positives = 16/58 (27%), Gaps = 4/58 (6%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG----MPVAFADFEEVEQASIAME 259
           +FI  L    T++ L++    +       +             F  F +       + 
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.0 bits (103), Expect = 1e-06
 Identities = 12/83 (14%), Positives = 26/83 (31%), Gaps = 3/83 (3%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           V     + +  L  +  E +L +   +     +  +        A  +FE ++ A   + 
Sbjct: 12  VSVSPVVHVRGLCESVVEADLVEA--LEKFGTICYVMMMPFKRQALVEFENIDSAKECVT 69

Query: 260 GLQDSTLPSSDRGGMHIEYARSK 282
              D  +           Y+ SK
Sbjct: 70  FAADVPV-YIAGQQAFFNYSTSK 91

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.1 bits (98), Expect = 5e-06
 Identities = 13/90 (14%), Positives = 27/90 (30%), Gaps = 7/90 (7%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             + V GL + V   ++     +     +  +       +  A   F N  +A   +   
Sbjct: 16  PVVHVRGLCESVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFA 71

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
             V                S S++  +PG+
Sbjct: 72  ADVPVYIAGQ---QAFFNYSTSKRITRPGN 98

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 5/80 (6%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPG--FDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           TL+++  P     R I +L +                  ++  A+    + + A   + +
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 62

Query: 95  LNGVKFDPQSGSVLHIELAR 114
           LNG+K +   G  L  +++ 
Sbjct: 63  LNGLKIE---GYTLVTKVSN 79

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.0 bits (103), Expect = 1e-06
 Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 8/91 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             + VSGLP     +++ +  R      +  ++        +    ++  +    AL +L
Sbjct: 16  FRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-----DGMGMVEYLRKEDMEYALRKL 70

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +  KF             R    +   P SG
Sbjct: 71  DDTKFR---SHEGETSYIRVYPERSSGPSSG 98

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.8 bits (100), Expect = 2e-06
 Identities = 12/78 (15%), Positives = 29/78 (37%), Gaps = 6/78 (7%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHEL 95
           +FV GL  +    ++ + F +    D   L +      ++   F TF +         E+
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-EI 60

Query: 96  NGVKFDPQSGSVLHIELA 113
           +  + +     ++  + A
Sbjct: 61  HFHEIN---NKMVECKKA 75

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.5 bits (81), Expect = 7e-04
 Identities = 10/58 (17%), Positives = 17/58 (29%), Gaps = 4/58 (6%)

Query: 206 LFIANLGPNCTEDELKQTLSVY----PGFNMLKMRARGGMPVAFADFEEVEQASIAME 259
           +F+  L  N T +++K     +        M            F  FE  +      E
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE 59

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.1 bits (101), Expect = 2e-06
 Identities = 14/80 (17%), Positives = 22/80 (27%), Gaps = 5/80 (6%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQV--VAFATFVNHQTAVAALH 93
             + V  +P  V   EI + F                       A   F +   A AA+ 
Sbjct: 10  TIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 69

Query: 94  ELNGVKFDPQSGSVLHIELA 113
           +LN           + + L 
Sbjct: 70  DLNDRPIG---SRKVKLVLG 86

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.5 bits (76), Expect = 0.004
 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 4/73 (5%)

Query: 198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLK--MRARGGMP--VAFADFEEVEQ 253
            G    + + + N+    + DE+      Y              GMP   A   FE  ++
Sbjct: 4   SGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDE 63

Query: 254 ASIAMEGLQDSTL 266
           A+ A+  L D  +
Sbjct: 64  ATAAVIDLNDRPI 76

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (100), Expect = 3e-06
 Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 7/100 (7%)

Query: 24  PPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFAT 81
           P +           L++  L   V  R++ +LF R        +++       +  AF T
Sbjct: 7   PMFSSYNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFIT 66

Query: 82  FVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           F N + A  ALH +NG K     G +L IE  +  ++K+R
Sbjct: 67  FPNKEIAWQALHLVNGYKLY---GKILVIEFGK--NKKQR 101

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.1 bits (98), Expect = 6e-06
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 8/96 (8%)

Query: 194 KPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPG----FNMLKMRARGGMPVAFADFE 249
             Y  G +P   L++ NL P  TE +L    + +          +M        AF  F 
Sbjct: 10  SSYNPG-EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFP 68

Query: 250 EVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKMRK 285
             E A  A+  +    L       + IE+ ++K ++
Sbjct: 69  NKEIAWQALHLVNGYKLYGKI---LVIEFGKNKKQR 101

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 3e-06
 Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 7/82 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALH 93
           + L V GLP     +++   F         Q+K       ++   F  F  ++T V  + 
Sbjct: 9   SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 68

Query: 94  ELNGVKFDPQSGSVLHIELARS 115
           + + +      G     +L  S
Sbjct: 69  QRHMID-----GRWCDCKLPNS 85

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (96), Expect = 9e-06
 Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQA 254
            VQ  S L +  L    TE +LK+  S +    M++++            F  F E E  
Sbjct: 4   AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQ 63

Query: 255 SIAMEGLQ 262
              M    
Sbjct: 64  VKVMSQRH 71

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.9 bits (98), Expect = 4e-06
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 8/82 (9%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGF---DFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
            LF+ GL  +     + + F +          +   T R ++   F T+   +   AA+ 
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR-SRGFGFVTYATVEEVDAAM- 65

Query: 94  ELNGVKFDPQSGSVLHIELARS 115
                K D   G V+  + A S
Sbjct: 66  NARPHKVD---GRVVEPKRAVS 84

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 4/59 (6%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGF--NMLKMRARGGMP--VAFADFEEVEQASIAME 259
            LFI  L    T++ L+     +      ++             F  +  VE+   AM 
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.9 bits (98), Expect = 6e-06
 Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 8/104 (7%)

Query: 20  PVPPPPYHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ--VV 77
           PV  P  +   ++    T+F   L   +R R++ + F         ++       +   +
Sbjct: 3   PVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGI 62

Query: 78  AFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRKKR 121
           A+  F   Q+   A+  L G +     G  + ++   S + K R
Sbjct: 63  AYVEFCEIQSVPLAI-GLTGQRLL---GVPIIVQ--ASQAEKNR 100

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 6e-06
 Identities = 11/66 (16%), Positives = 20/66 (30%), Gaps = 2/66 (3%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGF--DFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
           L++ GL      +++  L +           L  T    +   F  F +   A  A+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 96  NGVKFD 101
                 
Sbjct: 61  KASGVQ 66

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.7 bits (84), Expect = 2e-04
 Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 4/65 (6%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGF----NMLKMRARGGMPVAFADFEEVEQASIAMEGL 261
           L+I  L P  T+ +L +    Y        +L           F DF+    A  A+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 262 QDSTL 266
           + S +
Sbjct: 61  KASGV 65

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.7 bits (97), Expect = 9e-06
 Identities = 17/91 (18%), Positives = 28/91 (30%), Gaps = 4/91 (4%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
           + + + GLP      +I+N F                     A   F  H+ AVAA+   
Sbjct: 16  HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAM-AK 74

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSG 126
           +           + + L  +       P SG
Sbjct: 75  DKANMQ---HRYVELFLNSTAGTSGSGPSSG 102

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 9e-06
 Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAME 259
           +F+  L P+  E+++++    +     +++             F  F+E E     ME
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 12/72 (16%), Positives = 22/72 (30%), Gaps = 6/72 (8%)

Query: 38  LFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL--- 92
           +FV GL  D    +I   F    +       +       +   F TF   +     +   
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61

Query: 93  -HELNGVKFDPQ 103
            H +   K + +
Sbjct: 62  YHNVGLSKCEIK 73

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 1e-05
 Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 1/80 (1%)

Query: 29  QQQDNGINTLFVSGLPDDVRAREIHNLFRRK-PGFDFCQLKYTGRGNQVVAFATFVNHQT 87
           +QQ+     L++S LP  +  +E+ N+ +          L+ +   ++ V FA   + + 
Sbjct: 12  KQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEK 71

Query: 88  AVAALHELNGVKFDPQSGSV 107
             A +   NG       G  
Sbjct: 72  CEAVIGHFNGKFIKTPPGVS 91

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (95), Expect = 1e-05
 Identities = 17/85 (20%), Positives = 28/85 (32%), Gaps = 3/85 (3%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
            P   L I  L    TE E+      +     + M        AF +    E A   +  
Sbjct: 6   APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG--KNQAFLELATEEAAITMVNY 63

Query: 261 LQDSTLPSSDRGGMHIEYARSKMRK 285
               T    ++  ++I+Y+  K  K
Sbjct: 64  YSAVTPHLRNQ-PIYIQYSNHKELK 87

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.1 bits (77), Expect = 0.003
 Identities = 12/84 (14%), Positives = 27/84 (32%), Gaps = 5/84 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             L +  LP +V   E+  L           +       +  AF      + A+  ++  
Sbjct: 9   RVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK----GKNQAFLELATEEAAITMVNYY 64

Query: 96  NGVKFDPQSGSVLHIELARSNSRK 119
           + V    +    ++I+ +     K
Sbjct: 65  SAVTPHLR-NQPIYIQYSNHKELK 87

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (94), Expect = 2e-05
 Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 13/88 (14%)

Query: 204 STLFIANLGPNCTEDELKQTLSVY---------PGFNMLKMRARGGMPVAFADFEEVEQA 254
             LFI  +      +E+ + ++                 KM+ RG    AF ++E    A
Sbjct: 2   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRG---FAFVEYESHRAA 58

Query: 255 SIAMEGLQDSTLPSSDRGGMHIEYARSK 282
           ++A   L    +       + +++A  +
Sbjct: 59  AMARRKLMPGRIQLWGH-QIAVDWAEPE 85

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 3e-04
 Identities = 15/93 (16%), Positives = 28/93 (30%), Gaps = 5/93 (5%)

Query: 37  TLFVSGLPDDVRAREIHNLFRR----KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
            LF+ G+P   +  EI     +                   N+  AF  + +H+ A  A 
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 62

Query: 93  HELNGVKFDPQSGSVLHIELARSNSRKKRKPGS 125
            +L   +     G  + ++ A            
Sbjct: 63  RKLMPGRIQLW-GHQIAVDWAEPEIDVDEDVME 94

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.6 bits (94), Expect = 2e-05
 Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 7/90 (7%)

Query: 200 VQPCSTLFIANLGPNCTEDELKQTL-------SVYPGFNMLKMRARGGMPVAFADFEEVE 252
           V    T+FI NL  +  E+ L + L        V    +     ++G     F   E  +
Sbjct: 5   VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQ 64

Query: 253 QASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
           +   A     +      D   + ++ A ++
Sbjct: 65  KCLAAASLEAEGGGLKLDGRQLKVDLAVTR 94

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.2 bits (93), Expect = 2e-05
 Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 5/88 (5%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAALH 93
            T+F+  L  D     +  + ++     + ++        ++  AFA F+  + A   L 
Sbjct: 9   KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 68

Query: 94  ELNGVKFDPQS---GSVLHIELARSNSR 118
             +           G  L ++LA +   
Sbjct: 69  AASLEAEGGGLKLDGRQLKVDLAVTRDE 96

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

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

 Score = 40.5 bits (94), Expect = 2e-05
 Identities = 21/100 (21%), Positives = 38/100 (38%), Gaps = 13/100 (13%)

Query: 30  QQDNGINTLFVSGLPDDVRAREIHNLFRR----------KPGFDFCQLKYTGRGNQVVAF 79
            +D+  + ++V GL D V   ++ + F++                  L       +  A 
Sbjct: 3   DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDAT 62

Query: 80  ATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNSRK 119
            ++ +  TA AA+   +G  F    GS L + LAR     
Sbjct: 63  VSYEDPPTAKAAVEWFDGKDFQ---GSKLKVSLARKKPPM 99

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

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

 Score = 35.5 bits (81), Expect = 0.001
 Identities = 15/93 (16%), Positives = 25/93 (26%), Gaps = 15/93 (16%)

Query: 202 PCSTLFIANLGPNCTEDELKQTLSVY------------PGFNMLKMRARGGMPVAFADFE 249
             S +++  L  + T D+L                        L          A   +E
Sbjct: 7   DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYE 66

Query: 250 EVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK 282
           +   A  A+E         S    + +  AR K
Sbjct: 67  DPPTAKAAVEWFDGKDFQGSK---LKVSLARKK 96

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.5 bits (91), Expect = 3e-05
 Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 8/80 (10%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNG 97
           + + GLP DV  +E+H+L          +  +  +  +  AF T +N + A AA++  + 
Sbjct: 1   ILIRGLPGDVTNQEVHDLLSD----YELKYCFVDK-YKGTAFVTLLNGEQAEAAINTFHQ 55

Query: 98  VKFDPQSGSVLHIELARSNS 117
            +        L ++L  +++
Sbjct: 56  SRLR---ERELSVQLQPTDA 72

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 3e-05
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 6/80 (7%)

Query: 36  NTLFVS--GLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
            +L V+  GL + V   ++  +  +    D   +      N+  +FA +   + +  A  
Sbjct: 19  QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYV 74

Query: 94  ELNGVKFDPQSGSVLHIELA 113
            LNG +     G  + + L 
Sbjct: 75  TLNGKEVVDDLGQKITLYLN 94

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 4e-05
 Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 4/68 (5%)

Query: 201 QPCSTLFIA--NLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAM 258
               +L +A   LG   + ++L   L      + L M      P +FA +   E++  A 
Sbjct: 16  YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN--KPYSFARYRTTEESKRAY 73

Query: 259 EGLQDSTL 266
             L    +
Sbjct: 74  VTLNGKEV 81

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 39.2 bits (91), Expect = 3e-05
 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 9/79 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
           NTL+V G   D+    +   F          +       +  AF T+   ++A  A+ EL
Sbjct: 6   NTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDP----PRNCAFVTYEKMESADQAVAEL 59

Query: 96  NGVKFDPQSGSVLHIELAR 114
           NG + +      L + +AR
Sbjct: 60  NGTQVE---SVQLKVNIAR 75

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 33.8 bits (77), Expect = 0.003
 Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 11/84 (13%)

Query: 201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEG 260
           +  +TL++     + T   L+   S +     L M        AF  +E++E A  A+  
Sbjct: 3   RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNC--AFVTYEKMESADQAVAE 58

Query: 261 LQDSTLPSSDRGG--MHIEYARSK 282
           L  + +         + +  AR +
Sbjct: 59  LNGTQV-----ESVQLKVNIARKQ 77

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (90), Expect = 4e-05
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 6/72 (8%)

Query: 38  LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKY--TGRGNQVVAFATFVNHQTAVAAL--- 92
           +F+ GL  D   +++ + F +      C LK       ++   F  F   ++    +   
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61

Query: 93  -HELNGVKFDPQ 103
            H+LNG   DP+
Sbjct: 62  EHKLNGKVIDPK 73

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 1e-04
 Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 4/58 (6%)

Query: 206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAME 259
           +FI  L  + T+ +LK   S +       ++            F  F+E E     M+
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.9 bits (92), Expect = 4e-05
 Identities = 23/114 (20%), Positives = 31/114 (27%), Gaps = 13/114 (11%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL 95
             +    LP    A EI   F R        L        + A   F+    A  A   L
Sbjct: 11  TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHL 66

Query: 96  NGVKFDPQSGSVLHIELARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADG 149
              KF       L++E A                  D + +  A   ES  + G
Sbjct: 67  AYSKFH---HVPLYLEWAPIGVFGAAPQKK------DSQHEQPAEKAESGPSSG 111

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.2 bits (77), Expect = 0.004
 Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQD 263
           + +   NL       E+++T S +     + +   G    A  +F E  +A  A   L  
Sbjct: 11  TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGIT--AIVEFLEPLEARKAFRHLAY 68

Query: 264 STLPSSDRGGMHIEYARSKMRK 285
           S         +++E+A   +  
Sbjct: 69  SKFHHVP---LYLEWAPIGVFG 87

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 7e-05
 Identities = 21/88 (23%), Positives = 38/88 (43%), Gaps = 12/88 (13%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR-KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHE 94
           N L++  L   V A ++  LF   K       L  +G      AF  + +   A+ A+  
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSG-----YAFVDYPDQNWAIRAIET 56

Query: 95  LNG-VKFDPQSGSVLHIELARSNSRKKR 121
           L+G V+     G ++ ++ +   S+K R
Sbjct: 57  LSGKVELH---GKIMEVDYSV--SKKLR 79

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 10/85 (11%)

Query: 204 STLFIANLGPNCTEDELKQTLSVY-PGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           + L+I NL P  T D+L+Q             +   G    AF D+ +   A  A+E L 
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSG---YAFVDYPDQNWAIRAIETLS 58

Query: 263 DSTLPSSDRGG--MHIEYARSKMRK 285
                  +  G  M ++Y+ SK  +
Sbjct: 59  GKV----ELHGKIMEVDYSVSKKLR 79

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (87), Expect = 1e-04
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 5/78 (6%)

Query: 37  TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHEL 95
           ++++ G P D    +I      K      Q++ T     +   F  F + ++A   + E 
Sbjct: 8   SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV-ET 66

Query: 96  NGVKFDPQSGSVLHIELA 113
            G K+     + L I   
Sbjct: 67  PGQKYK---ETDLLILFK 81

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (82), Expect = 7e-04
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 205 TLFIANLGPNCTEDELKQTLSVYPGFN---MLKMRARGGMPVAFADFEEVEQASIAME 259
           +++I     + T D++K+ L          M +   +      F  F+ +E A   +E
Sbjct: 8   SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE 65

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.9 bits (87), Expect = 2e-04
 Identities = 8/64 (12%), Positives = 18/64 (28%), Gaps = 1/64 (1%)

Query: 203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ 262
           C   F  +L      ++L    S +     +               E+ ++A    +   
Sbjct: 11  CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKE-GIILFKEKAKEALGKAKDAN 69

Query: 263 DSTL 266
           +  L
Sbjct: 70  NGNL 73

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.9 bits (87), Expect = 2e-04
 Identities = 15/99 (15%), Positives = 27/99 (27%), Gaps = 6/99 (6%)

Query: 27  HHQQQDN--GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVN 84
           HH   +   G    F   L D     ++H LF         +     RG +         
Sbjct: 1   HHGSLEEKIGCLLKFSGDLDDQTCREDLHILFSN---HGEIKWIDFVRGAKEGIILFKEK 57

Query: 85  HQTAVAALHELNGVKFDPQSGSV-LHIELARSNSRKKRK 122
            + A+    + N      ++  V   +          +K
Sbjct: 58  AKEALGKAKDANNGNLQLRNKEVTWEVLEGEVEKEALKK 96

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 36.9 bits (84), Expect = 4e-04
 Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 7/82 (8%)

Query: 36  NTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH 93
             LF+  L  +    E+                   TG   +      F + +    AL 
Sbjct: 14  FNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYV-DFESAEDLEKALE 72

Query: 94  ELNGVKFDPQSGSVLHIELARS 115
            L G+K     G+ + +E  + 
Sbjct: 73  -LTGLKVF---GNEIKLEKPKG 90

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.6 bits (81), Expect = 7e-04
 Identities = 6/46 (13%), Positives = 17/46 (36%)

Query: 204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFE 249
           +T+ + NL  +  ++++ +          + +         FA  E
Sbjct: 1   TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIE 46

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 9e-04
 Identities = 13/81 (16%), Positives = 26/81 (32%), Gaps = 6/81 (7%)

Query: 35  INTLFVSGLPDDVRAREIHNLFRR--KPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAAL 92
           +  +FV G+ +D     + + F +  K               +  AF TF +H +    +
Sbjct: 2   VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV 61

Query: 93  HELNGVKFDPQSGSVLHIELA 113
                   +   G    +  A
Sbjct: 62  -IQKYHTVN---GHNCEVRKA 78

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.2 bits (80), Expect = 0.001
 Identities = 14/74 (18%), Positives = 25/74 (33%), Gaps = 8/74 (10%)

Query: 36  NTLFVSGLPDDV------RAREIHNLFRRKPGFDFCQLKYTGRGNQ--VVAFATFVNHQT 87
           N +FV GL   +      +  E    F +                     A+ T++  + 
Sbjct: 9   NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSED 68

Query: 88  AVAALHELNGVKFD 101
           A+ A+  +N V  D
Sbjct: 69  ALRAIQCVNNVVVD 82

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	286
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.97
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.88
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.87
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.86
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.85
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.85
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.85
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.85
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.84
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.84
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.84
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.84
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.84
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.84
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.84
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.84
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.84
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.84
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.84
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.84
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.84
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.84
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.83
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.83
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.83
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.83
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.83
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.83
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.82
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.82
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.82
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.82
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.82
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.82
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.82
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.82
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.82
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.82
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.82
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.81
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.81
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.81
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.81
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.81
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.81
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.81
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.81
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.81
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.81
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.81
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.8
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.8
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.8
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.8
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.8
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.8
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.8
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.8
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.8
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.8
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.8
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.8
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.8
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.8
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.8
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.79
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.79
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.79
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.79
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.79
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.79
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.79
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.79
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.79
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.79
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.79
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.79
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.79
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.78
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.78
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.78
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.78
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.78
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.78
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.78
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.78
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.78
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.78
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.78
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.78
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.78
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.78
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.78
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.78
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.77
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.77
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.77
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.77
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.77
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.77
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.76
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.76
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.76
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.76
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.76
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.76
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.76
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.75
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.75
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.75
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.75
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.75
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.75
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.75
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.75
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.75
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.75
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.75
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.75
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.75
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.74
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.74
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.74
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.74
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.74
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.73
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.73
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.72
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.72
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.72
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.72
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.72
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.72
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.72
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.71
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.71
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.7
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.7
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.7
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.69
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.69
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.68
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.68
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.67
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.67
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.64
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.64
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.63
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.63
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.62
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.62
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.6
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.6
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.58
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.56
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.52
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.52
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.5
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.48
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.43
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.4
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.4
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	98.2
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	98.03
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.92
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.87
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.59
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.16
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	97.08
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	96.14

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=3.8e-30  Score=205.96  Aligned_cols=167  Identities=17%  Similarity=0.272  Sum_probs=132.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++|||+|||+.+|+++|+++|+.||.|.++.+....  +..++||||+|.+.++|.+|+..+++. +.   ++.+.+.
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~-~~---~~~~~~~   80 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHK-VD---GRVVEPK   80 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCE-ET---TEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCc-cc---ccchhhh
Confidence            45899999999999999999999999999999887432  233559999999999999999854444 54   5666555


Q ss_pred             EeecCCCCCcCCCCCCceecccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCccccC
Q 023143          112 LARSNSRKKRKPGSGAYVVIDKRTKTEANVQESSSADGDSDTDEASPVRNIDSADKGDFVTTQSERATDSGNAVAPINEQ  191 (286)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~  191 (286)
                      ...........                                                                     
T Consensus        81 ~~~~~~~~~~~---------------------------------------------------------------------   91 (183)
T d1u1qa_          81 RAVSREDSQRP---------------------------------------------------------------------   91 (183)
T ss_dssp             ECCCTTGGGST---------------------------------------------------------------------
T ss_pred             hhhhccccccc---------------------------------------------------------------------
Confidence            43221110000                                                                     


Q ss_pred             CCCCCCCCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccC
Q 023143          192 SEKPYEGGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLP  267 (286)
Q Consensus       192 ~~~~~~~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~  267 (286)
                            ......++|||+|||..+|+++|+++|+.||.|..+.+..    +.++|||||+|.+.++|.+|++ ++|..+.
T Consensus        92 ------~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~  164 (183)
T d1u1qa_          92 ------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN  164 (183)
T ss_dssp             ------TTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEET
T ss_pred             ------ccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeEC
Confidence                  0012477899999999999999999999999999999887    4566799999999999999997 6888888


Q ss_pred             CCCCCcEEEEEecccc
Q 023143          268 SSDRGGMHIEYARSKM  283 (286)
Q Consensus       268 ~~~g~~l~V~~ak~~~  283 (286)
                         |+.|+|.+|..|.
T Consensus       165 ---G~~i~V~~A~~k~  177 (183)
T d1u1qa_         165 ---GHNCEVRKALSKQ  177 (183)
T ss_dssp             ---TEEEEEEECCCHH
T ss_pred             ---CEEEEEEecCCcc
Confidence               5699999997653

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=9.9e-23  Score=142.66  Aligned_cols=83  Identities=22%  Similarity=0.314  Sum_probs=76.2

Q ss_pred             CCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       199 ~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..||+++|||+|||.++++++|+++|++||.|..+.+..+++++||||+|.+.++|.+|+..|||..+.  +|+.|+|+|
T Consensus         6 ~~pPs~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~--~g~~l~v~~   83 (88)
T d2adca2           6 IFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLG--ENHHLRVSF   83 (88)
T ss_dssp             CCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSS--SSCBCEEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEec--CCCEEEEEe
Confidence            357899999999999999999999999999999998888888899999999999999999999999985  256999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      +|+++
T Consensus        84 sk~~i   88 (88)
T d2adca2          84 SKSTI   88 (88)
T ss_dssp             CSSCC
T ss_pred             CCCCC
Confidence            99864

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.87  E-value=3.7e-22  Score=138.04  Aligned_cols=81  Identities=26%  Similarity=0.426  Sum_probs=73.1

Q ss_pred             CCCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          198 GGVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       198 ~~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ...||+++|||+|||.++++++|+++|+.||.|..|++.++. ++||||+|.+.++|.+|++.|||..+.  +|+.|+|+
T Consensus         3 ~~~pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~-~g~afV~f~~~~~A~~A~~~l~g~~~~--~~~~i~v~   79 (83)
T d2b0ga1           3 TEQPPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR-HDIAFVEFTTELQSNAAKEALQGFKIT--PTHAMKIT   79 (83)
T ss_dssp             CCCSCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT-CSCEEEEESSHHHHHHHHHHHTTCBSS--TTCBCEEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc-ceeEEEecCCHHHHHHHHHHhCCcEeC--CCcEEEEE
Confidence            346789999999999999999999999999999999998753 589999999999999999999999995  25699999


Q ss_pred             Eecc
Q 023143          278 YARS  281 (286)
Q Consensus       278 ~ak~  281 (286)
                      |||.
T Consensus        80 ~akk   83 (83)
T d2b0ga1          80 FAKK   83 (83)
T ss_dssp             ECCC
T ss_pred             EecC
Confidence            9984

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=1.6e-21  Score=137.67  Aligned_cols=82  Identities=16%  Similarity=0.138  Sum_probs=75.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||..+|+++|+++|++||.|.+|+++.    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V~   84 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY---GKPIRVN   84 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCS---SCBCEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            468999999999999999999999999999999876    567789999999999999999999999999   5599999


Q ss_pred             EeccccCCC
Q 023143          278 YARSKMRKL  286 (286)
Q Consensus       278 ~ak~~~~~~  286 (286)
                      ||+.+-+.|
T Consensus        85 ~A~~~~~n~   93 (93)
T d1x5ua1          85 KASAHNKNL   93 (93)
T ss_dssp             ETTTTSCCC
T ss_pred             EcCCCCCCC
Confidence            999887654

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.85  E-value=1.8e-21  Score=136.70  Aligned_cols=82  Identities=21%  Similarity=0.263  Sum_probs=74.1

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++++|||+|||.++|+++|+++|++||.|.+|++..  ..+++||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         5 ~~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~---g~~i~v~   81 (90)
T d2cqia1           5 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKIL---GKEVKVN   81 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEET---TEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            34578999999999999999999999999999999876  345689999999999999999999999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus        82 ~a~~~~~   88 (90)
T d2cqia1          82 WATTPSS   88 (90)
T ss_dssp             ECCCTTC
T ss_pred             EcCCCCC
Confidence            9987654

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.85  E-value=1.2e-21  Score=135.29  Aligned_cols=76  Identities=21%  Similarity=0.272  Sum_probs=70.1

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      +++|||+|||.++|+++|+++|++||.|..+++..    +.+++||||+|.+.++|++|++.|||..+.   |+.|+|+|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~---g~~l~v~~   78 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVR---NKRLKVSY   78 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            67899999999999999999999999999999876    345779999999999999999999999998   55999999


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      |+.
T Consensus        79 a~p   81 (82)
T d1b7fa1          79 ARP   81 (82)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            973

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.85  E-value=1.6e-21  Score=140.12  Aligned_cols=82  Identities=16%  Similarity=0.195  Sum_probs=74.7

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .|++++|||+|||.++++++|+++|++||.|.+++++.    +.++|||||+|.+.++|..||+.|||..|.   |+.|+
T Consensus        15 ~p~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~---g~~i~   91 (102)
T d2cpza1          15 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIG---MKRLK   91 (102)
T ss_dssp             CSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            45688999999999999999999999999999999876    456789999999999999999999999999   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+-+
T Consensus        92 V~~a~~k~~  100 (102)
T d2cpza1          92 VQLKRSKND  100 (102)
T ss_dssp             EECCCCSCC
T ss_pred             EEEeCCCCC
Confidence            999998754

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3.6e-21  Score=135.86  Aligned_cols=80  Identities=16%  Similarity=0.238  Sum_probs=72.8

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      ...+++|||+|||.++|+++|+++|++||.|.+|+++.    +.++|||||+|.+.++|..|++.|||..+.   |+.|+
T Consensus         4 ~~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---gr~i~   80 (93)
T d1h2vz_           4 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLD---DRIIR   80 (93)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEET---TEECE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            34689999999999999999999999999999999987    445679999999999999999999999998   55999


Q ss_pred             EEEeccc
Q 023143          276 IEYARSK  282 (286)
Q Consensus       276 V~~ak~~  282 (286)
                      |+||+..
T Consensus        81 V~~a~~~   87 (93)
T d1h2vz_          81 TDWDAGF   87 (93)
T ss_dssp             EEEESCC
T ss_pred             EEEcCCC
Confidence            9999754

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=4.6e-21  Score=135.58  Aligned_cols=80  Identities=18%  Similarity=0.331  Sum_probs=73.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-----cCCccEEEEEECCHHHHHHHHHhc-CCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-----RGGMPVAFADFEEVEQASIAMEGL-QDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-----~~~~~~afV~f~~~e~A~~Al~~l-ng~~~~~~~g~~l~  275 (286)
                      ++++|||+|||.++++++|+++|++||.|..|+++.     +.++|||||+|.+.++|.+|++.| ||..+.   |+.|+
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~---Gr~l~   83 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY---GRRLV   83 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS---SCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEEC---CEEEE
Confidence            578899999999999999999999999999999865     456889999999999999999998 999998   55999


Q ss_pred             EEEeccccC
Q 023143          276 IEYARSKMR  284 (286)
Q Consensus       276 V~~ak~~~~  284 (286)
                      |+||+.+.+
T Consensus        84 V~~A~~~~~   92 (94)
T d2cpha1          84 LEWADSEVT   92 (94)
T ss_dssp             EEECCCCCC
T ss_pred             EEEcCCCCC
Confidence            999998764

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=6.8e-21  Score=135.56  Aligned_cols=81  Identities=17%  Similarity=0.387  Sum_probs=74.7

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .+|+++|||+|||.++++++|+++|++||.|..+++.+++  +||||+|.+.++|.+|++.|||..|.+. ++.|+|+||
T Consensus        14 ~~Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~--~~afV~f~~~~~A~~A~~~l~~~~i~g~-~~~l~v~~a   90 (97)
T d1whya_          14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD--SFAYIQYESLDAAQAACAKMRGFPLGGP-DRRLRVDFA   90 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSS--CCEEEEESSHHHHHHHHHHHTTCBCSSS-SCBCEEEEC
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccc--cEEEeccCCHHHHHHHHHHhCCCEeCCC-ceEEEEEeC
Confidence            4578999999999999999999999999999999988765  8999999999999999999999999865 569999999


Q ss_pred             cccc
Q 023143          280 RSKM  283 (286)
Q Consensus       280 k~~~  283 (286)
                      |...
T Consensus        91 k~~~   94 (97)
T d1whya_          91 KSGP   94 (97)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            9764

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=7.6e-21  Score=134.22  Aligned_cols=80  Identities=18%  Similarity=0.277  Sum_probs=73.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ..++|||+|||.++++++|+++|++||.|..|++..  +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||
T Consensus        10 ~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~---g~~l~V~~A   86 (93)
T d2cq3a1          10 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIEVNNA   86 (93)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEec
Confidence            467899999999999999999999999999999887  445789999999999999999999999999   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +.+..
T Consensus        87 ~~r~~   91 (93)
T d2cq3a1          87 TARVM   91 (93)
T ss_dssp             CSSCC
T ss_pred             CcCCC
Confidence            98864

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.84  E-value=1.8e-21  Score=138.14  Aligned_cols=79  Identities=14%  Similarity=0.229  Sum_probs=73.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +++++|||+|||.++++++|+++|++||.|.+|++.+++  |||||+|.+.++|.+|+..|||..|.   |+.|+|+|||
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~k--g~afV~f~~~~~A~~Ai~~l~~~~i~---g~~l~v~~ak   90 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK--GYSFVRFSTHESAAHAIVSVNGTTIE---GHVVKCYWGK   90 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT--TEEEEEESSHHHHHHHHHHHTTCEET---TEECEEECCC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecc--eEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEcC
Confidence            357899999999999999999999999999999999875  99999999999999999999999999   5599999999


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+..
T Consensus        91 ~~p~   94 (96)
T d1x4ga1          91 ESPD   94 (96)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8753

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.84  E-value=2.4e-21  Score=135.43  Aligned_cols=78  Identities=18%  Similarity=0.290  Sum_probs=71.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+.+|||+|||.++|+++|+++|++||.|.+|++..    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~---g~~l~V~   82 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTIQVD   82 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            478999999999999999999999999999999886    445789999999999999999999999998   5699999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      ||+.+
T Consensus        83 ~a~~k   87 (88)
T d1rk8a_          83 WCFVK   87 (88)
T ss_dssp             ESEEC
T ss_pred             EecCC
Confidence            99875

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.84  E-value=4.4e-21  Score=134.65  Aligned_cols=83  Identities=29%  Similarity=0.410  Sum_probs=75.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      +..+.++|||+|||.++|+++|+++|+.||.|..|++..+...+++||||+|.+.++|.+|++.|+|..|.   |+.|+|
T Consensus         4 d~~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~---g~~i~v   80 (90)
T d2cqia1           4 DDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKIL---GKEVKV   80 (90)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEEC---CEEEEE
Confidence            34567899999999999999999999999999999988655555669999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      .|++..
T Consensus        81 ~~a~~~   86 (90)
T d2cqia1          81 NWATTP   86 (90)
T ss_dssp             EECCCT
T ss_pred             EEcCCC
Confidence            999754

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=2.8e-21  Score=135.64  Aligned_cols=78  Identities=18%  Similarity=0.299  Sum_probs=72.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +.++|||+|||.++++++|+++|++||.|..|++..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~i~v~   83 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD---HLILNVE   83 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEET---TEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEEC---CEEEEEE
Confidence            478899999999999999999999999999999987    446779999999999999999999999998   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      |||.+
T Consensus        84 ~akp~   88 (90)
T d2cq0a1          84 WAKPS   88 (90)
T ss_dssp             ESSCC
T ss_pred             eeeCC
Confidence            99864

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=4e-21  Score=132.56  Aligned_cols=76  Identities=18%  Similarity=0.309  Sum_probs=70.0

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|++||.|.++++..    +..+|||||+|.+.++|++|++.|||..+.   |+.|+|+|
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~   78 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQ---TKTIKVSY   78 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            46799999999999999999999999999999986    456679999999999999999999999999   55999999


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      ||.
T Consensus        79 AkP   81 (82)
T d1fxla1          79 ARP   81 (82)
T ss_dssp             CCC
T ss_pred             eeC
Confidence            974

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=5.5e-21  Score=132.64  Aligned_cols=77  Identities=21%  Similarity=0.318  Sum_probs=70.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++|||+|||.++|+++|+++|++||.|.+++++.    +.++|||||+|.+.++|.+|++.|||..+.++ .++|+|.
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~-~~~i~V~   83 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGA-TEPITVK   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTC-SSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCC-CEEEEEE
Confidence            367899999999999999999999999999999986    45677999999999999999999999999865 5679999


Q ss_pred             Ee
Q 023143          278 YA  279 (286)
Q Consensus       278 ~a  279 (286)
                      ||
T Consensus        84 ~A   85 (85)
T d1fxla2          84 FA   85 (85)
T ss_dssp             EC
T ss_pred             eC
Confidence            97

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=2.5e-21  Score=135.68  Aligned_cols=80  Identities=16%  Similarity=0.289  Sum_probs=73.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++|+++|+++|++||.|.+|+++.    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~---g~~l~v~   80 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIRVN   80 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEET---TEEEEEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            478999999999999999999999999999999875    567889999999999999999999999998   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+..
T Consensus        81 ~a~p~~~   87 (89)
T d2cqba1          81 LAKPMRI   87 (89)
T ss_dssp             ECCCCCC
T ss_pred             EeCCCCC
Confidence            9987643

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.84  E-value=3.2e-20  Score=141.02  Aligned_cols=88  Identities=20%  Similarity=0.308  Sum_probs=75.8

Q ss_pred             CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCC
Q 023143           26 YHHQQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQ  103 (286)
Q Consensus        26 ~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~  103 (286)
                      ....+..+..++|||+|||+++|+++|+++|+.||.|.+|+|..+...  .++||||+|.+.++|.+|++.|||..|.  
T Consensus        33 ~~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~--  110 (139)
T d1u6fa1          33 TQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL--  110 (139)
T ss_dssp             SCSSCCTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECS--
T ss_pred             cccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEEC--
Confidence            333444556789999999999999999999999999999998854332  3459999999999999999999999998  


Q ss_pred             CCCeEEEEEeecC
Q 023143          104 SGSVLHIELARSN  116 (286)
Q Consensus       104 ~g~~l~v~~~~~~  116 (286)
                       |+.|+|++++..
T Consensus       111 -gr~l~V~~a~~~  122 (139)
T d1u6fa1         111 -NKRLKVALAASG  122 (139)
T ss_dssp             -SCEEEEEESSCC
T ss_pred             -CEEEEEEEcCCC
Confidence             999999998754

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=3.9e-21  Score=131.88  Aligned_cols=74  Identities=18%  Similarity=0.332  Sum_probs=68.9

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +|||+|||..+|+++|+++|++||.|.+++++.    ++++|||||+|.++++|.+|++.|||..+.   |+.|+|+||+
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~---gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIK---GKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEET---TEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEEeC
Confidence            599999999999999999999999999999987    445689999999999999999999999999   5599999997


Q ss_pred             c
Q 023143          281 S  281 (286)
Q Consensus       281 ~  281 (286)
                      .
T Consensus        79 ~   79 (80)
T d1cvja1          79 R   79 (80)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=2.9e-21  Score=135.34  Aligned_cols=80  Identities=23%  Similarity=0.320  Sum_probs=73.0

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      ..+|||+|||.++|+++|+++|++||.|..++++.  +.++|||||+|.+.++|++|++.|||..+.   |+.|+|+||+
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~i~V~~a~   84 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN---DRKVFVGRFK   84 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEET---TEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEECC
Confidence            46799999999999999999999999999999987  445789999999999999999999999999   5599999999


Q ss_pred             cccCC
Q 023143          281 SKMRK  285 (286)
Q Consensus       281 ~~~~~  285 (286)
                      .+.++
T Consensus        85 ~~~~R   89 (89)
T d1cvja2          85 SRKER   89 (89)
T ss_dssp             CTTTC
T ss_pred             CCCCC
Confidence            87653

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.84  E-value=2.3e-20  Score=141.81  Aligned_cols=80  Identities=19%  Similarity=0.270  Sum_probs=72.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++|+++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+||+.|||..|.   |+.|+|+
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~---gr~l~V~  117 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL---NKRLKVA  117 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECS---SCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEEC---CEEEEEE
Confidence            367899999999999999999999999999999986    345789999999999999999999999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ||+.+.+
T Consensus       118 ~a~~~~~  124 (139)
T d1u6fa1         118 LAASGHQ  124 (139)
T ss_dssp             ESSCCCC
T ss_pred             EcCCCCC
Confidence            9987654

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.83  E-value=1.1e-20  Score=131.11  Aligned_cols=77  Identities=19%  Similarity=0.285  Sum_probs=70.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++|||+|||.++++++|+++|++||.|..++++.    ++++|||||+|.+.++|.+|++.|||..+.+. +++|+|+
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~-~~~l~V~   83 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGG-SQPLSVR   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTC-SSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCC-CeEEEEE
Confidence            478899999999999999999999999999999886    45677999999999999999999999999854 4699999


Q ss_pred             Ee
Q 023143          278 YA  279 (286)
Q Consensus       278 ~a  279 (286)
                      ||
T Consensus        84 ~A   85 (85)
T d1b7fa2          84 LA   85 (85)
T ss_dssp             EC
T ss_pred             EC
Confidence            97

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.8e-20  Score=132.26  Aligned_cols=84  Identities=21%  Similarity=0.340  Sum_probs=76.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ......++|||+|||+++++++|+++|+.||.|..|++..+..+.++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus         6 ~~~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~---g~~l~   82 (93)
T d2cq3a1           6 ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE---GRKIE   82 (93)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            344567789999999999999999999999999999998666666779999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|++.+
T Consensus        83 V~~A~~r   89 (93)
T d2cq3a1          83 VNNATAR   89 (93)
T ss_dssp             EEECCSS
T ss_pred             EEecCcC
Confidence            9999764

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.3e-20  Score=133.66  Aligned_cols=80  Identities=23%  Similarity=0.448  Sum_probs=73.1

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .++++|||+|||.++|+++|+++|++||.|..+++.. ..+++||||+|.+.++|++||+.|||..+.   |+.|+|+||
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~---g~~l~V~~a   88 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYD---GYRLRVEFP   88 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEET---TEECEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEec
Confidence            3577899999999999999999999999999998876 556789999999999999999999999998   559999999


Q ss_pred             cccc
Q 023143          280 RSKM  283 (286)
Q Consensus       280 k~~~  283 (286)
                      |...
T Consensus        89 ~~~r   92 (95)
T d1x4aa1          89 RSGR   92 (95)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            8753

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=1.8e-20  Score=132.48  Aligned_cols=86  Identities=22%  Similarity=0.320  Sum_probs=74.7

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHh-CCCccCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG---RGNQVVAFATFVNHQTAVAALHEL-NGVKFDPQS  104 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l-~g~~~~~~~  104 (286)
                      .|...++++|||+|||.++++++|+++|+.||.|..|++..+.   ...++||||+|.+.++|.+|++.| +|..|.   
T Consensus         2 ~p~~~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~---   78 (94)
T d2cpha1           2 VPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY---   78 (94)
T ss_dssp             SCCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS---
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEEC---
Confidence            3556678999999999999999999999999999999886331   123459999999999999999998 899998   


Q ss_pred             CCeEEEEEeecCC
Q 023143          105 GSVLHIELARSNS  117 (286)
Q Consensus       105 g~~l~v~~~~~~~  117 (286)
                      |++|+|+|++.+.
T Consensus        79 Gr~l~V~~A~~~~   91 (94)
T d2cpha1          79 GRRLVLEWADSEV   91 (94)
T ss_dssp             SCBCEEEECCCCC
T ss_pred             CEEEEEEEcCCCC
Confidence            9999999998654

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=1e-20  Score=129.01  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=69.0

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .|||+|||.++++++|+++|++||.|.++++..   ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||.+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~---g~~l~V~~a~S   78 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLD---GRPMNIQLVTS   78 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEeeC
Confidence            499999999999999999999999999999976   556789999999999999999999999999   55999999974

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.83  E-value=1.8e-20  Score=129.37  Aligned_cols=78  Identities=26%  Similarity=0.429  Sum_probs=69.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+|+++|||+|||.++|+++|+++|+.||.|..|++....   ++||||+|.+.++|..|++.|+|..|.  .|++|+|.
T Consensus         5 ~pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~--~~~~i~v~   79 (83)
T d2b0ga1           5 QPPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR---HDIAFVEFTTELQSNAAKEALQGFKIT--PTHAMKIT   79 (83)
T ss_dssp             CSCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT---CSCEEEEESSHHHHHHHHHHHTTCBSS--TTCBCEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc---ceeEEEecCCHHHHHHHHHHhCCcEeC--CCcEEEEE
Confidence            4468999999999999999999999999999999987333   449999999999999999999999884  26899999


Q ss_pred             Eee
Q 023143          112 LAR  114 (286)
Q Consensus       112 ~~~  114 (286)
                      |++
T Consensus        80 ~ak   82 (83)
T d2b0ga1          80 FAK   82 (83)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            986

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.3e-20  Score=138.29  Aligned_cols=78  Identities=17%  Similarity=0.214  Sum_probs=72.4

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+++|||+|||..+++++|+++|++||.|.+|++.. +.++|||||+|.+.++|..|++.|||..|.   |+.|+|+|++
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~---gr~l~V~~a~   82 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVC---NRYLVVLYYN   82 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEcC
Confidence            378999999999999999999999999999999987 567899999999999999999999999999   5599999987


Q ss_pred             cc
Q 023143          281 SK  282 (286)
Q Consensus       281 ~~  282 (286)
                      .+
T Consensus        83 ~~   84 (114)
T d2f9da1          83 AN   84 (114)
T ss_dssp             HH
T ss_pred             CC
Confidence            54

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=2.9e-20  Score=132.85  Aligned_cols=80  Identities=21%  Similarity=0.269  Sum_probs=73.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      .+++|||+|||.++++++|+++|++||.|..|+++.    ++++|||||+|.+.++|.+||+.|||..+.   |+.|+|+
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~---gr~i~V~   83 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ---GRMLHVL   83 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESS---SCEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            467899999999999999999999999999999976    556789999999999999999999999998   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      +|+.+.+
T Consensus        84 ~a~~~~~   90 (99)
T d1whwa_          84 PSTIKKE   90 (99)
T ss_dssp             ECCCCST
T ss_pred             ECCCCCc
Confidence            9997654

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.82  E-value=2.8e-20  Score=129.84  Aligned_cols=82  Identities=21%  Similarity=0.288  Sum_probs=72.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.++++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus         4 s~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~---g~~l~   80 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM---GQTIQ   80 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            45688999999999999999999999999999999886533  23559999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|+..+
T Consensus        81 V~~a~~k   87 (88)
T d1rk8a_          81 VDWCFVK   87 (88)
T ss_dssp             EEESEEC
T ss_pred             EEEecCC
Confidence            9999753

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.82  E-value=1.7e-20  Score=130.09  Aligned_cols=78  Identities=18%  Similarity=0.313  Sum_probs=71.6

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ..|||+|||..+|+++|+++|++||.|..|+++.    +.++|||||+|.++++|..|++.|||..+.   |+.|.|+||
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~---g~~l~V~~A   78 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG---DKKLLVQRA   78 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCS---SSCCEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEC
Confidence            3699999999999999999999999999999976    567899999999999999999999999999   559999999


Q ss_pred             ccccC
Q 023143          280 RSKMR  284 (286)
Q Consensus       280 k~~~~  284 (286)
                      +...+
T Consensus        79 ~~~~~   83 (85)
T d2u2fa_          79 SVGAK   83 (85)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            87653

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.4e-20  Score=136.72  Aligned_cols=81  Identities=16%  Similarity=0.168  Sum_probs=75.5

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      +..+|||+|||..+|+++|+++|++||.|..+.+...+++|+|||+|.++++|.+|++.|||..|.+. ++.|+|.|++.
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~-~~~l~v~~s~~   84 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNA-CCTLRIDFSKL   84 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTT-CCCCEEEECSS
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccC-CcEEEEEecCC
Confidence            57889999999999999999999999999999999988889999999999999999999999999776 78999999976


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus        85 ~~   86 (108)
T d2adba1          85 TS   86 (108)
T ss_dssp             CS
T ss_pred             cc
Confidence            53

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.82  E-value=2.2e-20  Score=128.72  Aligned_cols=78  Identities=27%  Similarity=0.416  Sum_probs=70.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +++|||+|||.++|+++|+++|+.||.|.+|++..+...  .++||||+|.++++|.+|++.|||..+.   |++|+|+|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~---g~~l~v~~   78 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVR---NKRLKVSY   78 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            578999999999999999999999999999998754333  2349999999999999999999999998   99999999


Q ss_pred             eec
Q 023143          113 ARS  115 (286)
Q Consensus       113 ~~~  115 (286)
                      ++.
T Consensus        79 a~p   81 (82)
T d1b7fa1          79 ARP   81 (82)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            864

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.82  E-value=1.9e-20  Score=128.04  Aligned_cols=75  Identities=21%  Similarity=0.292  Sum_probs=69.1

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|++  +|+++|+++|++||.|.++++.+.+  +||||+|.+.++|.+|++.|||..+.   |+.|+|+|||.
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~--~~afV~f~~~~~A~~Ai~~lng~~~~---g~~l~V~~a~~   76 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPR--NCAFVTYEKMESADQAVAELNGTQVE---SVQLKVNIARK   76 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTT--TEEEEECSSHHHHHHHHHHHTTCBCS---SCBCEEEECCS
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeeccCC--CEEEEEEcccHHHHHHHHHhCCCEEC---CEEEEEEEecC
Confidence            58899999996  8999999999999999999988765  89999999999999999999999999   55999999987


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus        77 ~P   78 (79)
T d2bz2a1          77 QP   78 (79)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=1.1e-20  Score=131.13  Aligned_cols=75  Identities=25%  Similarity=0.349  Sum_probs=68.5

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEEEEeec-------CCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRAR-------GGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~-------~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      |||+|||.++|+++|+++|++||.|.++++...       .++|||||+|.+.++|.+|++.|||..++   |+.|+|+|
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~---g~~i~V~~   77 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD---GHKLEVRI   77 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET---TEECEEEC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            899999999999999999999999999998762       24679999999999999999999999999   55999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      |+.+.
T Consensus        78 a~~~~   82 (85)
T d2cpfa1          78 SERAT   82 (85)
T ss_dssp             SSCSS
T ss_pred             CCCCC
Confidence            97654

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.82  E-value=5.5e-20  Score=131.98  Aligned_cols=85  Identities=19%  Similarity=0.318  Sum_probs=75.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ..+++++|||+|||+++++++|+++|+.||.|.++++.....+  .++||||+|.+.++|..|++.|||..|.   |+.|
T Consensus        14 ~~p~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~---g~~i   90 (102)
T d2cpza1          14 EGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIG---MKRL   90 (102)
T ss_dssp             CCSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET---TEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEEC---CEEE
Confidence            3456788999999999999999999999999999998865433  3459999999999999999999999998   9999


Q ss_pred             EEEEeecCCC
Q 023143          109 HIELARSNSR  118 (286)
Q Consensus       109 ~v~~~~~~~~  118 (286)
                      +|+|++...+
T Consensus        91 ~V~~a~~k~~  100 (102)
T d2cpza1          91 KVQLKRSKND  100 (102)
T ss_dssp             EEECCCCSCC
T ss_pred             EEEEeCCCCC
Confidence            9999987543

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1e-20  Score=136.04  Aligned_cols=82  Identities=22%  Similarity=0.269  Sum_probs=74.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .|+++|||+|||.++++++|+++|++||.|..+.+..    +.+++||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~---g~~l~V   92 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLY---GKILVI   92 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCS---SCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            4689999999999999999999999999998777754    667889999999999999999999999998   559999


Q ss_pred             EEeccccCC
Q 023143          277 EYARSKMRK  285 (286)
Q Consensus       277 ~~ak~~~~~  285 (286)
                      +||+.+.++
T Consensus        93 ~~ak~k~~r  101 (102)
T d2cpxa1          93 EFGKNKKQR  101 (102)
T ss_dssp             EECCCCSCC
T ss_pred             EeCCCcccC
Confidence            999988664

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=5e-20  Score=129.92  Aligned_cols=81  Identities=16%  Similarity=0.231  Sum_probs=72.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      +++++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|..|++.|||..+.   |++|+|
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---gr~i~V   81 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLD---DRIIRT   81 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEET---TEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            4689999999999999999999999999999999875432  23459999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|+...
T Consensus        82 ~~a~~~   87 (93)
T d1h2vz_          82 DWDAGF   87 (93)
T ss_dssp             EEESCC
T ss_pred             EEcCCC
Confidence            998643

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=2.3e-20  Score=136.30  Aligned_cols=77  Identities=18%  Similarity=0.202  Sum_probs=71.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||.++++++|+++|+.||.|..|.|.+.  ++||||+|.+.++|.+|++.|||..|.   |++|+|+||+.
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~--kg~afV~f~~~~~A~~A~~~lng~~~~---gr~l~v~~a~~   83 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEG--GITAIVEFLEPLEARKAFRHLAYSKFH---HVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSS--SSCEEEEESCHHHHHHHHHHHTTCBSS---SSBCEEEEEET
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeecc--CceEEEEEcCHHHHHHHHHHHcCCccC---CCeEEEEECCC
Confidence            4789999999999999999999999999999988655  489999999999999999999999999   55999999987


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      ..
T Consensus        84 ~~   85 (111)
T d1whxa_          84 GV   85 (111)
T ss_dssp             TT
T ss_pred             Cc
Confidence            64

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=3.1e-20  Score=129.00  Aligned_cols=76  Identities=24%  Similarity=0.342  Sum_probs=70.9

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      .++|||+|||.++++++|+++|++||.|.+|++.+.+  +||||+|.+.++|.+|++.|||..|.   |+.|+|+||..+
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k--~~afV~f~~~~~A~~A~~~l~g~~i~---g~~l~V~~A~~~   82 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK--GFGFIRLETRTLAEIAKVELDNMPLR---GKQLRVRFACHS   82 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT--TEEEEECSSSHHHHHHHHHHTTCCBT---TBCCEEEESSCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeeccc--ceEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEECCCc
Confidence            5679999999999999999999999999999998765  89999999999999999999999999   559999999876


Q ss_pred             c
Q 023143          283 M  283 (286)
Q Consensus       283 ~  283 (286)
                      .
T Consensus        83 ~   83 (86)
T d2cpja1          83 A   83 (86)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.1e-20  Score=132.93  Aligned_cols=78  Identities=28%  Similarity=0.373  Sum_probs=71.1

Q ss_pred             CccEEEEccCCCCCCHHHHHH----HHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQ----TLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~----~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      |+++|||+|||..++++||++    +|++||.|.+|++.. +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~---g~~l~v   78 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFY---DKPMRI   78 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEET---TEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEEC---CEEEEE
Confidence            689999999999999999864    689999999999877 556789999999999999999999999999   559999


Q ss_pred             EEeccc
Q 023143          277 EYARSK  282 (286)
Q Consensus       277 ~~ak~~  282 (286)
                      +||+.+
T Consensus        79 ~~ak~~   84 (91)
T d1nu4a_          79 QYAKTD   84 (91)
T ss_dssp             EECSSC
T ss_pred             EEeCCC
Confidence            999876

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=3.7e-20  Score=131.16  Aligned_cols=83  Identities=29%  Similarity=0.491  Sum_probs=73.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      |..+++++|||+|||+++|+++|+++|+.||.|..+.+... ...++||||+|.+.++|.+|++.|||..|.   |++|+
T Consensus         9 p~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~-~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~---g~~l~   84 (95)
T d1x4aa1           9 PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYD---GYRLR   84 (95)
T ss_dssp             CCCCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc-ccccceEEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            44567889999999999999999999999999998887633 333559999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|++..
T Consensus        85 V~~a~~~   91 (95)
T d1x4aa1          85 VEFPRSG   91 (95)
T ss_dssp             EECCCCC
T ss_pred             EEeccCC
Confidence            9998753

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=4.4e-20  Score=130.18  Aligned_cols=84  Identities=19%  Similarity=0.272  Sum_probs=73.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +.+++++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.|||..|.   |+.|
T Consensus         5 ~~~~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~l   81 (93)
T d1x5ua1           5 ERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY---GKPI   81 (93)
T ss_dssp             CCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCS---SCBC
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEEC---CEEE
Confidence            345578999999999999999999999999999998874322  23449999999999999999999999998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      +|+|+....
T Consensus        82 ~V~~A~~~~   90 (93)
T d1x5ua1          82 RVNKASAHN   90 (93)
T ss_dssp             EEEETTTTS
T ss_pred             EEEEcCCCC
Confidence            999987654

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=2.2e-20  Score=128.48  Aligned_cols=75  Identities=16%  Similarity=0.203  Sum_probs=66.5

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +||||+|||.++|+++|+++|++||.|..+.+..    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~---g~~i~V~~a   78 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIE---GYTLVTKVS   78 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEc
Confidence            5899999999999999999999999998777653    667889999999999999999999999999   559999999


Q ss_pred             cc
Q 023143          280 RS  281 (286)
Q Consensus       280 k~  281 (286)
                      +.
T Consensus        79 ~P   80 (81)
T d2ghpa1          79 NP   80 (81)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=4.3e-20  Score=129.59  Aligned_cols=78  Identities=19%  Similarity=0.313  Sum_probs=71.8

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|++||.|..+.++.    +.++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~---g~~l~V~~   81 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVD---GRQIRVDQ   81 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTT---SCCCEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEE
Confidence            67799999999999999999999999999998776    557789999999999999999999999999   55999999


Q ss_pred             ecccc
Q 023143          279 ARSKM  283 (286)
Q Consensus       279 ak~~~  283 (286)
                      |..+.
T Consensus        82 a~~~~   86 (90)
T d1x5sa1          82 AGKSS   86 (90)
T ss_dssp             EECCC
T ss_pred             cCCCC
Confidence            98764

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.7e-20  Score=131.36  Aligned_cols=79  Identities=15%  Similarity=0.355  Sum_probs=72.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      ..+|||+|||.++++++|+++|+.||.|..+++.....+.++||||+|.+.++|.+|++.|||..|.   |+.|.|++++
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~i~V~~a~   84 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLN---DRKVFVGRFK   84 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEET---TEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEECC
Confidence            4679999999999999999999999999999998655555669999999999999999999999998   9999999987


Q ss_pred             cC
Q 023143          115 SN  116 (286)
Q Consensus       115 ~~  116 (286)
                      ..
T Consensus        85 ~~   86 (89)
T d1cvja2          85 SR   86 (89)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=5e-20  Score=135.08  Aligned_cols=79  Identities=18%  Similarity=0.234  Sum_probs=71.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .+++|||+|||.++++++|+++|+.||.|..|++..+++ .++||||+|.+.++|..|++.|||..|.   |+.|+|+++
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~-~kG~afV~f~~~~~A~~Ai~~l~g~~~~---gr~l~V~~a   81 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE-TRGTAYVVYEDIFDAKNACDHLSGFNVC---NRYLVVLYY   81 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTT-TTTEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCC-cCCeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEc
Confidence            478999999999999999999999999999999884433 3569999999999999999999999998   999999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus        82 ~~~   84 (114)
T d2f9da1          82 NAN   84 (114)
T ss_dssp             CHH
T ss_pred             CCC
Confidence            653

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=7.8e-20  Score=127.10  Aligned_cols=78  Identities=18%  Similarity=0.258  Sum_probs=70.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      ..++|||+|||.++++++|+++|++||.|..+++...  +|||||+|.+.++|.+|+..|||..|.   |+.|+|+||+.
T Consensus         7 ~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~--rg~afV~f~~~~~A~~Ai~~l~~~~i~---g~~i~V~~akP   81 (86)
T d2cpda1           7 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI--RDYAFVHFSNREDAVEAMKALNGKVLD---GSPIEVTLAKP   81 (86)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC--SSEEEEEESSHHHHHHHHHHHSSEEET---TEEEEEECCCC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEccc--cEEEEEEeCCHHHHHHHHHHcCCCEEC---CEEEEEEeccC
Confidence            4689999999999999999999999999988877655  489999999999999999999999999   55999999986


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      +-+
T Consensus        82 ~~~   84 (86)
T d2cpda1          82 VDK   84 (86)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            644

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=9.7e-20  Score=125.48  Aligned_cols=77  Identities=22%  Similarity=0.430  Sum_probs=69.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.++++|.+|++.|||..+.   |++|+|+|+
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~---g~~l~v~~A   79 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQ---TKTIKVSYA   79 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEe
Confidence            4699999999999999999999999999999875422  34459999999999999999999999998   999999998


Q ss_pred             ec
Q 023143          114 RS  115 (286)
Q Consensus       114 ~~  115 (286)
                      +.
T Consensus        80 kP   81 (82)
T d1fxla1          80 RP   81 (82)
T ss_dssp             CC
T ss_pred             eC
Confidence            64

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.8e-20  Score=128.44  Aligned_cols=77  Identities=27%  Similarity=0.327  Sum_probs=69.9

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCC-ccCCCCCCcEEEEEeccc
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDS-TLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~-~~~~~~g~~l~V~~ak~~  282 (286)
                      ++|||+|||.++|+++|+++|++||.|..+++...+  |||||+|.+.++|.+|++.|||. .+.   |+.|+|+||+.+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~r--g~aFV~f~~~~~A~~Ai~~lng~~~~~---G~~i~V~~a~~k   76 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKS--GYAFVDYPDQNWAIRAIETLSGKVELH---GKIMEVDYSVSK   76 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEET--TEEEECCSCHHHHHHHHHHHTTTCEET---TEECEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEeccc--ceEEEEECCHHHHHHHHHHhCCCeEEC---CEEEEEEEcCCc
Confidence            469999999999999999999999999888777765  89999999999999999999996 588   559999999988


Q ss_pred             cCC
Q 023143          283 MRK  285 (286)
Q Consensus       283 ~~~  285 (286)
                      .++
T Consensus        77 ~~r   79 (80)
T d2cqha1          77 KLR   79 (80)
T ss_dssp             CCC
T ss_pred             CcC
Confidence            764

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=8.1e-20  Score=128.08  Aligned_cols=82  Identities=23%  Similarity=0.379  Sum_probs=73.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .++.++|||+|||.++++++|+++|+.||.|..|++..+..  ..++||||+|.+.++|.+|++.|+|..+.   |+.|+
T Consensus         5 ~~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~---g~~i~   81 (90)
T d2cq0a1           5 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD---HLILN   81 (90)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEET---TEECE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            45678999999999999999999999999999999885432  24559999999999999999999999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|++..
T Consensus        82 v~~akp~   88 (90)
T d2cq0a1          82 VEWAKPS   88 (90)
T ss_dssp             EEESSCC
T ss_pred             EEeeeCC
Confidence            9999754

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=2.5e-20  Score=129.56  Aligned_cols=78  Identities=21%  Similarity=0.276  Sum_probs=68.5

Q ss_pred             CccEEEEccCCCCCC-HHHHHHHHhcCCCceEEEEee-----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEE
Q 023143          202 PCSTLFIANLGPNCT-EDELKQTLSVYPGFNMLKMRA-----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMH  275 (286)
Q Consensus       202 ~~~~L~v~NL~~~~t-e~~L~~~F~~~G~v~~v~~~~-----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~  275 (286)
                      .+++|||+|||.+++ +++|+++|++||.|.+|++..     ++++|||||+|.+.++|.+|++ |||..+.   |+.|+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~---gr~l~   78 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLG---NREIS   78 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEET---TEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEEC---CEEEE
Confidence            378999999999886 556999999999999999854     5567899999999999999995 9999999   55999


Q ss_pred             EEEecccc
Q 023143          276 IEYARSKM  283 (286)
Q Consensus       276 V~~ak~~~  283 (286)
                      |+||+.++
T Consensus        79 V~~a~~kP   86 (86)
T d2ghpa3          79 VSLADKKP   86 (86)
T ss_dssp             EEECCCCC
T ss_pred             EEEcCCCC
Confidence            99998764

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=9.9e-20  Score=125.68  Aligned_cols=75  Identities=23%  Similarity=0.307  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      +++++|||+|||.++|+++|+++|+.||.|.+|++..+..+  .++||||+|.+.++|.+|++.|||..|.   |++|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEEC---CEEeEC
Confidence            45789999999999999999999999999999998865432  3459999999999999999999999998   999986

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=7.4e-20  Score=125.37  Aligned_cols=76  Identities=18%  Similarity=0.144  Sum_probs=69.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      .|||+|||+.+|+++|+++|+.||+|.+|+|..+..  ..++||||+|.++++|.+|++.|+|..+.   |++|+|+|++
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~---gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIK---GKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEET---TEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEEeC
Confidence            599999999999999999999999999999986433  23459999999999999999999999998   9999999986


Q ss_pred             c
Q 023143          115 S  115 (286)
Q Consensus       115 ~  115 (286)
                      .
T Consensus        79 ~   79 (80)
T d1cvja1          79 R   79 (80)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.80  E-value=7.3e-20  Score=129.74  Aligned_cols=77  Identities=17%  Similarity=0.319  Sum_probs=70.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++++|||+|||.++++++|+++|+.||.|.+|++. ..++   ||||+|.+.++|..|+..|+|..|.   |+.|+|.|
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~-~~kg---~afV~f~~~~~A~~Ai~~l~~~~i~---g~~l~v~~   88 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF-PEKG---YSFVRFSTHESAAHAIVSVNGTTIE---GHVVKCYW   88 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHTTCEET---TEECEEEC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEE-ecce---EEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            346889999999999999999999999999999988 4455   9999999999999999999999998   99999999


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      ++.+
T Consensus        89 ak~~   92 (96)
T d1x4ga1          89 GKES   92 (96)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            8764

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=6.2e-20  Score=133.50  Aligned_cols=77  Identities=23%  Similarity=0.310  Sum_probs=70.2

Q ss_pred             ccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          203 CSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       203 ~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      +++|||+||++ .+|+++|+++|+.||.|.+|+++.++ +|||||+|.++++|.+|++.|||..+.   |+.|+|+|++.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~-kg~afV~f~~~~~A~~ai~~lng~~l~---g~~l~v~~s~~   77 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-KENALVQMADGNQAQLAMSHLNGHKLH---GKPIRITLSKH   77 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-SCCEEEEESCHHHHHHHHHHHTTCBCS---SSBCEEECCSC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc-cceEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEECCC
Confidence            68999999965 69999999999999999999998864 689999999999999999999999999   55999999986


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus        78 ~~   79 (109)
T d2adca1          78 QN   79 (109)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.1e-19  Score=127.53  Aligned_cols=84  Identities=23%  Similarity=0.339  Sum_probs=73.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.+.++|||+|||+++++++|+++|+.||.|..+.+....  ...++||||+|.++++|.+|++.|+|..|.   |+.|+
T Consensus         2 ~~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~---g~~l~   78 (90)
T d1x5sa1           2 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVD---GRQIR   78 (90)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTT---SCCCE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            3467889999999999999999999999999999877432  223449999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+++....+
T Consensus        79 V~~a~~~~~   87 (90)
T d1x5sa1          79 VDQAGKSSD   87 (90)
T ss_dssp             EEEEECCCC
T ss_pred             EEEcCCCCC
Confidence            999976543

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.5e-20  Score=134.47  Aligned_cols=78  Identities=15%  Similarity=0.278  Sum_probs=71.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|+.||.|.+|+++.    ++++|||||+|.+.++|.+|++ |||..|.   |+.|+|++
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~---G~~l~V~~   93 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLL---GVPIIVQA   93 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEET---TEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEEC---CEEEEEEE
Confidence            68999999999999999999999999999999987    5678899999999999999995 9999998   56999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+++..
T Consensus        94 a~~~~n   99 (101)
T d2cq4a1          94 SQAEKN   99 (101)
T ss_dssp             HHHHHH
T ss_pred             CCCCCC
Confidence            887643

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=4.8e-20  Score=132.91  Aligned_cols=77  Identities=19%  Similarity=0.305  Sum_probs=70.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~---g~~i~V~~   84 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFS---GRALRVDN   84 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCS---SSCBEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEE
Confidence            67899999999999999999999999999999977    345679999999999999999999999999   55999999


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      |..+
T Consensus        85 a~~~   88 (104)
T d1p1ta_          85 AASE   88 (104)
T ss_dssp             TTCT
T ss_pred             CCCC
Confidence            8754

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=1.7e-19  Score=128.72  Aligned_cols=83  Identities=24%  Similarity=0.361  Sum_probs=72.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +..+++|||+|||+++++++|+++|+.||.|.+|++..+.  ...++||||+|.+.++|.+|++.|||..|.   |+.|+
T Consensus         5 ~~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~---gr~i~   81 (99)
T d1whwa_           5 SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ---GRMLH   81 (99)
T ss_dssp             CCSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESS---SCEEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            4457789999999999999999999999999999887442  223449999999999999999999999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |.++....
T Consensus        82 V~~a~~~~   89 (99)
T d1whwa_          82 VLPSTIKK   89 (99)
T ss_dssp             EEECCCCS
T ss_pred             EEECCCCC
Confidence            99987653

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=4.4e-20  Score=128.92  Aligned_cols=79  Identities=20%  Similarity=0.170  Sum_probs=71.2

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhc--CCCccCCCCCCcEEEE
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL--QDSTLPSSDRGGMHIE  277 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~l--ng~~~~~~~g~~l~V~  277 (286)
                      .+|+++|||+|||.++++++|+++|++||.|.++++.+.+  ++|||+|.+.++|.+|++.+  ++..+.   |+.|+|+
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~--~~afV~f~~~e~A~~a~~~~~~~~~~~~---g~~l~v~   79 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK--NQAFLELATEEAAITMVNYYSAVTPHLR---NQPIYIQ   79 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT--TEEEEEESSHHHHHHHHHHHHHSCCEET---TEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccc--eEEEEEeCCHHHHHHHHHHHccCCCccC---CCEEEEE
Confidence            4579999999999999999999999999999999988765  89999999999999999976  566777   6699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||+.+-
T Consensus        80 ~sk~~~   85 (88)
T d2cq1a1          80 YSNHKE   85 (88)
T ss_dssp             ECSCSS
T ss_pred             ECCCCC
Confidence            998764

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5.7e-20  Score=126.92  Aligned_cols=76  Identities=25%  Similarity=0.348  Sum_probs=67.7

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEE-EEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNML-KMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v-~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      |||+|||.++|+++|+++|++||.|.++ +++.    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~---gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC---NRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET---TEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEEC---CEEEEEEEec
Confidence            7999999999999999999999998664 5554    456789999999999999999999999998   5599999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+-.
T Consensus        78 ~k~~   81 (83)
T d1x5ta1          78 KKDS   81 (83)
T ss_dssp             CCCC
T ss_pred             CCCc
Confidence            7643

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5.6e-20  Score=126.97  Aligned_cols=72  Identities=25%  Similarity=0.287  Sum_probs=66.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++++|||+|||..+|+++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~---gr~i~V   83 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD---GRRIRV   83 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEEC---CEEeEC
Confidence            588999999999999999999999999999999876    445779999999999999999999999999   558886

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=6.6e-20  Score=128.27  Aligned_cols=80  Identities=23%  Similarity=0.344  Sum_probs=71.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.|||..+.   |++|+|
T Consensus         3 ~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~---g~~l~v   79 (89)
T d2cqba1           3 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF---GRTIRV   79 (89)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEET---TEEEEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEEC---CEEEEE
Confidence            3578999999999999999999999999999999874332  23459999999999999999999999998   999999


Q ss_pred             EEeec
Q 023143          111 ELARS  115 (286)
Q Consensus       111 ~~~~~  115 (286)
                      ++++.
T Consensus        80 ~~a~p   84 (89)
T d2cqba1          80 NLAKP   84 (89)
T ss_dssp             EECCC
T ss_pred             EEeCC
Confidence            99864

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.80  E-value=1.7e-19  Score=129.57  Aligned_cols=77  Identities=10%  Similarity=0.132  Sum_probs=69.8

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++++++|+++|++||.|.+|+++.    ++++|||||+|.+.++|.+|++.+|+ .+.   |+.|+|+
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~---Gr~l~V~   84 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IID---GRKANVN   84 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EET---TEECEEE
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCC---CEEEEEE
Confidence            367899999999999999999999999999999976    55789999999999999999999987 687   6699999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      ||..+
T Consensus        85 ~a~~~   89 (103)
T d2cqda1          85 LAYLG   89 (103)
T ss_dssp             ESTTT
T ss_pred             EcCCC
Confidence            98754

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.80  E-value=1.5e-20  Score=132.05  Aligned_cols=77  Identities=27%  Similarity=0.331  Sum_probs=70.0

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ...+|||+|||.++|+++|+++|++||.|..++++.   ++++|||||+|.+.++|++||+ |||..+.   |+.|+|++
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~---g~~i~V~~   87 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVF---GNEIKLEK   87 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEET---TEEEEEEC
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEEC---CEEEEEEe
Confidence            467999999999999999999999999888777654   7788999999999999999996 9999999   56999999


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      ||.|
T Consensus        88 ak~k   91 (91)
T d1fjeb1          88 PKGR   91 (91)
T ss_dssp             CCCS
T ss_pred             cCCC
Confidence            9975

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=1.5e-19  Score=125.47  Aligned_cols=76  Identities=24%  Similarity=0.378  Sum_probs=70.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +.++|||+|||.++++++|+++|+.||.|.+|++. ..++   ||||+|.+.++|.+|++.|||..|.   |+.|+|+|+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~-~~k~---~afV~f~~~~~A~~A~~~l~g~~i~---g~~l~V~~A   79 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH-KDKG---FGFIRLETRTLAEIAKVELDNMPLR---GKQLRVRFA   79 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEE-TTTT---EEEEECSSSHHHHHHHHHHTTCCBT---TBCCEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeee-cccc---eEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEC
Confidence            35679999999999999999999999999999987 4455   9999999999999999999999998   999999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus        80 ~~~   82 (86)
T d2cpja1          80 CHS   82 (86)
T ss_dssp             SCC
T ss_pred             CCc
Confidence            754

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.8e-19  Score=125.74  Aligned_cols=79  Identities=20%  Similarity=0.307  Sum_probs=68.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      |+++|||+|||.++++++|+++|+.||.|..+.+... + .++||||+|.+.++|.+|+..|+|..+.  .|++|+|+|+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~-~-~~~~afV~f~~~~~A~~A~~~l~~~~i~--~g~~l~v~~s   84 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ-K-DRKMALIQMGSVEEAVQALIDLHNHDLG--ENHHLRVSFS   84 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS-S-STTCEEEEESSHHHHHHHHHHHTTCBSS--SSCBCEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee-c-ccceeEEEECCHHHHHHHHHhccCCEec--CCCEEEEEeC
Confidence            4899999999999999999999999999987766532 2 2349999999999999999999999882  2799999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      +++
T Consensus        85 k~~   87 (88)
T d2adca2          85 KST   87 (88)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            764

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.79  E-value=3.4e-19  Score=123.48  Aligned_cols=79  Identities=20%  Similarity=0.288  Sum_probs=68.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+++|||+|||.++++++|+++|+.||.|..+++..+..  ..++||||+|.+.++|.+|++.|||..+. +.+++|+|+
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~-g~~~~l~V~   83 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPE-GGSQPLSVR   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCT-TCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeC-CCCeEEEEE
Confidence            467899999999999999999999999999999885432  34459999999999999999999999985 234899999


Q ss_pred             Ee
Q 023143          112 LA  113 (286)
Q Consensus       112 ~~  113 (286)
                      ||
T Consensus        84 ~A   85 (85)
T d1b7fa2          84 LA   85 (85)
T ss_dssp             EC
T ss_pred             EC
Confidence            86

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.5e-19  Score=124.15  Aligned_cols=79  Identities=24%  Similarity=0.327  Sum_probs=68.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+++|||+|||.++|+++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.|||..+. +..++|+|.
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~-G~~~~i~V~   83 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPS-GATEPITVK   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCT-TCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeC-CCCEEEEEE
Confidence            567899999999999999999999999999999986433  34559999999999999999999999996 223668888


Q ss_pred             Ee
Q 023143          112 LA  113 (286)
Q Consensus       112 ~~  113 (286)
                      ||
T Consensus        84 ~A   85 (85)
T d1fxla2          84 FA   85 (85)
T ss_dssp             EC
T ss_pred             eC
Confidence            85

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=1.8e-19  Score=128.49  Aligned_cols=80  Identities=20%  Similarity=0.295  Sum_probs=71.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcC------CCccCCCCC
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQ------DSTLPSSDR  271 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~ln------g~~~~~~~g  271 (286)
                      .+++|||+|||.++|+++|+++|++||.|..+.+..    +.++|||||+|.+.++|.+||+.||      |..+.   |
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~---g   83 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLD---G   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESS---S
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEEC---C
Confidence            478999999999999999999999999999998876    4467899999999999999999987      55666   6


Q ss_pred             CcEEEEEeccccC
Q 023143          272 GGMHIEYARSKMR  284 (286)
Q Consensus       272 ~~l~V~~ak~~~~  284 (286)
                      +.|+|+||+.+.+
T Consensus        84 r~l~v~~a~~k~~   96 (98)
T d1x4ha1          84 RQLKVDLAVTRDE   96 (98)
T ss_dssp             CEEEEECCCCCCC
T ss_pred             EEEEEEECCCCCc
Confidence            6999999998754

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=3.2e-19  Score=128.38  Aligned_cols=80  Identities=16%  Similarity=0.207  Sum_probs=70.7

Q ss_pred             CCCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC--CCccCCCCCCcEEE
Q 023143          199 GVQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ--DSTLPSSDRGGMHI  276 (286)
Q Consensus       199 ~~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln--g~~~~~~~g~~l~V  276 (286)
                      ..+++++|||+|||..+|+++|+++|++||.|..+++.+.+  ++|||+|++.++|..|++.|+  +..++   |+.|+|
T Consensus        11 ~~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k--~~AfV~f~~~e~A~~ai~~~~~~~~~~~---g~~l~v   85 (104)
T d1wexa_          11 KVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFK--RQALVEFENIDSAKECVTFAADVPVYIA---GQQAFF   85 (104)
T ss_dssp             CCCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTT--TEEEEEESSHHHHHHHHHHHHHSCCBSS---SSBCEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecc--eeEEEEeCCHHHHHHHHHHHcCCCcEEe---eEEEEE
Confidence            34579999999999999999999999999999999988655  899999999999999999885  44555   669999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +|++.+.
T Consensus        86 ~~s~~~~   92 (104)
T d1wexa_          86 NYSTSKR   92 (104)
T ss_dssp             EECSSSS
T ss_pred             EEcCCCc
Confidence            9998753

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=3.4e-19  Score=124.35  Aligned_cols=81  Identities=14%  Similarity=0.174  Sum_probs=71.4

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh--CCCccCCCCCC
Q 023143           29 QQQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL--NGVKFDPQSGS  106 (286)
Q Consensus        29 ~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l--~g~~~~~~~g~  106 (286)
                      ..++.++++|||+|||.++++++|+++|+.||.|..+++. ..++   ||||+|.+.++|.+|++.+  ++..+.   |+
T Consensus         2 ~~~~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~-~~~~---~afV~f~~~e~A~~a~~~~~~~~~~~~---g~   74 (88)
T d2cq1a1           2 KMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILML-KGKN---QAFLELATEEAAITMVNYYSAVTPHLR---NQ   74 (88)
T ss_dssp             CCCSSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHHHSCCEET---TE
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHhccccccccccc-ccce---EEEEEeCCHHHHHHHHHHHccCCCccC---CC
Confidence            3456789999999999999999999999999999999887 4445   9999999999999999865  567887   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      +|+|+|++.+
T Consensus        75 ~l~v~~sk~~   84 (88)
T d2cq1a1          75 PIYIQYSNHK   84 (88)
T ss_dssp             ECEEEECSCS
T ss_pred             EEEEEECCCC
Confidence            9999998643

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=2.1e-19  Score=124.59  Aligned_cols=75  Identities=19%  Similarity=0.376  Sum_probs=67.1

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-----CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-----NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-----~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      |||+|||.++|+++|+++|+.||.|.+|++..+...     .++||||+|.+.++|.+|++.|||..+.   |++|+|+|
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~---g~~i~V~~   77 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD---GHKLEVRI   77 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET---TEECEEEC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            799999999999999999999999999998743222     2459999999999999999999999998   99999999


Q ss_pred             eec
Q 023143          113 ARS  115 (286)
Q Consensus       113 ~~~  115 (286)
                      ++.
T Consensus        78 a~~   80 (85)
T d2cpfa1          78 SER   80 (85)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            854

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=7.7e-20  Score=127.50  Aligned_cols=76  Identities=16%  Similarity=0.217  Sum_probs=66.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||.+++++||+++|++|| +..+.+.  ..++||||+|.+.++|++|++.|||..+.   |+.|+|+|+++
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~--~~kg~afV~f~~~~~A~~Ai~~ln~~~~~---G~~l~V~~a~~   77 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVD--RNKRTAFVTLLNGEQAQNAIQMFHQYSFR---GKDLIVQLQPT   77 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEE--GGGTEEEECCSCHHHHHHHHHHHTTEEET---TEEEEEEECCC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeee--ccCCceEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEcCC
Confidence            377899999999999999999999999 3334443  34589999999999999999999999999   55999999987


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus        78 ~~   79 (88)
T d1wg1a_          78 DA   79 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.5e-19  Score=128.51  Aligned_cols=75  Identities=19%  Similarity=0.230  Sum_probs=67.5

Q ss_pred             CccEEEEccCC-CCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          202 PCSTLFIANLG-PNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       202 ~~~~L~v~NL~-~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .+++|||+||+ ..+++++|+++|++||.|.++++.    ++||||+|++.++|.+||+.|||..+.   |+.|+|+||+
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~----rg~aFV~f~~~~~A~~Ai~~lng~~~~---g~~l~V~~a~   86 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH----KGFAFVQYVNERNARAAVAGEDGRMIA---GQVLDINLAA   86 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE----TEEEEEEESSHHHHHHHHHTTTTCEET---TEECEEEETT
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe----CCeEEEEECCHHHHHHHHHHcCCCEEC---CEEEEEEECC
Confidence            36779999997 578899999999999999999883    489999999999999999999999999   5599999998


Q ss_pred             ccc
Q 023143          281 SKM  283 (286)
Q Consensus       281 ~~~  283 (286)
                      .+.
T Consensus        87 ~~~   89 (98)
T d1wf2a_          87 EPK   89 (98)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            653

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=1.4e-19  Score=132.09  Aligned_cols=79  Identities=24%  Similarity=0.255  Sum_probs=70.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .+.+++|||+|||+++++++|+++|+.||.|..|.|. ..++   ||||+|.+.++|.+|++.|||..|.   |++|+|+
T Consensus         7 ~r~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~-~~kg---~afV~f~~~~~A~~A~~~lng~~~~---gr~l~v~   79 (111)
T d1whxa_           7 GRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLP-EGGI---TAIVEFLEPLEARKAFRHLAYSKFH---HVPLYLE   79 (111)
T ss_dssp             SEEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECC-SSSS---CEEEEESCHHHHHHHHHHHTTCBSS---SSBCEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhhccCCccEEEee-ccCc---eEEEEEcCHHHHHHHHHHHcCCccC---CCeEEEE
Confidence            3456789999999999999999999999999988775 3444   9999999999999999999999999   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      |+....
T Consensus        80 ~a~~~~   85 (111)
T d1whxa_          80 WAPIGV   85 (111)
T ss_dssp             EEETTT
T ss_pred             ECCCCc
Confidence            987653

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.6e-19  Score=128.16  Aligned_cols=80  Identities=15%  Similarity=0.208  Sum_probs=69.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCC-ceEEEEee-----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPG-FNMLKMRA-----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~-v~~v~~~~-----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      ++.|||+|||.++++++|+++|++||. |..+++..     ++++|||||+|.+.++|.+|++.|++..+... |+.|+|
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~-g~~i~V   79 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW-GHQIAV   79 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBT-TBCCEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEEC-CEEEEE
Confidence            468999999999999999999999995 88999865     45778999999999999999999976655433 679999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +||+.+.
T Consensus        80 ~~A~p~~   86 (96)
T d2disa1          80 DWAEPEI   86 (96)
T ss_dssp             EESCSSC
T ss_pred             EEcCCCC
Confidence            9998754

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=1.6e-19  Score=122.99  Aligned_cols=76  Identities=29%  Similarity=0.409  Sum_probs=68.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      +|||+|||+++++++|+++|+.||.|.+|++..+..+ .++||||+|.+.++|.+|++.|||..+.   |++|+|+++.+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~---g~~l~V~~a~S   78 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLD---GRPMNIQLVTS   78 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEET---TEECEEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEeeC
Confidence            5999999999999999999999999999999844322 3449999999999999999999999998   99999999853

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.1e-19  Score=125.66  Aligned_cols=78  Identities=21%  Similarity=0.228  Sum_probs=69.7

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..++|||+|||.++|+++|+++|++||.|..|+++.    +.++|||||+|.+.++|.+||+.++  .|.   |+.|.|.
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~~--~l~---Gr~i~v~   81 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRH--MID---GRWCDCK   81 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSCE--EET---TEEEEEE
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcCC--ccC---CEEeEEE
Confidence            578899999999999999999999999999999986    5667899999999999999998654  677   6699999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      +|..+..
T Consensus        82 ~a~~k~~   88 (90)
T d2cqga1          82 LPNSKQS   88 (90)
T ss_dssp             CCCTTCC
T ss_pred             eCCCCCC
Confidence            9988653

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=3.7e-19  Score=126.43  Aligned_cols=80  Identities=20%  Similarity=0.307  Sum_probs=70.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ..++++|||+|||.++++++|+++|++||.|..|++. ..++   ||||+|.+.++|.+|++.|||..|. ..+++|+|+
T Consensus        14 ~~Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~-~~~~---~afV~f~~~~~A~~A~~~l~~~~i~-g~~~~l~v~   88 (97)
T d1whya_          14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV-KGDS---FAYIQYESLDAAQAACAKMRGFPLG-GPDRRLRVD   88 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEEC-SSSC---CEEEEESSHHHHHHHHHHHTTCBCS-SSSCBCEEE
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeee-cccc---EEEeccCCHHHHHHHHHHhCCCEeC-CCceEEEEE
Confidence            3458999999999999999999999999999999886 3444   9999999999999999999999994 334689999


Q ss_pred             EeecC
Q 023143          112 LARSN  116 (286)
Q Consensus       112 ~~~~~  116 (286)
                      |++..
T Consensus        89 ~ak~~   93 (97)
T d1whya_          89 FAKSG   93 (97)
T ss_dssp             ECCCC
T ss_pred             eCCCC
Confidence            98754

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.78  E-value=4.4e-19  Score=121.11  Aligned_cols=74  Identities=26%  Similarity=0.340  Sum_probs=67.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ..+++|||+||+  +|+++|+++|++||.|.+|++. ..++   ||||+|.+.++|.+|++.|||..+.   |+.|+|+|
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~-~~~~---~afV~f~~~~~A~~Ai~~lng~~~~---g~~l~V~~   73 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMD-PPRN---CAFVTYEKMESADQAVAELNGTQVE---SVQLKVNI   73 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEE-TTTT---EEEEECSSHHHHHHHHHHHTTCBCS---SCBCEEEE
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeec-cCCC---EEEEEEcccHHHHHHHHHhCCCEEC---CEEEEEEE
Confidence            357899999996  8999999999999999999887 4455   9999999999999999999999998   99999999


Q ss_pred             eec
Q 023143          113 ARS  115 (286)
Q Consensus       113 ~~~  115 (286)
                      ++.
T Consensus        74 a~~   76 (79)
T d2bz2a1          74 ARK   76 (79)
T ss_dssp             CCS
T ss_pred             ecC
Confidence            964

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.78  E-value=7.8e-20  Score=129.74  Aligned_cols=80  Identities=23%  Similarity=0.302  Sum_probs=71.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      .++++|||+|||.++|+++|+++|++||.|..++ ..+.+++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~-~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~---gr~i~V~~a~   89 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVS-QDGKSKGIAYIEFKSEADAEKNLEEKQGAEID---GRSVSLYYTG   89 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEE-ETTEEEEEEEEEESSHHHHHHHHHHTTEEEET---TEEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccceeee-ecCccccEEEEEeCCHHHHHHHHHHcCCCEEC---CEEEEEEEeC
Confidence            3589999999999999999999999999987765 34556789999999999999999999999999   5699999998


Q ss_pred             cccC
Q 023143          281 SKMR  284 (286)
Q Consensus       281 ~~~~  284 (286)
                      .+-.
T Consensus        90 ~k~~   93 (96)
T d1fjca_          90 EKGG   93 (96)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            7653

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=2.1e-19  Score=123.47  Aligned_cols=77  Identities=18%  Similarity=0.298  Sum_probs=66.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +||||+|||.++|+++|+++|+.||.|..+.+..+.  ...++||||+|.+.++|.+|++.|||..+.   |++|+|+++
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~---g~~i~V~~a   78 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIE---GYTLVTKVS   78 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEET---TEECEEEEC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEc
Confidence            689999999999999999999999999877765332  223449999999999999999999999998   999999998


Q ss_pred             ec
Q 023143          114 RS  115 (286)
Q Consensus       114 ~~  115 (286)
                      ++
T Consensus        79 ~P   80 (81)
T d2ghpa1          79 NP   80 (81)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.78  E-value=2.6e-19  Score=128.31  Aligned_cols=81  Identities=17%  Similarity=0.214  Sum_probs=70.3

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCce--------EEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCC
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFN--------MLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPS  268 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~--------~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~  268 (286)
                      +.+++|||+|||..+|+++|+++|+.||.|.        .+.+..    +++++||||+|.+.++|.+||+.|||..+. 
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~-   84 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ-   84 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET-
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEEC-
Confidence            3588999999999999999999999999874        333333    456789999999999999999999999998 


Q ss_pred             CCCCcEEEEEeccccC
Q 023143          269 SDRGGMHIEYARSKMR  284 (286)
Q Consensus       269 ~~g~~l~V~~ak~~~~  284 (286)
                        |+.|+|+||+.+..
T Consensus        85 --gr~i~V~~a~~~~p   98 (101)
T d2cpea1          85 --GSKLKVSLARKKPP   98 (101)
T ss_dssp             --TEECEEECSSCCCC
T ss_pred             --CEEEEEEEcCCCCC
Confidence              56999999998753

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=7.3e-19  Score=122.08  Aligned_cols=76  Identities=29%  Similarity=0.382  Sum_probs=69.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ..++|||+|||.++++++|+++|+.||.|..+.+. ..++   ||||+|.++++|.+|+..|||..|.   |+.|+|+|+
T Consensus         7 ~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~-~~rg---~afV~f~~~~~A~~Ai~~l~~~~i~---g~~i~V~~a   79 (86)
T d2cpda1           7 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK-KIRD---YAFVHFSNREDAVEAMKALNGKVLD---GSPIEVTLA   79 (86)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE-ECSS---EEEEEESSHHHHHHHHHHHSSEEET---TEEEEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc-cccE---EEEEEeCCHHHHHHHHHHcCCCEEC---CEEEEEEec
Confidence            46899999999999999999999999999888776 3455   9999999999999999999999998   999999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      +..
T Consensus        80 kP~   82 (86)
T d2cpda1          80 KPV   82 (86)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            753

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.3e-19  Score=129.85  Aligned_cols=78  Identities=17%  Similarity=0.183  Sum_probs=69.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      ..++|||+|||.++++++|+++|++||.|..+.+..   +.++|||||+|.+.++|.+|++.|||..|.++   ++.|.+
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr---~~~v~~   93 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTP---PGVSAP   93 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCC---TTSCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCc---CCccCC
Confidence            468899999999999999999999999999988876   44567999999999999999999999999944   888877


Q ss_pred             eccc
Q 023143          279 ARSK  282 (286)
Q Consensus       279 ak~~  282 (286)
                      ++.-
T Consensus        94 ~~Pl   97 (101)
T d1x5oa1          94 TEPL   97 (101)
T ss_dssp             SSCB
T ss_pred             CCCc
Confidence            6643

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=4.3e-19  Score=126.10  Aligned_cols=76  Identities=26%  Similarity=0.425  Sum_probs=68.3

Q ss_pred             CCCCCeEEEcCCC-CCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLP-DDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp-~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      ...+++|||+||| ..+++++|+++|++||.|..|++.   ++   ||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus        12 ~~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~---rg---~aFV~f~~~~~A~~Ai~~lng~~~~---g~~l~V   82 (98)
T d1wf2a_          12 RSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH---KG---FAFVQYVNERNARAAVAGEDGRMIA---GQVLDI   82 (98)
T ss_dssp             SSCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE---TE---EEEEEESSHHHHHHHHHTTTTCEET---TEECEE
T ss_pred             CCCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe---CC---eEEEEECCHHHHHHHHHHcCCCEEC---CEEEEE
Confidence            3456789999997 578899999999999999999885   55   9999999999999999999999998   999999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|++..
T Consensus        83 ~~a~~~   88 (98)
T d1wf2a_          83 NLAAEP   88 (98)
T ss_dssp             EETTSC
T ss_pred             EECCCC
Confidence            998653

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.7e-19  Score=123.98  Aligned_cols=77  Identities=25%  Similarity=0.531  Sum_probs=66.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .+++|||+|||.+++++||+++|++|| +..+.+. ..++   ||||+|.+.++|.+|++.|||..|.   |+.|+|+++
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~-~~kg---~afV~f~~~~~A~~Ai~~ln~~~~~---G~~l~V~~a   75 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVD-RNKR---TAFVTLLNGEQAQNAIQMFHQYSFR---GKDLIVQLQ   75 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEE-GGGT---EEEECCSCHHHHHHHHHHHTTEEET---TEEEEEEEC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeee-ccCC---ceEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEc
Confidence            468899999999999999999999999 3334443 3344   9999999999999999999999999   999999998


Q ss_pred             ecCCC
Q 023143          114 RSNSR  118 (286)
Q Consensus       114 ~~~~~  118 (286)
                      +.+..
T Consensus        76 ~~~~~   80 (88)
T d1wg1a_          76 PTDAL   80 (88)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            76543

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.78  E-value=3e-19  Score=123.67  Aligned_cols=78  Identities=21%  Similarity=0.337  Sum_probs=69.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .+|||+|||.++|+++|+++|+.||+|.+|++..+..  ..++||||+|.++++|.+|++.|+|..|.   |++|.|+|+
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~---g~~l~V~~A   78 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLG---DKKLLVQRA   78 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCS---SSCCEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEC
Confidence            3699999999999999999999999999999985422  23459999999999999999999999998   999999999


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      ...
T Consensus        79 ~~~   81 (85)
T d2u2fa_          79 SVG   81 (85)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            754

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.3e-19  Score=129.28  Aligned_cols=79  Identities=23%  Similarity=0.468  Sum_probs=71.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||.++++++|+++|+.||.|..|++......  .++||||+|.+.++|.+|++.|+|..|.   |+.|+|+
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~---g~~i~V~   83 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFS---GRALRVD   83 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCS---SSCBEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            4688999999999999999999999999999998855432  3459999999999999999999999998   9999999


Q ss_pred             Eeec
Q 023143          112 LARS  115 (286)
Q Consensus       112 ~~~~  115 (286)
                      ++..
T Consensus        84 ~a~~   87 (104)
T d1p1ta_          84 NAAS   87 (104)
T ss_dssp             ETTC
T ss_pred             ECCC
Confidence            9754

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.6e-19  Score=130.12  Aligned_cols=76  Identities=22%  Similarity=0.340  Sum_probs=69.2

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           35 INTLFVSGLPD-DVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        35 ~~~lfV~nLp~-~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +++|||+|||+ .+|+++|+++|+.||.|..|+|..+.++   ||||+|.++++|.+|++.|+|..|.   |+.|+|+|+
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg---~afV~f~~~~~A~~ai~~lng~~l~---g~~l~v~~s   75 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSHLNGHKLH---GKPIRITLS   75 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSC---CEEEEESCHHHHHHHHHHHTTCBCS---SSBCEEECC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccc---eEEEEECCHHHHHHHHHHhCCCEEC---CEEEEEEEC
Confidence            68999999965 5999999999999999999999855444   9999999999999999999999998   999999998


Q ss_pred             ecC
Q 023143          114 RSN  116 (286)
Q Consensus       114 ~~~  116 (286)
                      +..
T Consensus        76 ~~~   78 (109)
T d2adca1          76 KHQ   78 (109)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            643

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=4.7e-19  Score=119.59  Aligned_cols=72  Identities=21%  Similarity=0.268  Sum_probs=63.8

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecccc
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSKM  283 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~~  283 (286)
                      |||+|||.++++++|+++|++|| +..+++  +++++||||+|.+.++|.+|++.|||..+.   |+.|+|+||+..-
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~--~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~---g~~l~V~~a~~d~   72 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFV--DKYKGTAFVTLLNGEQAEAAINTFHQSRLR---ERELSVQLQPTDA   72 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE--ETTTTEEEEEESSHHHHHHHHHHHTTEESS---SCEEEEEECCSTT
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee--cccceeEEEEECCHHHHHHHHHHhCCccCC---CCEEEEEEeCCCC
Confidence            79999999999999999999999 554444  445699999999999999999999999999   5599999998753

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=7e-19  Score=127.50  Aligned_cols=81  Identities=17%  Similarity=0.174  Sum_probs=70.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .+..+|||+|||+.+|+++|+++|+.||.|..|.+...  .+++||||+|.++++|.+|++.|||..| ...++.|+|.|
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~--~~~g~aFV~f~~~e~A~~Ai~~ln~~~l-~~~~~~l~v~~   81 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNI-YNACCTLRIDF   81 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEE--TTEEEEEEEESCHHHHHHHHHHHHSCCS-STTCCCCEEEE
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEee--CCCCeEEEEECCHHHHHHHHHHHCCCEe-ccCCcEEEEEe
Confidence            35788999999999999999999999999999988743  2356999999999999999999999999 44578899988


Q ss_pred             eecC
Q 023143          113 ARSN  116 (286)
Q Consensus       113 ~~~~  116 (286)
                      ++..
T Consensus        82 s~~~   85 (108)
T d2adba1          82 SKLT   85 (108)
T ss_dssp             CSSC
T ss_pred             cCCc
Confidence            8654

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=7e-19  Score=125.30  Aligned_cols=80  Identities=10%  Similarity=0.111  Sum_probs=71.2

Q ss_pred             CCccEEEEccCCC-CCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHH--hcCCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGP-NCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAME--GLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~-~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~--~lng~~~~~~~g~~l~V~  277 (286)
                      .++++|||+|||. .+|+++|+++|++||.|.++++.+.+  ++|||+|.+.++|.+|++  .+++..+.   |+.|+|+
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k--~~afV~f~~~~~A~~Ai~~~~~~~~~~~---gr~l~V~   90 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK--SQAFIEMETREDAMAMVDHCLKKALWFQ---GRCVKVD   90 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT--TEEEEECSSHHHHHHHHHHHHHSCCCSS---SSCCEEE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecC--CcEEEEecchHHHHHHHHHHhcCCceEC---CEEEEEE
Confidence            3589999999997 58999999999999999999998765  899999999999999998  47888888   5699999


Q ss_pred             EeccccCC
Q 023143          278 YARSKMRK  285 (286)
Q Consensus       278 ~ak~~~~~  285 (286)
                      ||+.+.+-
T Consensus        91 ~s~~~~~l   98 (99)
T d1x4fa1          91 LSEKYKKL   98 (99)
T ss_dssp             EECSCSSS
T ss_pred             EcCCcccC
Confidence            99877653

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.9e-19  Score=127.44  Aligned_cols=78  Identities=15%  Similarity=0.211  Sum_probs=71.1

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++++++|+++|++||.|..+.+..    +.++|||||+|.+.++|.+|++ ++|..|.   |+.|.|.+
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~---G~~i~V~~   95 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSID---GRVVEPKR   95 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEET---TEEEEEEC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeEC---CEEEEEEE
Confidence            58999999999999999999999999999999976    4678899999999999999995 7999998   66999999


Q ss_pred             eccccC
Q 023143          279 ARSKMR  284 (286)
Q Consensus       279 ak~~~~  284 (286)
                      |+.+-+
T Consensus        96 a~~ke~  101 (103)
T d1x4ba1          96 AVAREE  101 (103)
T ss_dssp             CSSCCC
T ss_pred             CcccCC
Confidence            987754

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=7.4e-19  Score=125.19  Aligned_cols=84  Identities=20%  Similarity=0.362  Sum_probs=71.3

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhC------CCccCC
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELN------GVKFDP  102 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~------g~~~~~  102 (286)
                      +..++++|||+|||+++|+++|+++|+.||.|..+.+......  .++||||+|.+.++|.+|++.++      |..+. 
T Consensus         4 ~~~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~-   82 (98)
T d1x4ha1           4 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLD-   82 (98)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESS-
T ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEEC-
Confidence            3557899999999999999999999999999988888744322  34599999999999999999887      56676 


Q ss_pred             CCCCeEEEEEeecCC
Q 023143          103 QSGSVLHIELARSNS  117 (286)
Q Consensus       103 ~~g~~l~v~~~~~~~  117 (286)
                        |+.|+|+++..+.
T Consensus        83 --gr~l~v~~a~~k~   95 (98)
T d1x4ha1          83 --GRQLKVDLAVTRD   95 (98)
T ss_dssp             --SCEEEEECCCCCC
T ss_pred             --CEEEEEEECCCCC
Confidence              9999999987643

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=2.2e-19  Score=121.78  Aligned_cols=72  Identities=13%  Similarity=0.188  Sum_probs=66.1

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +.|||+|||.++|+++|+++|++||.|.+++++.    ++++|||||+|.+.++|++|++ +|+..+.   |+.|+|..|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~---Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELD---SKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCS---SCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEEC---CeEEEEEEC
Confidence            4699999999999999999999999999999876    6678999999999999999997 6999998   559999876

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.9e-19  Score=123.26  Aligned_cols=74  Identities=23%  Similarity=0.417  Sum_probs=66.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCC-ccCCCCCCeEEEEEee
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGV-KFDPQSGSVLHIELAR  114 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~-~~~~~~g~~l~v~~~~  114 (286)
                      ++|||+|||.++|+++|+++|+.||.|..+++.. .++   ||||+|.+.++|.+|++.|||. .+.   |++|+|+|+.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~-~rg---~aFV~f~~~~~A~~Ai~~lng~~~~~---G~~i~V~~a~   74 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-KSG---YAFVDYPDQNWAIRAIETLSGKVELH---GKIMEVDYSV   74 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-ETT---EEEECCSCHHHHHHHHHHHTTTCEET---TEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec-ccc---eEEEEECCHHHHHHHHHHhCCCeEEC---CEEEEEEEcC
Confidence            5799999999999999999999999998777763 355   9999999999999999999996 588   9999999987


Q ss_pred             cC
Q 023143          115 SN  116 (286)
Q Consensus       115 ~~  116 (286)
                      .+
T Consensus        75 ~k   76 (80)
T d2cqha1          75 SK   76 (80)
T ss_dssp             CC
T ss_pred             Cc
Confidence            54

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=9.3e-19  Score=124.37  Aligned_cols=78  Identities=17%  Similarity=0.283  Sum_probs=70.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      .....+|||+|||+++++++|+++|+.||.|..+++..  ++   ||||+|.+.++|.+||+.|||..|.   |+.|+|.
T Consensus        12 ~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~--~g---~afV~f~~~~~a~~Ai~~lng~~~~---g~~i~v~   83 (98)
T d1wg4a_          12 RRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK--DG---MGMVEYLRKEDMEYALRKLDDTKFR---SHEGETS   83 (98)
T ss_dssp             CSCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET--TT---EEEEEESSHHHHHHHHHHHSSEEEE---CTTSCEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc--cc---eEEEEECCHHHHHHHHHHhCCCEeC---CeEEEEE
Confidence            44577899999999999999999999999999998763  34   9999999999999999999999999   9999999


Q ss_pred             EeecCC
Q 023143          112 LARSNS  117 (286)
Q Consensus       112 ~~~~~~  117 (286)
                      +.+...
T Consensus        84 ~~~~~~   89 (98)
T d1wg4a_          84 YIRVYP   89 (98)
T ss_dssp             EEEEEC
T ss_pred             EEecCC
Confidence            987654

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.6e-19  Score=129.75  Aligned_cols=84  Identities=27%  Similarity=0.379  Sum_probs=73.0

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEec--CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYT--GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~--~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      ++.++++|||+|||.++++++|+++|+.||.|..+.+...  ....++||||+|.+.++|.+|++.|||..|.   |++|
T Consensus        14 ~~~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~---g~~l   90 (102)
T d2cpxa1          14 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLY---GKIL   90 (102)
T ss_dssp             CCSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCS---SCBC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEEC---CEEE
Confidence            3456899999999999999999999999999988877643  2234459999999999999999999999998   9999


Q ss_pred             EEEEeecCC
Q 023143          109 HIELARSNS  117 (286)
Q Consensus       109 ~v~~~~~~~  117 (286)
                      +|+|++...
T Consensus        91 ~V~~ak~k~   99 (102)
T d2cpxa1          91 VIEFGKNKK   99 (102)
T ss_dssp             EEEECCCCS
T ss_pred             EEEeCCCcc
Confidence            999997643

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.4e-19  Score=128.09  Aligned_cols=80  Identities=16%  Similarity=0.319  Sum_probs=70.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||+++++++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++ |||..|.   |+.|+
T Consensus        15 ~~~~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~---G~~l~   90 (101)
T d2cq4a1          15 ERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLL---GVPII   90 (101)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEET---TEEEE
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEEC---CEEEE
Confidence            44568999999999999999999999999999999985422  245599999999999999995 9999998   99999


Q ss_pred             EEEeec
Q 023143          110 IELARS  115 (286)
Q Consensus       110 v~~~~~  115 (286)
                      |+++..
T Consensus        91 V~~a~~   96 (101)
T d2cq4a1          91 VQASQA   96 (101)
T ss_dssp             EEEHHH
T ss_pred             EEECCC
Confidence            998753

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=1.3e-18  Score=123.65  Aligned_cols=77  Identities=13%  Similarity=0.179  Sum_probs=70.2

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      ...+|||+|||.++++++|+++|++||.|.++++..   ++||||+|.+.++|.+||+.|||..+.   |+.|+|.|++.
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~---~g~afV~f~~~~~a~~Ai~~lng~~~~---g~~i~v~~~~~   87 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK---DGMGMVEYLRKEDMEYALRKLDDTKFR---SHEGETSYIRV   87 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET---TTEEEEEESSHHHHHHHHHHHSSEEEE---CTTSCEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc---cceEEEEECCHHHHHHHHHHhCCCEeC---CeEEEEEEEec
Confidence            367899999999999999999999999999998864   379999999999999999999999999   55999999986


Q ss_pred             ccC
Q 023143          282 KMR  284 (286)
Q Consensus       282 ~~~  284 (286)
                      +..
T Consensus        88 ~~~   90 (98)
T d1wg4a_          88 YPE   90 (98)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            553

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=7.9e-19  Score=121.48  Aligned_cols=75  Identities=17%  Similarity=0.230  Sum_probs=68.5

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .++|||+|||.++|+++|+++|+.||.|..|++..   ++++|||||+|.+.++|.+||+ ++|..+.   |+.|.|.|+
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~---g~~l~v~~~   81 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYK---ETDLLILFK   81 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEET---TEECEEEEG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEEC---CEEEEEEEc
Confidence            68999999999999999999999999999999987   4557899999999999999995 7999999   559999997


Q ss_pred             cc
Q 023143          280 RS  281 (286)
Q Consensus       280 k~  281 (286)
                      ++
T Consensus        82 ~d   83 (85)
T d1zh5a2          82 DD   83 (85)
T ss_dssp             GG
T ss_pred             CC
Confidence            64

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1e-18  Score=120.65  Aligned_cols=75  Identities=17%  Similarity=0.233  Sum_probs=68.2

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||.++|+++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++ ++|..|.   |+.|+|..
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~---Gr~i~V~~   81 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVD---GRVVEPKR   81 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEET---TEECEEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEEC---CEEEEEEe
Confidence            67899999999999999999999999999999876    5567899999999999999997 5899998   66999988


Q ss_pred             ecc
Q 023143          279 ARS  281 (286)
Q Consensus       279 ak~  281 (286)
                      |.+
T Consensus        82 A~s   84 (84)
T d1l3ka1          82 AVS   84 (84)
T ss_dssp             CCC
T ss_pred             eeC
Confidence            864

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.76  E-value=1.5e-18  Score=124.52  Aligned_cols=81  Identities=20%  Similarity=0.282  Sum_probs=69.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ....++|||+|||+.+++++|+++|+.||.|.+|++..+..  ..++||||+|.+.++|.+|++.+++ .|.   |+.|+
T Consensus         7 d~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~---Gr~l~   82 (103)
T d2cqda1           7 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IID---GRKAN   82 (103)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EET---TEECE
T ss_pred             CCCCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCC---CEEEE
Confidence            33457799999999999999999999999999999974422  2345999999999999999999987 577   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+++...
T Consensus        83 V~~a~~~   89 (103)
T d2cqda1          83 VNLAYLG   89 (103)
T ss_dssp             EEESTTT
T ss_pred             EEEcCCC
Confidence            9998754

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=2.3e-19  Score=124.86  Aligned_cols=72  Identities=15%  Similarity=0.225  Sum_probs=65.9

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEeccc
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARSK  282 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~~  282 (286)
                      +|||+|||.++++++|+++|++||.|.++++..+   |||||+|.+.++|.+||+.|||..+.   |+.|+|.|++.+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~---g~afV~f~~~~~a~~Ai~~l~g~~~~---g~~i~v~~~~~~   73 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD---GTGVVEFVRKEDMTYAVRKLDNTKFR---SHEGETAYIRVK   73 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT---SEEEEEESSHHHHHHHHHHHTTCBCC---CTTSCCCBCEEE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc---ceeeEEeCCHHHHHHHHHHhCCCEEC---CcEeEEeEEecC
Confidence            5999999999999999999999999999987654   79999999999999999999999999   559998887654

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.6e-18  Score=124.80  Aligned_cols=78  Identities=19%  Similarity=0.335  Sum_probs=67.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee-----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA-----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~-----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      |.++|||+|||.++|+++|+++|+.|| +..++++.     ++++|||||+|.+.++|++|+ .|||..|.   |+.|+|
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~---gr~l~V   88 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NKRIRV   88 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEET---TEECEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEEC---CEEEEE
Confidence            578999999999999999999999998 66776654     445689999999999998776 59999998   559999


Q ss_pred             EEeccccC
Q 023143          277 EYARSKMR  284 (286)
Q Consensus       277 ~~ak~~~~  284 (286)
                      .||+.+..
T Consensus        89 ~~a~~~~~   96 (104)
T d1wi8a_          89 DVADQAQD   96 (104)
T ss_dssp             EECCCCCC
T ss_pred             EECCCCCC
Confidence            99987643

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=5.5e-19  Score=122.65  Aligned_cols=79  Identities=16%  Similarity=0.203  Sum_probs=67.6

Q ss_pred             CCCCeEEEcCCCCCCC-HHHHHHHhhcCCCccEEEEEec---CCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           33 NGINTLFVSGLPDDVR-AREIHNLFRRKPGFDFCQLKYT---GRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~t-e~~L~~~F~~~G~i~~v~i~~~---~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      -+.++|||+|||++++ +++|+++|+.||.|.+|+|...   ....++||||+|.+.++|.+|++ |||..|.   |+.|
T Consensus         2 ~e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~---gr~l   77 (86)
T d2ghpa3           2 LEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLG---NREI   77 (86)
T ss_dssp             CTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEET---TEEE
T ss_pred             CCCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEEC---CEEE
Confidence            3689999999999975 6679999999999999988632   22235599999999999999996 9999998   9999


Q ss_pred             EEEEeec
Q 023143          109 HIELARS  115 (286)
Q Consensus       109 ~v~~~~~  115 (286)
                      +|+++..
T Consensus        78 ~V~~a~~   84 (86)
T d2ghpa3          78 SVSLADK   84 (86)
T ss_dssp             EEEECCC
T ss_pred             EEEEcCC
Confidence            9999864

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.3e-18  Score=118.83  Aligned_cols=73  Identities=12%  Similarity=0.258  Sum_probs=65.9

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEE
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEY  278 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~  278 (286)
                      .++|||+|||+++|+++|+++|++||.|..+++..    +.++|||||+|.+.++|++|++ +||..|.   |+.|+|..
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~---Gr~i~V~~   77 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN---GHNCEVRK   77 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEET---TEECEEEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEEC---CEEEEEEE
Confidence            47899999999999999999999999999999887    4456799999999999999995 8999998   56999987


Q ss_pred             e
Q 023143          279 A  279 (286)
Q Consensus       279 a  279 (286)
                      |
T Consensus        78 A   78 (79)
T d1l3ka2          78 A   78 (79)
T ss_dssp             C
T ss_pred             C
Confidence            6

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1e-18  Score=117.92  Aligned_cols=74  Identities=15%  Similarity=0.145  Sum_probs=67.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      .+|||+|||+++++++|+++|+.||.|..|++.....++.+||||+|.+.++|.+|++ +++..|.   |++|.|+.+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~---g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVG---QNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEET---TEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEEC---CEEEEEEEC
Confidence            4799999999999999999999999999999987766667799999999999999995 8999998   999998753

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=1e-18  Score=118.14  Aligned_cols=71  Identities=14%  Similarity=0.194  Sum_probs=64.9

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .|||+|||.++|+++|+++|++||.+..+.+..    +.+++||||+|.+.++|++|++ |||..+.   |+.|+|.+|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~---gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEIN---NKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBT---TBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEEC---CeEEEEEEC
Confidence            489999999999999999999999999998866    4567799999999999999996 9999999   559999986

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=2.8e-18  Score=115.71  Aligned_cols=72  Identities=26%  Similarity=0.580  Sum_probs=63.8

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeecCC
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARSNS  117 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~~~  117 (286)
                      |||+|||+++++++|+++|++|| +..+.+. ..++   ||||+|.+.++|.+|++.|||..+.   |++|+|+|++.+.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~-~~~g---~afv~f~~~~~A~~Ai~~ln~~~~~---g~~l~V~~a~~d~   72 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD-KYKG---TAFVTLLNGEQAEAAINTFHQSRLR---ERELSVQLQPTDA   72 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHTTEESS---SCEEEEEECCSTT
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeec-ccce---eEEEEECCHHHHHHHHHHhCCccCC---CCEEEEEEeCCCC
Confidence            79999999999999999999999 5455554 4444   9999999999999999999999998   9999999997643

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1.5e-18  Score=117.02  Aligned_cols=72  Identities=10%  Similarity=0.154  Sum_probs=64.7

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee--cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA--RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~--~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      ++|||+|||.++++++|+++|+.||.|..|++..  +.+++||||+|.+.++|.+|+ .+||..|+   |+.|.|+.+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al-~~~~~~i~---g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAI-TKTHKVVG---QNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHH-TTTTCEET---TEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHH-HhcCcEEC---CEEEEEEEC
Confidence            5899999999999999999999999999999987  334569999999999999998 58999998   559999864

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2.2e-18  Score=118.90  Aligned_cols=77  Identities=19%  Similarity=0.295  Sum_probs=68.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      +.++|||+|||+++|+++|+++|+.||.|..|+|..+..  ..++||||+|.+.++|.+|++ +++..|.   |+.|+|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~---Gr~i~V~   80 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVD---GRVVEPK   80 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEET---TEECEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEEC---CEEEEEE
Confidence            458999999999999999999999999999999986533  235599999999999999997 5888898   9999998


Q ss_pred             Eee
Q 023143          112 LAR  114 (286)
Q Consensus       112 ~~~  114 (286)
                      .|.
T Consensus        81 ~A~   83 (84)
T d1l3ka1          81 RAV   83 (84)
T ss_dssp             ECC
T ss_pred             eee
Confidence            774

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=7.8e-18  Score=121.01  Aligned_cols=78  Identities=14%  Similarity=0.131  Sum_probs=69.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC--CCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN--GVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~--g~~~~~~~g~~l~  109 (286)
                      ..++++|||+|||..+|+++|+++|+.||.|..+++. ..++   +|||+|.+.++|..|++.++  +..+.   |++|+
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~-~~k~---~AfV~f~~~e~A~~ai~~~~~~~~~~~---g~~l~   84 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMM-PFKR---QALVEFENIDSAKECVTFAADVPVYIA---GQQAF   84 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEE-TTTT---EEEEEESSHHHHHHHHHHHHHSCCBSS---SSBCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEE-ecce---eEEEEeCCHHHHHHHHHHHcCCCcEEe---eEEEE
Confidence            4579999999999999999999999999999999887 4555   99999999999999999884  55666   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |+|++..
T Consensus        85 v~~s~~~   91 (104)
T d1wexa_          85 FNYSTSK   91 (104)
T ss_dssp             EEECSSS
T ss_pred             EEEcCCC
Confidence            9999754

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.7e-19  Score=123.55  Aligned_cols=77  Identities=22%  Similarity=0.292  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ..+++|||+|||+++|+++|+++|++||.|.+|++....++   ||||+|.+.++|.+|+.  ++..|.   |++|+|.+
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~~g---fafV~f~~~~~a~~a~~--~~~~i~---g~~l~v~~   74 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA---FAFVTFADDQIAQSLCG--EDLIIK---GISVHISN   74 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCS---CCEEECSCHHHHHHTTT--CEEEET---TEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeeccCc---eEEEEECCHHHHHHHHh--CCCEEC---CEEeEEEe
Confidence            45889999999999999999999999999999877644444   99999999999999985  778888   99999999


Q ss_pred             eecCC
Q 023143          113 ARSNS  117 (286)
Q Consensus       113 ~~~~~  117 (286)
                      ++.+.
T Consensus        75 a~~k~   79 (88)
T d1wf0a_          75 AEPKH   79 (88)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            86543

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=4e-18  Score=121.32  Aligned_cols=80  Identities=16%  Similarity=0.212  Sum_probs=70.4

Q ss_pred             CCCCCCCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHH--HhCCCccCCCCCC
Q 023143           30 QQDNGINTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALH--ELNGVKFDPQSGS  106 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~--~l~g~~~~~~~g~  106 (286)
                      +...++++|||+|||.+ +|+++|+++|+.||.|.+|.+. ..++   ||||+|.+.++|.+|++  .+++..+.   |+
T Consensus        13 ~~~~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~-~~k~---~afV~f~~~~~A~~Ai~~~~~~~~~~~---gr   85 (99)
T d1x4fa1          13 QKQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILM-RMKS---QAFIEMETREDAMAMVDHCLKKALWFQ---GR   85 (99)
T ss_dssp             CSSCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEE-TTTT---EEEEECSSHHHHHHHHHHHHHSCCCSS---SS
T ss_pred             cCCCCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEe-ecCC---cEEEEecchHHHHHHHHHHhcCCceEC---CE
Confidence            34567899999999985 8999999999999999999887 4455   99999999999999998  57888888   99


Q ss_pred             eEEEEEeecC
Q 023143          107 VLHIELARSN  116 (286)
Q Consensus       107 ~l~v~~~~~~  116 (286)
                      .|+|.|++..
T Consensus        86 ~l~V~~s~~~   95 (99)
T d1x4fa1          86 CVKVDLSEKY   95 (99)
T ss_dssp             CCEEEEECSC
T ss_pred             EEEEEEcCCc
Confidence            9999998654

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=8.8e-19  Score=122.96  Aligned_cols=81  Identities=20%  Similarity=0.324  Sum_probs=69.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHH----HHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           34 GINTLFVSGLPDDVRAREIH----NLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~----~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      |+++|||+|||.++++++|+    ++|+.||.|.+|++...++ .++||||+|.+.++|.+|++.+||..+.   |+.|+
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~-~~g~afV~F~~~~~A~~A~~~~~~~~~~---g~~l~   77 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLK-MRGQAFVIFKEVSSATNALRSMQGFPFY---DKPMR   77 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHH-HTTCEEEEESSHHHHHHHHHHHTTCEET---TEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeecc-CCCceEEEECCHHHHHHHHHHhCCCEEC---CEEEE
Confidence            58999999999999999986    4689999999988763211 1239999999999999999999999998   99999


Q ss_pred             EEEeecCCC
Q 023143          110 IELARSNSR  118 (286)
Q Consensus       110 v~~~~~~~~  118 (286)
                      |+|++...+
T Consensus        78 v~~ak~~~~   86 (91)
T d1nu4a_          78 IQYAKTDSD   86 (91)
T ss_dssp             EEECSSCCT
T ss_pred             EEEeCCCch
Confidence            999986543

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.6e-18  Score=123.99  Aligned_cols=81  Identities=17%  Similarity=0.232  Sum_probs=69.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ...+.++|||+|||.++++++|+++|+.||.|..+.+.....+ .++||||+|.+.++|.+|++.|||..|.   |+++.
T Consensus        14 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~---gr~~~   90 (101)
T d1x5oa1          14 QEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIK---TPPGV   90 (101)
T ss_dssp             CCCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCC---CCTTS
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEEC---CcCCc
Confidence            3455688999999999999999999999999998887744322 3559999999999999999999999998   99988


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      +.+++
T Consensus        91 v~~~~   95 (101)
T d1x5oa1          91 SAPTE   95 (101)
T ss_dssp             CCCSS
T ss_pred             cCCCC
Confidence            86653

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=1.4e-18  Score=121.15  Aligned_cols=78  Identities=10%  Similarity=0.080  Sum_probs=69.6

Q ss_pred             CCccEEEEccCCCC-CCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhc--CCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGPN-CTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGL--QDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~~-~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~l--ng~~~~~~~g~~l~V~  277 (286)
                      .++++|||+|||.. +|++||+++|++||.|..+++...+  ++|||+|++.++|..|++.|  ++..+.   |++|+|+
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k--~~afV~f~~~~~A~~A~~~l~~~~~~~~---gr~l~V~   80 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI--NEAFIEMATTEDAQAAVDYYTTTPALVF---GKPVRVH   80 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS--SCEEEEESSHHHHHHHHHHHHHSCCEET---TEECEEE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc--eEEEEEEcchhhHHHHHHHHhhCCCccC---CceEEEE
Confidence            46999999999985 8899999999999999999998766  79999999999999999976  677788   6699999


Q ss_pred             Eecccc
Q 023143          278 YARSKM  283 (286)
Q Consensus       278 ~ak~~~  283 (286)
                      ||++..
T Consensus        81 ~s~~~~   86 (89)
T d1x4da1          81 LSQKYK   86 (89)
T ss_dssp             EECCCT
T ss_pred             ECCCcc
Confidence            998643

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=9.9e-19  Score=125.28  Aligned_cols=81  Identities=19%  Similarity=0.277  Sum_probs=69.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      ..+.++|||+|||+++++++|+++|+.||.|..+.|..+..  ..++||||+|.+.++|.+|++ ++|..|.   |+.|.
T Consensus        17 ~~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~---G~~i~   92 (103)
T d1x4ba1          17 KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSID---GRVVE   92 (103)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEET---TEEEE
T ss_pred             cCCCCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeEC---CEEEE
Confidence            33458999999999999999999999999999999974422  234599999999999999996 7999998   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus        93 V~~a~~k   99 (103)
T d1x4ba1          93 PKRAVAR   99 (103)
T ss_dssp             EECCSSC
T ss_pred             EEECccc
Confidence            9988754

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.3e-18  Score=117.37  Aligned_cols=71  Identities=20%  Similarity=0.252  Sum_probs=63.8

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .|||+|||.++|+++|+++|++||.|..+++..    ++++|||||+|.+.++|.+|++ +++..|.   |+.|.|..|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~---Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLN---GKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBT---TBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEEC---CCEEEeeEC
Confidence            389999999999999999999999999999877    5577899999999999999997 7999998   559988543

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2.9e-18  Score=119.73  Aligned_cols=80  Identities=20%  Similarity=0.267  Sum_probs=68.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .++.++|||+|||+++|+++|+++|+.||.|..|+|..+..  ..++||||+|.+.++|.+|++.++  .|.   |+.|.
T Consensus         5 ~~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~~--~l~---Gr~i~   79 (90)
T d2cqga1           5 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRH--MID---GRWCD   79 (90)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSCE--EET---TEEEE
T ss_pred             CcCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcCC--ccC---CEEeE
Confidence            45678899999999999999999999999999999986432  345699999999999999998544  677   99999


Q ss_pred             EEEeecC
Q 023143          110 IELARSN  116 (286)
Q Consensus       110 v~~~~~~  116 (286)
                      |.++...
T Consensus        80 v~~a~~k   86 (90)
T d2cqga1          80 CKLPNSK   86 (90)
T ss_dssp             EECCCTT
T ss_pred             EEeCCCC
Confidence            9988653

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.75  E-value=5.3e-19  Score=125.36  Aligned_cols=82  Identities=16%  Similarity=0.288  Sum_probs=71.0

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +...++++|||+|||.++|+++|+++|+.||.|..++..   ...++||||+|.+.++|.+|++.|||..|.   |++|+
T Consensus        11 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~---~~~~~~afV~f~~~~~A~~A~~~l~~~~~~---gr~i~   84 (96)
T d1fjca_          11 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQD---GKSKGIAYIEFKSEADAEKNLEEKQGAEID---GRSVS   84 (96)
T ss_dssp             STTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEET---TEEEEEEEEEESSHHHHHHHHHHTTEEEET---TEEEE
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeeec---CccccEEEEEeCCHHHHHHHHHHcCCCEEC---CEEEE
Confidence            345568999999999999999999999999998766432   233559999999999999999999999999   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |+|+....
T Consensus        85 V~~a~~k~   92 (96)
T d1fjca_          85 LYYTGEKG   92 (96)
T ss_dssp             EEECSSSC
T ss_pred             EEEeCCCC
Confidence            99987643

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.3e-19  Score=123.45  Aligned_cols=73  Identities=21%  Similarity=0.334  Sum_probs=66.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEeec
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELARS  115 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~~  115 (286)
                      ++|||+|||+.+++++|+++|+.||.|..+++..  ++   ||||+|.+.++|.+||+.|||..|.   |+.|+|.+++.
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~--~g---~afV~f~~~~~a~~Ai~~l~g~~~~---g~~i~v~~~~~   72 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DG---TGVVEFVRKEDMTYAVRKLDNTKFR---SHEGETAYIRV   72 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT--TS---EEEEEESSHHHHHHHHHHHTTCBCC---CTTSCCCBCEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccc--cc---eeeEEeCCHHHHHHHHHHhCCCEEC---CcEeEEeEEec
Confidence            4699999999999999999999999999998763  33   9999999999999999999999998   99999988764


Q ss_pred             C
Q 023143          116 N  116 (286)
Q Consensus       116 ~  116 (286)
                      .
T Consensus        73 ~   73 (87)
T d3begb1          73 K   73 (87)
T ss_dssp             E
T ss_pred             C
Confidence            4

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=1.1e-18  Score=121.14  Aligned_cols=76  Identities=14%  Similarity=0.132  Sum_probs=66.8

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      |..++|||+|||.+++++||+++|+.||.+.. +.+..   +.++|+|||+|.+.++|.+|++.|||..+.   |+.|+|
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~---gr~i~v   83 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVKL   83 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEET---TEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEEC---CEEEEE
Confidence            45778999999999999999999999999864 34444   566789999999999999999999999999   559999


Q ss_pred             EEe
Q 023143          277 EYA  279 (286)
Q Consensus       277 ~~a  279 (286)
                      ++|
T Consensus        84 ~l~   86 (86)
T d2cqpa1          84 VLG   86 (86)
T ss_dssp             EES
T ss_pred             EEC
Confidence            986

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.75  E-value=3.1e-18  Score=122.56  Aligned_cols=83  Identities=24%  Similarity=0.383  Sum_probs=68.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEE--------EEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFC--------QLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v--------~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ..++++|||+|||..+|+++|+++|+.||.|..+        .+....  ...++||||+|.+.++|.+|++.|||..|.
T Consensus         5 ~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   84 (101)
T d2cpea1           5 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ   84 (101)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEEC
Confidence            4568899999999999999999999999998433        222211  122349999999999999999999999998


Q ss_pred             CCCCCeEEEEEeecCC
Q 023143          102 PQSGSVLHIELARSNS  117 (286)
Q Consensus       102 ~~~g~~l~v~~~~~~~  117 (286)
                         |++|+|++++.+.
T Consensus        85 ---gr~i~V~~a~~~~   97 (101)
T d2cpea1          85 ---GSKLKVSLARKKP   97 (101)
T ss_dssp             ---TEECEEECSSCCC
T ss_pred             ---CEEEEEEEcCCCC
Confidence               9999999997643

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.8e-18  Score=115.91  Aligned_cols=75  Identities=16%  Similarity=0.317  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      .++|||+|||+++|+++|+++|+.||.|..+.+..+...  .++||||+|.++++|.+|++ ++|..|.   |+.|+|+.
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~---Gr~i~V~~   77 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN---GHNCEVRK   77 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEET---TEECEEEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEEC---CEEEEEEE
Confidence            478999999999999999999999999999988865333  34599999999999999995 8999998   99999986


Q ss_pred             e
Q 023143          113 A  113 (286)
Q Consensus       113 ~  113 (286)
                      |
T Consensus        78 A   78 (79)
T d1l3ka2          78 A   78 (79)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=1.8e-18  Score=119.26  Aligned_cols=76  Identities=14%  Similarity=0.221  Sum_probs=65.5

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEE-EEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFC-QLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v-~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      |||+|||+++|+++|+++|+.||.|.++ ++..+..  ..++||||+|.+.++|.+|++.|+|..+.   |++|+|+|+.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~---gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC---NRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET---TEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEEC---CEEEEEEEec
Confidence            8999999999999999999999999665 4543222  23459999999999999999999999998   9999999987


Q ss_pred             cC
Q 023143          115 SN  116 (286)
Q Consensus       115 ~~  116 (286)
                      ..
T Consensus        78 ~k   79 (83)
T d1x5ta1          78 KK   79 (83)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=8.5e-19  Score=122.22  Aligned_cols=76  Identities=24%  Similarity=0.246  Sum_probs=67.9

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEecc
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYARS  281 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak~  281 (286)
                      .+++|||+|||.++|+++|+++|++||.|.+|++.. .+++||||+|.+.++|++|+.  ++..|.   |+.|+|.||+.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~-~~~gfafV~f~~~~~a~~a~~--~~~~i~---g~~l~v~~a~~   77 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK-PFRAFAFVTFADDQIAQSLCG--EDLIIK---GISVHISNAEP   77 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCS-SCCSCCEEECSCHHHHHHTTT--CEEEET---TEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEee-ccCceEEEEECCHHHHHHHHh--CCCEEC---CEEeEEEeCCC
Confidence            488999999999999999999999999999998765 356899999999999999985  788888   66999999986


Q ss_pred             cc
Q 023143          282 KM  283 (286)
Q Consensus       282 ~~  283 (286)
                      +.
T Consensus        78 k~   79 (88)
T d1wf0a_          78 KH   79 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=1e-18  Score=121.98  Aligned_cols=72  Identities=10%  Similarity=0.195  Sum_probs=64.4

Q ss_pred             ccEEEEccCCCCCCHHHH---HHHHhcCCCceEEEEeecC-------CccEEEEEECCHHHHHHHHHhcCCCccCCCCCC
Q 023143          203 CSTLFIANLGPNCTEDEL---KQTLSVYPGFNMLKMRARG-------GMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG  272 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L---~~~F~~~G~v~~v~~~~~~-------~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~  272 (286)
                      .++|||+|||.++++++|   +++|++||.|..|.+.+..       .++||||+|.+.++|.+|++.|||..++   |+
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~---gr   84 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVD---GR   84 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEET---TE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEEC---CE
Confidence            567999999999999999   6789999999999998621       2369999999999999999999999999   55


Q ss_pred             cEEEE
Q 023143          273 GMHIE  277 (286)
Q Consensus       273 ~l~V~  277 (286)
                      .|+|+
T Consensus        85 ~lkvS   89 (89)
T d2cpia1          85 TLKAS   89 (89)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            99986

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=1.9e-18  Score=116.80  Aligned_cols=73  Identities=15%  Similarity=0.271  Sum_probs=64.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +|||+|||+++|+++|+++|+.||.|..+.+.....  ..++||||+|.+.++|.+|++ +||..|.   |++|+|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~---gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEIN---NKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBT---TBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEEC---CeEEEEEEC
Confidence            599999999999999999999999999988764432  234499999999999999996 9999998   999999875

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=1.7e-18  Score=117.34  Aligned_cols=74  Identities=15%  Similarity=0.249  Sum_probs=65.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      ++|||+|||+++|+++|+++|+.||.|.++++..+..  ..++||||+|.+.++|.+|++ +++..+.   |+.|+|++|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~---Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELD---SKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCS---SCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEEC---CeEEEEEEC
Confidence            5799999999999999999999999999999875432  234599999999999999997 6999998   999999876

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=4e-18  Score=118.80  Aligned_cols=78  Identities=10%  Similarity=0.043  Sum_probs=69.3

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHh--CCCccCCCCCCeE
Q 023143           32 DNGINTLFVSGLPDD-VRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHEL--NGVKFDPQSGSVL  108 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l--~g~~~~~~~g~~l  108 (286)
                      .+++++|||+|||.. +|++||+++|++||.|.+|.+. ..++   +|||+|.+.++|..|++.+  ++..+.   |++|
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~-~~k~---~afV~f~~~~~A~~A~~~l~~~~~~~~---gr~l   77 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLIL-NKIN---EAFIEMATTEDAQAAVDYYTTTPALVF---GKPV   77 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEEC-SSSS---CEEEEESSHHHHHHHHHHHHHSCCEET---TEEC
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEee-ccce---EEEEEEcchhhHHHHHHHHhhCCCccC---CceE
Confidence            467899999999986 8899999999999999999887 4444   9999999999999999966  677888   9999


Q ss_pred             EEEEeecC
Q 023143          109 HIELARSN  116 (286)
Q Consensus       109 ~v~~~~~~  116 (286)
                      +|.|++..
T Consensus        78 ~V~~s~~~   85 (89)
T d1x4da1          78 RVHLSQKY   85 (89)
T ss_dssp             EEEEECCC
T ss_pred             EEEECCCc
Confidence            99998754

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.2e-18  Score=116.11  Aligned_cols=71  Identities=17%  Similarity=0.323  Sum_probs=63.4

Q ss_pred             EEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          205 TLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       205 ~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      .|||+|||.++|+++|+++|++||.|..|+++.    ++++|||||+|.+.++|++||+. ++..+.   |+.|.|..|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~-~~~~i~---g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVG---LSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTC-SSCCBT---TBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhh-CCCEEC---CEEeEEEEC
Confidence            489999999999999999999999999999876    56788999999999999999975 677888   558888765

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=2.6e-18  Score=119.85  Aligned_cols=75  Identities=23%  Similarity=0.388  Sum_probs=65.1

Q ss_pred             CCCeEEEcCCCCCCCHHHH---HHHhhcCCCccEEEEEecC-----CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCC
Q 023143           34 GINTLFVSGLPDDVRAREI---HNLFRRKPGFDFCQLKYTG-----RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSG  105 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L---~~~F~~~G~i~~v~i~~~~-----~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g  105 (286)
                      +.++|||+|||+++++++|   +++|++||.|..|.+..+.     +...+||||+|.+.++|.+|++.|||..+.   |
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~---g   83 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVD---G   83 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEET---T
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEEC---C
Confidence            4578999999999999999   7789999999999987331     222359999999999999999999999998   9


Q ss_pred             CeEEEE
Q 023143          106 SVLHIE  111 (286)
Q Consensus       106 ~~l~v~  111 (286)
                      ++|++.
T Consensus        84 r~lkvS   89 (89)
T d2cpia1          84 RTLKAS   89 (89)
T ss_dssp             EEEEEE
T ss_pred             EEEEEC
Confidence            999873

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=1.6e-18  Score=124.30  Aligned_cols=77  Identities=13%  Similarity=0.090  Sum_probs=68.3

Q ss_pred             CccEEEEccCCCCC-CH----HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEE
Q 023143          202 PCSTLFIANLGPNC-TE----DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHI  276 (286)
Q Consensus       202 ~~~~L~v~NL~~~~-te----~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V  276 (286)
                      .+++|||+||+.++ ++    ++|+++|+.||.|.++++.+.+  +||||+|.+.++|.+|++.|||..|.   |+.|+|
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~--~~afV~f~~~~~A~~Ai~~lng~~~~---g~~l~v   78 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF--KRVRINFSNPLSAADARLRLHKTEFL---GKEMKL   78 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT--TEEEEECSSTTHHHHHHHTSTTSEET---TEECEE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecCC--CEEEEEECCHHHHHHHHHHhcccccC---CCEeEE
Confidence            57899999999876 33    5699999999999999998654  89999999999999999999999999   559999


Q ss_pred             EEecccc
Q 023143          277 EYARSKM  283 (286)
Q Consensus       277 ~~ak~~~  283 (286)
                      +||+.+-
T Consensus        79 ~~a~~~~   85 (104)
T d1weya_          79 YFAQTLH   85 (104)
T ss_dssp             ECCCCSS
T ss_pred             eecccCC
Confidence            9997653

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=5.5e-18  Score=114.30  Aligned_cols=72  Identities=18%  Similarity=0.338  Sum_probs=63.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +|||+|||+++|+++|+++|+.||.|..|.+..+...  .++||||+|.+.++|.+|++ +++..|.   |+.|.|+.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~---Gr~i~V~r   74 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLN---GKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBT---TBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEEC---CCEEEeeE
Confidence            4999999999999999999999999999998854332  34499999999999999997 7888898   99998864

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.5e-18  Score=116.26  Aligned_cols=64  Identities=23%  Similarity=0.310  Sum_probs=59.6

Q ss_pred             EEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          206 LFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       206 L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      |||+|||.++|+++|+++|++||.|..+++..    +.++|||||+|.+.++|.+|++.|||..|.++
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr   68 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQ   68 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCE
Confidence            79999999999999999999999999998876    55778999999999999999999999999843

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.72  E-value=2.2e-18  Score=120.73  Aligned_cols=78  Identities=17%  Similarity=0.195  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      ...+|||+|||+++|+++|+++|+.||.|..+++.... ...++||||+|.+.++|.+||+ |+|..+.   |++|+|++
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~---g~~i~V~~   87 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVF---GNEIKLEK   87 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEET---TEEEEEEC
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEEC---CEEEEEEe
Confidence            45689999999999999999999999999877665221 1123499999999999999996 9999998   99999999


Q ss_pred             eec
Q 023143          113 ARS  115 (286)
Q Consensus       113 ~~~  115 (286)
                      ++.
T Consensus        88 ak~   90 (91)
T d1fjeb1          88 PKG   90 (91)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            875

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=7.2e-18  Score=119.44  Aligned_cols=81  Identities=19%  Similarity=0.228  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHhhcCCC-ccEEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           35 INTLFVSGLPDDVRAREIHNLFRRKPG-FDFCQLKYTG---RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        35 ~~~lfV~nLp~~~te~~L~~~F~~~G~-i~~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      |++|||+|||.++++++|+++|+.||+ |..|.+..+.   ...++||||+|.++++|..|++.|++..+ ...|++|+|
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~-~~~g~~i~V   79 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRI-QLWGHQIAV   79 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCS-CBTTBCCEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCe-EECCEEEEE
Confidence            568999999999999999999999996 8888776321   22455999999999999999999975544 223899999


Q ss_pred             EEeecC
Q 023143          111 ELARSN  116 (286)
Q Consensus       111 ~~~~~~  116 (286)
                      +|++..
T Consensus        80 ~~A~p~   85 (96)
T d2disa1          80 DWAEPE   85 (96)
T ss_dssp             EESCSS
T ss_pred             EEcCCC
Confidence            999754

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=2.8e-17  Score=117.66  Aligned_cols=81  Identities=19%  Similarity=0.236  Sum_probs=68.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEE
Q 023143           32 DNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHI  110 (286)
Q Consensus        32 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v  110 (286)
                      .....+|||+|||+++|+++|+++|+.||.+ .|.+.....+ .++||||+|.+.++|.+|++ +|+..|.   ||.|+|
T Consensus        12 ~~~~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~---gR~I~V   86 (102)
T d1weza_          12 STTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQ---HRYVEL   86 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSS---SSCCEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEEC---CEEEEE
Confidence            4566899999999999999999999999854 6666644333 34599999999999999986 8999998   999999


Q ss_pred             EEeecCC
Q 023143          111 ELARSNS  117 (286)
Q Consensus       111 ~~~~~~~  117 (286)
                      .++....
T Consensus        87 ~~s~~~~   93 (102)
T d1weza_          87 FLNSTAG   93 (102)
T ss_dssp             EEECCCC
T ss_pred             EEcCCCC
Confidence            9987543

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.9e-17  Score=114.40  Aligned_cols=77  Identities=18%  Similarity=0.236  Sum_probs=68.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~  112 (286)
                      +.++|||+|||.++|+++|+++|+.||.|..|++.....+ .++||||+|.+.++|.+|++ ++|..+.   |+.|.|+|
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~---g~~l~v~~   80 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYK---ETDLLILF   80 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEET---TEECEEEE
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEEC---CEEEEEEE
Confidence            4689999999999999999999999999999998744322 34599999999999999996 7999998   99999998


Q ss_pred             ee
Q 023143          113 AR  114 (286)
Q Consensus       113 ~~  114 (286)
                      ..
T Consensus        81 ~~   82 (85)
T d1zh5a2          81 KD   82 (85)
T ss_dssp             GG
T ss_pred             cC
Confidence            64

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=2.1e-17  Score=118.29  Aligned_cols=79  Identities=13%  Similarity=0.090  Sum_probs=67.5

Q ss_pred             CCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          201 QPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       201 ~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ..+.+|||+|||+++|++||+++|+.||.+ .|.++.   +..+|||||+|.+.++|++|++ |||..|+   |+.|+|.
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~---gR~I~V~   87 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQ---HRYVELF   87 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSS---SSCCEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEEC---CEEEEEE
Confidence            347899999999999999999999999854 555554   5557899999999999999985 8999999   5599999


Q ss_pred             EeccccC
Q 023143          278 YARSKMR  284 (286)
Q Consensus       278 ~ak~~~~  284 (286)
                      ++..+.+
T Consensus        88 ~s~~~~~   94 (102)
T d1weza_          88 LNSTAGT   94 (102)
T ss_dssp             EECCCCC
T ss_pred             EcCCCCC
Confidence            9887643

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=2e-17  Score=118.96  Aligned_cols=80  Identities=21%  Similarity=0.322  Sum_probs=66.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC---CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           33 NGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG---RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~---~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      .+.++|||+|||+++|+++|+++|+.|| |..+++....   ...++||||+|.+.++|++|+ .||+..|.   |+.|+
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~---gr~l~   87 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG---NKRIR   87 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEET---TEECE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEEC---CEEEE
Confidence            3468999999999999999999999999 6666665332   123449999999999998776 59999998   99999


Q ss_pred             EEEeecCC
Q 023143          110 IELARSNS  117 (286)
Q Consensus       110 v~~~~~~~  117 (286)
                      |+++....
T Consensus        88 V~~a~~~~   95 (104)
T d1wi8a_          88 VDVADQAQ   95 (104)
T ss_dssp             EEECCCCC
T ss_pred             EEECCCCC
Confidence            99987643

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=5.4e-17  Score=116.56  Aligned_cols=84  Identities=15%  Similarity=0.083  Sum_probs=68.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCC--CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRG--NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~--~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ++..+..+|||+|||+++|+++|+++|+.+|.|..+.++.....  .++||||+|.++++|.+|++ +++..|.   ||.
T Consensus        10 ~~~~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~---gR~   85 (104)
T d1wg5a_          10 PDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIG---HRY   85 (104)
T ss_dssp             SSCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSS---SSC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEc---ceE
Confidence            33556678999999999999999999999999876544433222  33499999999999999996 8999998   999


Q ss_pred             EEEEEeecCC
Q 023143          108 LHIELARSNS  117 (286)
Q Consensus       108 l~v~~~~~~~  117 (286)
                      |.|.++....
T Consensus        86 i~V~~~~~~~   95 (104)
T d1wg5a_          86 IEIFKSSRAE   95 (104)
T ss_dssp             CEEEEECTTT
T ss_pred             EEEEECCHHH
Confidence            9999886543

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=7e-17  Score=115.96  Aligned_cols=77  Identities=16%  Similarity=0.078  Sum_probs=66.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee----cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA----RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~----~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ...+|||+|||+++|++||+++|+.+|.+..+.++.    +..+|||||+|.+.++|++|++ +|+..|.   |+.|+|.
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~---gR~i~V~   89 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIG---HRYIEIF   89 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSS---SSCCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEc---ceEEEEE
Confidence            466899999999999999999999999887644333    5567899999999999999995 8999998   5599999


Q ss_pred             Eeccc
Q 023143          278 YARSK  282 (286)
Q Consensus       278 ~ak~~  282 (286)
                      +++.+
T Consensus        90 ~~~~~   94 (104)
T d1wg5a_          90 KSSRA   94 (104)
T ss_dssp             EECTT
T ss_pred             ECCHH
Confidence            98765

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=3.4e-17  Score=113.48  Aligned_cols=77  Identities=25%  Similarity=0.299  Sum_probs=65.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccE-EEEEecCCC-CeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDF-CQLKYTGRG-NQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~-v~i~~~~~~-~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ...+|||+|||+++++++|+++|+.||.|.. +.+.....+ .+++|||+|.+.++|.+|++.|||..|.   ||+|+|.
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~---gr~i~v~   84 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG---SRKVKLV   84 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEET---TEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEEC---CEEEEEE
Confidence            3456999999999999999999999999865 444433222 3459999999999999999999999998   9999998


Q ss_pred             Ee
Q 023143          112 LA  113 (286)
Q Consensus       112 ~~  113 (286)
                      ++
T Consensus        85 l~   86 (86)
T d2cqpa1          85 LG   86 (86)
T ss_dssp             ES
T ss_pred             EC
Confidence            74

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=7.9e-18  Score=112.69  Aligned_cols=68  Identities=13%  Similarity=0.171  Sum_probs=60.1

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           38 LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        38 lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      |||+|||.++|+++|+++|+.||.|..+++....  ...++||||+|.+.++|.+|++.|||..|.   |+.+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~---Gr~~   70 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQ---AQMA   70 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCC---EESC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEEC---CEEC
Confidence            7999999999999999999999999999887432  223449999999999999999999999998   7765

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=3.3e-17  Score=117.37  Aligned_cols=78  Identities=22%  Similarity=0.196  Sum_probs=68.9

Q ss_pred             CCCCeEEEcCCCCCC-CH----HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           33 NGINTLFVSGLPDDV-RA----REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        33 ~~~~~lfV~nLp~~~-te----~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ..+++|||+||+.++ ++    ++|+++|+.||.|.++++. ..++   ||||+|.+.++|.+|++.|||..|.   |++
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~-k~~~---~afV~f~~~~~A~~Ai~~lng~~~~---g~~   75 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYF-KSFK---RVRINFSNPLSAADARLRLHKTEFL---GKE   75 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEE-TTTT---EEEEECSSTTHHHHHHHTSTTSEET---TEE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEe-cCCC---EEEEEECCHHHHHHHHHHhcccccC---CCE
Confidence            457899999999986 43    4689999999999999887 5555   9999999999999999999999998   999


Q ss_pred             EEEEEeecCC
Q 023143          108 LHIELARSNS  117 (286)
Q Consensus       108 l~v~~~~~~~  117 (286)
                      |+|.|++...
T Consensus        76 l~v~~a~~~~   85 (104)
T d1weya_          76 MKLYFAQTLH   85 (104)
T ss_dssp             CEEECCCCSS
T ss_pred             eEEeecccCC
Confidence            9999997543

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=5.7e-17  Score=115.51  Aligned_cols=79  Identities=19%  Similarity=0.286  Sum_probs=66.8

Q ss_pred             CCccEEEEcc--CCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCC--cEEE
Q 023143          201 QPCSTLFIAN--LGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRG--GMHI  276 (286)
Q Consensus       201 ~~~~~L~v~N--L~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~--~l~V  276 (286)
                      .|+++|||.|  ||.++|+++|+++|++||.|..+++..++  +||||+|.+.++|.+|++.|||+.+.+.-+.  .+.+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k--~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~~~~   93 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK--PYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYL   93 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTC--SCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEE
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCc--cEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEEEEE
Confidence            3688999966  99999999999999999999999988765  8999999999999999999999998643133  4555


Q ss_pred             EEecc
Q 023143          277 EYARS  281 (286)
Q Consensus       277 ~~ak~  281 (286)
                      +|.+.
T Consensus        94 ~~~~~   98 (101)
T d2cq2a1          94 NFVEK   98 (101)
T ss_dssp             EEESC
T ss_pred             Eeeee
Confidence            66554

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=1.5e-17  Score=111.88  Aligned_cols=73  Identities=19%  Similarity=0.256  Sum_probs=62.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC--CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           37 TLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG--RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        37 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~--~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +|||+|||+++|+++|+++|+.||.|..|++..+.  ...++||||+|.+.++|.+|++. ++..|.   |+.+.|+.|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~-~~~~i~---g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVG---LSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTC-SSCCBT---TBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhh-CCCEEC---CEEeEEEEC
Confidence            59999999999999999999999999999987543  22345999999999999999975 666677   898888754

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=5.3e-17  Score=116.41  Aligned_cols=76  Identities=16%  Similarity=0.131  Sum_probs=66.3

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceE-EEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNM-LKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~-v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      ...+|||+|||.++|+++|+++|+.||.+.. +.+..   ++++|+|||+|.+.++|.+||+ |||..|.   |+.|.|.
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~---gr~i~V~   82 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLN---GREAFVH   82 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEET---TEEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeEC---CcEEEEE
Confidence            4678999999999999999999999998875 44443   5678899999999999999996 8999999   5599999


Q ss_pred             Eecc
Q 023143          278 YARS  281 (286)
Q Consensus       278 ~ak~  281 (286)
                      ++..
T Consensus        83 ~~~~   86 (103)
T d2cpya1          83 VVTL   86 (103)
T ss_dssp             EECH
T ss_pred             ECCH
Confidence            8754

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.7e-16  Score=112.94  Aligned_cols=76  Identities=16%  Similarity=0.225  Sum_probs=64.6

Q ss_pred             CCCCCeEEEcC--CCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEE
Q 023143           32 DNGINTLFVSG--LPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLH  109 (286)
Q Consensus        32 ~~~~~~lfV~n--Lp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~  109 (286)
                      +.++++|||+|  ||.++|+++|+++|++||.|..|++. ..++   ||||+|.+.++|.+|++.|||..+...++.++.
T Consensus        15 ~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~-~~k~---~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~   90 (101)
T d2cq2a1          15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMP-PNKP---YSFARYRTTEESKRAYVTLNGKEVVDDLGQKIT   90 (101)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECC-TTCS---CEEEEESSHHHHHHHHHHTTTCEEECTTSCEEE
T ss_pred             CCCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeec-cCcc---EEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEE
Confidence            55688999955  99999999999999999999988877 4444   999999999999999999999998544556555


Q ss_pred             EE
Q 023143          110 IE  111 (286)
Q Consensus       110 v~  111 (286)
                      +.
T Consensus        91 ~~   92 (101)
T d2cq2a1          91 LY   92 (101)
T ss_dssp             CE
T ss_pred             EE
Confidence            53

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=3e-16  Score=114.10  Aligned_cols=81  Identities=14%  Similarity=0.192  Sum_probs=66.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEE-ecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           31 QDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLK-YTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~-~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      +..+..+|||+|||+++|+++|+++|+.||.+..+.+. .... ...|+|||+|.+.++|.+|++ +||..|.   ||.|
T Consensus        14 ~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~---gR~i   89 (112)
T d1wela1          14 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMG---NRFI   89 (112)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCST---TSCB
T ss_pred             CCCCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCC---CEEE
Confidence            35567799999999999999999999999998654333 2222 234599999999999999996 9999998   9999


Q ss_pred             EEEEeec
Q 023143          109 HIELARS  115 (286)
Q Consensus       109 ~v~~~~~  115 (286)
                      .|..+..
T Consensus        90 ~V~~~~~   96 (112)
T d1wela1          90 QVHPITK   96 (112)
T ss_dssp             EEEEECH
T ss_pred             EEEEcCh
Confidence            9987643

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.63  E-value=5.1e-18  Score=118.78  Aligned_cols=74  Identities=16%  Similarity=0.266  Sum_probs=64.1

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEe---------ecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcE
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMR---------ARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGM  274 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~---------~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l  274 (286)
                      ++|||+|||.++|+++|+++|++||.+..+.+.         .+++++||||+|.+.++|++|++ |||..+.   |+.|
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~---Gr~l   77 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQ---GQSL   77 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSS---SSCC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEEC---CEEE
Confidence            689999999999999999999999987655443         25678999999999999999985 9999999   5599


Q ss_pred             EEEEecc
Q 023143          275 HIEYARS  281 (286)
Q Consensus       275 ~V~~ak~  281 (286)
                      +|+.+|.
T Consensus        78 ~V~r~k~   84 (90)
T d1u2fa_          78 KIRRPHD   84 (90)
T ss_dssp             CCBCTTC
T ss_pred             EECCCCC
Confidence            9986654

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.5e-16  Score=114.52  Aligned_cols=75  Identities=5%  Similarity=-0.013  Sum_probs=64.6

Q ss_pred             CccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEe-e---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEE
Q 023143          202 PCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMR-A---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIE  277 (286)
Q Consensus       202 ~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~-~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~  277 (286)
                      +..+|||+|||+++|+++|+++|+.||.+..+.++ .   +.++|+|||+|.+.++|++|++ |||..|+   |+.|.|.
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~---gR~i~V~   92 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMG---NRFIQVH   92 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCST---TSCBEEE
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCC---CEEEEEE
Confidence            47799999999999999999999999988653332 2   6677899999999999999995 8999999   5599998


Q ss_pred             Eec
Q 023143          278 YAR  280 (286)
Q Consensus       278 ~ak  280 (286)
                      .+.
T Consensus        93 ~~~   95 (112)
T d1wela1          93 PIT   95 (112)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            874

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=7.8e-16  Score=111.94  Aligned_cols=72  Identities=13%  Similarity=0.178  Sum_probs=62.7

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCH-HHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEV-EQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~-e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +..+||+|||.++|+++|+++|++||.|.+|.+++++  +||||+|.+. ++|.+|+..|||..+.++   .+.|.|+
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~k--g~gfV~F~~~~~~A~~a~~~~~~~~l~~~---~~~v~~~   83 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGA--KEGIILFKEKAKEALGKAKDANNGNLQLR---NKEVTWE   83 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTC--SEEEEEESSCHHHHHHHHHHTTTSCBCTT---SSSEEEE
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCC--ceEEEEecCcHHHHHHHHHHhcCCceecC---ceEEEEe
Confidence            4445999999999999999999999999999999765  9999999995 789999999999999866   5555554

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=2.8e-16  Score=112.57  Aligned_cols=78  Identities=12%  Similarity=0.153  Sum_probs=65.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccE-EEEEecCC-CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDF-CQLKYTGR-GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIE  111 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~-v~i~~~~~-~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~  111 (286)
                      ...+|||+|||+++|+++|+++|+.||.|.. +.+..... ..++||||+|.+.++|.+|++ ++|..|.   |+.|.|.
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~---gr~i~V~   82 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLN---GREAFVH   82 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEET---TEEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeEC---CcEEEEE
Confidence            3578999999999999999999999999865 44443222 234599999999999999996 8999998   9999999


Q ss_pred             Eeec
Q 023143          112 LARS  115 (286)
Q Consensus       112 ~~~~  115 (286)
                      ++..
T Consensus        83 ~~~~   86 (103)
T d2cpya1          83 VVTL   86 (103)
T ss_dssp             EECH
T ss_pred             ECCH
Confidence            8743

>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=99.60  E-value=1.3e-15  Score=107.93  Aligned_cols=77  Identities=16%  Similarity=0.159  Sum_probs=68.0

Q ss_pred             CCccEEEEccC--CCCC---------CHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCC
Q 023143          201 QPCSTLFIANL--GPNC---------TEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSS  269 (286)
Q Consensus       201 ~~~~~L~v~NL--~~~~---------te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~  269 (286)
                      ..+++|+|+||  |.++         .++||++.|++||.|..|++..+..+|+|||+|.+.++|.+|+..|||..+.  
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~lng~~~~--   83 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFG--   83 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEET--
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCccEEEEEECCHHHHHHHHHHhCCcEEC--
Confidence            35899999999  4332         2378999999999999999999888899999999999999999999999999  


Q ss_pred             CCCcEEEEEec
Q 023143          270 DRGGMHIEYAR  280 (286)
Q Consensus       270 ~g~~l~V~~ak  280 (286)
                       |+.|+|+|+.
T Consensus        84 -gr~i~v~~~~   93 (99)
T d2dita1          84 -GRQITAQAWD   93 (99)
T ss_dssp             -TEECEEEECC
T ss_pred             -CEEEEEEEeC
Confidence             5699999964

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.6e-15  Score=110.30  Aligned_cols=82  Identities=13%  Similarity=0.166  Sum_probs=67.6

Q ss_pred             CCCCCCCCCCe-EEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCH-HHHHHHHHHhCCCccCCCC
Q 023143           27 HHQQQDNGINT-LFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNH-QTAVAALHELNGVKFDPQS  104 (286)
Q Consensus        27 ~~~~~~~~~~~-lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~-~~A~~A~~~l~g~~~~~~~  104 (286)
                      |+.-....+.. +||+|||..+|+++|+++|+.||.|..|.|. .+++   ||||.|.++ ++|.+|+..+++..+.   
T Consensus         2 ~~~~~~~~g~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~-~~kg---~gfV~F~~~~~~A~~a~~~~~~~~l~---   74 (113)
T d1owxa_           2 HGSLEEKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFV-RGAK---EGIILFKEKAKEALGKAKDANNGNLQ---   74 (113)
T ss_dssp             CCCCSCCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECC-TTCS---EEEEEESSCHHHHHHHHHHTTTSCBC---
T ss_pred             CCCcCCCCCCeEEEECCCCCCCCHHHHHHHHHhcCChheEEEe-cCCc---eEEEEecCcHHHHHHHHHHhcCCcee---
Confidence            34444555655 4999999999999999999999999999998 4454   999999996 6899999999999996   


Q ss_pred             CCeEEEEEeec
Q 023143          105 GSVLHIELARS  115 (286)
Q Consensus       105 g~~l~v~~~~~  115 (286)
                      ++.+.|.|...
T Consensus        75 ~~~~~v~~~~~   85 (113)
T d1owxa_          75 LRNKEVTWEVL   85 (113)
T ss_dssp             TTSSSEEEEEC
T ss_pred             cCceEEEEeec
Confidence            77777776543

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=7e-17  Score=115.63  Aligned_cols=73  Identities=14%  Similarity=0.130  Sum_probs=67.8

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEee---cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEe
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRA---RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYA  279 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~---~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~a  279 (286)
                      +.++|+|++..++|++|+++|++||.|.+|++.+   +.++|||||+|.+.++|.+|++.|||+.+.   |+.|+|+|+
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~---gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFN---GQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEET---TEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEEC---CEEEEEEEC
Confidence            5688999999999999999999999999999976   567899999999999999999999999999   559999985

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.56  E-value=6.1e-17  Score=113.16  Aligned_cols=73  Identities=18%  Similarity=0.328  Sum_probs=61.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEE-------ecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLK-------YTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVL  108 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~-------~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l  108 (286)
                      |+|||+|||+++|+++|+++|+.||.|..+.+.       ......++||||+|.+.++|.+|++ |||..+.   |+.|
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~---Gr~l   77 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQ---GQSL   77 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSS---SSCC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEEC---CEEE
Confidence            789999999999999999999999998665442       1111123499999999999999995 9999999   9999


Q ss_pred             EEEE
Q 023143          109 HIEL  112 (286)
Q Consensus       109 ~v~~  112 (286)
                      +|..
T Consensus        78 ~V~r   81 (90)
T d1u2fa_          78 KIRR   81 (90)
T ss_dssp             CCBC
T ss_pred             EECC
Confidence            9964

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=2.7e-14  Score=112.69  Aligned_cols=82  Identities=16%  Similarity=0.265  Sum_probs=70.9

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCC--CCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe
Q 023143           30 QQDNGINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGR--GNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV  107 (286)
Q Consensus        30 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~--~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~  107 (286)
                      ......++|||+|||..+|+++|+++|+.||.|..+.+.....  ..++||||+|.+.++|.+|++ +++..+.   |+.
T Consensus        92 ~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~---G~~  167 (183)
T d1u1qa_          92 GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN---GHN  167 (183)
T ss_dssp             TTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEET---TEE
T ss_pred             ccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeEC---CEE
Confidence            3456678999999999999999999999999999998885432  234599999999999999997 7888888   999


Q ss_pred             EEEEEeec
Q 023143          108 LHIELARS  115 (286)
Q Consensus       108 l~v~~~~~  115 (286)
                      |+|.++.+
T Consensus       168 i~V~~A~~  175 (183)
T d1u1qa_         168 CEVRKALS  175 (183)
T ss_dssp             EEEEECCC
T ss_pred             EEEEecCC
Confidence            99998864

>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=99.52  E-value=9.1e-15  Score=104.57  Aligned_cols=78  Identities=18%  Similarity=0.302  Sum_probs=66.5

Q ss_pred             CCccEEEEccC--CCCCC--------HHHHHHHHhcCCCceEEEEee------cCCccEEEEEECCHHHHHHHHHhcCCC
Q 023143          201 QPCSTLFIANL--GPNCT--------EDELKQTLSVYPGFNMLKMRA------RGGMPVAFADFEEVEQASIAMEGLQDS  264 (286)
Q Consensus       201 ~~~~~L~v~NL--~~~~t--------e~~L~~~F~~~G~v~~v~~~~------~~~~~~afV~f~~~e~A~~Al~~lng~  264 (286)
                      +|+++|.|+||  +..+.        .+||++.|++||.|.+|.+.+      ..+.|++||+|.+.++|.+|+..|||+
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr   81 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   81 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSC
T ss_pred             CCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCC
Confidence            57999999999  44332        367999999999999999875      224579999999999999999999999


Q ss_pred             ccCCCCCCcEEEEEecc
Q 023143          265 TLPSSDRGGMHIEYARS  281 (286)
Q Consensus       265 ~~~~~~g~~l~V~~ak~  281 (286)
                      .+.   |+.|.++|+..
T Consensus        82 ~f~---gR~v~v~f~~~   95 (104)
T d1o0pa_          82 KFA---NRVVVTKYCDP   95 (104)
T ss_dssp             CSS---SSCCEEEEECH
T ss_pred             EEC---CeEEEEEEcCH
Confidence            999   56999999863

>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=99.50  E-value=4.7e-14  Score=99.75  Aligned_cols=81  Identities=14%  Similarity=0.128  Sum_probs=67.9

Q ss_pred             CCCCCCeEEEcCC--CCCCC---------HHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCc
Q 023143           31 QDNGINTLFVSGL--PDDVR---------AREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVK   99 (286)
Q Consensus        31 ~~~~~~~lfV~nL--p~~~t---------e~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~   99 (286)
                      ....+++|+|+||  |.++.         +++|++.|++||.|..|.+...  ..+|+|||+|.+.++|.+|+..|||..
T Consensus         4 ~~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~   81 (99)
T d2dita1           4 RMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRW   81 (99)
T ss_dssp             CCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCE
T ss_pred             CCCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcE
Confidence            3567999999999  65432         3688999999999999987622  234599999999999999999999999


Q ss_pred             cCCCCCCeEEEEEeecC
Q 023143          100 FDPQSGSVLHIELARSN  116 (286)
Q Consensus       100 ~~~~~g~~l~v~~~~~~  116 (286)
                      +.   ||+|+|+++...
T Consensus        82 ~~---gr~i~v~~~~g~   95 (99)
T d2dita1          82 FG---GRQITAQAWDGT   95 (99)
T ss_dssp             ET---TEECEEEECCSC
T ss_pred             EC---CEEEEEEEeCCc
Confidence            99   999999998654

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.9e-15  Score=108.04  Aligned_cols=75  Identities=15%  Similarity=0.123  Sum_probs=66.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecC-CCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEe
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTG-RGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELA  113 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~  113 (286)
                      +.++|++++.+++|++|+++|++||.|.+|+|.... ...++||||+|.+.++|.+|++.|||+.+.   |++|.|+|+
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~---gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFN---GQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEET---TEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEEC---CEEEEEEEC
Confidence            568999999999999999999999999999986322 224569999999999999999999999998   999999985

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=1.5e-13  Score=93.14  Aligned_cols=73  Identities=11%  Similarity=0.043  Sum_probs=60.4

Q ss_pred             ccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCc-EEEEEecc
Q 023143          203 CSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGG-MHIEYARS  281 (286)
Q Consensus       203 ~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~-l~V~~ak~  281 (286)
                      .+.|+|+++|++.+++.| ..|++||.|.++++.+.+  +||||+|.+.++|.+||+ +||..++   |+. |.|.-+.+
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~~~--~~~fV~f~~~~~A~~Al~-~nG~~~~---g~~~vgV~~~~~   76 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSNTG--NWMHIRYQSKLQARKALS-KDGRIFG---ESIMIGVKPCID   76 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECSSS--SEEEEEESSHHHHHHHHT-TTTCEET---TTEECEEEECCC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecCCC--CEEEEEEcccHHHHHHHh-cCCCeEC---CcEEEEEEeCCC
Confidence            578999999999886555 589999999999876554  899999999999999995 8999998   444 55766654


Q ss_pred             c
Q 023143          282 K  282 (286)
Q Consensus       282 ~  282 (286)
                      +
T Consensus        77 k   77 (81)
T d1wwha1          77 K   77 (81)
T ss_dssp             H
T ss_pred             h
Confidence            4

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.40  E-value=3e-13  Score=91.64  Aligned_cols=71  Identities=14%  Similarity=0.115  Sum_probs=58.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCe-EEEEE
Q 023143           34 GINTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSV-LHIEL  112 (286)
Q Consensus        34 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~-l~v~~  112 (286)
                      +.+.|+|.|+|++.+++.| ..|+.||.|.++++. ..++   ||||+|.++++|.+|++ +||..|.   |+. +.|..
T Consensus         3 ~~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~-~~~~---~~fV~f~~~~~A~~Al~-~nG~~~~---g~~~vgV~~   73 (81)
T d1wwha1           3 DDTWVTVFGFPQASASYIL-LQFAQYGNILKHVMS-NTGN---WMHIRYQSKLQARKALS-KDGRIFG---ESIMIGVKP   73 (81)
T ss_dssp             GGGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEEC-SSSS---EEEEEESSHHHHHHHHT-TTTCEET---TTEECEEEE
T ss_pred             cccEEEEECCChHHHHHHH-HHHHhhhhhheEEec-CCCC---EEEEEEcccHHHHHHHh-cCCCeEC---CcEEEEEEe
Confidence            3567999999999987666 579999999999875 3444   99999999999999995 9999997   764 34554


Q ss_pred             e
Q 023143          113 A  113 (286)
Q Consensus       113 ~  113 (286)
                      .
T Consensus        74 ~   74 (81)
T d1wwha1          74 C   74 (81)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

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

Probab=99.40  E-value=2.1e-13  Score=97.30  Aligned_cols=80  Identities=14%  Similarity=0.215  Sum_probs=66.6

Q ss_pred             CCCCeEEEcCC--CCCC--------CHHHHHHHhhcCCCccEEEEEecCCC----CeeEEEEEEcCHHHHHHHHHHhCCC
Q 023143           33 NGINTLFVSGL--PDDV--------RAREIHNLFRRKPGFDFCQLKYTGRG----NQVVAFATFVNHQTAVAALHELNGV   98 (286)
Q Consensus        33 ~~~~~lfV~nL--p~~~--------te~~L~~~F~~~G~i~~v~i~~~~~~----~~~~aFV~F~~~~~A~~A~~~l~g~   98 (286)
                      .|+++|.|+|+  |.++        ..+||++.|++||.|.+|.|.....+    ..+++||+|.+.++|.+|++.|||+
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr   81 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   81 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSC
T ss_pred             CCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCC
Confidence            46999999999  5544        34578999999999999988632211    2349999999999999999999999


Q ss_pred             ccCCCCCCeEEEEEeec
Q 023143           99 KFDPQSGSVLHIELARS  115 (286)
Q Consensus        99 ~~~~~~g~~l~v~~~~~  115 (286)
                      .+.   ||.|.+.|+..
T Consensus        82 ~f~---gR~v~v~f~~~   95 (104)
T d1o0pa_          82 KFA---NRVVVTKYCDP   95 (104)
T ss_dssp             CSS---SSCCEEEEECH
T ss_pred             EEC---CeEEEEEEcCH
Confidence            998   99999999864

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=6.3e-06  Score=55.39  Aligned_cols=77  Identities=17%  Similarity=0.310  Sum_probs=64.6

Q ss_pred             cEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCC------ccEEEEEECCHHHHHHHHHhcCCCccCCCCCC--cEE
Q 023143          204 STLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGG------MPVAFADFEEVEQASIAMEGLQDSTLPSSDRG--GMH  275 (286)
Q Consensus       204 ~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~------~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~--~l~  275 (286)
                      +.|.|++||+++||+++.+.++..|.+....+..++.      -..|+|.|.+.++...-.+.++|..+.+.-|+  .-.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~~g~~~~a~   81 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAI   81 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcCCCCEeeeE
Confidence            4688999999999999999999999999888887331      12899999999999999999999999776344  446


Q ss_pred             EEEec
Q 023143          276 IEYAR  280 (286)
Q Consensus       276 V~~ak  280 (286)
                      |+||-
T Consensus        82 VE~AP   86 (91)
T d1uw4a_          82 VEFAP   86 (91)
T ss_dssp             EEECS
T ss_pred             EEEcC
Confidence            77764

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=9.3e-06  Score=50.97  Aligned_cols=60  Identities=13%  Similarity=0.143  Sum_probs=51.7

Q ss_pred             HHHHHHHhcCCCceEEEEee-cCCccEEEEEECCHHHHHHHHHhcCCCccCCCCCCcEEEEEec
Q 023143          218 DELKQTLSVYPGFNMLKMRA-RGGMPVAFADFEEVEQASIAMEGLQDSTLPSSDRGGMHIEYAR  280 (286)
Q Consensus       218 ~~L~~~F~~~G~v~~v~~~~-~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~g~~l~V~~ak  280 (286)
                      +.|.++|+++|.|.++.+.. ..+.-.|-|...+.++|.-|+..|+-+.|+.|   +|.|+|+.
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~K---RI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSK---KILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTE---EEEEEECC
T ss_pred             HHHHHHHHhheeEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHHHHhcCCe---EEEEEEec
Confidence            34556899999999999877 44445899999999999999999999999955   99999975

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=8.2e-06  Score=53.91  Aligned_cols=71  Identities=17%  Similarity=0.225  Sum_probs=56.5

Q ss_pred             CCCccEEEEccCCCCCCH---------HHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcCCCccCCCC
Q 023143          200 VQPCSTLFIANLGPNCTE---------DELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQDSTLPSSD  270 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te---------~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~lng~~~~~~~  270 (286)
                      .||--|+.|.=...+..+         .+|.+.|..||+|.-||+..+.    .+|+|.+=++|.+|+ .++|.++.   
T Consensus        12 GPpDgTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv~d~----mwVTF~dG~SAL~al-~l~g~~v~---   83 (95)
T d1ufwa_          12 GPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ----MLVTFADSHSALSVL-DVDGMKVK---   83 (95)
T ss_dssp             CCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE----EEEECSCSHHHHHHH-HGGGSEET---
T ss_pred             CCCCcEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeCCe----EEEEECCcHHHHHHh-ccCCeEEc---
Confidence            456777777433322222         5788899999999999999987    999999999999999 56999999   


Q ss_pred             CCcEEEEE
Q 023143          271 RGGMHIEY  278 (286)
Q Consensus       271 g~~l~V~~  278 (286)
                      |+.|+|+.
T Consensus        84 G~~l~It~   91 (95)
T d1ufwa_          84 GRAVKISG   91 (95)
T ss_dssp             TEEEEEEC
T ss_pred             ceEEEEec
Confidence            55999874

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=2.9e-05  Score=52.04  Aligned_cols=79  Identities=15%  Similarity=0.301  Sum_probs=59.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCe----eEEEEEEcCHHHHHHHHHHhCCCccCCCCCC--eEE
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQ----VVAFATFVNHQTAVAALHELNGVKFDPQSGS--VLH  109 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~----~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~--~l~  109 (286)
                      ..|-|++||+.+||+++.+.++..|+++-..........+    .-|||.|.+.++.....+..+|..+.-..|.  +-.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~~g~~~~a~   81 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPAI   81 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEECE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcCCCCEeeeE
Confidence            4688999999999999999999999987766652211111    1899999999999999999999999522333  234


Q ss_pred             EEEee
Q 023143          110 IELAR  114 (286)
Q Consensus       110 v~~~~  114 (286)
                      |++|-
T Consensus        82 VE~AP   86 (91)
T d1uw4a_          82 VEFAP   86 (91)
T ss_dssp             EEECS
T ss_pred             EEEcC
Confidence            55553

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=0.00011  Score=48.33  Aligned_cols=72  Identities=18%  Similarity=0.281  Sum_probs=57.7

Q ss_pred             CCCCCCeEEEcCCCCCCCH---------HHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccC
Q 023143           31 QDNGINTLFVSGLPDDVRA---------REIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFD  101 (286)
Q Consensus        31 ~~~~~~~lfV~nLp~~~te---------~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~  101 (286)
                      ++++.-||.|.=......+         .+|.+.|+.||+|.-|++.   .+   -..|+|.+-++|-+|+. ++|.++.
T Consensus        11 qGPpDgTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv---~d---~mwVTF~dG~SAL~al~-l~g~~v~   83 (95)
T d1ufwa_          11 QGPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRIN---QG---QMLVTFADSHSALSVLD-VDGMKVK   83 (95)
T ss_dssp             CCCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEE---TT---EEEEECSCSHHHHHHHH-GGGSEET
T ss_pred             cCCCCcEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEe---CC---eEEEEECCcHHHHHHhc-cCCeEEc
Confidence            3556778888655433322         3678889999999999988   55   89999999999999995 9999997


Q ss_pred             CCCCCeEEEEE
Q 023143          102 PQSGSVLHIEL  112 (286)
Q Consensus       102 ~~~g~~l~v~~  112 (286)
                         |+.|+|..
T Consensus        84 ---G~~l~It~   91 (95)
T d1ufwa_          84 ---GRAVKISG   91 (95)
T ss_dssp             ---TEEEEEEC
T ss_pred             ---ceEEEEec
Confidence               99999873

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.00084  Score=41.87  Aligned_cols=65  Identities=22%  Similarity=0.270  Sum_probs=53.4

Q ss_pred             CCCHHHH----HHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhCCCccCCCCCCeEEEEEee
Q 023143           46 DVRAREI----HNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELNGVKFDPQSGSVLHIELAR  114 (286)
Q Consensus        46 ~~te~~L----~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~~~  114 (286)
                      .+.+.+|    .+.|+++|.|.++.+....++ ...|-|.-.+..+|..|+..|+-..|.   ++.|.|.++.
T Consensus         3 ~L~~kelqq~L~~~f~~h~~V~sv~l~~~~dg-~~~A~V~v~~~q~A~~~v~~LhR~KiG---~KRI~Vs~~~   71 (73)
T d2dgxa1           3 RLSRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIG---SKKILVSLAT   71 (73)
T ss_dssp             TSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEET---TEEEEEEECC
T ss_pred             cCCHHHHHHHHHHHHHhheeEEEEEEEeccCC-cEEEEEEcCCHHHHHHHHHHHHHHhcC---CeEEEEEEec
Confidence            4555655    477999999999988754444 339999999999999999999999997   8888888764

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.08  E-value=0.0014  Score=43.67  Aligned_cols=55  Identities=11%  Similarity=0.250  Sum_probs=47.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHhhcCCCccEEEEEecCCCCeeEEEEEEcCHHHHHHHHHHhC
Q 023143           36 NTLFVSGLPDDVRAREIHNLFRRKPGFDFCQLKYTGRGNQVVAFATFVNHQTAVAALHELN   96 (286)
Q Consensus        36 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~~~~~aFV~F~~~~~A~~A~~~l~   96 (286)
                      .-||.-..|..+...||.++|++||.|.-..|.   ..   .|||.-.+.++|..++..+.
T Consensus        16 dHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswId---dT---Sa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          16 DHVLHVTFPKEWKTSDLYQLFSAFGNIQISWID---DT---SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEE---TT---EEEEECSCHHHHHHHHHHHH
T ss_pred             ceeEEEeCCcccchhHHHHHhcCCCceEEEEec---Cc---eEEEEecCHHHHHHHHHHhc
Confidence            449999999999999999999999999555554   33   89999999999999987654

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.14  E-value=0.015  Score=38.62  Aligned_cols=59  Identities=15%  Similarity=0.209  Sum_probs=47.3

Q ss_pred             CCCccEEEEccCCCCCCHHHHHHHHhcCCCceEEEEeecCCccEEEEEECCHHHHHHHHHhcC
Q 023143          200 VQPCSTLFIANLGPNCTEDELKQTLSVYPGFNMLKMRARGGMPVAFADFEEVEQASIAMEGLQ  262 (286)
Q Consensus       200 ~~~~~~L~v~NL~~~~te~~L~~~F~~~G~v~~v~~~~~~~~~~afV~f~~~e~A~~Al~~ln  262 (286)
                      .|...-+|.-..|......||.++|+.||.|.---+ ...   -|||...+.++|..++..+.
T Consensus        12 ~p~RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswI-ddT---Sa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          12 QPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWI-DDT---SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCCCCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEE-ETT---EEEEECSCHHHHHHHHHHHH
T ss_pred             CCCcceeEEEeCCcccchhHHHHHhcCCCceEEEEe-cCc---eEEEEecCHHHHHHHHHHhc
Confidence            344556777799999999999999999999964433 433   59999999999998887653