Citrus Sinensis ID: 043731

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------50
Protein Sequence
MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHcccccccccHHHHHHHcccccccEEHHHHHccHHHHHHHccccccccccccccHHHHHHHHHHcccccccccccEEEcccccccHHHHHHHHHHHHHccccccccccHHHHHHHHcccccEEEEEEccccccccccccEEEEEEccHHHHHHHHHHccccccEEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccEEEEEccccccEEEEEcccHHHHHHHHHHHHHHcccccEEEccEEEEEEcccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEHHHHcHHHHHHHHHHHHEEEEEEEcccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccEcHHHEEEHHHHHHHHcccccccccccHHHHHHHHHHHHcccEEEEcccccEEEccccccccHHHHHHHcccEEEEEcccccccHHHHHHHHHccccEEEEEEccccccccccccEEEEEEccHHHHHHHHHccccccccccEEcccHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcHHHHHHHHHHcccEEEEEEccccccEEEEEccHHHHHHHHHHHHHcccccEEEEcEEEEEEccccHHHHHHHHHHHHHcccccccccccccccccccccccHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHEEEEEEEEEcccc
Coil and Loop (DISEMBL)
MASLDEETAQAVLRQVEFyfsdsniptdeflrgkisessDAMVSLALICSFKRMKEHlhlgnvksedipeDTLEAVAETLRKSSSlklsedgmkvgrsaelptaEEMKEQLDVrtiaatpleydvkreDVEAFFSQHVKvnsvrlprhvadkRLFCGTALIEFSTEEDAEKVLKQGLFYagvelhlkpkkEFEAERAKETeefeksrpavgsnrknnsnaeadypkgLIVAFTLKnksaegseekngslkpandsenackpdgepdssdnaAAVESEqkasendsngegkveekneldsedgdkssdgsiekgeekegktsidtyKDNMDVVMREDLKSVFhkfgtvkfidfkigaesgyirfeepegAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGnqerhrdvkgeEKHLEAENKAASEKMIQQEdaqikpgkfeqhekpgissgtsfvrpHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Flexible Loop (DISEMBL)
MASLDEETAQAVLRQVEfyfsdsniptDEFLRGKISESSDAMVSLALICSFKRMKEHLHlgnvksedipeDTLEAVAETLrkssslklsedgmkvgrsaelptaeemkeqldvrtiAATPLEYDVKREDVEAFFSQhvkvnsvrlprhvadKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFEAERAKeteefeksrpavgsnrknnsnaeadypkgLIVAFTLKNKsaegseekngslkpandsENACKPDGEPDSSDNAAAVESeqkasendsngegkveekneldsedgdkssdgsiekgeekegktsidtykdnMDVVMREDLKSVfhkfgtvkfidfKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKpgissgtsfvRPHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Low Complexity Region (SEG)
MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLkpkkefeaeraketeefekSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELdsedgdkssdgsiekgeekegktsIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGaqkaraaavlaQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Disordered region (IsUnstruct)
***********VLRQVEFYFSDSNIPTDEFLRGKIS**SDAMVSLALICSFKRMKEHLHLG***************************************************VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHL****************************************GLIVAFT**********************************************************************************************NMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEP****KARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLL*****************************************************SFVRPHLIFLLRIKCASYWISRCLVRYYVEFVF****
Disordered Region (DISOPRED)
******ETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLK**********************************************************************ACKPDGEPDSSDNAAA*************************************************DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARA****AQEGGLSVKNFIAVLEPVTGEAEKEY*********************************************************SFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSD**
Disordered Region (DISEMBL)
********AQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFE************************SNAEADYPKGLIVAFTLKNK*********************************************************************************KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEE************LAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Disordered Region (DISPRO)
**SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFEAERAKETE********************************************************************************************************************************DVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQE***************************DAQIKPGKF**H*KPGISSGTSFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSD**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERxxxxxxxxxxxxxxxxxxxxxxxxxxxxQIKPGKFEQHEKPGISSGTSFVRPHLIFLLRIKCASYWISRCLVRYYVEFVFSDTQ
Positional Conservation
no confident homologs detected

---

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	498	2.2.26 [Sep-21-2011]
P33399	275	La protein homolog OS=Sac	yes	no	0.391	0.709	0.333	8e-18
P40796	390	La protein homolog OS=Dro	yes	no	0.415	0.530	0.274	4e-11
P87058	298	La protein homolog OS=Sch	yes	no	0.375	0.627	0.304	4e-11
Q28G87	593	La-related protein 7 OS=X	yes	no	0.319	0.268	0.286	5e-11
Q7ZWE3	555	La-related protein 7 OS=D	yes	no	0.293	0.263	0.290	9e-11
Q4R627	581	La-related protein 7 OS=M	N/A	no	0.289	0.247	0.292	1e-10
Q4G0J3	582	La-related protein 7 OS=H	yes	no	0.289	0.247	0.292	1e-10
Q5XI01	571	La-related protein 7 OS=R	yes	no	0.289	0.252	0.286	6e-10
Q05CL8	570	La-related protein 7 OS=M	yes	no	0.289	0.252	0.286	6e-10
P28048	428	Lupus La protein homolog	N/A	no	0.359	0.418	0.252	2e-08

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

 Score = 92.0 bits (227), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 77/231 (33%), Positives = 118/231 (51%), Gaps = 36/231 (15%)

Query: 7   ETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSE 66
           E     L+QVEFYFS+ N P D FLR   +E +D  V ++ I +F RMK++         
Sbjct: 28  EVLDRCLKQVEFYFSEFNFPYDRFLRT-TAEKNDGWVPISTIATFNRMKKY--------- 77

Query: 67  DIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSA--ELPTAEEMKEQLDVRTIAATPLEY- 123
                 ++ V E LR S  L++S DG  V R    +L  A   + + + RT+A     + 
Sbjct: 78  ----RPVDKVIEALRSSEILEVSADGENVKRRVPLDLTAARNARIEQNQRTLAVMNFPHE 133

Query: 124 DVK-------REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-- 174
           DV+       +E++EAFF +  ++N VRL R   +K+ F GT L+EF T  + E  LK  
Sbjct: 134 DVEASQIPELQENLEAFFKKLGEINQVRLRRDHRNKK-FNGTVLVEFKTIPECEAFLKSY 192

Query: 175 -------QGLFYAGVELHLKPKKEFEAER-AKETEEFE-KSRPAVGSNRKN 216
                  + L Y G +L +  KK+F+ +R A +++ F  +SR   G  +KN
Sbjct: 193 SNDDESNEILSYEGKKLSVLTKKQFDLQREASKSKNFSGRSRSFNGHKKKN 243

Molecular chaperone that binds nascent RNA polymerase III transcripts, stabilizing these RNAs against exonucleases. Required for the 3' endonucleolytic cleavage that matures tRNA precursors and for efficient folding of certain pre-tRNAs. Cooperaes with GCD14 in the maturation of a subset of RNA polymerase III transcripts. Functions also in the assembly of certain RNA polymerase II-transcribed RNAs into RNPs. Binds and stabilizes newly synthesized U6 snRNA as well as precursors of U3 snRNA from degradation. Facilitates efficient Sm protein binding, thus assisting formation of the U4/U6 snRNP. Required fot Ty3 normal transposition frequency.
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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

 Score = 70.1 bits (170), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 64/233 (27%), Positives = 115/233 (49%), Gaps = 26/233 (11%)

Query: 10  QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
           +A++RQVE+YF D+N+  D+FLR +I ++ D  V L+++ +FKR+             + 
Sbjct: 52  RAIIRQVEYYFGDANLNRDKFLREQIGKNEDGWVPLSVLVTFKRLA-----------SLS 100

Query: 70  EDTLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTA---EEMKEQLDVRTIAATPLEYD 124
            D  E VA  L KS    +++SED + + R  E P     EE ++++  RT  A     D
Sbjct: 101 TDLSEIVA-ALNKSEEGLVEISEDKLSLRRHPERPIPEHNEERRKEIQERTAYAKGFPLD 159

Query: 125 VKREDVEAFFSQHVKVNSVRLPRHVADKRL----FCGTALIEFSTEEDAEKVLKQ-GLFY 179
            +  ++  F + + KV ++ + +H  DK      F G+  + F T++ A+  L+Q  + Y
Sbjct: 160 SQISELLDFAANYDKVVNLTMRKHY-DKPTKSYKFKGSIFLTFETKDQAKAFLEQEKIVY 218

Query: 180 AGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAF 232
              EL  K + ++  E+    EE+ +      + ++       + PK  IV F
Sbjct: 219 KERELLRKWQVDYLKEK---QEEYAQKNEKRKNKKEAKPEPAFELPKNAIVVF 268

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

Drosophila melanogaster (taxid: 7227)

>sp|P87058|LAH1_SCHPO La protein homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sla1 PE=1 SV=1

 Score = 69.7 bits (169), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 66/217 (30%), Positives = 106/217 (48%), Gaps = 30/217 (13%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           VL+QVEFYFSD+N+P D+FL    S+ +D  V +  I +FKRM+                
Sbjct: 67  VLKQVEFYFSDTNLPHDKFL-WTTSQKNDGWVPIQTIANFKRMRRF-------------Q 112

Query: 72  TLEAVAETLRKSSS-LKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL--EYDVKRE 128
            LEA+   LRKS   L++ E G KV R   +P      + +  R++       E D  + 
Sbjct: 113 PLEAIVNALRKSPELLEVDEAGEKVRRM--IPLVRVDNKSVMERSVYCKGFGDEKDDTQI 170

Query: 129 DVEAFFSQHV-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVE 183
            +E FF ++   +++VR+ R   D + F G+  +EF   + A K L++     L +   E
Sbjct: 171 ALEKFFEENAGPISAVRMRRD--DDKKFKGSVFVEFKEPDVANKFLEKVKTAPLKWGEDE 228

Query: 184 LHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNA 220
           L +  KKE+   +A    E  K+ P   S+++   +A
Sbjct: 229 LTIMSKKEYVDMKA----ELHKNDPPKFSSKRRRFDA 261

Binds to the precursors of polymerase III RNAs. Functions in tRNA maturation.

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

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

 Score = 69.7 bits (169), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 55/192 (28%), Positives = 95/192 (49%), Gaps = 33/192 (17%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           + +QV+F+F D N+  D FLR +I ++ D  + ++L+ SF +MK+           I  D
Sbjct: 40  IAKQVDFWFGDVNLHKDRFLREQIEKTRDGYIDISLLASFNKMKK-----------ITTD 88

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
           + + +A  ++ SS ++++  G K+ R    P  E+ ++ +D RT+    L  +V    +E
Sbjct: 89  S-KLIARAVKNSSVVEINLSGTKIRR--RFPLGEKPQD-VDSRTVYVELLPKNVTHSWIE 144

Query: 132 AFFSQHVKVNSVRLPRH--VADKRLFCGTALIEFSTEEDAEKVL------------KQGL 177
             F ++  V  V +PR+    D +   G A IEF T+E A K +            K G+
Sbjct: 145 RVFGKYGMVVYVSIPRYKSTGDPK---GFAFIEFETQEQAAKAIEVLNNPPEEAPRKAGM 201

Query: 178 FYAGVE-LHLKP 188
           F   V+  HL P
Sbjct: 202 FPKTVKNKHLPP 213

Xenopus tropicalis (taxid: 8364)

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

 Score = 68.9 bits (167), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 47/162 (29%), Positives = 87/162 (53%), Gaps = 16/162 (9%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           V +QVEF+F D N+  D F++  I +S D  + +A++ +F RMK      N+ ++     
Sbjct: 46  VKKQVEFWFGDVNLHKDRFMKSIIEQSRDGYIDIAVLTTFNRMK------NLTAD----- 94

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
            ++ +A  L+ S+ ++++++G ++ R    P  E  K+ +D RT+    L   V    +E
Sbjct: 95  -VKLIARALKNSTIVEVNDEGTRIRRKE--PLGETPKD-VDSRTVYVELLPKTVTHIWLE 150

Query: 132 AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
             FS+   V  + +PR+ +  R   G A +EF T+E A+K +
Sbjct: 151 RVFSKCGHVVYISIPRYKST-RHSKGFAFVEFETQEQAQKAV 191

Danio rerio (taxid: 7955)

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

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/164 (29%), Positives = 82/164 (50%), Gaps = 20/164 (12%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           + +QV+F+F D+N+  D FLR +I +S D  V ++L+ SF +MK+    G +        
Sbjct: 38  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKL-------- 89

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
               +A  LR S+ ++L  +G ++ R    P  E  K++ D RT+    L  +V    +E
Sbjct: 90  ----IARALRSSAVVELDLEGTRIRRKK--PLGERPKDE-DERTVYVELLPKNVNHSWIE 142

Query: 132 AFFSQHVKVNSVRLPRH--VADKRLFCGTALIEFSTEEDAEKVL 173
             F +   V  + +P +    D +   G A +EF T+E A K +
Sbjct: 143 RVFGKCGNVVYISIPHYKSTGDPK---GFAFVEFETKEQAAKAI 183

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

Macaca fascicularis (taxid: 9541)

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

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/164 (29%), Positives = 82/164 (50%), Gaps = 20/164 (12%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           + +QV+F+F D+N+  D FLR +I +S D  V ++L+ SF +MK+    G +        
Sbjct: 38  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKL-------- 89

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
               +A  LR S+ ++L  +G ++ R    P  E  K++ D RT+    L  +V    +E
Sbjct: 90  ----IARALRSSAVVELDLEGTRIRRKK--PLGERPKDE-DERTVYVELLPKNVNHSWIE 142

Query: 132 AFFSQHVKVNSVRLPRH--VADKRLFCGTALIEFSTEEDAEKVL 173
             F +   V  + +P +    D +   G A +EF T+E A K +
Sbjct: 143 RVFGKCGNVVYISIPHYKSTGDPK---GFAFVEFETKEQAAKAI 183

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

Homo sapiens (taxid: 9606)

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

 Score = 66.2 bits (160), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 82/164 (50%), Gaps = 20/164 (12%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           + +QV+F+F D+N+  D FLR +I +S D  V ++L+ SF +MK+    G +        
Sbjct: 33  IAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKL-------- 84

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
               +A  L+ SS ++L  +G ++ R    P  E  K++ + RT+    L  +V    +E
Sbjct: 85  ----IARALKSSSVVELDLEGTRIRRKK--PLGERPKDE-EERTVYVELLPKNVTHSWIE 137

Query: 132 AFFSQHVKVNSVRLPRH--VADKRLFCGTALIEFSTEEDAEKVL 173
             F +   V  + +P +    D +   G A +EF T+E A K +
Sbjct: 138 RVFGKCGNVVYISIPHYKSTGDPK---GFAFVEFETKEQAAKAI 178

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

Rattus norvegicus (taxid: 10116)

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

 Score = 66.2 bits (160), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 83/164 (50%), Gaps = 20/164 (12%)

Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           + +QV+F+F D+N+  D+FLR +I +S D  V ++L+ SF +MK+    G +        
Sbjct: 32  IAKQVDFWFGDANLHKDKFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKL-------- 83

Query: 72  TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
               +A  L+ SS ++L  +G ++ R    P  E  K++ + RT+    L  +V    +E
Sbjct: 84  ----IARALKSSSVVELDLEGTRIRRKK--PLGERPKDE-EERTVYVELLPKNVTHSWIE 136

Query: 132 AFFSQHVKVNSVRLPRH--VADKRLFCGTALIEFSTEEDAEKVL 173
             F +   V  + +P +    D +   G A +EF T+E A K +
Sbjct: 137 RVFGKCGNVVYISIPHYKSTGDPK---GFAFVEFETKEQAAKAI 177

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

Mus musculus (taxid: 10090)

>sp|P28048|LAA_XENLA Lupus La protein homolog A OS=Xenopus laevis GN=ssb-a PE=2 SV=1

 Score = 61.2 bits (147), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 51/202 (25%), Positives = 101/202 (50%), Gaps = 23/202 (11%)

Query: 4   LDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNV 63
           LD +T   +  Q+E+YF D N+P D+FL+ +I    D  V L  +  F R+ +       
Sbjct: 11  LDSDTK--ICEQIEYYFGDHNLPRDKFLKQQIL-LDDGWVPLETMIKFNRLSK------- 60

Query: 64  KSEDIPEDTLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAA 118
               +  D    + + L+KS +  L+++E+  K+ RS   P  E   E K  L  +++  
Sbjct: 61  ----LTTD-FNTILQALKKSKTELLEINEEKCKIRRSPAKPLPELNDEYKNSLKHKSVYI 115

Query: 119 TPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-QGL 177
                    +DV+ +      + ++++ R +  +R F G+  I F+T++DA+K L+ + L
Sbjct: 116 KGFPTSAILDDVKEWLKDKGPIENIQMRRTL--QREFKGSIFIIFNTDDDAKKFLENRNL 173

Query: 178 FYAGVELHLKPKKEFEAERAKE 199
            Y   ++ +  ++E+ A++ +E
Sbjct: 174 KYKDNDMTVLSREEYHAKKNEE 195

La protein plays a role in the transcription of RNA polymerase III. It is most probably a transcription termination factor. Binds to the 3' termini of virtually all nascent polymerase III transcripts.

Xenopus laevis (taxid: 8355)

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	498
225430017	475	PREDICTED: uncharacterized protein LOC10	0.903	0.947	0.623	1e-156
147819226	475	hypothetical protein VITISV_007260 [Viti	0.903	0.947	0.612	1e-148
449465127	469	PREDICTED: uncharacterized protein LOC10	0.837	0.889	0.632	1e-141
255551040	494	lupus la ribonucleoprotein, putative [Ri	0.813	0.819	0.600	1e-140
356515577	460	PREDICTED: lupus La protein homolog A-li	0.837	0.906	0.593	1e-135
356565784	425	PREDICTED: uncharacterized protein LOC10	0.773	0.905	0.583	1e-124
356507883	488	PREDICTED: uncharacterized protein LOC10	0.829	0.846	0.563	1e-123
297802732	433	RNA recognition motif-containing protein	0.761	0.875	0.556	1e-122
22530928	433	putative protein [Arabidopsis thaliana]	0.763	0.877	0.557	1e-122
18418072	433	La protein 1 [Arabidopsis thaliana] gi|1	0.763	0.877	0.557	1e-122

>gi|225430017|ref|XP_002284157.1| PREDICTED: uncharacterized protein LOC100250699 [Vitis vinifera]

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 296/475 (62%), Positives = 354/475 (74%), Gaps = 25/475 (5%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
           AS DEET + V+RQVEFYFSDSN+P D FL+  ISES D +VSLALICSF RM+ HL+LG
Sbjct: 4   ASFDEETVKKVIRQVEFYFSDSNLPRDNFLKKTISESEDGLVSLALICSFSRMRSHLNLG 63

Query: 62  NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL 121
           +VK ED+ EDTL+AVAE LR S++LK+SEDG K+GR+ EL   EE+ EQ+D+RTIAA+PL
Sbjct: 64  DVKPEDVSEDTLKAVAEILRNSTTLKVSEDGKKIGRATELLKPEEVVEQVDIRTIAASPL 123

Query: 122 EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG 181
           EYD K EDVEA+F Q  KVNSVRLPRHVA+KR+FCGTALIE+STEEDA KVL+Q L YAG
Sbjct: 124 EYDAKLEDVEAYFGQFAKVNSVRLPRHVAEKRVFCGTALIEYSTEEDAAKVLQQSLVYAG 183

Query: 182 VELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEG 241
           VEL LKPKK+F+AERA++TEEFE SR  +GSNRKNNSNAE+ YPKGLIV+FTLK   A G
Sbjct: 184 VELELKPKKDFDAERAQQTEEFENSRALLGSNRKNNSNAESTYPKGLIVSFTLKR--AGG 241

Query: 242 SEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEE-------- 293
           S E NG+ +P ND+ +  K + + DS +N    E+E KASEN +N E    E        
Sbjct: 242 STEHNGTHEPVNDNADVGKTNTDIDSKENVTG-ETEDKASENINNDEENSGEDIEKESEE 300

Query: 294 ----KNELDS-----EDGDKSSDGSIEKGEEK---EGKTSIDTYKDNMDVVMREDLKSVF 341
               K  L+S     EDG KSS+G   KGEEK   E K +  TYKDNMDVVMREDLKSVF
Sbjct: 301 KVEEKTSLESEGKETEDGQKSSEGCDLKGEEKATGEQKPTAATYKDNMDVVMREDLKSVF 360

Query: 342 HKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE 401
            KFGTVKF+DFKIG ESGYIR++EPE AQK RAAAVL++EGGL+VKN+IA LEPVTGEAE
Sbjct: 361 QKFGTVKFVDFKIGEESGYIRYDEPEAAQKVRAAAVLSEEGGLTVKNYIANLEPVTGEAE 420

Query: 402 KEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPG 456
           +EYWSLLRGNQE+HR  KG       +N+    K  +  D     G+  + +K G
Sbjct: 421 REYWSLLRGNQEKHRGFKGNRGRGGKQNRGG--KFGRPRDNDYATGRPNKTQKVG 473

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147819226|emb|CAN66913.1| hypothetical protein VITISV_007260 [Vitis vinifera]

 Score =  530 bits (1366), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 291/475 (61%), Positives = 355/475 (74%), Gaps = 25/475 (5%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
           AS DEET + V+RQVEFYFSDSN+P D FL+  ISES D +VSLALICSF RM+ HL+LG
Sbjct: 4   ASFDEETVKKVIRQVEFYFSDSNLPRDNFLKKTISESEDGLVSLALICSFSRMRSHLNLG 63

Query: 62  NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL 121
           +VK ED+ EDTL+AVAE LR S++LK+SEDG K+GR+ EL   EE+ EQ+++RTIAA+PL
Sbjct: 64  DVKPEDVSEDTLKAVAEILRNSTTLKVSEDGKKIGRATELLKPEEVVEQVNIRTIAASPL 123

Query: 122 EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG 181
           EYD K EDVEA+F Q  KVNSVRLPRHVA+KR+FCGTALIE+STEEDA KVL+Q L YAG
Sbjct: 124 EYDAKLEDVEAYFGQFAKVNSVRLPRHVAEKRVFCGTALIEYSTEEDAAKVLQQSLVYAG 183

Query: 182 VELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEG 241
           VEL LKPKK+F+AERA++TEEFE SR  +GSNRKNNSNAE+ YPKGLIV+FTLK   A G
Sbjct: 184 VELELKPKKDFDAERAQQTEEFENSRALLGSNRKNNSNAESTYPKGLIVSFTLKR--AGG 241

Query: 242 SEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKAS-----ENDSNGEGKVE---- 292
           S E NG+ +P ND+ +  K + + DS +N    E+E KAS     + +++GE   +    
Sbjct: 242 STEHNGTHEPXNDNADVGKTNXDIDSKENVTG-ETEDKASENXNNDEENSGEDIEKESEE 300

Query: 293 --------EKNELDSEDGDKSSDGSIEKGEEK---EGKTSIDTYKDNMDVVMREDLKSVF 341
                   E    ++EDG KSS+G   KGEEK   E K +  TYKDNMDVVMREDLKSVF
Sbjct: 301 KVEEKTSLESEGKETEDGXKSSEGCDLKGEEKATGEQKPTAATYKDNMDVVMREDLKSVF 360

Query: 342 HKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE 401
            KFGTVKF+DFKIG ESGYIR++EPE AQKARAAAVL++EGGL+VKN+IA LEPVTGEAE
Sbjct: 361 QKFGTVKFVDFKIGEESGYIRYDEPEAAQKARAAAVLSEEGGLTVKNYIANLEPVTGEAE 420

Query: 402 KEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPG 456
           +EYWSLLRGNQE+HR  KG       +N+    K  +  D     G+  + +K G
Sbjct: 421 REYWSLLRGNQEKHRGFKGNRGRGGKQNRGG--KFGRPRDNDYATGRPNKTQKVG 473

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465127|ref|XP_004150280.1| PREDICTED: uncharacterized protein LOC101204162 [Cucumis sativus] gi|449511730|ref|XP_004164038.1| PREDICTED: uncharacterized protein LOC101224341 [Cucumis sativus]

 Score =  508 bits (1309), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 275/435 (63%), Positives = 328/435 (75%), Gaps = 18/435 (4%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
            SLD+E A+ VLRQVEFYFSDSN+P D FLR  ISES D +V L+LIC+F RMK HL L 
Sbjct: 4   TSLDQEMAKKVLRQVEFYFSDSNLPRDTFLRKTISESPDGLVDLSLICTFSRMKGHLELK 63

Query: 62  -NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATP 120
            +V  E+ PEDT++AVAETLR SSSLK+SEDG KVGR+ ELP  EE+ EQLD RT+AA+P
Sbjct: 64  QDVTPENFPEDTMKAVAETLRTSSSLKVSEDGKKVGRATELPKPEELIEQLDDRTVAASP 123

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
            EYD+K EDVEAFF+Q  KVNSVRLPRHVADKR+FCGTALIEFSTEEDAEKVLK+ L YA
Sbjct: 124 FEYDIKLEDVEAFFNQVTKVNSVRLPRHVADKRVFCGTALIEFSTEEDAEKVLKESLVYA 183

Query: 181 GVELHLKPKKEFEAERAKETEEFEKSRPAVGSNR-KNNSNAEADYPKGLIVAFTLKNKSA 239
           G +L LKPK+EF+ ERAKE E+FE SR   G+NR  NNS+ EA YPKGLIVAFTLK+ S+
Sbjct: 184 GAKLELKPKREFDEERAKEMEKFESSRSTSGANRSNNNSSPEASYPKGLIVAFTLKSTSS 243

Query: 240 EGSEEKNGSLKPANDSENACKPDGEPDSSDNAA-----------AVESEQKASENDSNGE 288
             + E N S   A+ +E  CK D   DSS N +           + + E K S +D NGE
Sbjct: 244 GSTAEGNESHGVADKTE--CKTDEGLDSSKNDSEKTVQIEETNLSKDEEIKESADDKNGE 301

Query: 289 G--KVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGT 346
              K +  NE   E  ++S D ++++ EE E K +    ++NM+VV REDLK+VF KFG+
Sbjct: 302 AVEKNDSGNEKSLEVEEQSMDDTVDEHEEAEEKPTAFQSRNNMNVVSREDLKAVFRKFGS 361

Query: 347 VKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWS 406
           VKFIDFKIG ESGYIRFEEPE AQKARA+AVLA++GGL+VKNFIA LEPV+GEAEKEYWS
Sbjct: 362 VKFIDFKIGDESGYIRFEEPEAAQKARASAVLAEQGGLAVKNFIATLEPVSGEAEKEYWS 421

Query: 407 LLRGNQER-HRDVKG 420
           LLR NQE+ HRD KG
Sbjct: 422 LLRSNQEKHHRDFKG 436

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551040|ref|XP_002516568.1| lupus la ribonucleoprotein, putative [Ricinus communis] gi|223544388|gb|EEF45909.1| lupus la ribonucleoprotein, putative [Ricinus communis]

 Score =  504 bits (1299), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 278/463 (60%), Positives = 336/463 (72%), Gaps = 58/463 (12%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
           ASLDE TA+ VLRQVEFYFSDSN+P D F+R  I+ES D MVSL+LICSFK+MK +L L 
Sbjct: 4   ASLDEGTAKEVLRQVEFYFSDSNLPRDNFMRNNINESEDGMVSLSLICSFKKMKGYLKLQ 63

Query: 62  NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL 121
           +VK ED+PE T++AVA+TLRKS+SLK+SEDG KVGR A L   EE  EQLD+RTIAA+PL
Sbjct: 64  DVKPEDVPEHTVQAVADTLRKSTSLKISEDGKKVGRIAALLKPEEAIEQLDIRTIAASPL 123

Query: 122 EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG 181
           +YD K EDV++FF Q+ KV+SVR+PRHVADKR+FCG+ALIEFS EED E VLKQ L + G
Sbjct: 124 QYDAKMEDVQSFFGQYAKVSSVRMPRHVADKRVFCGSALIEFSNEEDTENVLKQSLVFKG 183

Query: 182 VELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEG 241
           V+L LKPKKEF++ER K+ EEF+ SRP  GSN KN  NAEA YPKGL+VAFTLK  SA G
Sbjct: 184 VQLELKPKKEFDSERIKQEEEFKSSRPFSGSNNKN--NAEATYPKGLVVAFTLKGVSAGG 241

Query: 242 SEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDS---------------- 285
           S E++G  +P +   NA K DGEP S +NA+  E+++K SEN S                
Sbjct: 242 SVEQDGGQEPVSVDANASKADGEPKSLENASE-ENKEKLSENISADKENDEMNIEEEKEE 300

Query: 286 ----------------NGEGKVEEKNE--LDSEDGDKSSDGSIEKGEEKEGKTS------ 321
                           N E  +EE  E  +D E+G +S      KG E EGK+S      
Sbjct: 301 KIDEENGSENVSADKENHEMNIEEVKEEKIDGENGSES------KGTETEGKSSEDPIAK 354

Query: 322 ---------IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKA 372
                     D+Y+DNM+VVMREDLK++F KFGTVK+IDFKIG ESGY+RFE+PE AQKA
Sbjct: 355 EKKKEEHVKADSYRDNMNVVMREDLKAIFEKFGTVKYIDFKIGEESGYVRFEQPEAAQKA 414

Query: 373 RAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERH 415
           RAAAVLA++GGL+VKNFIA+LEPVTGEAEKEYWSLLRGNQE+H
Sbjct: 415 RAAAVLAKDGGLAVKNFIAILEPVTGEAEKEYWSLLRGNQEKH 457

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515577|ref|XP_003526475.1| PREDICTED: lupus La protein homolog A-like [Glycine max]

 Score =  488 bits (1255), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 253/426 (59%), Positives = 326/426 (76%), Gaps = 9/426 (2%)

Query: 3   SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGN 62
           SLDEET + V+RQVEFYF DSN+ TD F+R  I+ES D M+SLALICSF RM++HL+LG+
Sbjct: 5   SLDEETTKKVIRQVEFYFGDSNLLTDGFMRNSITESEDGMISLALICSFNRMRKHLNLGD 64

Query: 63  VKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLE 122
           VK E++ +DT+ AVA+TLR S++LK+SEDG KVGR  ELP  EE+ EQ+++RT+A +P E
Sbjct: 65  VKPEEVAQDTVNAVAQTLRNSATLKVSEDGKKVGRKTELPKLEEV-EQVEIRTLAVSPFE 123

Query: 123 YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGV 182
           +D+K EDVE  F Q+ KVNSVRLP HV DK+ FCGTAL+EFS+EED EKV+K+ L YAG 
Sbjct: 124 HDLKLEDVEKLFGQYAKVNSVRLPHHVGDKKFFCGTALVEFSSEEDVEKVMKEKLVYAGA 183

Query: 183 ELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGS 242
           EL LKPKK+F+A+R KE E+++KSRP VGSN++NN+N E DYPKGLI+AF LK+ S E  
Sbjct: 184 ELELKPKKDFDADREKELEDYKKSRPPVGSNQQNNTNVEEDYPKGLIIAFKLKSISDEIP 243

Query: 243 EEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASEN--DSNGEGKVEEKNELDSE 300
            E+NG  + A D+    K D  P S   +   E++Q  +EN  D     + +E  E +SE
Sbjct: 244 SEQNGVDQQAKDNSVVSKTDENPHSEITSG--ENDQMVTENVGDDEENSETKEAKETESE 301

Query: 301 DGDKSSDGSIEKGEEKE----GKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA 356
           + +   +G + +GE+K+    GK S   YKDNMDVV REDLKSVF KFGTVK+IDFKIGA
Sbjct: 302 ENNGMKEGKVTEGEDKKRQAGGKFSAAAYKDNMDVVSREDLKSVFEKFGTVKYIDFKIGA 361

Query: 357 ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHR 416
           ESGYIRFEE E AQKARAAAV++++ GL VKN+IA+L+PVTGEAEKEYW+LLRGNQ +HR
Sbjct: 362 ESGYIRFEETEAAQKARAAAVISEKDGLVVKNYIAILDPVTGEAEKEYWNLLRGNQGKHR 421

Query: 417 DVKGEE 422
           + K ++
Sbjct: 422 EFKNKQ 427

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565784|ref|XP_003551117.1| PREDICTED: uncharacterized protein LOC100792984 [Glycine max]

 Score =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 242/415 (58%), Positives = 304/415 (73%), Gaps = 30/415 (7%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
           ASLDEETA+ V+RQVEFYFSDSN+P D FLR  ++ES D MVSLALICSF RM+ +L+LG
Sbjct: 4   ASLDEETAKKVVRQVEFYFSDSNLPRDNFLRKTVTESEDGMVSLALICSFNRMRTNLNLG 63

Query: 62  NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL 121
           +VK + + +DT++AVA+ L+ S+ +++SEDG KVGR+ EL   EE+ EQ+++RTIAA P 
Sbjct: 64  DVKLDGVTKDTVKAVAQALKNSALVRVSEDGTKVGRATELLKPEEVIEQVEIRTIAALPF 123

Query: 122 EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG 181
           EYDVK EDVE FF+Q+ KVNSVRLPRHV DK+ FCGTAL+EFS++E+ EKVLKQ L YAG
Sbjct: 124 EYDVKLEDVETFFAQYAKVNSVRLPRHVGDKKFFCGTALVEFSSDEETEKVLKQSLVYAG 183

Query: 182 VELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEG 241
            EL LK KK+F+A+R KE EE EK RP +GS  +NN+N EA+YPKGL++AF LK+ S + 
Sbjct: 184 AELQLKLKKDFDAQREKELEEQEKFRPPLGSGHQNNTNTEANYPKGLLIAFKLKSISDQV 243

Query: 242 SEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSED 301
             ++N   + ANDS N  K + + D  +N     SE K    D+ GE             
Sbjct: 244 PLDQNNIDQQANDS-NVVKDNADNDKENNGV---SEGK----DTEGE------------- 282

Query: 302 GDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYI 361
                    EK +E +GK     YKDN DVV REDLK VF KFGTVK+IDFKIG ESGYI
Sbjct: 283 ---------EKSKETDGKNYAAAYKDNNDVVSREDLKGVFEKFGTVKYIDFKIGEESGYI 333

Query: 362 RFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHR 416
           +FEEPE AQKARAAAVL+++ GL VKN+IA L+PVTGEAE+EYW+LLRGNQ + R
Sbjct: 334 QFEEPEAAQKARAAAVLSEKEGLVVKNYIATLDPVTGEAEREYWTLLRGNQGKIR 388

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507883|ref|XP_003522692.1| PREDICTED: uncharacterized protein LOC100803099 [Glycine max]

 Score =  448 bits (1153), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 258/458 (56%), Positives = 327/458 (71%), Gaps = 45/458 (9%)

Query: 3   SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGN 62
           SLDEET + V+RQVEFYF DSN+ TD F+R  I+ES D M+SLALICSF RM++HL+LG+
Sbjct: 5   SLDEETTKKVIRQVEFYFGDSNLLTDGFMRKSITESEDGMISLALICSFNRMRKHLNLGD 64

Query: 63  VKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLE 122
           VK +++ ++T+  VA+TLR S+SLK+SEDG KVGR  ELP  E++ EQ+++RT+A +P E
Sbjct: 65  VKPDEVAQETVNTVAQTLRNSASLKVSEDGKKVGRKTELPKLEDV-EQVEIRTLAVSPFE 123

Query: 123 YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGV 182
           YD+K EDVE FF Q+ KVNSVRLP HV DK+LFCGTAL+EFS+EE+ EKV+K+ + YAG 
Sbjct: 124 YDLKLEDVEKFFGQYAKVNSVRLPHHVGDKKLFCGTALVEFSSEEEVEKVMKEKMVYAGA 183

Query: 183 ELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGS 242
           EL LKPKK+F+AER KE E+++KSRP VGSN +N+SN E DYPKGLI+AF LK+ S E  
Sbjct: 184 ELELKPKKDFDAEREKELEDYKKSRPPVGSNHQNSSNVEEDYPKGLIIAFKLKSISEEIP 243

Query: 243 EEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNEL----- 297
            E+NG  + A D+    K D  P S   +   E++QK +EN     G  EEKNE+     
Sbjct: 244 SEQNGVDQQAKDNSVVSKTDENPRSEITSG--ENDQKVTEN----VGVDEEKNEMKEAKE 297

Query: 298 -----------------------------DSEDGDKSSDGSIEKGEEKEG----KTSIDT 324
                                        +SED +   +G + K EEK+     K S   
Sbjct: 298 TVNEEDNEMKEAEETESEDNTDMKEAKGTESEDNNGMKEGKVTKDEEKKQQAGEKFSAAA 357

Query: 325 YKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGL 384
           YKDNMDVV REDLKSVF KFGTVK+IDFKIGAESGYIRFEE E AQKARAAAV++++ GL
Sbjct: 358 YKDNMDVVSREDLKSVFEKFGTVKYIDFKIGAESGYIRFEETEAAQKARAAAVISEKDGL 417

Query: 385 SVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEE 422
            VKN+IA+L+PVTGEAEKEYWSLLRGNQ +HR+ K ++
Sbjct: 418 VVKNYIAILDPVTGEAEKEYWSLLRGNQGKHREFKNKQ 455

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802732|ref|XP_002869250.1| RNA recognition motif-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297315086|gb|EFH45509.1| RNA recognition motif-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  446 bits (1146), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 233/419 (55%), Positives = 304/419 (72%), Gaps = 40/419 (9%)

Query: 1   MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
           +  L EETA+ VLRQVEFYFSDSN+P D+FL+  ++ES D +VSLALICSF +M+ +L L
Sbjct: 3   IPCLTEETAKTVLRQVEFYFSDSNLPIDDFLKKTVTESEDGLVSLALICSFSKMRGYLKL 62

Query: 61  GNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATP 120
           G+ K +DIPEDT++AVA TLR SS+LK+SEDG KVGRS EL   E++ EQL+ RT+AA+P
Sbjct: 63  GDSKGDDIPEDTIKAVAATLRTSSALKISEDGKKVGRSTELLKLEDLVEQLNARTVAASP 122

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
             YDVKREDVE+FFSQ+ KVNSVR+PRHVA+ R+F G AL+EF TEE+A+ V+KQ L +A
Sbjct: 123 FSYDVKREDVESFFSQYGKVNSVRMPRHVAESRIFSGVALVEFPTEEEAQNVMKQNLVFA 182

Query: 181 GVELHLKPKKEFEAERAKETEEFEKSRPAV-------GSNRKNNSNAEADYPKGLIVAFT 233
           G EL LKPKK+F+ ER K+  +F   +P         GS+ KNNS+ E DYPKGLI++FT
Sbjct: 183 GQELELKPKKDFDNEREKDEVKFANYQPQKGSANQKNGSDHKNNSDYEPDYPKGLIISFT 242

Query: 234 LKNKSAEGSEEKNGSLKPANDS--ENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKV 291
           LK  + EG+ E+  S +  + +  E+  KP   PD+                        
Sbjct: 243 LKRSAEEGTTEQKNSEETTDKTMDESESKPADTPDA------------------------ 278

Query: 292 EEKNELDSEDGDK-SSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI 350
                 D E+ D+  + G+ ++ +EKE K ++ T+KDN DVV+REDLK+VF KFG VKF+
Sbjct: 279 ------DKENTDEVQAQGAEDEDDEKEEKGALATHKDNKDVVLREDLKAVFGKFGDVKFV 332

Query: 351 DFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLR 409
           DFK+G+E+GY+RF+EPE +QKARAAAVLA+EGGL+VKNFIAVLEPVTGEAEKEYW+LLR
Sbjct: 333 DFKMGSETGYLRFDEPEASQKARAAAVLAKEGGLAVKNFIAVLEPVTGEAEKEYWTLLR 391

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22530928|gb|AAM96968.1| putative protein [Arabidopsis thaliana] gi|23198376|gb|AAN15715.1| putative protein [Arabidopsis thaliana]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 233/418 (55%), Positives = 302/418 (72%), Gaps = 38/418 (9%)

Query: 1   MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
           +  L EETA+ VLRQVEFYFSDSN+P D+FL+  ++ES D +VSLALICSF +M+ +L L
Sbjct: 3   IPCLTEETAKTVLRQVEFYFSDSNLPIDDFLKKTVTESEDGLVSLALICSFSKMRGYLKL 62

Query: 61  GNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATP 120
           G+ K +DIPEDT++AVA+TLR SS+LK+S+DG KVGRS EL   E++ EQL+ RT+AA+P
Sbjct: 63  GDSKGDDIPEDTIKAVADTLRTSSALKISDDGKKVGRSTELLKLEDLIEQLNARTVAASP 122

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
             YDVKREDVE+FFSQ+ KVNSVR+PRHVA+ R+F G AL+EF TEEDA+ V+KQ L +A
Sbjct: 123 FSYDVKREDVESFFSQYGKVNSVRMPRHVAESRIFSGVALVEFPTEEDAQNVMKQNLVFA 182

Query: 181 GVELHLKPKKEFEAERAKETEEFEKSRPAV-------GSNRKNNSNAEADYPKGLIVAFT 233
           G EL LKPKKEF+ ER K+  +F   +P         GS+ KNNS  E DYPKGLI++FT
Sbjct: 183 GQELELKPKKEFDNEREKDEVKFANYQPQKGSANQKNGSDHKNNSAYEQDYPKGLIISFT 242

Query: 234 LKNKSAEGSEEKNGSLKPANDS--ENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKV 291
           LK  + EG+ E+  S +P + +  E+  KP   PD+                D    G+V
Sbjct: 243 LKRSAEEGTTEQKSSEEPTDKTMEESETKPADTPDA----------------DKENTGEV 286

Query: 292 EEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID 351
           + +              + ++ +EKE K ++ T+KDN DVV+REDLK+VF KFG VKF+D
Sbjct: 287 QAEG-------------AEDEDDEKEEKGALATHKDNKDVVLREDLKAVFGKFGDVKFVD 333

Query: 352 FKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLR 409
           FK+G+E+GY+RF+EPE +QKARAAAVLA EGGL+VKNFIAVLEPV GEAEKEYW+LLR
Sbjct: 334 FKMGSETGYLRFDEPEASQKARAAAVLANEGGLAVKNFIAVLEPVIGEAEKEYWTLLR 391

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18418072|ref|NP_567904.1| La protein 1 [Arabidopsis thaliana] gi|15810397|gb|AAL07086.1| unknown protein [Arabidopsis thaliana] gi|332660709|gb|AEE86109.1| La protein 1 [Arabidopsis thaliana]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 233/418 (55%), Positives = 302/418 (72%), Gaps = 38/418 (9%)

Query: 1   MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
           +  L EETA+ VLRQVEFYFSDSN+P D+FL+  ++ES D +VSLALICSF +M+ +L L
Sbjct: 3   IPCLTEETAKTVLRQVEFYFSDSNLPIDDFLKKTVTESEDGLVSLALICSFSKMRGYLKL 62

Query: 61  GNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATP 120
           G+ K +DIPEDT++AVA+TLR SS+LK+S+DG KVGRS EL   E++ EQL+ RT+AA+P
Sbjct: 63  GDSKGDDIPEDTIKAVADTLRTSSALKISDDGKKVGRSTELLKLEDLIEQLNARTVAASP 122

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
             YDVKREDVE+FFSQ+ KVNSVR+PRHVA+ R+F G AL+EF TEEDA+ V+KQ L +A
Sbjct: 123 FSYDVKREDVESFFSQYGKVNSVRMPRHVAESRIFSGVALVEFPTEEDAQNVMKQNLVFA 182

Query: 181 GVELHLKPKKEFEAERAKETEEFEKSRPAV-------GSNRKNNSNAEADYPKGLIVAFT 233
           G EL LKPKKEF+ ER K+  +F   +P         GS+ KNNS  E DYPKGLI++FT
Sbjct: 183 GQELELKPKKEFDNEREKDEVKFANYQPQKGSANQKNGSDHKNNSAYEPDYPKGLIISFT 242

Query: 234 LKNKSAEGSEEKNGSLKPANDS--ENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKV 291
           LK  + EG+ E+  S +P + +  E+  KP   PD+                D    G+V
Sbjct: 243 LKRSAEEGTTEQKSSEEPTDKTMEESETKPADTPDA----------------DKENTGEV 286

Query: 292 EEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID 351
           + +              + ++ +EKE K ++ T+KDN DVV+REDLK+VF KFG VKF+D
Sbjct: 287 QAEG-------------AEDEDDEKEEKGALATHKDNKDVVLREDLKAVFGKFGDVKFVD 333

Query: 352 FKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLR 409
           FK+G+E+GY+RF+EPE +QKARAAAVLA EGGL+VKNFIAVLEPV GEAEKEYW+LLR
Sbjct: 334 FKMGSETGYLRFDEPEASQKARAAAVLANEGGLAVKNFIAVLEPVIGEAEKEYWTLLR 391

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	498
TAIR|locus:2125702	433	La1 "La protein 1" [Arabidopsi	0.572	0.658	0.522	7.3e-105
TAIR|locus:2017809	399	La2 "La protein 2" [Arabidopsi	0.520	0.649	0.440	8.7e-67
DICTYBASE|DDB_G0281763	354	DDB_G0281763 "Lupus La protein	0.174	0.245	0.424	4.4e-17
SGD|S000002209	275	LHP1 "RNA binding protein requ	0.449	0.814	0.318	1.2e-16
CGD|CAL0004304	324	orf19.2795 [Candida albicans (	0.307	0.472	0.352	2.3e-14
WB|WBGene00016653	396	C44E4.4 [Caenorhabditis elegan	0.433	0.545	0.263	3.7e-14
UNIPROTKB|P05455	408	SSB "Lupus La protein" [Homo s	0.335	0.409	0.25	9.8e-14
UNIPROTKB|E2RH09	406	SSB "Uncharacterized protein"	0.309	0.379	0.252	1.4e-13
ZFIN|ZDB-GENE-030131-6896	555	larp7 "La ribonucleoprotein do	0.295	0.264	0.282	3.4e-13
UNIPROTKB|F1NYE7	404	SSB "Uncharacterized protein"	0.291	0.358	0.248	4.3e-13

TAIR|locus:2125702 La1 "La protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 742 (266.3 bits), Expect = 7.3e-105, Sum P(2) = 7.3e-105
 Identities = 154/295 (52%), Positives = 202/295 (68%)

Query:     4 LDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNV 63
             L EETA+ VLRQVEFYFSDSN+P D+FL+  ++ES D +VSLALICSF +M+ +L LG+ 
Sbjct:     6 LTEETAKTVLRQVEFYFSDSNLPIDDFLKKTVTESEDGLVSLALICSFSKMRGYLKLGDS 65

Query:    64 KSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEY 123
             K +DIPEDT++AVA+TLR SS+LK+S+DG KVGRS EL   E++ EQL+ RT+AA+P  Y
Sbjct:    66 KGDDIPEDTIKAVADTLRTSSALKISDDGKKVGRSTELLKLEDLIEQLNARTVAASPFSY 125

Query:   124 DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVE 183
             DVKREDVE+FFSQ+ KVNSVR+PRHVA+ R+F G AL+EF TEEDA+ V+KQ L +AG E
Sbjct:   126 DVKREDVESFFSQYGKVNSVRMPRHVAESRIFSGVALVEFPTEEDAQNVMKQNLVFAGQE 185

Query:   184 LHLXXXXXXXXXXXXXXXXXXXSRPAVGS-------NRKNNSNAEADYPKGLIVAFTLKN 236
             L L                    +P  GS       + KNNS  E DYPKGLI++FTLK 
Sbjct:   186 LELKPKKEFDNEREKDEVKFANYQPQKGSANQKNGSDHKNNSAYEPDYPKGLIISFTLKR 245

Query:   237 KSAEGSEEKNGSLKPANDS--ENACKPDGEPDSS-DNAAAVESEQKASENDSNGE 288
              + EG+ E+  S +P + +  E+  KP   PD+  +N   V++E    E+D   E
Sbjct:   246 SAEEGTTEQKSSEEPTDKTMEESETKPADTPDADKENTGEVQAEGAEDEDDEKEE 300

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0006396 "RNA processing" evidence=IEA

GO:0005618 "cell wall" evidence=IDA

GO:0005654 "nucleoplasm" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0000478 "endonucleolytic cleavage involved in rRNA processing" evidence=RCA

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

GO:0006606 "protein import into nucleus" evidence=RCA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009561 "megagametogenesis" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

TAIR|locus:2017809 La2 "La protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 547 (197.6 bits), Expect = 8.7e-67, Sum P(2) = 8.7e-67
 Identities = 123/279 (44%), Positives = 172/279 (61%)

Query:     2 ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
             +S +EETA+ +L QVEFYFSDSN+PTD FL  ++++S D +VSL L+CSF RM+  L LG
Sbjct:     3 SSFNEETAKKLLTQVEFYFSDSNLPTDGFLNREVTKSKDGLVSLPLVCSFSRMRNLLGLG 62

Query:    62 NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPL 121
             N+  EDIP   +E VA  LR S  LK+S +G ++GR  +L   EE+ EQ+  RT+AA+P 
Sbjct:    63 NINREDIPPRIVEEVANLLRTSDFLKVSNNGQRIGRGTKLSKPEEVLEQVHRRTLAASPF 122

Query:   122 EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG 181
             EY +K EDV +FFSQ+ KVNSVRLP ++ADKR FCGTAL+EFS+E+D + +L+Q L YAG
Sbjct:   123 EYSIKMEDVSSFFSQYAKVNSVRLPPNIADKRRFCGTALVEFSSEQDTQDILRQSLVYAG 182

Query:   182 VELHLXXXXXXXXXXXXXXXXXXXSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEG 241
              +L L                       +G +  +N     ++ +G IV F LK  ++E 
Sbjct:   183 ADLVLIPKSDFDCQRENMIKQ-------LGKSESHN-----EFRRGQIVKFALKWIASEE 230

Query:   242 ---SEEKNGSLK----PANDSENACKPDGEPDSSDNAAA 273
                ++EK  +LK       D E     D E ++ DN+ A
Sbjct:   231 KVTNKEKPSALKNKIKEKEDKETGIA-DREKENGDNSCA 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

GO:0009410 "response to xenobiotic stimulus" evidence=RCA

GO:0048522 "positive regulation of cellular process" evidence=RCA

DICTYBASE|DDB_G0281763 DDB_G0281763 "Lupus La protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 179 (68.1 bits), Expect = 4.4e-17, Sum P(4) = 4.4e-17
 Identities = 42/99 (42%), Positives = 61/99 (61%)

Query:     4 LDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNV 63
             + EET+  +L+QVE+YFSDSN P D+FLR + +++ D  +S+ +I SF RMK        
Sbjct:     1 MSEETSTQILKQVEYYFSDSNFPRDKFLRSEAAKNVDNYISIDVIASFNRMKT------- 53

Query:    64 KSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELP 102
                 I  D L+ + E L+KS+ L++SEDG  V R   LP
Sbjct:    54 ----ISTD-LQLITEALKKSTRLQVSEDGKMVRRLDPLP 87

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

SGD|S000002209 LHP1 "RNA binding protein required for maturation of tRNA and U6 snRNA" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 212 (79.7 bits), Expect = 1.2e-16, P = 1.2e-16
 Identities = 86/270 (31%), Positives = 123/270 (45%)

Query:     7 ETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSE 66
             E     L+QVEFYFS+ N P D FLR   +E +D  V ++ I +F RMK++         
Sbjct:    28 EVLDRCLKQVEFYFSEFNFPYDRFLR-TTAEKNDGWVPISTIATFNRMKKYR-------- 78

Query:    67 DIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSA--ELPTAEEMKEQLDVRTIAATPLEY- 123
               P D    V E LR S  L++S DG  V R    +L  A   + + + RT+A     + 
Sbjct:    79 --PVDK---VIEALRSSEILEVSADGENVKRRVPLDLTAARNARIEQNQRTLAVMNFPHE 133

Query:   124 DVK-------REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-- 174
             DV+       +E++EAFF +  ++N VRL R   +K+ F GT L+EF T  + E  LK  
Sbjct:   134 DVEASQIPELQENLEAFFKKLGEINQVRLRRDHRNKK-FNGTVLVEFKTIPECEAFLKSY 192

Query:   175 -------QGLFYAGVELHLXXXXXXXXXXXXXXXXXXXSRPAVGSNRKNNSNAEADYPKG 227
                    + L Y G +L +                   S+   G +R  N + + + PK 
Sbjct:   193 SNDDESNEILSYEGKKLSVLTKKQFDLQREASK-----SKNFSGRSRSFNGHKKKNLPK- 246

Query:   228 LIVAFTLKNKSAEGSEE-KNGSLKPANDSE 256
                 F  KNK   G EE K  S   A+D E
Sbjct:   247 ----FP-KNKKKNGKEESKEDSSAIADDDE 271

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

GO:0000049 "tRNA binding" evidence=IDA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;IDA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005654 "nucleoplasm" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0008033 "tRNA processing" evidence=IMP

CGD|CAL0004304 orf19.2795 [Candida albicans (taxid:5476)]

 Score = 191 (72.3 bits), Expect = 2.3e-14, Sum P(3) = 2.3e-14
 Identities = 62/176 (35%), Positives = 89/176 (50%)

Query:     6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKS 65
             E+  + V +QVEFYFSDSN+ TD+FL  KI ES+D  V L  I +F RM+++        
Sbjct:     9 EDFDEKVRKQVEFYFSDSNLQTDKFL-WKIYESNDGWVELKTILTFGRMRQYR------- 60

Query:    66 EDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDV 125
                PED    V   L++S  L LS +   + R   +    E+K      TI       D+
Sbjct:    61 ---PEDK---VISALKESKKLVLSANNDMIRRKDPIKDFNEVKNTRKRNTIHIEGFPKDL 114

Query:   126 KREDVEAFFSQHV--------KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
              ++DVE + ++ V        +V S+R  +  A K  F G   IEF T+EDAE +L
Sbjct:   115 SQDDVENWVNEKVIVQLPKEKEVCSIRRIKSRAKKEFF-GVVDIEFKTQEDAEFIL 169

GO:0005654 "nucleoplasm" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0000049 "tRNA binding" evidence=IEA

GO:0031137 "regulation of conjugation with cellular fusion" evidence=IEA

GO:0034307 "regulation of ascospore formation" evidence=IEA

GO:0042779 "tRNA 3'-trailer cleavage" evidence=IEA

WB|WBGene00016653 C44E4.4 [Caenorhabditis elegans (taxid:6239)]

 Score = 188 (71.2 bits), Expect = 3.7e-14, Sum P(2) = 3.7e-14
 Identities = 64/243 (26%), Positives = 111/243 (45%)

Query:     2 ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
             A++ ++  Q +++Q+E+YF + N+P D+FL+ K+ E  D  V +  + +F R+       
Sbjct:     6 AAVHDDADQKIIKQLEYYFGNINLPRDKFLQEKLKED-DGWVPITTMLNFNRLAS----- 59

Query:    62 NVKSEDIPEDTLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRTI 116
                   I +DT E +A  ++ S S  + +SED  K+ R+ E P  E   E  +++  RT+
Sbjct:    60 ------ISKDT-EKIANAVKNSGSGIISVSEDNQKIRRNEENPVPENSLEYWQKIKHRTV 112

Query:   117 AATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQG 176
                    D + +D+  + +Q  +  +V + R     R F G+  I + T E+AE   K  
Sbjct:   113 YMKGFSTDTQLDDIIQWANQFGETENVLMRRLKPGDRTFKGSVFITYKTREEAEAAQKAE 172

Query:   177 LFYAGVELHLXXXXXXXXXXXXXXXXXXXSRPAVGSNRKNNSNA-EAD-------YPKGL 228
             + +   EL                     +  A  S  KN S A E++       Y KGL
Sbjct:   173 VKFGETELTKMMQDEYWTLKNKETKEARAANKAAKS-AKNTSEAIESEKAQHAVRYEKGL 231

Query:   229 IVA 231
             I+A
Sbjct:   232 ILA 234

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

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

GO:0018991 "oviposition" evidence=IMP

GO:0008406 "gonad development" evidence=IMP

GO:0040027 "negative regulation of vulval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

UNIPROTKB|P05455 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 138 (53.6 bits), Expect = 9.8e-14, Sum P(2) = 9.8e-14
 Identities = 47/188 (25%), Positives = 93/188 (49%)

Query:     1 MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
             MA+L+ +    +  Q+E+YF D N+P D+FL+ +I +  +  V L ++  F R+      
Sbjct:    10 MAALEAK----ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIMIKFNRLNRLTTD 64

Query:    61 GNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIA 117
              NV         +EA++++  K+  +++SED  K+ RS   P  E   E K  +  R++ 
Sbjct:    65 FNV--------IVEALSKS--KAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVY 114

Query:   118 ATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-G 176
                   D   +D++ +     +V ++++ R +   + F G+  + F + E A+K ++  G
Sbjct:   115 IKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL--HKAFKGSIFVVFDSIESAKKFVETPG 172

Query:   177 LFYAGVEL 184
               Y   +L
Sbjct:   173 QKYKETDL 180

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000049 "tRNA binding" evidence=TAS

GO:0003729 "mRNA binding" evidence=TAS

GO:0006400 "tRNA modification" evidence=TAS

GO:0008334 "histone mRNA metabolic process" evidence=TAS

UNIPROTKB|E2RH09 SSB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 131 (51.2 bits), Expect = 1.4e-13, Sum P(2) = 1.4e-13
 Identities = 44/174 (25%), Positives = 85/174 (48%)

Query:     1 MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
             MA+L+ +    +  Q+E+YF D N+P D+FL+ +I +  +  V L ++  F R+      
Sbjct:    10 MAALEAK----ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIMIKFNRLNRLTTD 64

Query:    61 GNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIA 117
              NV         +EA++++  K+  +++SED  K+ RS   P  E   E K  +  R++ 
Sbjct:    65 FNV--------IVEALSKS--KAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVY 114

Query:   118 ATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEK 171
                   D   +D++ +     +V ++++ R +   + F G+    F + E A K
Sbjct:   115 IKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL--HKAFKGSIFAVFDSIESARK 166

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 170 (64.9 bits), Expect = 3.4e-13, Sum P(3) = 3.4e-13
 Identities = 46/163 (28%), Positives = 88/163 (53%)

Query:    12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
             V +QVEF+F D N+  D F++  I +S D  + +A++ +F RMK      N+ ++     
Sbjct:    46 VKKQVEFWFGDVNLHKDRFMKSIIEQSRDGYIDIAVLTTFNRMK------NLTAD----- 94

Query:    72 TLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVE 131
              ++ +A  L+ S+ ++++++G ++ R    P  E  K+ +D RT+    L   V    +E
Sbjct:    95 -VKLIARALKNSTIVEVNDEGTRIRRKE--PLGETPKD-VDSRTVYVELLPKTVTHIWLE 150

Query:   132 AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
               FS+   V  + +PR+ + +    G A +EF T+E A+K ++
Sbjct:   151 RVFSKCGHVVYISIPRYKSTRHSK-GFAFVEFETQEQAQKAVE 192

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1NYE7 SSB "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 135 (52.6 bits), Expect = 4.3e-13, Sum P(2) = 4.3e-13
 Identities = 41/165 (24%), Positives = 80/165 (48%)

Query:    12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
             + +Q+E+YF + N+P D+FL+ +I +  D  V L ++  F R+          S+D    
Sbjct:    17 ICQQIEYYFGNHNLPRDKFLKEQI-KLDDGWVPLEVMIKFNRLSR-------LSKDFG-- 66

Query:    72 TLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAATPLEYDVK 126
                 + E LRKS +  ++++ED  K+ RS   P  E   + K  +  R++       D  
Sbjct:    67 ---VIVEALRKSKTGLMEINEDKTKIRRSPNKPLPELNDQYKAAIKNRSVYVKGFPLDAT 123

Query:   127 REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEK 171
              +D++ +      V ++++ R +  ++ F G+    F + E A+K
Sbjct:   124 LDDIKEWLEDKGPVENIQMRRTL--QKTFKGSIFAVFDSVESAKK 166

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" 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	498
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	6e-36
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	4e-21
pfam08777	102	pfam08777, RRM_3, RNA binding motif	1e-19
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	7e-19
cd12292	75	cd12292, RRM2_La_like, RNA recognition motif 2 in	3e-18
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	2e-17
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	8e-17
pfam05383	59	pfam05383, La, La domain	2e-14
cd12541	76	cd12541, RRM2_La, RNA recognition motif 2 in La au	4e-09
cd12291	72	cd12291, RRM1_La, RNA recognition motif 1 in La au	5e-09
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	5e-09
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	1e-08
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	5e-08
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-08
smart00360	73	smart00360, RRM, RNA recognition motif	3e-07
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	3e-06
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	8e-06
cd12542	78	cd12542, RRM2_LARP7, RNA recognition motif 2 in La	1e-05
cd12400	74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	2e-05
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	2e-05
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	2e-05
cd12290	80	cd12290, RRM1_LARP7, RNA recognition motif 1 in La	4e-05
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-04
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	5e-04
smart00360	73	smart00360, RRM, RNA recognition motif	8e-04
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	8e-04
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.002
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	0.002
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	0.002
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	0.002
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	0.002
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	0.003
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	0.003
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.003

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

 Score =  128 bits (323), Expect = 6e-36
 Identities = 59/90 (65%), Positives = 70/90 (77%)

Query: 8  TAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSED 67
          T + VLRQVEFYFSDSN+P D+FL  ++ E  D MVSLALICSF RM+  L LG  K ED
Sbjct: 1  TKEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPED 60

Query: 68 IPEDTLEAVAETLRKSSSLKLSEDGMKVGR 97
          +PEDTL+AVAE LR S+ LK+SEDG +VGR
Sbjct: 61 VPEDTLKAVAEALRTSTLLKVSEDGKRVGR 90

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

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

 Score = 86.9 bits (216), Expect = 4e-21
 Identities = 39/93 (41%), Positives = 56/93 (60%), Gaps = 13/93 (13%)

Query: 6  EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKS 65
          EE  Q + +QVE+YFSD N+P D+FLR K+ + +D  V ++ I SFKR+K  L      +
Sbjct: 1  EELKQKIKKQVEYYFSDENLPRDKFLRKKMDK-NDGYVPISTIASFKRVK-SL------T 52

Query: 66 EDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRS 98
           D+       + E LR S  L++SEDG+KV R 
Sbjct: 53 TDV-----NLIVEALRSSPKLEVSEDGLKVRRR 80

Length = 80

>gnl|CDD|220013 pfam08777, RRM_3, RNA binding motif

 Score = 83.6 bits (207), Expect = 1e-19
 Identities = 35/90 (38%), Positives = 50/90 (55%), Gaps = 3/90 (3%)

Query: 334 REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL 393
           RED+K  F + G VK++DF  G + GY+RF+ PE A+KA   A  A    L +K     L
Sbjct: 15  REDIKEAFSQHGEVKYVDFLEGDKEGYVRFKTPEAAKKALEKATEA---KLKIKEAEVTL 71

Query: 394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEK 423
           E + GE EKEYW  +  +Q+   +   E+ 
Sbjct: 72  ELLEGEEEKEYWKKIIEDQQAKLNNPREKG 101

This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif. Length = 102

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

 Score = 80.4 bits (199), Expect = 7e-19
 Identities = 38/86 (44%), Positives = 49/86 (56%), Gaps = 13/86 (15%)

Query: 12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
          + +QVEFYFSDSN+PTD+FL      S++  V +  I SFKRM+                
Sbjct: 4  IRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRF-------------Q 50

Query: 72 TLEAVAETLRKSSSLKLSEDGMKVGR 97
           LEAV E LR+S  L++SEDG  V R
Sbjct: 51 PLEAVVEALRESELLEVSEDGENVRR 76

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

>gnl|CDD|240738 cd12292, RRM2_La_like, RNA recognition motif 2 in La autoantigen (La or SS-B or LARP3), La-related protein 7 (LARP7 or PIP7S) and similar proteins

 Score = 78.9 bits (195), Expect = 3e-18
 Identities = 34/65 (52%), Positives = 45/65 (69%)

Query: 330 DVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF 389
             V RED+K+VF +FG VK++DF  GA++GYIRF+ PE AQKAR A V   EG L  +  
Sbjct: 11  PGVTREDIKAVFAQFGEVKYVDFTEGADTGYIRFKTPEAAQKAREAFVEKGEGLLGKEIK 70

Query: 390 IAVLE 394
           ++ LE
Sbjct: 71  LSALE 75

This subfamily corresponds to the RRM2 of La and LARP7. La is a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. LARP7 is an oligopyrimidine-binding protein that binds to the highly conserved 3'-terminal U-rich stretch (3' -UUU-OH) of 7SK RNA. It is a stable component of the 7SK small nuclear ribonucleoprotein (7SK snRNP), intimately associates with all the nuclear 7SK and is required for 7SK stability. LARP7 also acts as a negative transcriptional regulator of cellular and viral polymerase II genes, acting by means of the 7SK snRNP system. LARP7 plays an essential role in the inhibition of positive transcription elongation factor b (P-TEFb)-dependent transcription, which has been linked to the global control of cell growth and tumorigenesis. Both La and LARP7 contain an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 75

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

 Score = 76.4 bits (189), Expect = 2e-17
 Identities = 33/88 (37%), Positives = 48/88 (54%), Gaps = 14/88 (15%)

Query: 10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
          + + +QVE+YFSD N+  D FLR  +    D  V L+L+ SF R+K+             
Sbjct: 2  EKIKKQVEYYFSDENLCKDRFLRSLM--DDDGWVPLSLLASFNRVKKLT----------- 48

Query: 70 EDTLEAVAETLRKSSSLKLSEDGMKVGR 97
             +E + E LR SS +++SEDG KV R
Sbjct: 49 -TDVELILEALRDSSVVEVSEDGTKVRR 75

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

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

 Score = 74.6 bits (184), Expect = 8e-17
 Identities = 34/89 (38%), Positives = 47/89 (52%), Gaps = 12/89 (13%)

Query: 9  AQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDI 68
           Q +++QVE+YFSD N+  D FL   +  + +  V + LI SFK++K    L        
Sbjct: 1  IQKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVK---ALTR------ 51

Query: 69 PEDTLEAVAETLRKSSSLKLSEDGMKVGR 97
                 VA  LR+SS L +SEDG KV R
Sbjct: 52 ---DWRVVAAALRRSSKLVVSEDGKKVRR 77

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

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

 Score = 67.2 bits (165), Expect = 2e-14
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 13/72 (18%)

Query: 12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
          + +QVE+YFSD N+P D+FLR ++ +     V ++ I SFKR+K    L           
Sbjct: 1  IKKQVEYYFSDENLPRDKFLRKQM-DKDPGYVPISTIASFKRIK---KLTT--------- 47

Query: 72 TLEAVAETLRKS 83
           +  + E LR S
Sbjct: 48 DVNLIVEALRSS 59

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

>gnl|CDD|240985 cd12541, RRM2_La, RNA recognition motif 2 in La autoantigen (La or LARP3) and similar proteins

 Score = 52.6 bits (127), Expect = 4e-09
 Identities = 19/43 (44%), Positives = 26/43 (60%)

Query: 334 REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAA 376
           REDLK  F +FG V ++DF  G   GY+RF+E   A++A    
Sbjct: 15  REDLKEAFEEFGEVAWVDFARGQTEGYVRFKEENAAKEALEKL 57

This subgroup corresponds to the RRM2 of La autoantigen, also termed Lupus La protein, or La ribonucleoprotein, or Sjoegren syndrome type B antigen (SS-B), a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. La contains an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). In addition, it possesses a short basic motif (SBM) and a nuclear localization signal (NLS) at the C-terminus. . Length = 76

>gnl|CDD|240737 cd12291, RRM1_La, RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

 Score = 52.6 bits (127), Expect = 5e-09
 Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 3/71 (4%)

Query: 115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL- 173
           T+       D   +D++ FF +  KVN++R+ R     + F G+  +EF TEEDA+K L 
Sbjct: 1   TVYVKGFPKDATLDDIQEFFEKFGKVNNIRMRRD--LDKKFKGSVFVEFKTEEDAKKFLE 58

Query: 174 KQGLFYAGVEL 184
           K+ L Y   EL
Sbjct: 59  KEKLKYKEKEL 69

This subfamily corresponds to the RRM1 of La autoantigen, also termed Lupus La protein, or La ribonucleoprotein, or Sjoegren syndrome type B antigen (SS-B), a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. La contains an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It also possesses a short basic motif (SBM) and a nuclear localization signal (NLS) at the C-terminus. . Length = 72

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

 Score = 52.2 bits (126), Expect = 5e-09
 Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 3/53 (5%)

Query: 123 YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
             V  ED+  FFS + KV  VRL R+   K    G A +EF++ EDAE  LK+
Sbjct: 8   PSVTEEDLREFFSPYGKVEGVRLVRN---KDRPRGFAFVEFASPEDAEAALKK 57

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

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

 Score = 51.5 bits (124), Expect = 1e-08
 Identities = 31/90 (34%), Positives = 51/90 (56%), Gaps = 15/90 (16%)

Query: 10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
          + ++RQ+E+YF D N+P D+FL+ +I E  D  V + ++  F R+K         S D  
Sbjct: 6  KKIIRQIEYYFGDFNLPRDKFLKEQIKE-DDGWVPMEVMLKFNRLKS-------LSSD-- 55

Query: 70 EDTLEAVAETLRKSSS--LKLSEDGMKVGR 97
              E +A+ L+KS S  +++SED  K+ R
Sbjct: 56 ---PEVIAKALKKSKSGLIEVSEDKTKIRR 82

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

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

 Score = 49.9 bits (119), Expect = 5e-08
 Identities = 26/86 (30%), Positives = 49/86 (56%), Gaps = 12/86 (13%)

Query: 12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
          + +QV+F+F D N+  D FLR +I +S D  + ++L+ SF +MK+           +  D
Sbjct: 9  IAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKK-----------LTTD 57

Query: 72 TLEAVAETLRKSSSLKLSEDGMKVGR 97
            + +A  L+ SS ++L+ +G ++ R
Sbjct: 58 G-KLIARALKNSSVVELNLEGTRIRR 82

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

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

 Score = 49.2 bits (118), Expect = 7e-08
 Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLF 178
           L  D   ED+   FS+  ++ SVR+ R         G A +EF + EDAEK L+   G  
Sbjct: 6   LPPDTTEEDLRELFSKFGEIESVRIVRD--KDGKSKGFAFVEFESPEDAEKALEALNGKE 63

Query: 179 YAGVELHLK 187
             G +L + 
Sbjct: 64  LDGRKLKVS 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 = 47.2 bits (113), Expect = 3e-07
 Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L  D   E++   FS+  KV SVRL R     +   G A +EF +EEDAEK L+
Sbjct: 7   LPPDTTEEELRELFSKFGKVESVRLVRDKETGK-SKGFAFVEFESEEDAEKALE 59

Length = 73

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

 Score = 44.7 bits (106), Expect = 3e-06
 Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 3/74 (4%)

Query: 10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
          + + +Q+E+YFS  N+  D FLR K+    +  + +ALI SF R++      N+  E + 
Sbjct: 2  EYIKKQIEYYFSVDNLEKDFFLRRKMDP--EGYLPIALIASFHRVQALTTDVNLILEALK 59

Query: 70 EDT-LEAVAETLRK 82
          + T +E V E +R 
Sbjct: 60 DSTVVELVDEKVRC 73

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

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

 Score = 43.5 bits (103), Expect = 8e-06
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L +D   + +   F ++ +++SVRLP      R   G   +EFS++E A+  L 
Sbjct: 6   LSFDADEDSIYEAFGEYGEISSVRLPTDPDSGR-PKGFGYVEFSSQEAAQAALD 58

This subfamily corresponds to the RRM2 of yeast protein gar2, a novel nucleolar protein required for 18S rRNA and 40S ribosomal subunit accumulation. It shares similar domain architecture with nucleolin from vertebrates and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of gar2 is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of gar2 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RGG (or GAR) domain of gar2 is rich in glycine, arginine and phenylalanine residues. . Length = 73

>gnl|CDD|240986 cd12542, RRM2_LARP7, RNA recognition motif 2 in La-related protein 7 (LARP7) and similar proteins

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 16/75 (21%)

Query: 334 REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV- 392
           R++ K        V ++D K G    Y+RF+ PE AQK              VK      
Sbjct: 15  RKEFKDELKDHADVAYVDVKEGDTEAYVRFKTPEAAQKV-------------VKQESKEK 61

Query: 393 --LEPVTGEAEKEYW 405
             LE ++G+ EK YW
Sbjct: 62  GSLEILSGDEEKRYW 76

This subgroup corresponds to the RRM2 of LARP7, also termed La ribonucleoprotein domain family member 7, or P-TEFb-interaction protein for 7SK stability (PIP7S), an oligopyrimidine-binding protein that binds to the highly conserved 3'-terminal U-rich stretch (3' -UUU-OH) of 7SK RNA. LARP7 is a stable component of the 7SK small nuclear ribonucleoprotein (7SK snRNP). It intimately associates with all the nuclear 7SK and is required for 7SK stability. LARP7 also acts as a negative transcriptional regulator of cellular and viral polymerase II genes, acting by means of the 7SK snRNP system. LARP7 plays an essential role in the inhibition of positive transcription elongation factor b (P-TEFb)-dependent transcription, which has been linked to the global control of cell growth and tumorigenesis. LARP7 contains a La motif (LAM) and an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), at the N-terminal region, which mediates binding to the U-rich 3' terminus of 7SK RNA. LARP7 also carries another putative RRM domain at its C-terminus. . Length = 78

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

 Score = 42.3 bits (100), Expect = 2e-05
 Identities = 20/55 (36%), Positives = 23/55 (41%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L YD   ED+ A F       SVRL       +   G A +EF T E   K LK 
Sbjct: 8   LPYDTTAEDLLAHFKNAGAPPSVRLLTDKKTGK-SKGCAFVEFDTAEAMTKALKL 61

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

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

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
           L +D   E+++  FSQ  +V   R+ +         GTA ++F T+E A+K L+      
Sbjct: 8   LPFDATEEELKELFSQFGEVKYARIVKD-KLTGHSKGTAFVKFKTKESAQKCLEAADNAE 66

Query: 181 GVELHL 186
              L L
Sbjct: 67  DSGLSL 72

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

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

 Score = 42.2 bits (100), Expect = 2e-05
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 3/56 (5%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L +    ED+  FFS   +  + + +     D     G A +EF++ EDA + L++
Sbjct: 7   LPFSATEEDIRDFFSGLDIPPDGIHI--VYDDDGRPTGEAYVEFASPEDARRALRK 60

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

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

 Score = 42.0 bits (99), Expect = 4e-05
 Identities = 22/84 (26%), Positives = 33/84 (39%), Gaps = 4/84 (4%)

Query: 115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           T+    L  +   E ++A FS++  V  V LPR+     +  G A IEF T E+A+K  K
Sbjct: 1   TVYVECLPKNATHEWLKAVFSKYGTVVYVSLPRYKHTGDI-KGFAFIEFETPEEAQKACK 59

Query: 175 QGLFYAGVELHLKPKKEFEAERAK 198
                         K     +   
Sbjct: 60  ---HLNNPPETATDKPGKFPKTVA 80

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

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

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L  D   ED++  FS+   + S+R+ R    +    G A +EF  EEDAEK L+ 
Sbjct: 6   LPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSK--GFAFVEFEDEEDAEKALEA 58

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

>gnl|CDD|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2

 Score = 38.4 bits (89), Expect = 5e-04
 Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 14 RQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDT- 72
          RQ+E+YFS  N+  D FLR K+       + ++LI  F R++      ++  E + + T 
Sbjct: 6  RQIEYYFSTENLERDFFLRRKMDLQ--GFLPISLIAGFYRVQALTTNVDLILEALKDSTE 63

Query: 73 LEAVAETLRK 82
          +E V + +R+
Sbjct: 64 VEIVDQKIRR 73

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

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

 Score = 37.6 bits (88), Expect = 8e-04
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 6/47 (12%)

Query: 335 EDLKSVFHKFGTVKFIDFKIGAESG------YIRFEEPEGAQKARAA 375
           E+L+ +F KFG V+ +      E+G      ++ FE  E A+KA  A
Sbjct: 14  EELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Length = 73

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

 Score = 38.0 bits (88), Expect = 8e-04
 Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 2/42 (4%)

Query: 14 RQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMK 55
          RQ+E+YFS  N+  D FLR K+ E  D  + + LI SF R++
Sbjct: 6  RQIEYYFSVDNLERDFFLRRKMDE--DGFLPVTLIASFHRVQ 45

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

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

 Score = 36.9 bits (86), Expect = 0.002
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 5/47 (10%)

Query: 334 REDLKSVFHKFGTVKFIDFKIGAE-----SGYIRFEEPEGAQKARAA 375
            EDL+ +F KFG ++ +      +       ++ FE PE A+KA  A
Sbjct: 12  EEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEA 58

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

 Score = 40.3 bits (93), Expect = 0.002
 Identities = 35/156 (22%), Positives = 54/156 (34%), Gaps = 9/156 (5%)

Query: 114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
            T+    L YDV  ED+   F +   V  VRL R     +   G A +EF +EE AEK +
Sbjct: 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGK-SRGFAFVEFESEESAEKAI 174

Query: 174 K--QGLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVA 231
           +   G    G  L ++  +     R++ +   + S       +K +        K   + 
Sbjct: 175 EELNGKELEGRPLRVQKAQPASQPRSELSNNLDASF-----AKKLSRGKALLLEKSDNLY 229

Query: 232 FTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS 267
                      EE     K   D   A  P  +   
Sbjct: 230 VGNLPLKT-AEEELADLFKSRGDIVRASLPPSKDGK 264

Length = 306

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

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
           L YDV  ED++ FF + + V+SVRLPR   D     G    EF   +   + L
Sbjct: 9   LPYDVTEEDIKEFF-RGLNVSSVRLPREPGDPGRLRGFGYAEFEDRDSLLQAL 60

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

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

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 14/86 (16%)

Query: 10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
          + + RQ+E+YFS  N+  D +L  ++   SD  V +  I +F ++K+             
Sbjct: 2  ELLKRQLEYYFSRENLANDAYLLSQM--DSDQYVPIWTIANFNKIKKL------------ 47

Query: 70 EDTLEAVAETLRKSSSLKLSEDGMKV 95
             ++ + E LR+S ++++ E G KV
Sbjct: 48 TTDIDLIVEALRESPNVQVDEKGEKV 73

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

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

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHV--ADKRLFCGTALIEFSTEEDAEK 171
           R I    L++ +  +D+   FS+  +V S+R+P+       RL  G A + F     AE 
Sbjct: 1   REIYVRNLDFKLDEDDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAEN 60

Query: 172 VLK 174
            L+
Sbjct: 61  ALQ 63

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

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

 Score = 36.5 bits (85), Expect = 0.003
 Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 2/62 (3%)

Query: 115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           T+    L +  +++D+E FF +  +V  VR+     D     G   +EF+TEE A+K L+
Sbjct: 1   TLFVGNLSWSAEQDDLEEFFKECGEVVDVRI--AQDDDGRSKGFGHVEFATEEGAQKALE 58

Query: 175 QG 176
           + 
Sbjct: 59  KS 60

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

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

 Score = 36.4 bits (85), Expect = 0.003
 Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRL--FCGTALIEFSTEEDAEKVLKQ 175
           L Y+V  ED++  F Q  +V S R+   + D+      G   +E  T E+A   +++
Sbjct: 7   LPYNVTEEDLKDLFGQFGEVTSARV---ITDRETGRSRGFGFVEMETAEEANAAIEK 60

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

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 40.0 bits (93), Expect = 0.003
 Identities = 37/157 (23%), Positives = 60/157 (38%), Gaps = 2/157 (1%)

Query: 161 IEFSTEEDAEKVLKQGLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNA 220
           +E   E +AE    +G    G E      +       K   E E  R       +  +  
Sbjct: 715 VEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEG 774

Query: 221 EADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKA 280
           + D  +G I A   ++   +G E   G ++   ++E   K + E  S   A   E + + 
Sbjct: 775 KEDEDEGEIQAG--EDGEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDET 832

Query: 281 SENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKE 317
            E + N E + E K +    DG   SDG   + EE+E
Sbjct: 833 GEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEE 869

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	498
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	100.0
KOG1855	484	consensus Predicted RNA-binding protein [General f	99.96
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.96
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.95
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.94
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.94
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.94
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.93
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.93
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.93
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.93
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.93
KOG4213	205	consensus RNA-binding protein La [RNA processing a	99.92
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.92
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.92
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.91
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.91
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.9
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.9
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.9
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.9
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.9
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.89
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.89
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.89
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.88
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.87
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.87
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.85
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.83
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.83
KOG2591	684	consensus c-Mpl binding protein, contains La domai	99.81
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.81
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.8
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.79
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.78
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	99.76
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.75
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.71
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.71
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.68
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.67
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.62
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.62
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.61
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.6
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.58
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.58
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.54
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.52
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.51
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.49
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.44
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.44
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.39
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.36
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.32
PLN03120	260	nucleic acid binding protein; Provisional	99.31
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.3
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.29
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.29
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.28
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.25
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.19
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.18
PLN03121	243	nucleic acid binding protein; Provisional	99.18
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.17
smart00362	72	RRM_2 RNA recognition motif.	99.16
KOG0122	270	consensus Translation initiation factor 3, subunit	99.12
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.1
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.1
PLN03213	759	repressor of silencing 3; Provisional	99.08
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.06
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.06
smart00360	71	RRM RNA recognition motif.	99.05
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.04
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.04
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.02
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.02
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.0
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.99
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.99
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.98
smart00362	72	RRM_2 RNA recognition motif.	98.97
PLN03120	260	nucleic acid binding protein; Provisional	98.96
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.92
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.91
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.9
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.9
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.84
PLN03121	243	nucleic acid binding protein; Provisional	98.84
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.83
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.83
PLN03213	759	repressor of silencing 3; Provisional	98.82
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.77
smart00360	71	RRM RNA recognition motif.	98.76
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.73
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.73
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.72
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.7
smart00361	70	RRM_1 RNA recognition motif.	98.7
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.69
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.69
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.66
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	98.64
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	98.6
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.58
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.58
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.52
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.49
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.48
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.38
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.35
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.34
KOG0122	270	consensus Translation initiation factor 3, subunit	98.3
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.29
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.28
smart00361	70	RRM_1 RNA recognition motif.	98.26
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.26
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	98.25
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.25
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	98.25
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.22
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	98.2
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	98.18
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.18
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.08
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.01
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.97
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.95
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	97.9
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	97.88
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.83
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.82
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	97.79
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	97.79
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.78
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.76
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	97.75
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	97.69
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	97.66
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	97.64
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.6
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	97.54
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.51
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	97.49
KOG4210	285	consensus Nuclear localization sequence binding pr	97.47
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.46
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	97.31
KOG0151	877	consensus Predicted splicing regulator, contains R	97.19
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.18
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.14
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	97.12
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.04
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	96.98
KOG0226	290	consensus RNA-binding proteins [General function p	96.93
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.92
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	96.84
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	96.81
KOG0151	877	consensus Predicted splicing regulator, contains R	96.73
KOG4210	285	consensus Nuclear localization sequence binding pr	96.67
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.63
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	96.52
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.5
KOG1548	382	consensus Transcription elongation factor TAT-SF1	96.21
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.2
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.01
KOG4660	549	consensus Protein Mei2, essential for commitment t	95.99
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.9
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	95.89
KOG0226	290	consensus RNA-binding proteins [General function p	95.76
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	95.76
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	95.72
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	95.68
KOG1457	284	consensus RNA binding protein (contains RRM repeat	95.62
KOG2314	698	consensus Translation initiation factor 3, subunit	95.61
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	95.48
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.2
KOG3152	278	consensus TBP-binding protein, activator of basal	94.81
KOG1855	484	consensus Predicted RNA-binding protein [General f	94.37
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	94.26
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	93.97
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	93.81
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	93.79
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	92.94
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	92.28
KOG3152	278	consensus TBP-binding protein, activator of basal	92.28
KOG1995	351	consensus Conserved Zn-finger protein [General fun	92.18
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	91.91
KOG1996	378	consensus mRNA splicing factor [RNA processing and	91.87
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	91.69
KOG2068	327	consensus MOT2 transcription factor [Transcription	91.56
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	89.86
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	89.74
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	88.43
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	87.8
KOG2591	684	consensus c-Mpl binding protein, contains La domai	87.65
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	87.59
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	86.98
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	86.87
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	86.68
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	86.51
KOG2135	526	consensus Proteins containing the RNA recognition	86.35
KOG2314	698	consensus Translation initiation factor 3, subunit	85.83
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	85.43
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	83.57
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	83.38
KOG2068	327	consensus MOT2 transcription factor [Transcription	80.59

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

Probab=100.00  E-value=4.4e-32  Score=297.56  Aligned_cols=308  Identities=19%  Similarity=0.189  Sum_probs=211.8

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc-h
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK-E  191 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~-d  191 (498)
                      +|||+|||.++|+++|+++|++||.|.+|+|+++.. +++++|||||+|.+.++|++|+..  ...++|+.|+|+|.. +
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~~~   80 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSV-TRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRD   80 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccc
Confidence            799999999999999999999999999999999976 678999999999999999999985  677999999999863 2


Q ss_pred             hHHHHHHhHHHH-hhcCccccCCccCCCCCccCC-CCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          192 FEAERAKETEEF-EKSRPAVGSNRKNNSNAEADY-PKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       192 ~~~~k~~~~~~~-~~~~~~~~k~~~~~~~~~~~~-~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                      ...++.....-| .++..     ..+.+.+...+ ..|.++++++...       ..|.++          .-+-..=.+
T Consensus        81 ~~~~~~~~~~vfV~nLp~-----~~~~~~L~~~F~~~G~i~~~~i~~~-------~~g~sk----------g~afV~F~~  138 (562)
T TIGR01628        81 PSLRRSGVGNIFVKNLDK-----SVDNKALFDTFSKFGNILSCKVATD-------ENGKSR----------GYGFVHFEK  138 (562)
T ss_pred             ccccccCCCceEEcCCCc-----cCCHHHHHHHHHhcCCcceeEeeec-------CCCCcc----------cEEEEEECC
Confidence            221111111111 01100     00000011111 3456666644211       111111          000000000


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccc----cCcceeeeccCCCccccHHHHHHHhccCC
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEK----EGKTSIDTYKDNMDVVMREDLKSVFHKFG  345 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~----~~~~~~vfv~nL~~~vt~EdLke~F~~fG  345 (498)
                      .+++..-.++          .+++.+     .++.+.++.+....++    .....++||+||+..+|+++|+++|++||
T Consensus       139 ~e~A~~Ai~~----------lng~~~-----~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG  203 (562)
T TIGR01628       139 EESAKAAIQK----------VNGMLL-----NDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKFG  203 (562)
T ss_pred             HHHHHHHHHH----------hcccEe-----cCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhcC
Confidence            1111111211          111111     1222222222222222    22455799999999999999999999999


Q ss_pred             ceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEec----CeEEEEEEcCChhHHHH-HHH-----Hhh
Q 043731          346 TVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK----NFIAVLEPVTGEAEKEY-WSL-----LRG  410 (498)
Q Consensus       346 ~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~----g~~~~v~~~~g~~E~e~-~~~-----~~~  410 (498)
                      .|.++.+.++     .+.|||+|.+.++|.+|++.++     |..|.    |+.+.|..+..+.|++. ++.     ...
T Consensus       204 ~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~-----g~~i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~  278 (562)
T TIGR01628       204 EITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMN-----GKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQE  278 (562)
T ss_pred             CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhC-----CcEecccccceeeEeecccChhhhHHHHHhhHHhhhhh
Confidence            9999998764     3469999999999999999884     89999    99999999999888862 221     122


Q ss_pred             hhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCcccccc
Q 043731          411 NQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRP  466 (498)
Q Consensus       411 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (498)
                      ...++.+.++|++||+...+++.++++|+.||+|++|++ ++|..|.|+|+|||+=
T Consensus       279 ~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i-~~d~~g~~~g~gfV~f  333 (562)
T TIGR01628       279 RKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKV-MLDEKGVSRGFGFVCF  333 (562)
T ss_pred             hhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEE-EECCCCCcCCeEEEEe
Confidence            334678899999999999999999999999999999999 7788899999999973

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

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

Probab=99.96  E-value=3.2e-30  Score=261.99  Aligned_cols=159  Identities=35%  Similarity=0.514  Sum_probs=144.4

Q ss_pred             CCCHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhh
Q 043731            3 SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRK   82 (498)
Q Consensus         3 ~~~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~   82 (498)
                      -|+|+++.+|.+||||||||.||.+|.||.++|.++.+|||||.+|++|+|||+||.            ++..|+.||+.
T Consensus       135 ~lsedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTr------------d~~~va~ALr~  202 (484)
T KOG1855|consen  135 ILSEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTR------------DWKLVADALRK  202 (484)
T ss_pred             cccHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhh------------hhHHHHHHHhh
Confidence            478999999999999999999999999999999999999999999999999999985            89999999999


Q ss_pred             cCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccc---cCCC-Cc----
Q 043731           83 SSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRH---VADK-RL----  154 (498)
Q Consensus        83 S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~---~~~~-~~----  154 (498)
                      |..|+||+||+||||..|+|.-+  .+++..|||.+.|||.+-.-+-|.++|+.||.|.+||||..   ..+. +.    
T Consensus       203 S~kL~vseDgkKVrRisPlp~~~--~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~  280 (484)
T KOG1855|consen  203 SSKLEVSEDGKKVRRISPLPEFD--EEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKY  280 (484)
T ss_pred             cceEEEccCCceeeecCCCCCcc--ccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccc
Confidence            99999999999999999998654  35689999999999999999999999999999999999987   2211 11    


Q ss_pred             ----ccceEEEEeCCHHHHHHHHHh
Q 043731          155 ----FCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       155 ----~kG~aFVeF~s~e~A~kAl~~  175 (498)
                          .+-+|+|+|...+.|.+|.+.
T Consensus       281 ~~~~tk~~AlvEye~~~~A~KA~e~  305 (484)
T KOG1855|consen  281 FELQTKECALVEYEEVEAARKAREL  305 (484)
T ss_pred             hhhhhhhhhhhhhhhhHHHHHHHHh
Confidence                145899999999999999984

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.96  E-value=2.3e-28  Score=252.12  Aligned_cols=224  Identities=15%  Similarity=0.161  Sum_probs=176.3

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ..+|||+|||.++|+++|+++|++||+|..|+|++++. +++++|||||+|.++++|.+||..  +..+.|+.|.|.+..
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~-~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~   81 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKV-TGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR   81 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCC-CCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence            57899999999999999999999999999999999875 577999999999999999999984  788888888876532


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      ...                                             .                               
T Consensus        82 ~~~---------------------------------------------~-------------------------------   85 (352)
T TIGR01661        82 PSS---------------------------------------------D-------------------------------   85 (352)
T ss_pred             ccc---------------------------------------------c-------------------------------
Confidence            000                                             0                               


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                                                    ......+||+|||..+++++|+++|++||.|..+
T Consensus        86 ----------------------------------------------~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~  119 (352)
T TIGR01661        86 ----------------------------------------------SIKGANLYVSGLPKTMTQHELESIFSPFGQIITS  119 (352)
T ss_pred             ----------------------------------------------ccccceEEECCccccCCHHHHHHHHhccCCEEEE
Confidence                                                          0001257999999999999999999999999888


Q ss_pred             EeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEcCChhHHH--HHHH-Hhhh--------
Q 043731          351 DFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPVTGEAEKE--YWSL-LRGN--------  411 (498)
Q Consensus       351 ~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~~g~~E~e--~~~~-~~~~--------  411 (498)
                      .+...      ++.|||+|.+.++|+.|+..|+     |..+.|  ..+.+..+.......  .+.. ....        
T Consensus       120 ~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~-----g~~~~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (352)
T TIGR01661       120 RILSDNVTGLSKGVGFIRFDKRDEADRAIKTLN-----GTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRV  194 (352)
T ss_pred             EEEecCCCCCcCcEEEEEECCHHHHHHHHHHhC-----CCccCCCceeEEEEECCCCCcCCchhcCchhhcccCcccCCC
Confidence            87653      4569999999999999999984     667766  567777664322110  0000 0000        


Q ss_pred             ---------------------------------------------------------------------hhccccccccc
Q 043731          412 ---------------------------------------------------------------------QERHRDVKGEE  422 (498)
Q Consensus       412 ---------------------------------------------------------------------~~k~~~~~~~~  422 (498)
                                                                                           .....+..+++
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV  274 (352)
T TIGR01661       195 PLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFV  274 (352)
T ss_pred             CccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCccccccccccccCCCCCCCCCCCcEEEE
Confidence                                                                                 00111235999


Q ss_pred             hhhhhhhhhhhhhhhcccCCCccceeeeeccC-CCCCCCccccc
Q 043731          423 KHLEAENKAASEKMIQQEDAQIKPGKFEQHEK-PGISSGTSFVR  465 (498)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  465 (498)
                      .||..+.+++.|+++|+.||.|++|++ ++|+ .|.|+|+|||.
T Consensus       275 ~NL~~~~~e~~L~~~F~~fG~v~~v~i-~~d~~t~~skG~aFV~  317 (352)
T TIGR01661       275 YNLSPDTDETVLWQLFGPFGAVQNVKI-IRDLTTNQCKGYGFVS  317 (352)
T ss_pred             eCCCCCCCHHHHHHHHHhCCCeEEEEE-eEcCCCCCccceEEEE
Confidence            999999999999999999999999999 7776 89999999996

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

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

Probab=99.95  E-value=4.3e-28  Score=252.28  Aligned_cols=293  Identities=20%  Similarity=0.199  Sum_probs=223.7

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc-
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK-  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~-  190 (498)
                      .+|||+   +++|+..|.++|+++|+|.+||+||+.  +  +.|||||+|.++++|++||..  ...++|++|++||+. 
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~--t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~r   74 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA--T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQR   74 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecC--C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhcc
Confidence            368999   899999999999999999999999996  3  899999999999999999996  678999999999983 


Q ss_pred             hhHHHHHHhHHHH-hhcCccccCCccCCCCCccCC-CCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          191 EFEAERAKETEEF-EKSRPAVGSNRKNNSNAEADY-PKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       191 d~~~~k~~~~~~~-~~~~~~~~k~~~~~~~~~~~~-~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      +...       .+ +++.+     ..+++.....+ ..|.||+|++.....       | ++          .- -.-=.
T Consensus        75 d~~~-------~~i~nl~~-----~~~~~~~~d~f~~~g~ilS~kv~~~~~-------g-~k----------g~-FV~f~  123 (369)
T KOG0123|consen   75 DPSL-------VFIKNLDE-----SIDNKSLYDTFSEFGNILSCKVATDEN-------G-SK----------GY-FVQFE  123 (369)
T ss_pred             CCce-------eeecCCCc-----ccCcHHHHHHHHhhcCeeEEEEEEcCC-------C-ce----------ee-EEEeC
Confidence            2221       22 22222     12223333333 688999998743322       1 11          00 00001


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCccccccccc-------CcceeeeccCCCccccHHHHHHHh
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKE-------GKTSIDTYKDNMDVVMREDLKSVF  341 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~-------~~~~~vfv~nL~~~vt~EdLke~F  341 (498)
                      +++++...+++          .+++..     .+++..+|.+....++.       ...++++++|++..++.+.|++.|
T Consensus       124 ~e~~a~~ai~~----------~ng~ll-----~~kki~vg~~~~~~er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f  188 (369)
T KOG0123|consen  124 SEESAKKAIEK----------LNGMLL-----NGKKIYVGLFERKEEREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLF  188 (369)
T ss_pred             CHHHHHHHHHH----------hcCccc-----CCCeeEEeeccchhhhcccccchhhhhhhhheeccccccchHHHHHhh
Confidence            12333333332          444432     56667777776544443       234579999999999999999999


Q ss_pred             ccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHH-HHH-----HHhh
Q 043731          342 HKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKE-YWS-----LLRG  410 (498)
Q Consensus       342 ~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e-~~~-----~~~~  410 (498)
                      +.||.|..+.+++.     ++.|||+|+++++|.+|+..++     |...++..+.|..++.+.|+. .++     ....
T Consensus       189 ~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~-----~~~~~~~~~~V~~aqkk~e~~~~l~~~~~~~~~~  263 (369)
T KOG0123|consen  189 SAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLN-----GKIFGDKELYVGRAQKKSEREAELKRKFEQEFAK  263 (369)
T ss_pred             cccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhcc-----CCcCCccceeecccccchhhHHHHhhhhHhhhhh
Confidence            99999999998863     4569999999999999999984     888999999999999977776 222     4445


Q ss_pred             hhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          411 NQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       411 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ....++..++|++|++....++.++.+|+.+|+|+++++ |.+.+|.|+|+|||+
T Consensus       264 ~~~~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv-~~~~~g~skG~gfV~  317 (369)
T KOG0123|consen  264 RSVSLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKV-MVDENGKSKGFGFVE  317 (369)
T ss_pred             ccccccccccccccCccccchhHHHHHHhcccceeeEEE-EeccCCCccceEEEE
Confidence            555788999999999999999999999999999999999 777789999999997

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

Probab=99.94  E-value=5.1e-28  Score=201.70  Aligned_cols=89  Identities=65%  Similarity=0.996  Sum_probs=82.6

Q ss_pred             HHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCccee
Q 043731            9 AQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKL   88 (498)
Q Consensus         9 ~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leV   88 (498)
                      +++|++||||||||+||++|+||+++|.++++|||||++|++|+|||+|+......++++|+++++.|++||+.|+.|+|
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev   81 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV   81 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence            57999999999999999999999999998899999999999999999999765555667777789999999999999999


Q ss_pred             ecCcceeec
Q 043731           89 SEDGMKVGR   97 (498)
Q Consensus        89 sedg~kVrR   97 (498)
                      ++||++|||
T Consensus        82 seD~~~VRR   90 (90)
T cd08030          82 SEDGKRVGR   90 (90)
T ss_pred             cCCCCccCC
Confidence            999999998

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

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

Probab=99.94  E-value=7.6e-28  Score=197.68  Aligned_cols=80  Identities=31%  Similarity=0.598  Sum_probs=76.5

Q ss_pred             HHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCc
Q 043731            6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSS   85 (498)
Q Consensus         6 ~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~   85 (498)
                      .++..+|++||||||||+||++|+||+++|.++++|||||++|++|+|||+|+.            +++.|++||+.|+.
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~------------d~~~i~~Al~~S~~   70 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTT------------DGKLIARALKNSSV   70 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcC------------CHHHHHHHHhcCCE
Confidence            468899999999999999999999999999988999999999999999999984            67899999999999


Q ss_pred             ceeecCcceeec
Q 043731           86 LKLSEDGMKVGR   97 (498)
Q Consensus        86 leVsedg~kVrR   97 (498)
                      |+|++||++|||
T Consensus        71 lev~ed~~~VRR   82 (82)
T cd08032          71 VELNLEGTRIRR   82 (82)
T ss_pred             EEEcCCCCccCC
Confidence            999999999997

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

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

Probab=99.94  E-value=2.5e-27  Score=192.66  Aligned_cols=76  Identities=43%  Similarity=0.682  Sum_probs=73.1

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|.++++|||||++|++|+|||+++.            +++.|++||+.|+.|+|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~------------d~~~I~~Al~~S~~lev~   69 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTR------------DWRVVAAALRRSSKLVVS   69 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcC------------CHHHHHHHHHhCCeEEEc
Confidence            68999999999999999999999999888999999999999999999984            789999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +||++|||
T Consensus        70 ~d~~~VRR   77 (77)
T cd08033          70 EDGKKVRR   77 (77)
T ss_pred             CCCCccCC
Confidence            99999998

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

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

Probab=99.93  E-value=7.2e-27  Score=186.50  Aligned_cols=74  Identities=22%  Similarity=0.434  Sum_probs=70.6

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      +.|++||||||||.||++|.||+++|+  ++|||||++|++|+|||+||.            |++.|++||+.|+.|+||
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~md--~~g~Vpi~~ia~F~rik~Lt~------------D~~lI~~aL~~S~~vevs   67 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQMD--SDQYVPIMTVANLDHIKKLST------------DVDLIVDVLRSLPLVQVD   67 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHHhc--cCCCEehHHHhccHHHHHhcC------------CHHHHHHHHhhCCeEEEC
Confidence            579999999999999999999999998  799999999999999999984            799999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      ++|++||.
T Consensus        68 e~g~kVRp   75 (75)
T cd08036          68 EKGEKVRP   75 (75)
T ss_pred             CCCCccCc
Confidence            99999983

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

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

Probab=99.93  E-value=7.9e-27  Score=187.62  Aligned_cols=74  Identities=26%  Similarity=0.478  Sum_probs=70.7

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||.||++|.||+++|+  ++|||||++|++|+|||+++.            +++.|++||+.|+.|+|+
T Consensus         2 e~i~~QvEyYFSd~NL~~D~fL~~~md--~~G~Vpi~~iasF~rik~lt~------------d~~~I~~AL~~S~~levs   67 (75)
T cd08035           2 ECLKKQLEFCFSRENLSKDLYLISQMD--SDQFVPIWTVANMEGIKKLTT------------DMDLILDVLRSSPMVQVD   67 (75)
T ss_pred             hHHHhhHHhhcCHhhcccCHHHHHhhC--cCCCEehHHHhccHHHHHhcC------------CHHHHHHHHHcCCeEEEc
Confidence            689999999999999999999999997  799999999999999999984            789999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +||++||.
T Consensus        68 edg~kVRp   75 (75)
T cd08035          68 ETGEKVRP   75 (75)
T ss_pred             CCCCccCc
Confidence            99999984

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

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

Probab=99.93  E-value=1.3e-26  Score=188.27  Aligned_cols=75  Identities=51%  Similarity=0.744  Sum_probs=71.3

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|.++++|||||++|++|+|||+|+.             .+.|++||+.|+.|+|+
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~-------------~~~i~~Al~~S~~lev~   68 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQP-------------LEAVVEALRESELLEVS   68 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCC-------------HHHHHHHHHhCCeEEEe
Confidence            58999999999999999999999999888999999999999999999972             38999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +||++|||
T Consensus        69 ~d~~~VRR   76 (76)
T cd08029          69 EDGENVRR   76 (76)
T ss_pred             CCCCcccC
Confidence            99999998

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

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

Probab=99.93  E-value=1.8e-26  Score=189.55  Aligned_cols=80  Identities=46%  Similarity=0.762  Sum_probs=75.5

Q ss_pred             HHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCc
Q 043731            6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSS   85 (498)
Q Consensus         6 ~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~   85 (498)
                      +++.++|++||||||||+||++|.||+++|.++ +|||||++|++|+|||+++.            +++.|++||+.|+.
T Consensus         1 ~~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~-~g~Vpl~~i~~F~r~k~l~~------------d~~~i~~Al~~S~~   67 (80)
T smart00715        1 EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKN-DGYVPISTIASFKRVKSLTT------------DVNLIVEALRSSPK   67 (80)
T ss_pred             ChHHHHHHHHHHHHcCHhhhhhCHHHHHHhccC-CCCEEhHHHhCchhHHHHcC------------CHHHHHHHHHhCCe
Confidence            367899999999999999999999999999976 99999999999999999984            68999999999999


Q ss_pred             ceeecCcceeecc
Q 043731           86 LKLSEDGMKVGRS   98 (498)
Q Consensus        86 leVsedg~kVrR~   98 (498)
                      |+|++||++|||.
T Consensus        68 lel~~d~~~VRR~   80 (80)
T smart00715       68 LEVSEDGLKVRRR   80 (80)
T ss_pred             EEEcCCCCeeCcC
Confidence            9999999999984

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

Probab=99.93  E-value=2.8e-26  Score=188.78  Aligned_cols=79  Identities=35%  Similarity=0.682  Sum_probs=74.1

Q ss_pred             HHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcC-
Q 043731            6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSS-   84 (498)
Q Consensus         6 ~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~-   84 (498)
                      +++..+|++||||||||+||++|.||+++|.++ +|||||++|++|+|||+++.            +++.|++||+.|+ 
T Consensus         2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~-~G~Vpl~~i~~F~rmk~l~~------------d~~~i~~Al~~S~~   68 (82)
T cd08028           2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKED-DGWVPMEVMLKFNRLKSLSS------------DPEVIAKALKKSKS   68 (82)
T ss_pred             hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhcc-CCCEEhHHHhCChhHHHhcC------------CHHHHHHHHHhCCC
Confidence            357889999999999999999999999999864 99999999999999999984            6899999999999 


Q ss_pred             -cceeecCcceeec
Q 043731           85 -SLKLSEDGMKVGR   97 (498)
Q Consensus        85 -~leVsedg~kVrR   97 (498)
                       .|+|++||++|||
T Consensus        69 ~~lev~~d~~~VRR   82 (82)
T cd08028          69 GLIEVSEDKTKIRR   82 (82)
T ss_pred             CEEEEcCCCCccCC
Confidence             9999999999998

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

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

Probab=99.92  E-value=3.1e-26  Score=209.58  Aligned_cols=167  Identities=29%  Similarity=0.426  Sum_probs=145.8

Q ss_pred             HHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcC-
Q 043731            6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSS-   84 (498)
Q Consensus         6 ~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~-   84 (498)
                      .++-++|++||||||+|.||+||+||++++.++.+|||||.+++.|+|+..+++            |...|++||+.|. 
T Consensus        11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~ltt------------D~~~Iv~al~ksk~   78 (205)
T KOG4213|consen   11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTT------------DFNVIVEALSKSKA   78 (205)
T ss_pred             hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccc------------cHHHHHHHHhhCHH
Confidence            345568999999999999999999999999889999999999999999999985            7899999999885 


Q ss_pred             -cceeecCcceeecccCCcchh---hhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEE
Q 043731           85 -SLKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTAL  160 (498)
Q Consensus        85 -~leVsedg~kVrR~~~~~~~e---e~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aF  160 (498)
                       ++++|+|.+++||.+.-|.|+   +++.....|++|..  |.+...++|.+|-+  |++.+|.|++.......++|..|
T Consensus        79 ~l~eisedk~k~rr~~skplpEvt~e~~~~~~~r~v~~K--~td~ql~~l~qw~~--~k~~nv~mr~~~~k~~~fkGsvk  154 (205)
T KOG4213|consen   79 ELMEISEDKTKIRRSPSKPLPEVTDEYKEGIKERTVYKK--ITDDQLDDLNQWAS--GKGHNVKMRRHGNKAHPFKGSVK  154 (205)
T ss_pred             hhhhhhhchhhhhcCcCCCCccccHHHHHHHHHhhhhcc--CCHHHHHHHHHHhc--ccceEeeccccCCCCCCCCCceE
Confidence             889999999999998877776   57778889999999  77788888888888  99999999987653347999999


Q ss_pred             EEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          161 IEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       161 VeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      |+|.+.+.|..++.. ...+...+|..++
T Consensus       155 v~f~tk~qa~a~~~~~e~~~~e~el~r~~  183 (205)
T KOG4213|consen  155 VTFQTKEQAFANDDTHEEKGAETELKRSG  183 (205)
T ss_pred             EEeecHHHHHhhhhhhhhhccchHHHHHH
Confidence            999999999998885 5556666666544

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

Probab=99.92  E-value=3.5e-24  Score=223.12  Aligned_cols=280  Identities=20%  Similarity=0.249  Sum_probs=171.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ....|+|+|||+.+...+|+.+|++||.|..|.||+...  ++.+|||||.|....+|.+|++.  +..+.|++|.|.|.
T Consensus       116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d--gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA  193 (678)
T KOG0127|consen  116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD--GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWA  193 (678)
T ss_pred             ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC--CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeee
Confidence            377899999999999999999999999999999998764  44679999999999999999995  89999999999997


Q ss_pred             ch---hHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCC
Q 043731          190 KE---FEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPD  266 (498)
Q Consensus       190 ~d---~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~  266 (498)
                      -+   |........+.+++..+    ...+...                               .+++...-+--++..+
T Consensus       194 V~Kd~ye~ta~~~~~s~Kk~~~----eEed~e~-------------------------------~~d~~~~~~~Ed~e~d  238 (678)
T KOG0127|consen  194 VDKDTYEDTAHEEKQSLKKAVK----EEEDKEA-------------------------------DEDDGKDFDEEDGEED  238 (678)
T ss_pred             cccccccccchhhhhhhhhccc----hhhhccc-------------------------------ccccccccchhccccc
Confidence            32   22211121222211110    0000000                               0000000000000000


Q ss_pred             CC-----chhhhHHhhhhhcccCCCCCCccccccccccccCC--CCCCCccccc-ccccCcceeeeccCCCccccHHHHH
Q 043731          267 SS-----DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGD--KSSDGSIEKG-EEKEGKTSIDTYKDNMDVVMREDLK  338 (498)
Q Consensus       267 ~~-----~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~--~~~~g~~~~~-~~~~~~~~~vfv~nL~~~vt~EdLk  338 (498)
                      +.     +.++....+...++    .|+++.    ++.|.+.  ........+. .+..+...+|||+|||+++++|+|+
T Consensus       239 ~edeEe~D~~se~~ee~~~~E----ee~~~v----Dd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~  310 (678)
T KOG0127|consen  239 SEDEEETDGNSEAFEEGEESE----EEEDDV----DDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELK  310 (678)
T ss_pred             ccccccccccchhhhcccccc----cccccc----ccccccccCcccchhccccccccccccceEEEecCCccccHHHHH
Confidence            00     00000000000000    000000    0111000  0000000010 1222344589999999999999999


Q ss_pred             HHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCC-eEecCeEEEEEEcCChhHHHHHHHHhhh
Q 043731          339 SVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGG-LSVKNFIAVLEPVTGEAEKEYWSLLRGN  411 (498)
Q Consensus       339 e~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g-~~i~g~~~~v~~~~g~~E~e~~~~~~~~  411 (498)
                      +.|++||+|.|+.+..      +.|+|||.|.++.+|.+|++++.-+++.| +.|+|+.|.|.++.+..|...+......
T Consensus       311 ~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~Av~RkeA~dmeqkk~~  390 (678)
T KOG0127|consen  311 EHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLAVTRKEAADMEQKKKR  390 (678)
T ss_pred             HHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeeccchHHHHHHHHHhhh
Confidence            9999999999988764      45679999999999999999986665555 9999999999999999998876432222


Q ss_pred             hhccccccccchhhhhhhhhhhhhh
Q 043731          412 QERHRDVKGEEKHLEAENKAASEKM  436 (498)
Q Consensus       412 ~~k~~~~~~~~~~~~~~~~~~~~~~  436 (498)
                      .......|+|+.+...-.+++...+
T Consensus       391 Kk~~gkrNLyLa~EG~I~~gt~aAe  415 (678)
T KOG0127|consen  391 KKPKGKRNLYLAREGLIRDGTPAAE  415 (678)
T ss_pred             hccCCccceeeeccCccccCChhhc
Confidence            2333344888877654444444333

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

Probab=99.92  E-value=5e-26  Score=184.16  Aligned_cols=74  Identities=31%  Similarity=0.588  Sum_probs=70.3

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|.  ++|||||++|++|+|||+++.            +++.|++||+.|+.|+|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~--~dG~Vpl~~i~~F~rmk~lt~------------d~~~i~~Al~~S~~lev~   67 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQMD--SDQYVPIWTIANFNKIKKLTT------------DIDLIVEALRESPNVQVD   67 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHhC--CCCCEEHHHHhCchhHHHHcC------------CHHHHHHHHHhCCeEEEc
Confidence            689999999999999999999999997  799999999999999999974            689999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +||++||+
T Consensus        68 ed~~~VR~   75 (75)
T cd08031          68 EKGEKVRP   75 (75)
T ss_pred             CCCCccCc
Confidence            99999984

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

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

Probab=99.91  E-value=8.2e-24  Score=228.43  Aligned_cols=227  Identities=17%  Similarity=0.130  Sum_probs=166.0

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v~~  188 (498)
                      +|+|||+|||+++++++|+++|++||.|.+|.|+++       +|+|||+|.+.++|++|++.    +..++|++|.|.+
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~-------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~   74 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG-------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNY   74 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC-------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEe
Confidence            589999999999999999999999999999998752       58999999999999999973    6789999999987


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      +.....                     ..                   .       .+.              +..    
T Consensus        75 s~~~~~---------------------~~-------------------~-------~~~--------------~~~----   89 (481)
T TIGR01649        75 STSQEI---------------------KR-------------------D-------GNS--------------DFD----   89 (481)
T ss_pred             cCCccc---------------------cc-------------------C-------CCC--------------ccc----
Confidence            631000                     00                   0       000              000    


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                                                                 .  .......+|||+||++.+|+++|+++|++||.|.
T Consensus        90 -------------------------------------------~--~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~  124 (481)
T TIGR01649        90 -------------------------------------------S--AGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVL  124 (481)
T ss_pred             -------------------------------------------C--CCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEE
Confidence                                                       0  0001134689999999999999999999999999


Q ss_pred             EEEeecCCc--eEEEEeCCHHHHHHHHHHHhhcccCCeEecCe--EEEEEEc----------CChh----------HHHH
Q 043731          349 FIDFKIGAE--SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF--IAVLEPV----------TGEA----------EKEY  404 (498)
Q Consensus       349 ~V~~~~g~~--~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~--~~~v~~~----------~g~~----------E~e~  404 (498)
                      .|.+.+..+  .|||+|.++++|.+|++.|+     |..|.|.  .+.|..+          ..+.          |+++
T Consensus       125 ~v~i~~~~~~~~afVef~~~~~A~~A~~~Ln-----g~~i~~~~~~l~v~~sk~~~l~v~~~~~~s~dyt~~~l~~~~~~  199 (481)
T TIGR01649       125 RIVTFTKNNVFQALVEFESVNSAQHAKAALN-----GADIYNGCCTLKIEYAKPTRLNVKYNDDDSRDYTNPDLPGRRDP  199 (481)
T ss_pred             EEEEEecCCceEEEEEECCHHHHHHHHHHhc-----CCcccCCceEEEEEEecCCCceeEecccCCCCCcCCCCCCCCCC
Confidence            998877654  69999999999999999984     6667542  3443332          2221          1110


Q ss_pred             -H-----HHHhh---------------------------------------------------hhhcc------cccccc
Q 043731          405 -W-----SLLRG---------------------------------------------------NQERH------RDVKGE  421 (498)
Q Consensus       405 -~-----~~~~~---------------------------------------------------~~~k~------~~~~~~  421 (498)
                       +     .+...                                                   ...++      ....+|
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  279 (481)
T TIGR01649       200 GLDQTHRQRQPALLGQHPSSYGHDGYSSHGGPLAPLAGGDRMGPPHGPPSRYRPAYEAAPLAPAISSYGPAGGGPGSVLM  279 (481)
T ss_pred             CcCccccccccccccCCCccCCCcccccCCCCCCcccccccCCCcccCCCCCcccccccccCccccccCCCCCCCCCEEE
Confidence             0     00000                                                   00011      234789


Q ss_pred             chhhhh-hhhhhhhhhhcccCCCccceeeeeccCCCCCCCcccccc
Q 043731          422 EKHLEA-ENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRP  466 (498)
Q Consensus       422 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (498)
                      +.||+. .+..+.|+++|+.||.|+++|+ |++    ++|+|||.=
T Consensus       280 v~nL~~~~vt~~~L~~lF~~yG~V~~vki-~~~----~~g~afV~f  320 (481)
T TIGR01649       280 VSGLHQEKVNCDRLFNLFCVYGNVERVKF-MKN----KKETALIEM  320 (481)
T ss_pred             EeCCCCCCCCHHHHHHHHHhcCCeEEEEE-EeC----CCCEEEEEE
Confidence            999997 6899999999999999999999 666    369999963

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).

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

Probab=99.91  E-value=8e-25  Score=175.49  Aligned_cols=69  Identities=28%  Similarity=0.570  Sum_probs=65.4

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|.  ++|||||++|++|+|||+|+.            ++..|++||+.|+.|+++
T Consensus         2 e~I~~QvEfYFSd~NL~~D~fLr~~m~--~~G~Vpl~~ia~F~rmk~lt~------------d~~~I~~Al~~S~~ve~~   67 (73)
T cd08038           2 EYIKRQIEYYFSTENLERDFFLRRKMD--LQGFLPISLIAGFYRVQALTT------------NVDLILEALKDSTEVEIV   67 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHhC--CCCCEeHHHHhcchHHHHhcC------------CHHHHHHHHHcCCeEEEe
Confidence            689999999999999999999999997  799999999999999999974            789999999999999999


Q ss_pred             cCc
Q 043731           90 EDG   92 (498)
Q Consensus        90 edg   92 (498)
                      +++
T Consensus        68 ~~~   70 (73)
T cd08038          68 DQK   70 (73)
T ss_pred             CCc
Confidence            775

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

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

Probab=99.90  E-value=9.3e-25  Score=175.14  Aligned_cols=69  Identities=29%  Similarity=0.543  Sum_probs=65.3

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||.||++|.||+++|.  ++|||||++|++|||||+|+.            +++.|++||+.|+.|+|+
T Consensus         2 ~~I~~QvEyYFSd~NL~~D~fLr~~md--~dG~Vpi~~ia~F~rmk~Lt~------------d~~~I~~Al~~S~~vev~   67 (73)
T cd08037           2 DYIKRQIEYYFSVDNLERDFFLRRKMD--EDGFLPVTLIASFHRVQALTT------------DISLIIKALKDSKVVEII   67 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHhc--cCCCEeHHHHhcchHHHHhcC------------CHHHHHHHHHcCCeEEEe
Confidence            589999999999999999999999997  799999999999999999984            789999999999999999


Q ss_pred             cCc
Q 043731           90 EDG   92 (498)
Q Consensus        90 edg   92 (498)
                      ++.
T Consensus        68 ~~~   70 (73)
T cd08037          68 DMK   70 (73)
T ss_pred             cch
Confidence            774

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

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

Probab=99.90  E-value=1.2e-24  Score=175.09  Aligned_cols=72  Identities=32%  Similarity=0.562  Sum_probs=67.2

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|.  ++|||||++|++|+|||+++.            +++.|++||+.|+.|+|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fLr~~m~--~~G~Vpl~~i~~F~rmk~l~~------------d~~~i~~Al~~S~~lev~   67 (73)
T cd08034           2 EYIKKQIEYYFSVDNLEKDFFLRRKMD--PEGYLPIALIASFHRVQALTT------------DVNLILEALKDSTVVELV   67 (73)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHcC--CCCCEeHHHHhccHHHHHHcC------------CHHHHHHHHHcCCeEEEe
Confidence            689999999999999999999999997  799999999999999999974            789999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +  .+|||
T Consensus        68 e--~kvR~   73 (73)
T cd08034          68 D--EKVRC   73 (73)
T ss_pred             c--CeecC
Confidence            8  45764

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.90  E-value=4e-23  Score=213.80  Aligned_cols=161  Identities=17%  Similarity=0.230  Sum_probs=133.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||+|..|+|+++.. +++++|||||+|.++++|.+|++.  +..+.+++|.|.
T Consensus       104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~-tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~  182 (346)
T TIGR01659       104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYK-TGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS  182 (346)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence            34678999999999999999999999999999999999875 677999999999999999999984  677788887765


Q ss_pred             ecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCC
Q 043731          188 PKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS  267 (498)
Q Consensus       188 ~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~  267 (498)
                      +.....                                             .                            
T Consensus       183 ~a~p~~---------------------------------------------~----------------------------  189 (346)
T TIGR01659       183 YARPGG---------------------------------------------E----------------------------  189 (346)
T ss_pred             cccccc---------------------------------------------c----------------------------
Confidence            431000                                             0                            


Q ss_pred             CchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCce
Q 043731          268 SDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTV  347 (498)
Q Consensus       268 ~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V  347 (498)
                                                                       .....+|||+|||..+|+++|+++|++||.|
T Consensus       190 -------------------------------------------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V  220 (346)
T TIGR01659       190 -------------------------------------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQI  220 (346)
T ss_pred             -------------------------------------------------ccccceeEEeCCCCcccHHHHHHHHHhcCCE
Confidence                                                             0001257999999999999999999999999


Q ss_pred             EEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEcCC
Q 043731          348 KFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPVTG  398 (498)
Q Consensus       348 ~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~~g  398 (498)
                      ..|.+.++.      +.|||+|.+.++|++|+++|+     +..+.+  +.|.|+++..
T Consensus       221 ~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~ln-----g~~~~g~~~~l~V~~a~~  274 (346)
T TIGR01659       221 VQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALN-----NVIPEGGSQPLTVRLAEE  274 (346)
T ss_pred             EEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC-----CCccCCCceeEEEEECCc
Confidence            999988764      579999999999999999984     676765  6888887764

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).

>cd07323 LAM LA motif RNA-binding domain

Probab=99.90  E-value=3.4e-24  Score=174.23  Aligned_cols=74  Identities=45%  Similarity=0.721  Sum_probs=70.3

Q ss_pred             HHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceee
Q 043731           10 QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLS   89 (498)
Q Consensus        10 ~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVs   89 (498)
                      ++|++||||||||+||++|.||+++|  +++|||||++|++|+|||+++.            +.+.|++||+.|..|+|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~--~~~g~Vpl~~i~~F~r~k~l~~------------~~~~i~~Al~~s~~lel~   67 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLM--DDDGWVPLSLLASFNRVKKLTT------------DVELILEALRDSSVVEVS   67 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhc--CCCCCEEHHHHhCchHHHHHcC------------CHHHHHHHHHhCCeEEEe
Confidence            57999999999999999999999999  4899999999999999999984            678999999999999999


Q ss_pred             cCcceeec
Q 043731           90 EDGMKVGR   97 (498)
Q Consensus        90 edg~kVrR   97 (498)
                      +++++|||
T Consensus        68 ~~~~~Vrr   75 (75)
T cd07323          68 EDGTKVRR   75 (75)
T ss_pred             CCCCccCC
Confidence            99999987

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

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

Probab=99.90  E-value=1.3e-22  Score=216.94  Aligned_cols=172  Identities=19%  Similarity=0.252  Sum_probs=138.9

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||.++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+||.. +..+.|++|.|.+
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~-~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~  164 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRN-SRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQS  164 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCC-CCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEee
Confidence            45689999999999999999999999999999999999875 678999999999999999999986 8889999998765


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      .....                      +..           ...     ..     .                  .    
T Consensus       165 ~~~~~----------------------~~~-----------~~~-----~~-----~------------------~----  179 (457)
T TIGR01622       165 SQAEK----------------------NRA-----------AKA-----AT-----H------------------Q----  179 (457)
T ss_pred             cchhh----------------------hhh-----------hhc-----cc-----c------------------c----
Confidence            42100                      000           000     00     0                  0    


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                                                        .+.           .....++||+|||..+++++|+++|++||.|.
T Consensus       180 ----------------------------------~~~-----------~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~  214 (457)
T TIGR01622       180 ----------------------------------PGD-----------IPNFLKLYVGNLHFNITEQELRQIFEPFGDIE  214 (457)
T ss_pred             ----------------------------------CCC-----------CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeE
Confidence                                              000           00134689999999999999999999999999


Q ss_pred             EEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          349 FIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       349 ~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      .|.+.++      .+.|||.|.++++|.+|+..|   |  |..|.|+.|.|..+.
T Consensus       215 ~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l---~--g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       215 DVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVM---N--GFELAGRPIKVGYAQ  264 (457)
T ss_pred             EEEEEEcCCCCccceEEEEEECCHHHHHHHHHhc---C--CcEECCEEEEEEEcc
Confidence            9998854      456999999999999999988   4  899999999999965

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

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

Probab=99.89  E-value=4.5e-22  Score=214.95  Aligned_cols=172  Identities=16%  Similarity=0.129  Sum_probs=122.8

Q ss_pred             cceeeeccCCCc-cccHHHHHHHhccCCceEEEEeecC-CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIG-AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+.+|||+||++ .+|+++|+++|++||.|..|.++++ ++.|||+|.++++|.+|+..|+     |..|.|+.|.|...
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~ln-----g~~l~g~~l~v~~s  348 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLN-----GVKLFGKPLRVCPS  348 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCEECCceEEEEEc
Confidence            456899999997 6999999999999999999999876 4789999999999999999984     89999999999987


Q ss_pred             CChhH---------------HHHHH----HHhh-hhhcc-----ccccccchhhhhhhhhhhhhhhcccCCC--ccceee
Q 043731          397 TGEAE---------------KEYWS----LLRG-NQERH-----RDVKGEEKHLEAENKAASEKMIQQEDAQ--IKPGKF  449 (498)
Q Consensus       397 ~g~~E---------------~e~~~----~~~~-~~~k~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  449 (498)
                      ..+.-               ++|-.    +... .+..+     ....++++||..+..++.|+++|+++|.  |+++|+
T Consensus       349 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~  428 (481)
T TIGR01649       349 KQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKF  428 (481)
T ss_pred             ccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEE
Confidence            44311               11100    0000 00001     1346889999999999999999999998  888888


Q ss_pred             eeccCCCCCCCcccccchhhhh---hhhhhhhhHHh-h-hhheeeeeEeeccC
Q 043731          450 EQHEKPGISSGTSFVRPHLIFL---LRIKCASYWIS-R-CLVRYYVEFVFSDT  497 (498)
Q Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~-~-~~~~~~~~~~~~~~  497 (498)
                       +.+..+ ++|+|||.=...--   .-..|-.++|. + |-.-|.|-+-||-+
T Consensus       429 -~~~~~~-~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~~~lkv~fs~~  479 (481)
T TIGR01649       429 -FPKDNE-RSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAPYHLKVSFSTS  479 (481)
T ss_pred             -ecCCCC-cceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCccceEEEEeccC
Confidence             444444 78999986432111   11234455554 2 23345666666643

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).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.89  E-value=8.8e-22  Score=203.20  Aligned_cols=286  Identities=15%  Similarity=0.195  Sum_probs=158.9

Q ss_pred             ccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccC
Q 043731           71 DTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVA  150 (498)
Q Consensus        71 ~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~  150 (498)
                      .+.+....||..-....+..-..+|....|..      .....++|||+|||.++++++|+++|++||.|..++++++..
T Consensus        53 ~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~  126 (352)
T TIGR01661        53 VRPEDAEKAVNSLNGLRLQNKTIKVSYARPSS------DSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNV  126 (352)
T ss_pred             CcHHHHHHHHhhcccEEECCeeEEEEeecccc------cccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCC
Confidence            35566667776544444432223333332221      124567899999999999999999999999999999988764


Q ss_pred             CCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEEEeecchhHHHHHH-hHHHHhhcCccccCCccCCCCCccCCC
Q 043731          151 DKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELHLKPKKEFEAERAK-ETEEFEKSRPAVGSNRKNNSNAEADYP  225 (498)
Q Consensus       151 ~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~~k~d~~~~k~~-~~~~~~~~~~~~~k~~~~~~~~~~~~~  225 (498)
                       ++.++|+|||+|.+.++|++|++.  +..+.|  .+|.+.+.......... .........        ...  ....+
T Consensus       127 -~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~--------~~~--~~~~~  195 (352)
T TIGR01661       127 -TGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAVQ--------NPQ--TTRVP  195 (352)
T ss_pred             -CCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcCCchhcCchhhccc--------Ccc--cCCCC
Confidence             467899999999999999999984  666666  56777665322210000 000000000        000  00000


Q ss_pred             CCcEEEEEeccccccCcccccCCCC--CCCCCcCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCC
Q 043731          226 KGLIVAFTLKNKSAEGSEEKNGSLK--PANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGD  303 (498)
Q Consensus       226 kg~iv~~~~k~~~~~~~~~~~g~~k--~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~  303 (498)
                      -+..+...    .. .+. +.....  +.........             .......+............ . +......
T Consensus       196 ~~~~~~~~----~~-~~~-~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~  254 (352)
T TIGR01661       196 LSTILTAA----GI-GPM-HHAAARFRPSAGDFTAVL-------------AHQQQQHAVAQQHAAQRASP-P-ATDGQTA  254 (352)
T ss_pred             cccccccc----CC-CCc-cCcccccccCcchhhhhh-------------hhhhhhcccccccccccCCC-c-ccccccc
Confidence            00000000    00 000 000000  0000000000             00000000000000000000 0 0000000


Q ss_pred             CCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHh
Q 043731          304 KSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       304 ~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ....|.  ......+.+..|||+|||+.+++++|+++|++||.|.+|.+.++      +|.|||.|.++++|.+|+++|+
T Consensus       255 ~~~~~~--~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~ln  332 (352)
T TIGR01661       255 GLAAGA--QIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLN  332 (352)
T ss_pred             ccccCC--CCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhC
Confidence            000111  01111233446999999999999999999999999999998764      5679999999999999999984


Q ss_pred             hcccCCeEecCeEEEEEEcCChhH
Q 043731          378 LAQEGGLSVKNFIAVLEPVTGEAE  401 (498)
Q Consensus       378 ~~n~~g~~i~g~~~~v~~~~g~~E  401 (498)
                           |..|+|+.|.|..++.+++
T Consensus       333 -----G~~~~gr~i~V~~~~~~~~  351 (352)
T TIGR01661       333 -----GYTLGNRVLQVSFKTNKAY  351 (352)
T ss_pred             -----CCEECCeEEEEEEccCCCC
Confidence                 9999999999999988764

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

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

Probab=99.89  E-value=4.5e-22  Score=216.59  Aligned_cols=210  Identities=15%  Similarity=0.132  Sum_probs=162.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.  +++++|||||+|.++++|++||+.   ++|..|.     
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~--sG~sRGfaFV~F~~~e~A~~Ai~~---lng~~i~-----  125 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDF--SGQNRGYAFVTFCGKEEAKEAVKL---LNNYEIR-----  125 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECC--CCCccceEEEEeCCHHHHHHHHHH---cCCCeec-----
Confidence            346899999999999999999999999999999999993  578999999999999999999985   4443332     


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                                                         .|..+.+.   ++                                
T Consensus       126 -----------------------------------~Gr~l~V~---~S--------------------------------  135 (578)
T TIGR01648       126 -----------------------------------PGRLLGVC---IS--------------------------------  135 (578)
T ss_pred             -----------------------------------CCcccccc---cc--------------------------------
Confidence                                               00000000   00                                


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCc--eE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGT--VK  348 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~--V~  348 (498)
                                                                     ....++||+|||..+++++|.+.|++++.  +.
T Consensus       136 -----------------------------------------------~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~  168 (578)
T TIGR01648       136 -----------------------------------------------VDNCRLFVGGIPKNKKREEILEEFSKVTEGVVD  168 (578)
T ss_pred             -----------------------------------------------ccCceeEeecCCcchhhHHHHHHhhcccCCceE
Confidence                                                           00125799999999999999999999963  34


Q ss_pred             EEEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHHHhhhhhccccccccc
Q 043731          349 FIDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEE  422 (498)
Q Consensus       349 ~V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~~  422 (498)
                      .+.+.      +.++.|||+|.++++|.+|+..+   +.+.+.+.|+.|.|..+..+.+.+.       ........+++
T Consensus       169 vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL---~~gki~l~Gr~I~VdwA~p~~~~d~-------~~~~~~k~LfV  238 (578)
T TIGR01648       169 VIVYHSAADKKKNRGFAFVEYESHRAAAMARRKL---MPGRIQLWGHVIAVDWAEPEEEVDE-------DVMAKVKILYV  238 (578)
T ss_pred             EEEeccccccCccCceEEEEcCCHHHHHHHHHHh---hccceEecCceEEEEeecccccccc-------cccccccEEEE
Confidence            44332      24567999999999999999887   3456889999999998876544321       11122356899


Q ss_pred             hhhhhhhhhhhhhhhcccC--CCccceeeeeccCCCCCCCccccc
Q 043731          423 KHLEAENKAASEKMIQQED--AQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      .||..+..++.|+++|+.+  |.|..+++ .       +|++||.
T Consensus       239 gNL~~~~tee~L~~~F~~f~~G~I~rV~~-~-------rgfAFVe  275 (578)
T TIGR01648       239 RNLMTTTTEEIIEKSFSEFKPGKVERVKK-I-------RDYAFVH  275 (578)
T ss_pred             eCCCCCCCHHHHHHHHHhcCCCceEEEEe-e-------cCeEEEE
Confidence            9999999999999999999  99999876 2       5688884

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.

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

Probab=99.88  E-value=2.5e-22  Score=219.05  Aligned_cols=172  Identities=15%  Similarity=0.234  Sum_probs=138.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++++++|+++|++||.|.+|+|+++.. +++++|||||+|.++++|++|+..  +..++|+.|.|...
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~-TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp  184 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPA-TGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  184 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCC-CCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence            457899999999999999999999999999999999876 678999999999999999999984  78899999887522


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                      ...                                +...  ..     ..                       ..     
T Consensus       185 ~~~--------------------------------p~a~--~~-----~~-----------------------~~-----  197 (612)
T TIGR01645       185 SNM--------------------------------PQAQ--PI-----ID-----------------------MV-----  197 (612)
T ss_pred             ccc--------------------------------cccc--cc-----cc-----------------------cc-----
Confidence            100                                0000  00     00                       00     


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                .  ........+||+||+..+++++|+++|++||.|.+
T Consensus       198 ------------------------------------------~--~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~s  233 (612)
T TIGR01645       198 ------------------------------------------Q--EEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVK  233 (612)
T ss_pred             ------------------------------------------c--ccccccceEEeecCCCCCCHHHHHHHHhhcCCeeE
Confidence                                                      0  00011236899999999999999999999999999


Q ss_pred             EEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChh
Q 043731          350 IDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEA  400 (498)
Q Consensus       350 V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~  400 (498)
                      |.+.++      +|+|||+|.+.++|.+|++.+   |  |..|+|+.|.|..+....
T Consensus       234 vrl~~D~~tgksKGfGFVeFe~~e~A~kAI~am---N--g~elgGr~LrV~kAi~pP  285 (612)
T TIGR01645       234 CQLARAPTGRGHKGYGFIEYNNLQSQSEAIASM---N--LFDLGGQYLRVGKCVTPP  285 (612)
T ss_pred             EEEEecCCCCCcCCeEEEEECCHHHHHHHHHHh---C--CCeeCCeEEEEEecCCCc
Confidence            998764      467999999999999999998   4  999999999999887644

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.

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

Probab=99.87  E-value=1.2e-21  Score=212.03  Aligned_cols=251  Identities=15%  Similarity=0.130  Sum_probs=159.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccC------------CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-C
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQH------------VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-G  176 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~------------G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~  176 (498)
                      ....|+|||+|||+++|+++|.++|.+|            +.|..+.+.       ..+|||||+|.+.++|..||.. +
T Consensus       172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-------~~kg~afVeF~~~e~A~~Al~l~g  244 (509)
T TIGR01642       172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-------KEKNFAFLEFRTVEEATFAMALDS  244 (509)
T ss_pred             CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-------CCCCEEEEEeCCHHHHhhhhcCCC
Confidence            5678999999999999999999999975            244444442       3479999999999999999985 7


Q ss_pred             CeeCCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCc
Q 043731          177 LFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSE  256 (498)
Q Consensus       177 ~~~~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~  256 (498)
                      ..|.|+.|.|....+|......            ..   ..                    .      +..   ++.   
T Consensus       245 ~~~~g~~l~v~r~~~~~~~~~~------------~~---~~--------------------~------~~~---~~~---  277 (509)
T TIGR01642       245 IIYSNVFLKIRRPHDYIPVPQI------------TP---EV--------------------S------QKN---PDD---  277 (509)
T ss_pred             eEeeCceeEecCccccCCcccc------------CC---CC--------------------C------CCC---Ccc---
Confidence            8899999987644333210000            00   00                    0      000   000   


Q ss_pred             CCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHH
Q 043731          257 NACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMRED  336 (498)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~Ed  336 (498)
                      ..   ...                                   +.  ...      ..........|||+|||..+++++
T Consensus       278 ~~---~~~-----------------------------------~~--~~~------~~~~~~~~~~l~v~nlp~~~~~~~  311 (509)
T TIGR01642       278 NA---KNV-----------------------------------EK--LVN------STTVLDSKDRIYIGNLPLYLGEDQ  311 (509)
T ss_pred             cc---ccc-----------------------------------cc--ccc------cccCCCCCCEEEEeCCCCCCCHHH
Confidence            00   000                                   00  000      000001234689999999999999


Q ss_pred             HHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHH------
Q 043731          337 LKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEY------  404 (498)
Q Consensus       337 Lke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~------  404 (498)
                      |+++|++||.|..+.+.++      .+.|||.|.++++|..|++.|+     |..|.|+.|.|..+........      
T Consensus       312 l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~-----g~~~~~~~l~v~~a~~~~~~~~~~~~~~  386 (509)
T TIGR01642       312 IKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALN-----GKDTGDNKLHVQRACVGANQATIDTSNG  386 (509)
T ss_pred             HHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEECccCCCCCCcccccc
Confidence            9999999999999887653      5679999999999999999884     9999999999999843211000      


Q ss_pred             ------HH-HHhhhh---hccccccccchhhh---hhhh-------hhhhhhhcccCCCccceeeeeccC----CCCCCC
Q 043731          405 ------WS-LLRGNQ---ERHRDVKGEEKHLE---AENK-------AASEKMIQQEDAQIKPGKFEQHEK----PGISSG  460 (498)
Q Consensus       405 ------~~-~~~~~~---~k~~~~~~~~~~~~---~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~  460 (498)
                            +. .+....   +..-..-+.+.|+-   +-.+       .+.++++|..||.|.++++ +++.    +|.+.|
T Consensus       387 ~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i-~~~~~~~~~~~~~G  465 (509)
T TIGR01642       387 MAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVI-PRPNGDRNSTPGVG  465 (509)
T ss_pred             ccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEe-eccCcCCCcCCCcc
Confidence                  00 000000   00001112223331   1111       2568999999999999988 5542    356677


Q ss_pred             cccccc
Q 043731          461 TSFVRP  466 (498)
Q Consensus       461 ~~~~~~  466 (498)
                      ++||.=
T Consensus       466 ~~fV~F  471 (509)
T TIGR01642       466 KVFLEY  471 (509)
T ss_pred             eEEEEE
Confidence            778753

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=99.87  E-value=7.8e-21  Score=208.74  Aligned_cols=221  Identities=18%  Similarity=0.256  Sum_probs=154.9

Q ss_pred             ccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccC
Q 043731           71 DTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVA  150 (498)
Q Consensus        71 ~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~  150 (498)
                      .+.+....|+..-....+......|.+..+..... .......++|||+|||.++|+++|+++|++||.|.++.++++. 
T Consensus       137 ~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~~~-~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~-  214 (562)
T TIGR01628       137 EKEESAKAAIQKVNGMLLNDKEVYVGRFIKKHERE-AAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDG-  214 (562)
T ss_pred             CCHHHHHHHHHHhcccEecCceEEEeccccccccc-cccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECC-
Confidence            34556666666544444433222232221111100 0022345789999999999999999999999999999999885 


Q ss_pred             CCCcccceEEEEeCCHHHHHHHHHh--CCeeC----CeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCC
Q 043731          151 DKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA----GVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADY  224 (498)
Q Consensus       151 ~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~----G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~  224 (498)
                       ++.++|||||+|.+.++|.+|++.  +..+.    |+.|.|.+......+....+..+....                 
T Consensus       215 -~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~-----------------  276 (562)
T TIGR01628       215 -SGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQ-----------------  276 (562)
T ss_pred             -CCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHHHhhHHhhh-----------------
Confidence             367899999999999999999985  66677    777766543211110000000000000                 


Q ss_pred             CCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCC
Q 043731          225 PKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDK  304 (498)
Q Consensus       225 ~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~  304 (498)
                                                                                        .+            
T Consensus       277 ------------------------------------------------------------------~~------------  278 (562)
T TIGR01628       277 ------------------------------------------------------------------QE------------  278 (562)
T ss_pred             ------------------------------------------------------------------hh------------
Confidence                                                                              00            


Q ss_pred             CCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhc
Q 043731          305 SSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLA  379 (498)
Q Consensus       305 ~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~  379 (498)
                               ........++||+||+..+++++|+++|++||.|..|.+.++     ++.|||.|.++++|.+|+..++  
T Consensus       279 ---------~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~--  347 (562)
T TIGR01628       279 ---------RKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMH--  347 (562)
T ss_pred             ---------hhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhc--
Confidence                     000012346899999999999999999999999999998765     3679999999999999999884  


Q ss_pred             ccCCeEecCeEEEEEEcCChhHHH
Q 043731          380 QEGGLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       380 n~~g~~i~g~~~~v~~~~g~~E~e  403 (498)
                         |..|+|+.|.|..+..++++.
T Consensus       348 ---g~~~~gk~l~V~~a~~k~~~~  368 (562)
T TIGR01628       348 ---GRMLGGKPLYVALAQRKEQRR  368 (562)
T ss_pred             ---CCeeCCceeEEEeccCcHHHH
Confidence               899999999999999888775

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

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

Probab=99.85  E-value=3.8e-22  Score=155.87  Aligned_cols=61  Identities=43%  Similarity=0.769  Sum_probs=54.3

Q ss_pred             HHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhc
Q 043731           12 VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKS   83 (498)
Q Consensus        12 i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S   83 (498)
                      |++||||||||+||++|+||+++|.++++|||||++|++|+|||+++.           .+++.|++||+.|
T Consensus         1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~-----------~~~~~I~~al~~S   61 (61)
T PF05383_consen    1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTN-----------TDIELIVDALRDS   61 (61)
T ss_dssp             HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH-------------S-HHHHHHHHHTS
T ss_pred             ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhc-----------CCHHHHHHHHHcC
Confidence            789999999999999999999999988899999999999999999982           2789999999987

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

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

Probab=99.83  E-value=5.5e-20  Score=192.07  Aligned_cols=251  Identities=19%  Similarity=0.210  Sum_probs=175.9

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ..||||++||++++.++|.++|+.+|+|..+.+..++. +...+||+||+|+-.|++++|++.  ..+|+|+.|.|.+..
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~g-s~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~   83 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKG-SSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAK   83 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCC-cccccCccceeeehHhHHHHHHHHhhcCcccceeccccccc
Confidence            47999999999999999999999999999999988876 567899999999999999999996  778999999987653


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      .....+..            .+.  .++          .+.+         +.+++..                      
T Consensus        84 ~R~r~e~~------------~~~--e~~----------~veK---------~~~q~~~----------------------  108 (678)
T KOG0127|consen   84 KRARSEEV------------EKG--ENK----------AVEK---------PIEQKRP----------------------  108 (678)
T ss_pred             ccccchhc------------ccc--cch----------hhhc---------ccccCCc----------------------
Confidence            11100000            000  000          0000         0000000                      


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                            .                   ....+++-..+.++|||+.|...+|+-+|+.||.|.-|
T Consensus       109 ----------------------~-------------------k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei  147 (678)
T KOG0127|consen  109 ----------------------T-------------------KAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEI  147 (678)
T ss_pred             ----------------------c-------------------hhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEE
Confidence                                  0                   00001112346789999999999999999999999999


Q ss_pred             EeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh--------hHHHHHHHH---------
Q 043731          351 DFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE--------AEKEYWSLL---------  408 (498)
Q Consensus       351 ~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~--------~E~e~~~~~---------  408 (498)
                      .|++-.     |+|||.|.+..+|++|++.+   |  |..|+|+.|.|.-+..+        +|.+.+++.         
T Consensus       148 ~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~---N--~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e~  222 (678)
T KOG0127|consen  148 VIPRKKDGKLCGFAFVQFKEKKDAEKALEFF---N--GNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKEA  222 (678)
T ss_pred             EcccCCCCCccceEEEEEeeHHHHHHHHHhc---c--CceecCceeEEeeecccccccccchhhhhhhhhccchhhhccc
Confidence            998643     35899999999999999988   4  99999999998876431        122222210         


Q ss_pred             -------------------------------------------------------hhhhhcc-c-----cccccchhhhh
Q 043731          409 -------------------------------------------------------RGNQERH-R-----DVKGEEKHLEA  427 (498)
Q Consensus       409 -------------------------------------------------------~~~~~k~-~-----~~~~~~~~~~~  427 (498)
                                                                             +..|.+- +     +.-..+-||-=
T Consensus       223 ~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~f  302 (678)
T KOG0127|consen  223 DEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPF  302 (678)
T ss_pred             ccccccccchhcccccccccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCCc
Confidence                                                                   0001110 0     01112334444


Q ss_pred             hhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          428 ENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      +...+.+.+.|+.||-|..+.+..|-..|.|+|++||.
T Consensus       303 D~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~  340 (678)
T KOG0127|consen  303 DTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVK  340 (678)
T ss_pred             cccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEE
Confidence            45567889999999999999986666689999999996

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

Probab=99.83  E-value=7.6e-20  Score=177.44  Aligned_cols=170  Identities=15%  Similarity=0.225  Sum_probs=137.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .--|||+.|...++-+.|++.|.+||+|...++.||.. +.++|||+||.|-+.++|++|+..  +..+.+|.|+-.|+.
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~-T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT  140 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMN-TGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT  140 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccceEeeccc-CCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence            34699999999999999999999999999999999987 788999999999999999999995  888999999866652


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                          +|..            +.   +        .++  +++                   |+                 
T Consensus       141 ----RKp~------------e~---n--------~~~--ltf-------------------de-----------------  155 (321)
T KOG0148|consen  141 ----RKPS------------EM---N--------GKP--LTF-------------------DE-----------------  155 (321)
T ss_pred             ----cCcc------------cc---C--------CCC--ccH-------------------HH-----------------
Confidence                1110            00   0        000  011                   00                 


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                                        +.      . .....+++|||+|++..+|+++|++.|++||.|..|
T Consensus       156 ----------------------------------V~------N-Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EV  194 (321)
T KOG0148|consen  156 ----------------------------------VY------N-QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEV  194 (321)
T ss_pred             ----------------------------------Hh------c-cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEE
Confidence                                              00      0 011235579999999999999999999999999999


Q ss_pred             EeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          351 DFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       351 ~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ++-++++.+||+|++.|+|.+||..+   |  +..|.|..|.+-
T Consensus       195 RvFk~qGYaFVrF~tkEaAahAIv~m---N--ntei~G~~VkCs  233 (321)
T KOG0148|consen  195 RVFKDQGYAFVRFETKEAAAHAIVQM---N--NTEIGGQLVRCS  233 (321)
T ss_pred             EEecccceEEEEecchhhHHHHHHHh---c--CceeCceEEEEe
Confidence            99999999999999999999999988   4  899999988663

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

Probab=99.81  E-value=6.4e-20  Score=191.70  Aligned_cols=151  Identities=23%  Similarity=0.386  Sum_probs=133.9

Q ss_pred             CCCHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhh
Q 043731            3 SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRK   82 (498)
Q Consensus         3 ~~~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~   82 (498)
                      +++.++++.+++|||||||..||..|.||..+|+  +|.||||.+|+.|..|+.|++            |+++|+++|+.
T Consensus        91 Pls~~~kq~lk~qlEy~fSreNlssD~YL~sQMD--SDqyVPI~tva~~~~i~kltt------------DvdLI~Evlre  156 (684)
T KOG2591|consen   91 PLSRDLKQLLKKQLEYYFSRENLSSDRYLISQMD--SDQYVPINTVANFPEIMKLTT------------DVDLIVEVLRE  156 (684)
T ss_pred             ccchhHHHHHHHHHHHhhccccccchhhhhhhcc--cccccchhhhccchhhhhhcc------------chHHHHHHHhc
Confidence            7788999999999999999999999999999999  899999999999999999985            78999999999


Q ss_pred             cCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhcc--CCceeeEEcccccCCCCcccceEE
Q 043731           83 SSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQ--HVKVNSVRLPRHVADKRLFCGTAL  160 (498)
Q Consensus        83 S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~--~G~V~~Vri~r~~~~~~~~kG~aF  160 (498)
                      |+.|+|+++|.+||...            ..+-|+++-||..+.+++++.+|+.  |-++.++..-.+        ..||
T Consensus       157 sp~VqvDekgekVrp~~------------kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N--------~nWy  216 (684)
T KOG2591|consen  157 SPNVQVDEKGEKVRPNH------------KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN--------DNWY  216 (684)
T ss_pred             CCCceeccCccccccCc------------ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec--------CceE
Confidence            99999999999998543            3456889999999999999999986  777888776443        3499


Q ss_pred             EEeCCHHHHHHHHHh----CCeeCCeEEEEe
Q 043731          161 IEFSTEEDAEKVLKQ----GLFYAGVELHLK  187 (498)
Q Consensus       161 VeF~s~e~A~kAl~~----~~~~~G~~l~v~  187 (498)
                      |+|++..||+.|.+-    -.+|.|++|..+
T Consensus       217 ITfesd~DAQqAykylreevk~fqgKpImAR  247 (684)
T KOG2591|consen  217 ITFESDTDAQQAYKYLREEVKTFQGKPIMAR  247 (684)
T ss_pred             EEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence            999999999999872    577999988643

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

Probab=99.81  E-value=1.3e-18  Score=178.53  Aligned_cols=247  Identities=18%  Similarity=0.217  Sum_probs=156.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee-CCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY-AGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~-~G~~l~v~  187 (498)
                      ....-|||+.||.++.+++|.-+|.+.|+|-.+||+.++. ++.++|||||+|.+.++|++|++.  ...| .|+.|.|.
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~-sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc  159 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPF-SGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVC  159 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeeccc-CCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEE
Confidence            4567899999999999999999999999999999999975 688999999999999999999995  3332 66777665


Q ss_pred             ecch----hHHH--HHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCC
Q 043731          188 PKKE----FEAE--RAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKP  261 (498)
Q Consensus       188 ~k~d----~~~~--k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~  261 (498)
                      .+.+    |.-.  |..++++.....              .....|. +-+.+-+.             ++|..-+    
T Consensus       160 ~Svan~RLFiG~IPK~k~keeIlee~--------------~kVteGV-vdVivy~~-------------p~dk~KN----  207 (506)
T KOG0117|consen  160 VSVANCRLFIGNIPKTKKKEEILEEM--------------KKVTEGV-VDVIVYPS-------------PDDKTKN----  207 (506)
T ss_pred             EeeecceeEeccCCccccHHHHHHHH--------------HhhCCCe-eEEEEecC-------------ccccccc----
Confidence            4321    1111  122222221100              0112343 22222110             1111100    


Q ss_pred             CCCC--CCCchhhhHHhhhhhcccCCCCCCccccccccccccCC-CCCCCcccccccccCcceeeeccCCCccccHHHHH
Q 043731          262 DGEP--DSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGD-KSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLK  338 (498)
Q Consensus       262 ~~~~--~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~-~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLk  338 (498)
                      .+-.  +=.+-..+....+|+... ..+-..  -.+.-++-+.. +++.       +.-.+-..+||+||+.+||+|.|+
T Consensus       208 RGFaFveYe~H~~Aa~aRrKl~~g-~~klwg--n~~tVdWAep~~e~de-------d~ms~VKvLYVRNL~~~tTeE~lk  277 (506)
T KOG0117|consen  208 RGFAFVEYESHRAAAMARRKLMPG-KIKLWG--NAITVDWAEPEEEPDE-------DTMSKVKVLYVRNLMESTTEETLK  277 (506)
T ss_pred             cceEEEEeecchhHHHHHhhccCC-ceeecC--CcceeeccCcccCCCh-------hhhhheeeeeeeccchhhhHHHHH
Confidence            0100  000012223333332210 011000  00111111111 1100       011123368999999999999999


Q ss_pred             HHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHH
Q 043731          339 SVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSL  407 (498)
Q Consensus       339 e~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~  407 (498)
                      ++|++||.|..|...++  .|||.|.+.++|-+|+..+   |  |..|+|..|.|.++-...++++|.+
T Consensus       278 ~~F~~~G~veRVkk~rD--YaFVHf~eR~davkAm~~~---n--gkeldG~~iEvtLAKP~~k~k~~r~  339 (506)
T KOG0117|consen  278 KLFNEFGKVERVKKPRD--YAFVHFAEREDAVKAMKET---N--GKELDGSPIEVTLAKPVDKKKKERK  339 (506)
T ss_pred             HHHHhccceEEeecccc--eeEEeecchHHHHHHHHHh---c--CceecCceEEEEecCChhhhccchh
Confidence            99999999999987754  9999999999999999987   4  9999999999999999999999974

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

Probab=99.80  E-value=1.1e-18  Score=190.22  Aligned_cols=202  Identities=19%  Similarity=0.212  Sum_probs=145.4

Q ss_pred             cccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCc-eeeEEcccc
Q 043731           70 EDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVK-VNSVRLPRH  148 (498)
Q Consensus        70 ~~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~-V~~Vri~r~  148 (498)
                      ..+.+....||+.-...++. .++.+....          ....++|||+|||.++|.++|.+.|++++. +..+.+...
T Consensus       106 F~~~e~A~~Ai~~lng~~i~-~Gr~l~V~~----------S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~  174 (578)
T TIGR01648       106 FCGKEEAKEAVKLLNNYEIR-PGRLLGVCI----------SVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHS  174 (578)
T ss_pred             eCCHHHHHHHHHHcCCCeec-CCccccccc----------cccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEecc
Confidence            34566677777654433432 222222111          234689999999999999999999999963 444433322


Q ss_pred             cCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCC
Q 043731          149 VADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADY  224 (498)
Q Consensus       149 ~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~  224 (498)
                      ..+.++++|||||+|.+.++|..|++.    ...+.|+.|.|.|...-.                        ..     
T Consensus       175 ~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~------------------------~~-----  225 (578)
T TIGR01648       175 AADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEE------------------------EV-----  225 (578)
T ss_pred             ccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccc------------------------cc-----
Confidence            222456899999999999999999974    245778888776642000                        00     


Q ss_pred             CCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCC
Q 043731          225 PKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDK  304 (498)
Q Consensus       225 ~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~  304 (498)
                                                 +                                   +                
T Consensus       226 ---------------------------d-----------------------------------~----------------  227 (578)
T TIGR01648       226 ---------------------------D-----------------------------------E----------------  227 (578)
T ss_pred             ---------------------------c-----------------------------------c----------------
Confidence                                       0                                   0                


Q ss_pred             CCCCcccccccccCcceeeeccCCCccccHHHHHHHhccC--CceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccC
Q 043731          305 SSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKF--GTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEG  382 (498)
Q Consensus       305 ~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~f--G~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~  382 (498)
                                +......+|||+||+..+++|+|+++|++|  |+|..|.+.+  +.|||+|.++++|++|+++|   |  
T Consensus       228 ----------~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--gfAFVeF~s~e~A~kAi~~l---n--  290 (578)
T TIGR01648       228 ----------DVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--DYAFVHFEDREDAVKAMDEL---N--  290 (578)
T ss_pred             ----------cccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--CeEEEEeCCHHHHHHHHHHh---C--
Confidence                      000012368999999999999999999999  9999998775  49999999999999999988   4  


Q ss_pred             CeEecCeEEEEEEcCChhHHHHHH
Q 043731          383 GLSVKNFIAVLEPVTGEAEKEYWS  406 (498)
Q Consensus       383 g~~i~g~~~~v~~~~g~~E~e~~~  406 (498)
                      |..|+|+.|.|..+...+...++.
T Consensus       291 G~~i~Gr~I~V~~Akp~~~~~~~~  314 (578)
T TIGR01648       291 GKELEGSEIEVTLAKPVDKKSYVR  314 (578)
T ss_pred             CCEECCEEEEEEEccCCCcccccc
Confidence            899999999999997766555553

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

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

Probab=99.79  E-value=4.9e-19  Score=170.84  Aligned_cols=228  Identities=14%  Similarity=0.165  Sum_probs=166.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ....|+|.-||..+|+++|+.+|+..|+|+++.+.||+. ++++.||+||.|-+++||++|+..  +..+..+.|.|...
T Consensus        40 skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKi-tGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA  118 (360)
T KOG0145|consen   40 SKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKI-TGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA  118 (360)
T ss_pred             ccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccc-cccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence            345689999999999999999999999999999999997 788999999999999999999985  55555555554433


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                      +.-.+                                    +                                      
T Consensus       119 RPSs~------------------------------------~--------------------------------------  124 (360)
T KOG0145|consen  119 RPSSD------------------------------------S--------------------------------------  124 (360)
T ss_pred             cCChh------------------------------------h--------------------------------------
Confidence            21000                                    0                                      


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                      =+..++||.+||..+|..+|.++|++||.|.-
T Consensus       125 ------------------------------------------------Ik~aNLYvSGlPktMtqkelE~iFs~fGrIIt  156 (360)
T KOG0145|consen  125 ------------------------------------------------IKDANLYVSGLPKTMTQKELEQIFSPFGRIIT  156 (360)
T ss_pred             ------------------------------------------------hcccceEEecCCccchHHHHHHHHHHhhhhhh
Confidence                                                            01225799999999999999999999997633


Q ss_pred             EEe------ecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEec--CeEEEEEEcCChhHHH---HHHH-------Hhhh
Q 043731          350 IDF------KIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVK--NFIAVLEPVTGEAEKE---YWSL-------LRGN  411 (498)
Q Consensus       350 V~~------~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~--g~~~~v~~~~g~~E~e---~~~~-------~~~~  411 (498)
                      -++      .-+++-|||||...++|+.|+..|+     |.+=-  ...|+|+.+..-.-+.   -+..       ....
T Consensus       157 SRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lN-----G~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~G  231 (360)
T KOG0145|consen  157 SRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLN-----GQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGG  231 (360)
T ss_pred             hhhhhhcccceecceeEEEecchhHHHHHHHhcc-----CCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCC
Confidence            222      1245669999999999999999984     33332  3577888774432222   1111       1111


Q ss_pred             hhccccc-----------------------------------------cccchhhhhhhhhhhhhhhcccCCCccceeee
Q 043731          412 QERHRDV-----------------------------------------KGEEKHLEAENKAASEKMIQQEDAQIKPGKFE  450 (498)
Q Consensus       412 ~~k~~~~-----------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  450 (498)
                      ..-|+..                                         -..+-||.-+.++.-|-.+|..||-|+..|| 
T Consensus       232 p~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKv-  310 (360)
T KOG0145|consen  232 PMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKV-  310 (360)
T ss_pred             cccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEE-
Confidence            1111111                                         1235577778888899999999999999999 


Q ss_pred             eccCC-CCCCCcccccchh
Q 043731          451 QHEKP-GISSGTSFVRPHL  468 (498)
Q Consensus       451 ~~~~~-~~~~~~~~~~~~~  468 (498)
                      .||.. -.-||+|||.-.+
T Consensus       311 irD~ttnkCKGfgFVtMtN  329 (360)
T KOG0145|consen  311 IRDFTTNKCKGFGFVTMTN  329 (360)
T ss_pred             EecCCcccccceeEEEecc
Confidence            88876 7889999997553

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

Probab=99.78  E-value=9.4e-18  Score=181.75  Aligned_cols=185  Identities=15%  Similarity=0.172  Sum_probs=130.7

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+.+|+++|+++|++||.|..+.|+++.. ++.++|||||+|.+.++|..|+..  +..+.|+.|.|.+.
T Consensus       294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~-~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a  372 (509)
T TIGR01642       294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIA-TGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA  372 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCC-CCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            357999999999999999999999999999999988865 677899999999999999999984  88899999998775


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCc-EEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGL-IVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~-iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ..-..            .       .....     ..+. .+...           . .               ..    
T Consensus       373 ~~~~~------------~-------~~~~~-----~~~~~~~~~~-----------~-~---------------~~----  397 (509)
T TIGR01642       373 CVGAN------------Q-------ATIDT-----SNGMAPVTLL-----------A-K---------------AL----  397 (509)
T ss_pred             ccCCC------------C-------CCccc-----cccccccccc-----------c-c---------------cc----
Confidence            31000            0       00000     0000 00000           0 0               00    


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCcc----------ccHHHHH
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDV----------VMREDLK  338 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~----------vt~EdLk  338 (498)
                              ..                        .....+        ...+..+++.|+...          ...|+|+
T Consensus       398 --------~~------------------------~~~~~~--------~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~  437 (509)
T TIGR01642       398 --------SQ------------------------SILQIG--------GKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVK  437 (509)
T ss_pred             --------hh------------------------hhcccc--------CCCceEEEeccCCchhHhcCcchHHHHHHHHH
Confidence                    00                        000000        001234566666421          2347899


Q ss_pred             HHhccCCceEEEEeecC---------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          339 SVFHKFGTVKFIDFKIG---------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       339 e~F~~fG~V~~V~~~~g---------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ++|++||.|..|.|++.         .|.|||.|+++++|++|+++|+     |..|+|+.|.+....
T Consensus       438 ~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~ln-----Gr~~~gr~v~~~~~~  500 (509)
T TIGR01642       438 TEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMN-----GRKFNDRVVVAAFYG  500 (509)
T ss_pred             HHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEEeC
Confidence            99999999999998753         3568999999999999999984     999999999988754

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

>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=99.76  E-value=1.4e-18  Score=150.53  Aligned_cols=97  Identities=36%  Similarity=0.642  Sum_probs=71.8

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE  401 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E  401 (498)
                      .|.+.+++..+++++||++|++||.|.||+|.+|..+|||||.++++|++|++++..++++++.|++..+++++|+|++|
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vLeGeeE   82 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVLEGEEE   82 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE---HHHH
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEECCCHHH
Confidence            45567799999999999999999999999999999999999999999999999999888889999999999999999999


Q ss_pred             HHHHHHHhhhhhccccc
Q 043731          402 KEYWSLLRGNQERHRDV  418 (498)
Q Consensus       402 ~e~~~~~~~~~~k~~~~  418 (498)
                      ++||+++.+.+++.+..
T Consensus        83 ~~Yw~ki~e~~~~k~~~   99 (105)
T PF08777_consen   83 EEYWKKIIEDRQKKRNK   99 (105)
T ss_dssp             HHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            99999999988876643

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

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

Probab=99.75  E-value=6.2e-17  Score=173.21  Aligned_cols=79  Identities=18%  Similarity=0.330  Sum_probs=72.5

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||..+|+++|+++|++||.|..|.|+++.. ++.++|||||+|.+.++|.+|+..  +..+.|++|.|.+..
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~-~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPE-TGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC-CCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            58999999999999999999999999999999998875 567899999999999999999984  889999999999876


Q ss_pred             hh
Q 043731          191 EF  192 (498)
Q Consensus       191 d~  192 (498)
                      +.
T Consensus       265 ~~  266 (457)
T TIGR01622       265 DS  266 (457)
T ss_pred             CC
Confidence            43

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.

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

Probab=99.71  E-value=3.8e-17  Score=150.93  Aligned_cols=160  Identities=19%  Similarity=0.159  Sum_probs=130.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ...||||+||+..++++-|.++|-+.|+|.+++||+++- +...+|||||+|.++|+|+-|++-  ...+-|++|+|...
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv-~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka   86 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRV-TQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA   86 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhh-cccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence            357999999999999999999999999999999999987 567899999999999999999983  67788999885332


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                      ..                        ..++                                                  
T Consensus        87 s~------------------------~~~n--------------------------------------------------   92 (203)
T KOG0131|consen   87 SA------------------------HQKN--------------------------------------------------   92 (203)
T ss_pred             cc------------------------cccc--------------------------------------------------
Confidence            10                        0000                                                  


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                         +.            .+.++||+||.+.+++.-|.++|+.||.+..
T Consensus        93 -----------------------------------l~------------vganlfvgNLd~~vDe~~L~dtFsafG~l~~  125 (203)
T KOG0131|consen   93 -----------------------------------LD------------VGANLFVGNLDPEVDEKLLYDTFSAFGVLIS  125 (203)
T ss_pred             -----------------------------------cc------------ccccccccccCcchhHHHHHHHHHhcccccc
Confidence                                               00            0135799999999999999999999997643


Q ss_pred             E-Eee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          350 I-DFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       350 V-~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      . .++      .++++|||.|.+.|++.+|++++   |  |-.+.+++++|..+-.
T Consensus       126 ~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~---n--gq~l~nr~itv~ya~k  176 (203)
T KOG0131|consen  126 PPKIMRDPDTGNPKGFGFINYASFEASDAAIGSM---N--GQYLCNRPITVSYAFK  176 (203)
T ss_pred             CCcccccccCCCCCCCeEEechhHHHHHHHHHHh---c--cchhcCCceEEEEEEe
Confidence            1 222      23456999999999999999998   4  9999999999998843

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

Probab=99.71  E-value=3.5e-17  Score=167.43  Aligned_cols=168  Identities=13%  Similarity=0.174  Sum_probs=131.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh---CCeeCCe--EE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---GLFYAGV--EL  184 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~---~~~~~G~--~l  184 (498)
                      +.+.-.+||+.+|..+++.+|+++|++||.|..|.|++|+. ++.++||+||.|.+.++|.+|+..   ..++-|-  +|
T Consensus        31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~-t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pv  109 (510)
T KOG0144|consen   31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKS-TGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPV  109 (510)
T ss_pred             CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccc-cCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcce
Confidence            35667899999999999999999999999999999999997 788999999999999999998874   3445442  22


Q ss_pred             EEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCC
Q 043731          185 HLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGE  264 (498)
Q Consensus       185 ~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~  264 (498)
                      .|++..                                                                          
T Consensus       110 qvk~Ad--------------------------------------------------------------------------  115 (510)
T KOG0144|consen  110 QVKYAD--------------------------------------------------------------------------  115 (510)
T ss_pred             eecccc--------------------------------------------------------------------------
Confidence            222210                                                                          


Q ss_pred             CCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccC
Q 043731          265 PDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKF  344 (498)
Q Consensus       265 ~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~f  344 (498)
                                                        .|.++-             .....+||+-|+..+|+.+++++|++|
T Consensus       116 ----------------------------------~E~er~-------------~~e~KLFvg~lsK~~te~evr~iFs~f  148 (510)
T KOG0144|consen  116 ----------------------------------GERERI-------------VEERKLFVGMLSKQCTENEVREIFSRF  148 (510)
T ss_pred             ----------------------------------hhhhcc-------------ccchhhhhhhccccccHHHHHHHHHhh
Confidence                                              000000             001246999999999999999999999


Q ss_pred             CceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEcCChhHHH
Q 043731          345 GTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPVTGEAEKE  403 (498)
Q Consensus       345 G~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~~g~~E~e  403 (498)
                      |.|..+.+.||     +|+|||.|.+.|.|..|+.+|+    +-.+|.|  ..+.|+-+.-+-+|+
T Consensus       149 G~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~n----g~~tmeGcs~PLVVkFADtqkdk~  210 (510)
T KOG0144|consen  149 GHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALN----GTQTMEGCSQPLVVKFADTQKDKD  210 (510)
T ss_pred             CccchhhheecccccccceeEEEEehHHHHHHHHHhhc----cceeeccCCCceEEEecccCCCch
Confidence            99999998874     5669999999999999999984    4567776  577888885544443

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

Probab=99.68  E-value=5.5e-15  Score=161.78  Aligned_cols=122  Identities=19%  Similarity=0.284  Sum_probs=91.0

Q ss_pred             CCcccHHHHHHHHhhcCcceeecCcceeecccCCcchhhh-----hhccccceEEeccCCCCCcHHHHHHHhccCCceee
Q 043731           68 IPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEM-----KEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNS  142 (498)
Q Consensus        68 v~~~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~-----~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~  142 (498)
                      |...+.+....|+..-....+..-..+|+|....+.....     ......++|||+|||.++++++|+++|+.||.|.+
T Consensus       154 VeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~s  233 (612)
T TIGR01645       154 VEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVK  233 (612)
T ss_pred             EEeCcHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeE
Confidence            3345667777787755545554333345443332221110     01123578999999999999999999999999999


Q ss_pred             EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          143 VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       143 Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ++|.++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|+|.+..
T Consensus       234 vrl~~D~~-tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi  282 (612)
T TIGR01645       234 CQLARAPT-GRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV  282 (612)
T ss_pred             EEEEecCC-CCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence            99999875 677899999999999999999985  788999999997653

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.

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

Probab=99.67  E-value=5.9e-16  Score=166.66  Aligned_cols=293  Identities=20%  Similarity=0.193  Sum_probs=179.9

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ++...+-|+|+|||..+..++|..+|..||.|..|.||+.    +   -.|+|+|.++.+|.+|+..  ...+...++.+
T Consensus       381 ~~rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~----G---~~aiv~fl~p~eAr~Afrklaysr~k~~plyl  453 (725)
T KOG0110|consen  381 AERSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPG----G---TGAIVEFLNPLEARKAFRKLAYSRFKSAPLYL  453 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcccccceeecCcc----c---ceeeeeecCccchHHHHHHhchhhhccCcccc
Confidence            3456688999999999999999999999999999988732    1   1399999999999999984  44455555554


Q ss_pred             eecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCC-CCCCCcCCCCCCCCC
Q 043731          187 KPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLK-PANDSENACKPDGEP  265 (498)
Q Consensus       187 ~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k-~~~~~~~~~~~~~~~  265 (498)
                      .|...  +       .+...                  |+..-....             ...+ ..+....+...++..
T Consensus       454 e~aP~--d-------vf~~~------------------pka~~~~~e-------------~~~~~ee~~~Er~s~~d~~v  493 (725)
T KOG0110|consen  454 EWAPE--D-------VFTED------------------PKADDLSAE-------------SRSKMEENPSERVSAEDGQV  493 (725)
T ss_pred             ccChh--h-------hccCC------------------ccccccccc-------------cccccccCcceecccccccc
Confidence            44311  0       00000                  000000000             0000 000000000000000


Q ss_pred             CCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCC
Q 043731          266 DSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFG  345 (498)
Q Consensus       266 ~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG  345 (498)
                      .               ++.++.|+..             .     ....+.....+.+|++||+++++.++|..+|.+.|
T Consensus       494 ~---------------eD~d~te~ss-------------~-----a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G  540 (725)
T KOG0110|consen  494 E---------------EDKDPTEESS-------------L-----ARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQG  540 (725)
T ss_pred             c---------------ccCCcccccc-------------c-----hhhhhccccchhhhhhcCCcccchhHHHHHHHhcC
Confidence            0               0000000000             0     00000001112289999999999999999999999


Q ss_pred             ceEEEEeecCC---------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHHHhhhhhccc
Q 043731          346 TVKFIDFKIGA---------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHR  416 (498)
Q Consensus       346 ~V~~V~~~~g~---------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~~~~~~~k~~  416 (498)
                      .|..+.|..-+         |.|||+|.++++|+.|+.+|+     |..|+|+.|.|++..-+.+-.-=+ -.....  .
T Consensus       541 ~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq-----gtvldGH~l~lk~S~~k~~~~~gK-~~~~kk--~  612 (725)
T KOG0110|consen  541 TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ-----GTVLDGHKLELKISENKPASTVGK-KKSKKK--K  612 (725)
T ss_pred             eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc-----CceecCceEEEEeccCcccccccc-cccccc--c
Confidence            99999876432         779999999999999999985     999999999999987111111001 011111  1


Q ss_pred             cccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCcccccchh----hhhhhhhhhhhHHhhhhheee
Q 043731          417 DVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVRPHL----IFLLRIKCASYWISRCLVRYY  489 (498)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~  489 (498)
                      ..+.-++|+--...---.+.||..||+|.++-+--.=..|+++|||||-=..    ..-.+--|.....+|.||--|
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEw  689 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEW  689 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheeh
Confidence            5677788887777778899999999999999883331258899999985211    112223344456677777443

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

Probab=99.62  E-value=5e-15  Score=154.67  Aligned_cols=308  Identities=16%  Similarity=0.188  Sum_probs=176.9

Q ss_pred             CCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEec
Q 043731           40 DAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAAT  119 (498)
Q Consensus        40 ~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~  119 (498)
                      .-.|++.++... -  .| .++++.+     .+....-.||..-+.=.+.  |+.||--..         +.+...|||.
T Consensus        23 ~~v~s~rvc~d~-t--sl-gy~yvnf-----~~~~da~~A~~~~n~~~~~--~~~~rim~s---------~rd~~~~~i~   82 (369)
T KOG0123|consen   23 GPVLSIRVCRDA-T--SL-GYAYVNF-----QQPADAERALDTMNFDVLK--GKPIRIMWS---------QRDPSLVFIK   82 (369)
T ss_pred             CCceeEEEeecC-C--cc-ceEEEec-----CCHHHHHHHHHHcCCcccC--CcEEEeehh---------ccCCceeeec
Confidence            345567766666 3  33 4566554     3556677777765443333  555553322         2334459999


Q ss_pred             cCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecchhHHHHH
Q 043731          120 PLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKEFEAERA  197 (498)
Q Consensus       120 nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d~~~~k~  197 (498)
                      |||.+++...|.++|+.||+|.+|++.++..  + ++|+ ||+|+++++|++|+..  +..++|++|.|-....-..+..
T Consensus        83 nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~--g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~  158 (369)
T KOG0123|consen   83 NLDESIDNKSLYDTFSEFGNILSCKVATDEN--G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREA  158 (369)
T ss_pred             CCCcccCcHHHHHHHHhhcCeeEEEEEEcCC--C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcc
Confidence            9999999999999999999999999998864  3 8999 9999999999999995  8889999999876543222211


Q ss_pred             HhHHHHhhcCcccc-CCcc-CCC--CCccCC-CCCcEEEEEeccccccCcccccCCCCCCCCC---cCCCCCCCCCCCCc
Q 043731          198 KETEEFEKSRPAVG-SNRK-NNS--NAEADY-PKGLIVAFTLKNKSAEGSEEKNGSLKPANDS---ENACKPDGEPDSSD  269 (498)
Q Consensus       198 ~~~~~~~~~~~~~~-k~~~-~~~--~~~~~~-~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~---~~~~~~~~~~~~~~  269 (498)
                      ...+ +.+....+- ++.. +.+  .....+ ..|-+....+-+...+. +..-|--.+.+..   -+.....+.+.. +
T Consensus       159 ~~~~-~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~-~~~~gfv~f~~~e~a~~av~~l~~~~~~-~  235 (369)
T KOG0123|consen  159 PLGE-YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGK-SKGFGFVNFENPEDAKKAVETLNGKIFG-D  235 (369)
T ss_pred             cccc-hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCC-CCCccceeecChhHHHHHHHhccCCcCC-c
Confidence            1111 111111000 0000 000  000111 23334443331111100 0000000011100   000000111000 0


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccc--------cccccCcceeeeccCCCccccHHHHHHHh
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEK--------GEEKEGKTSIDTYKDNMDVVMREDLKSVF  341 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~--------~~~~~~~~~~vfv~nL~~~vt~EdLke~F  341 (498)
                      ..-            -+..            ..++......++        .....-..+++|++|++..++.+.|+++|
T Consensus       236 ~~~------------~V~~------------aqkk~e~~~~l~~~~~~~~~~~~~~~~~~nl~vknld~~~~~e~L~~~f  291 (369)
T KOG0123|consen  236 KEL------------YVGR------------AQKKSEREAELKRKFEQEFAKRSVSLQGANLYVKNLDETLSDEKLRKIF  291 (369)
T ss_pred             cce------------eecc------------cccchhhHHHHhhhhHhhhhhccccccccccccccCccccchhHHHHHH
Confidence            000            0000            000000000000        01112245579999999999999999999


Q ss_pred             ccCCceEEEEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHH
Q 043731          342 HKFGTVKFIDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       342 ~~fG~V~~V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e  403 (498)
                      +.||+|..+.++.     ..+.|||.|..+++|.+|+..+   |  |..+.++.+++.+++-..++.
T Consensus       292 ~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~---n--~~~i~~k~l~vav~qr~~~r~  353 (369)
T KOG0123|consen  292 SSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEM---N--GRLIGGKPLYVAVAQRKEDRR  353 (369)
T ss_pred             hcccceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhh---C--hhhhcCCchhhhHHhhhccch
Confidence            9999999987764     4566999999999999998877   4  999999999999988554444

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.62  E-value=1.3e-15  Score=158.09  Aligned_cols=129  Identities=16%  Similarity=0.161  Sum_probs=112.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      .++|||+|||.++|+++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|   +  |..|.++.|.|
T Consensus       107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~L---n--G~~l~gr~i~V  181 (346)
T TIGR01659       107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNL---N--GITVRNKRLKV  181 (346)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHc---C--CCccCCceeee
Confidence            4589999999999999999999999999999987653      56999999999999999988   3  89999999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccC-CCCCCCcccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEK-PGISSGTSFVRP  466 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  466 (498)
                      ..+....            ......++++.||.....++.|+++|..+|.|..|++ ++|. .|.++|++||.=
T Consensus       182 ~~a~p~~------------~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i-~~d~~tg~~kG~aFV~F  242 (346)
T TIGR01659       182 SYARPGG------------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNI-LRDKLTGTPRGVAFVRF  242 (346)
T ss_pred             ecccccc------------cccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEE-eecCCCCccceEEEEEE
Confidence            8764321            1234568999999999999999999999999999999 5665 799999999963

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

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

Probab=99.61  E-value=2.3e-16  Score=160.56  Aligned_cols=180  Identities=29%  Similarity=0.434  Sum_probs=146.2

Q ss_pred             HHhcchhhcc-----CCCCCcChHHHhhhCCC--CCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhc-
Q 043731           12 VLRQVEFYFS-----DSNIPTDEFLRGKISES--SDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKS-   83 (498)
Q Consensus        12 i~~QvEfYFs-----d~NL~~D~fL~~~~~~~--~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S-   83 (498)
                      +..|+|||||     |.|+++|+||+....++  .+|||||.++++|+||+.+..            .+..|..++++| 
T Consensus        75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs------------~~~~v~~a~rks~  142 (438)
T COG5193          75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGS------------PVSAVSGALRKSL  142 (438)
T ss_pred             cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCC------------chhhhhhhhhcCc
Confidence            8899999999     99999999999987763  389999999999999999963            578899999999 


Q ss_pred             --CcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcH--------HHHHHHhcc--CCceeeEEcccccCC
Q 043731           84 --SSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKR--------EDVEAFFSQ--HVKVNSVRLPRHVAD  151 (498)
Q Consensus        84 --~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~--------e~L~~~F~~--~G~V~~Vri~r~~~~  151 (498)
                        ..++++.+|..++|..+.........+...|.+|+.+++...+.        +++...|..  .|++..|+++|+.. 
T Consensus       143 ~~rv~e~Sssgsn~~r~~k~~s~n~~s~~~~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~-  221 (438)
T COG5193         143 DARVLEVSSSGSNKNRTEKLISNNNKSTSQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWL-  221 (438)
T ss_pred             ccceeeeccccccccccchhhhhhhhhhhhHhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhh-
Confidence              79999999999998876654332223566799999999886544        489999999  78999999999875 


Q ss_pred             CCcccceEEEEeCCHHHHHHHHHh---------------CCeeCCeEEEEeecch----hHHHHHHhHHHHh
Q 043731          152 KRLFCGTALIEFSTEEDAEKVLKQ---------------GLFYAGVELHLKPKKE----FEAERAKETEEFE  204 (498)
Q Consensus       152 ~~~~kG~aFVeF~s~e~A~kAl~~---------------~~~~~G~~l~v~~k~d----~~~~k~~~~~~~~  204 (498)
                      ...|+|+.|++|...+.+++++..               ...++..-+.|+.+..    |......+...|.
T Consensus       222 nkn~~gSv~~efk~~~~~q~~nn~~~r~~~~~~~~~~~~~~~~ep~~lsI~a~k~QiEyYFseenl~~d~~l  293 (438)
T COG5193         222 NKNFRGSVFVEFKYFREAQRFNNGFYRNKKYPNDPETVYYYSVEPILLSIMAKKEQIEYYFSEENLKSDEFL  293 (438)
T ss_pred             hccccCcccccccChHHHHHHhccccCCcCCCcchhhhcccccCceeeehhhHHhhhHhhhhHHhhhhhhHH
Confidence            466999999999999999999941               2345556667777766    6666666555553

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

Probab=99.60  E-value=1.7e-14  Score=139.63  Aligned_cols=256  Identities=15%  Similarity=0.149  Sum_probs=157.8

Q ss_pred             cccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEccccc
Q 043731           70 EDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHV  149 (498)
Q Consensus        70 ~~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~  149 (498)
                      +.+.+...+|+..-.-|.+...--+|.=.  .|..    ..+....|||++||..+|+.+|+++|++||.|..-||..+.
T Consensus        90 Yv~p~DAe~AintlNGLrLQ~KTIKVSyA--RPSs----~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dq  163 (360)
T KOG0145|consen   90 YVRPKDAEKAINTLNGLRLQNKTIKVSYA--RPSS----DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQ  163 (360)
T ss_pred             ecChHHHHHHHhhhcceeeccceEEEEec--cCCh----hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhc
Confidence            33445556666666667776433334322  2222    24567789999999999999999999999999999999887


Q ss_pred             CCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEEEeecchhHHHHHHhH--HHHhhcCccccCCccCCCCCccC
Q 043731          150 ADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELHLKPKKEFEAERAKET--EEFEKSRPAVGSNRKNNSNAEAD  223 (498)
Q Consensus       150 ~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~~k~d~~~~k~~~~--~~~~~~~~~~~k~~~~~~~~~~~  223 (498)
                      . ++.++|.+||.|+..++|+.|++.  +.+--|  .+|.|+........+....  ..|....    . +.      .+
T Consensus       164 v-tg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~----r-r~------~G  231 (360)
T KOG0145|consen  164 V-TGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPA----R-RY------GG  231 (360)
T ss_pred             c-cceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCcc----c-cC------CC
Confidence            6 688999999999999999999985  444444  3788887655443221111  0110000    0 00      00


Q ss_pred             CCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCC
Q 043731          224 YPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGD  303 (498)
Q Consensus       224 ~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~  303 (498)
                      .......++++...-     .+....        ..-+.++                         .+.|          
T Consensus       232 p~hh~~~r~r~~~~~-----~~~~~~--------~rfsP~~-------------------------~d~m----------  263 (360)
T KOG0145|consen  232 PMHHQAQRFRLDNLL-----NPHAAQ--------ARFSPMT-------------------------IDGM----------  263 (360)
T ss_pred             cccchhhhhcccccc-----chhhhh--------ccCCCcc-------------------------cccc----------
Confidence            000000011100000     000000        0000000                         0000          


Q ss_pred             CCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHh
Q 043731          304 KSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       304 ~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ..-.|..+.+....|-  -+||=||..++++.-|-++|++||.|..|.+.|+      ++.|||...+-++|.-|+++| 
T Consensus       264 ~~l~~~~lp~~~~~g~--ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sL-  340 (360)
T KOG0145|consen  264 SGLAGVNLPGGPGGGW--CIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASL-  340 (360)
T ss_pred             ceeeeeccCCCCCCee--EEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHh-
Confidence            0001111122111122  3788899999999999999999999999988764      566999999999999999998 


Q ss_pred             hcccCCeEecCeEEEEEEcCC
Q 043731          378 LAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       378 ~~n~~g~~i~g~~~~v~~~~g  398 (498)
                        |  |..++++.+.|..-+.
T Consensus       341 --N--Gy~lg~rvLQVsFKtn  357 (360)
T KOG0145|consen  341 --N--GYRLGDRVLQVSFKTN  357 (360)
T ss_pred             --c--CccccceEEEEEEecC
Confidence              4  9999999998875443

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

Probab=99.58  E-value=1.5e-14  Score=155.92  Aligned_cols=175  Identities=24%  Similarity=0.336  Sum_probs=138.1

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCC--CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVAD--KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~--~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      +|||+||++++|.++|+..|...|.|.++.|...+..  .-.+.|||||+|.++++|+.|++.  +..++|+.|.+..+.
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            3999999999999999999999999999988755431  123669999999999999999996  789999999876652


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      .               ++                 .+..                 |                       
T Consensus       597 ~---------------k~-----------------~~~~-----------------g-----------------------  604 (725)
T KOG0110|consen  597 N---------------KP-----------------ASTV-----------------G-----------------------  604 (725)
T ss_pred             C---------------cc-----------------cccc-----------------c-----------------------
Confidence            0               00                 0000                 0                       


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                                               +.......++.+.|+|||+..+..+++++|+.||.|..|
T Consensus       605 -----------------------------------------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksv  643 (725)
T KOG0110|consen  605 -----------------------------------------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSV  643 (725)
T ss_pred             -----------------------------------------cccccccccceeeeeccchHHHHHHHHHHHhcccceeee
Confidence                                                     000001124567899999999999999999999999999


Q ss_pred             EeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHH
Q 043731          351 DFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSL  407 (498)
Q Consensus       351 ~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~  407 (498)
                      +++.-      +|+|||.|-+|.+|..|+.+|.     +..+=|+.+.++-+..+.=.+.+..
T Consensus       644 RlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~-----STHlyGRrLVLEwA~~d~~~e~~r~  701 (725)
T KOG0110|consen  644 RLPKKIGKGAHRGFGFVDFLTPREAKNAFDALG-----STHLYGRRLVLEWAKSDNTMEALRE  701 (725)
T ss_pred             ccchhhcchhhccceeeeccCcHHHHHHHHhhc-----ccceechhhheehhccchHHHHHHH
Confidence            99853      5668999999999999999984     7889999999999877666555543

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

Probab=99.58  E-value=3e-15  Score=157.55  Aligned_cols=176  Identities=24%  Similarity=0.302  Sum_probs=141.2

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEe
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLK  187 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~  187 (498)
                      ++.+.||||+-.++...+.-+|.+||+.+|+|..|+|+.+.. ++.++|.+||+|.+.+++..|+.. +..+.|.+|.|+
T Consensus       175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~-s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq  253 (549)
T KOG0147|consen  175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRN-SRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQ  253 (549)
T ss_pred             hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeecccc-chhhcceeEEEEecccchhhHhhhcCCcccCceeEec
Confidence            467889999999999999999999999999999999998876 678999999999999999999986 888999999987


Q ss_pred             ecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCC
Q 043731          188 PKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS  267 (498)
Q Consensus       188 ~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~  267 (498)
                      ....       +++..    +       +...           .+                             +     
T Consensus       254 ~sEa-------eknr~----a-------~~s~-----------a~-----------------------------~-----  270 (549)
T KOG0147|consen  254 LSEA-------EKNRA----A-------NASP-----------AL-----------------------------Q-----  270 (549)
T ss_pred             ccHH-------HHHHH----H-------hccc-----------cc-----------------------------c-----
Confidence            7531       00000    0       0000           00                             0     


Q ss_pred             CchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCce
Q 043731          268 SDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTV  347 (498)
Q Consensus       268 ~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V  347 (498)
                                                         .+..          .++..-++|+||.+.+++++|+.+|+.||.|
T Consensus       271 -----------------------------------~k~~----------~~p~~rl~vgnLHfNite~~lr~ifepfg~I  305 (549)
T KOG0147|consen  271 -----------------------------------GKGF----------TGPMRRLYVGNLHFNITEDMLRGIFEPFGKI  305 (549)
T ss_pred             -----------------------------------cccc----------ccchhhhhhcccccCchHHHHhhhccCcccc
Confidence                                               0000          1111126899999999999999999999999


Q ss_pred             EEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          348 KFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       348 ~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..|.++++      +++|||+|.+++.|.+|++.|   |  |+.|.|+.+.|.+++.
T Consensus       306 e~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~l---n--gfelAGr~ikV~~v~~  357 (549)
T KOG0147|consen  306 ENVQLTKDSETGRSKGFGFITFVNKEDARKALEQL---N--GFELAGRLIKVSVVTE  357 (549)
T ss_pred             eeeeeccccccccccCcceEEEecHHHHHHHHHHh---c--cceecCceEEEEEeee
Confidence            99998875      456999999999999999988   4  8999999999988754

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

Probab=99.54  E-value=1.5e-14  Score=146.98  Aligned_cols=169  Identities=16%  Similarity=0.178  Sum_probs=137.8

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      +...|||++|+++++++.|+++|++||+|..+.+++++. +++++||+||+|++++.+..+|.. .+.+.|+.|.+..+.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~-t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av   83 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPS-TGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAV   83 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCC-CCCcccccceecCCCcchheeecccccccCCccccceecc
Confidence            568999999999999999999999999999999999987 688999999999999999999986 778888887632221


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      ....                                                  +                         
T Consensus        84 ~r~~--------------------------------------------------~-------------------------   88 (311)
T KOG4205|consen   84 SRED--------------------------------------------------Q-------------------------   88 (311)
T ss_pred             Cccc--------------------------------------------------c-------------------------
Confidence            0000                                                  0                         


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                                               ....+......+||+.||.++++++|++.|.+||.|..+
T Consensus        89 -----------------------------------------~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~  127 (311)
T KOG4205|consen   89 -----------------------------------------TKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADV  127 (311)
T ss_pred             -----------------------------------------cccccccceeEEEecCcCCCCchHHHhhhhhccceeEee
Confidence                                                     000000123367999999999999999999999999888


Q ss_pred             EeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHH
Q 043731          351 DFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       351 ~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e  403 (498)
                      .++.+      ++.|||.|.+.++..+++..-      ...|+|+.+.|+.|+.+++..
T Consensus       128 ~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~------f~~~~gk~vevkrA~pk~~~~  180 (311)
T KOG4205|consen  128 VIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQK------FHDFNGKKVEVKRAIPKEVMQ  180 (311)
T ss_pred             EEeecccccccccceeeEeccccccceecccc------eeeecCceeeEeeccchhhcc
Confidence            87644      455999999999999996642      899999999999999988775

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

Probab=99.52  E-value=4.9e-14  Score=141.71  Aligned_cols=167  Identities=18%  Similarity=0.293  Sum_probs=129.9

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ...|||+.+.+...++.|+..|..||+|.+|.|--|.. +++.||||||||+-+|.|+-|++.  +..++||.|.|-.- 
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~-T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP-  190 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPA-TGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP-  190 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccc-cccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC-
Confidence            36799999999999999999999999999999988876 788999999999999999999995  88899999875211 


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                                                 ++    +|                                    +..|-    
T Consensus       191 ---------------------------sN----mp------------------------------------QAQpi----  199 (544)
T KOG0124|consen  191 ---------------------------SN----MP------------------------------------QAQPI----  199 (544)
T ss_pred             ---------------------------CC----Cc------------------------------------ccchH----
Confidence                                       00    00                                    00000    


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                         -+.-+++                                    --.+..+||..+..+.+++|||.+|+-||+|.++
T Consensus       200 ---ID~vqee------------------------------------Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C  240 (544)
T KOG0124|consen  200 ---IDMVQEE------------------------------------AKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKC  240 (544)
T ss_pred             ---HHHHHHH------------------------------------HHhhheEEeeecCCCccHHHHHHHHHhhcceeeE
Confidence               0000000                                    0123457999999999999999999999999999


Q ss_pred             EeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          351 DFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       351 ~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+.++      ++.|||+|.+..+...|++.+++     ..++|.-+.|...
T Consensus       241 ~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNl-----FDLGGQyLRVGk~  287 (544)
T KOG0124|consen  241 QLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNL-----FDLGGQYLRVGKC  287 (544)
T ss_pred             EeeccCCCCCccceeeEEeccccchHHHhhhcch-----hhcccceEecccc
Confidence            99875      34599999999999999999864     4466766666544

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

Probab=99.51  E-value=6.3e-14  Score=137.73  Aligned_cols=144  Identities=15%  Similarity=0.248  Sum_probs=123.6

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecchh
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKEF  192 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d~  192 (498)
                      .+||+|||..++..+|+.+|.+||+|..+-|++         .|+||-.++...|+-|+.+  +.+++|..|.|..++. 
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK---------NYgFVHiEdktaaedairNLhgYtLhg~nInVeaSks-   73 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGKVLECDIVK---------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKS-   73 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCceEeeeeec---------ccceEEeecccccHHHHhhcccceecceEEEEEeccc-
Confidence            589999999999999999999999999998854         5789999999999999996  7889998888654310 


Q ss_pred             HHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchhh
Q 043731          193 EAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAA  272 (498)
Q Consensus       193 ~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~~  272 (498)
                                         |      +                                                     
T Consensus        74 -------------------K------s-----------------------------------------------------   75 (346)
T KOG0109|consen   74 -------------------K------S-----------------------------------------------------   75 (346)
T ss_pred             -------------------c------C-----------------------------------------------------
Confidence                               0      0                                                     


Q ss_pred             hHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEEe
Q 043731          273 AVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDF  352 (498)
Q Consensus       273 ~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~  352 (498)
                                                                   ...++++|+|+.+.++-++|++.|++||+|..+++
T Consensus        76 ---------------------------------------------k~stkl~vgNis~tctn~ElRa~fe~ygpviecdi  110 (346)
T KOG0109|consen   76 ---------------------------------------------KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDI  110 (346)
T ss_pred             ---------------------------------------------CCccccccCCCCccccCHHHhhhhcccCCceeeee
Confidence                                                         00124689999999999999999999999999999


Q ss_pred             ecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          353 KIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       353 ~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .++  .|||.|.-.++|..|+..|.     +..+.|+.+.|.+.+.
T Consensus       111 vkd--y~fvh~d~~eda~~air~l~-----~~~~~gk~m~vq~sts  149 (346)
T KOG0109|consen  111 VKD--YAFVHFDRAEDAVEAIRGLD-----NTEFQGKRMHVQLSTS  149 (346)
T ss_pred             ecc--eeEEEEeeccchHHHHhccc-----ccccccceeeeeeecc
Confidence            865  99999999999999999884     8999999998877653

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

Probab=99.49  E-value=1.2e-13  Score=134.56  Aligned_cols=133  Identities=16%  Similarity=0.087  Sum_probs=101.2

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      -+||++|...++-|+||+.|.+||+|..+.+.|      +++.|||-|-+.++|+.||..|   |  |-.|++|.|...-
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M---n--GqWlG~R~IRTNW  138 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM---N--GQWLGRRTIRTNW  138 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHh---C--Ceeeccceeeccc
Confidence            579999999999999999999999998777665      4566999999999999999998   4  9999999998777


Q ss_pred             cCChhHHH---HHH-HHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          396 VTGEAEKE---YWS-LLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       396 ~~g~~E~e---~~~-~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ++-+.-..   -+. .-.-+|-.-..--.|.-+.---..++-+|..|+.||+|.--.| ..|     +|+.||+
T Consensus       139 ATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRv-Fk~-----qGYaFVr  206 (321)
T KOG0148|consen  139 ATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRV-FKD-----QGYAFVR  206 (321)
T ss_pred             cccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEE-ecc-----cceEEEE
Confidence            76655111   000 0111222222333455555555678899999999999999998 777     6999996

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

Probab=99.44  E-value=3.8e-13  Score=123.12  Aligned_cols=78  Identities=13%  Similarity=0.204  Sum_probs=72.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+++.. +++++|||||+|.++++|++|++.  +..++|+.|.|.+.
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~-tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRE-TGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCC-CCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            467899999999999999999999999999999998875 678999999999999999999984  78899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus       112 ~  112 (144)
T PLN03134        112 N  112 (144)
T ss_pred             C
Confidence            4

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

Probab=99.44  E-value=3.2e-12  Score=118.69  Aligned_cols=182  Identities=18%  Similarity=0.211  Sum_probs=127.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++.+.+|+++|-+||.|..|.|....    .+-+||||+|+++-+|+.|+..  +..|+|..|+|..
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~----g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEf   79 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP----GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEF   79 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC----CCCCeeEEEecCccchhhhhhcccccccCcceEEEEe
Confidence            357899999999999999999999999999999875432    2568999999999999999984  8889999999876


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ..-.-                      ..+     ...|..-        . +.  ..|+-                   
T Consensus        80 prggr----------------------~s~-----~~~G~y~--------g-gg--rgGgg-------------------  102 (241)
T KOG0105|consen   80 PRGGR----------------------SSS-----DRRGSYS--------G-GG--RGGGG-------------------  102 (241)
T ss_pred             ccCCC----------------------ccc-----ccccccC--------C-CC--CCCCC-------------------
Confidence            53110                      000     0000000        0 00  00000                   


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                                                        .+...|..    .+-+.+ -|.|.+||.+-+|+|||+.+.+-|.|.
T Consensus       103 ----------------------------------~gg~rgpp----srrSe~-RVvVsGLp~SgSWQDLKDHmReaGdvC  143 (241)
T KOG0105|consen  103 ----------------------------------GGGRRGPP----SRRSEY-RVVVSGLPPSGSWQDLKDHMREAGDVC  143 (241)
T ss_pred             ----------------------------------CCcccCCc----ccccce-eEEEecCCCCCchHHHHHHHHhhCCee
Confidence                                              00000000    011111 467899999999999999999999999


Q ss_pred             EEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          349 FIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       349 ~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      |.++.++. +|.|.|-..|+.+-|+..|.   +....-.|...++++-
T Consensus       144 fadv~rDg-~GvV~~~r~eDMkYAvr~ld---~~~~~seGe~~yirv~  187 (241)
T KOG0105|consen  144 FADVQRDG-VGVVEYLRKEDMKYAVRKLD---DQKFRSEGETAYIRVR  187 (241)
T ss_pred             eeeeeccc-ceeeeeeehhhHHHHHHhhc---cccccCcCcEeeEEec
Confidence            99999854 89999999999999999884   2233335555555543

>PF00076 RRM_1: RNA recognition motif

Probab=99.39  E-value=1e-12  Score=103.22  Aligned_cols=68  Identities=35%  Similarity=0.512  Sum_probs=62.9

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      |||+|||.++|+++|+++|++||.|..+.+.++.  .+.++|+|||+|.+.++|.+|+..  +..++|++|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNS--SGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEET--TSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccc--cccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            7999999999999999999999999999999872  577899999999999999999995  8889999875

(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 ....

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

Probab=99.36  E-value=9.4e-13  Score=135.22  Aligned_cols=130  Identities=17%  Similarity=0.188  Sum_probs=111.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCce------EEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES------GYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~  391 (498)
                      ...+||+-+|...++.||+++|++||.|..|.+.+++.+      .||.|.+.++|.+|+.+|.  |  -++|-|  ..|
T Consensus        34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alh--n--~ktlpG~~~pv  109 (510)
T KOG0144|consen   34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALH--N--QKTLPGMHHPV  109 (510)
T ss_pred             hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhh--c--ccccCCCCcce
Confidence            346799999999999999999999999999999887554      5999999999999999984  6  777777  578


Q ss_pred             EEEEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          392 VLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       392 ~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      .|+.+.|+-|+-           -.+.++++--|.+.......++||+.||+|.-|.+ +||+.|+|+|.+||.
T Consensus       110 qvk~Ad~E~er~-----------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~i-lrd~~~~sRGcaFV~  171 (510)
T KOG0144|consen  110 QVKYADGERERI-----------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYI-LRDPDGLSRGCAFVK  171 (510)
T ss_pred             eecccchhhhcc-----------ccchhhhhhhccccccHHHHHHHHHhhCccchhhh-eecccccccceeEEE
Confidence            888888855542           23456677778887778889999999999999977 999999999999997

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

Probab=99.32  E-value=1.4e-11  Score=123.85  Aligned_cols=192  Identities=19%  Similarity=0.154  Sum_probs=125.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee--------EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS--------VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~--------Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ..+..|||+|||.++|.+++.++|++||-|..        |.|.++.  .++++|-|.+.|-..+++.-|++.  ...+.
T Consensus       132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~--~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r  209 (382)
T KOG1548|consen  132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN--QGKLKGDALCCYIKRESVELAIKILDEDELR  209 (382)
T ss_pred             ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC--CCCccCceEEEeecccHHHHHHHHhCccccc
Confidence            34566999999999999999999999998763        5565664  378999999999999999999995  77889


Q ss_pred             CeEEEEeecc-----hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCC
Q 043731          181 GVELHLKPKK-----EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDS  255 (498)
Q Consensus       181 G~~l~v~~k~-----d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~  255 (498)
                      |+.|+|..+.     +|...+..                           ++.....  ++..                 
T Consensus       210 g~~~rVerAkfq~Kge~~~~~k~---------------------------k~k~~~~--kk~~-----------------  243 (382)
T KOG1548|consen  210 GKKLRVERAKFQMKGEYDASKKE---------------------------KGKCKDK--KKLK-----------------  243 (382)
T ss_pred             CcEEEEehhhhhhccCcCccccc---------------------------ccccccH--HHHH-----------------
Confidence            9999987542     11110000                           0000000  0000                 


Q ss_pred             cCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCC--C--cc
Q 043731          256 ENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDN--M--DV  331 (498)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL--~--~~  331 (498)
                                         ...++.-.- ..+. +                      +.++.--..+|.++|+  |  +.
T Consensus       244 -------------------k~q~k~~dw-~pd~-~----------------------~~sk~r~~~tVi~kn~Ftp~~~~  280 (382)
T KOG1548|consen  244 -------------------KQQQKLLDW-RPDR-D----------------------DPSKARADRTVILKNMFTPEDFE  280 (382)
T ss_pred             -------------------HHHHhhccc-CCCc-c----------------------ccccccCCcEEEeeecCCHHHhc
Confidence                               000000000 0000 0                      0000001123344444  1  11


Q ss_pred             cc-------HHHHHHHhccCCceEEEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          332 VM-------REDLKSVFHKFGTVKFIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       332 vt-------~EdLke~F~~fG~V~~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+       .|+|.+-+++||.|..|.+-  ...|-+-|+|.+++.|..|+..|.     |+.++|+.|+..+..|
T Consensus       281 ~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~-----GR~fdgRql~A~i~DG  351 (382)
T KOG1548|consen  281 KNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMD-----GRWFDGRQLTASIWDG  351 (382)
T ss_pred             cCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhc-----CeeecceEEEEEEeCC
Confidence            22       47888999999999998776  345568899999999999999984     9999999999999877

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.31  E-value=5.6e-12  Score=124.48  Aligned_cols=78  Identities=19%  Similarity=0.359  Sum_probs=71.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      ..++|||+|||+.+|+++|++||+.||+|.+|+|+++..    .+|||||+|.++++|+.||.. +..+.|+.|.|.+..
T Consensus         3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~----~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~   78 (260)
T PLN03120          3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE----RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAE   78 (260)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC----CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEecc
Confidence            358999999999999999999999999999999998742    479999999999999999985 899999999999987


Q ss_pred             hhH
Q 043731          191 EFE  193 (498)
Q Consensus       191 d~~  193 (498)
                      +|.
T Consensus        79 ~~~   81 (260)
T PLN03120         79 DYQ   81 (260)
T ss_pred             CCC
Confidence            654

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

Probab=99.30  E-value=1.9e-11  Score=129.28  Aligned_cols=78  Identities=24%  Similarity=0.398  Sum_probs=70.0

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .+.|||+||.+++++++|+.+|++||.|..|.++++.. ++..+||+||+|.+.++|.+|+..  +..+.|+.|.|-...
T Consensus       278 ~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~-tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~  356 (549)
T KOG0147|consen  278 MRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSE-TGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT  356 (549)
T ss_pred             hhhhhhcccccCchHHHHhhhccCcccceeeeeccccc-cccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence            34499999999999999999999999999999999864 688999999999999999999884  889999999976544


Q ss_pred             h
Q 043731          191 E  191 (498)
Q Consensus       191 d  191 (498)
                      +
T Consensus       357 ~  357 (549)
T KOG0147|consen  357 E  357 (549)
T ss_pred             e
Confidence            3

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

Probab=99.29  E-value=1.6e-11  Score=128.28  Aligned_cols=173  Identities=18%  Similarity=0.211  Sum_probs=116.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCC-eEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG-VELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G-~~l~v~~k~  190 (498)
                      ...-|.+++|||++|+++|.+||+.|+ |.++.++|.   +++..|-|||||.+++++++||+......| +-|.|....
T Consensus         9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~---~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~   84 (510)
T KOG4211|consen    9 TAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRR---NGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAG   84 (510)
T ss_pred             cceEEEecCCCccccHHHHHHHHhcCc-eeEEEEecc---CCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccC
Confidence            345688999999999999999999997 566767665   467899999999999999999997554444 444443321


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      .     ..+.+.                               ++         +.+.                      
T Consensus        85 ~-----~e~d~~-------------------------------~~---------~~g~----------------------   97 (510)
T KOG4211|consen   85 G-----AEADWV-------------------------------MR---------PGGP----------------------   97 (510)
T ss_pred             C-----cccccc-------------------------------cc---------CCCC----------------------
Confidence            0     000000                               00         0000                      


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE-
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF-  349 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~-  349 (498)
                                                               .+.   .....|=++.||+.||++||.+.|+..-.|.- 
T Consensus        98 -----------------------------------------~s~---~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~g  133 (510)
T KOG4211|consen   98 -----------------------------------------NSS---ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDG  133 (510)
T ss_pred             -----------------------------------------CCC---CCCceEEecCCCccCcHHHHHHHhcCCcccccc
Confidence                                                     000   01113445899999999999999998765443 


Q ss_pred             ---EEeecCC--ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHH
Q 043731          350 ---IDFKIGA--ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYW  405 (498)
Q Consensus       350 ---V~~~~g~--~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~  405 (498)
                         +.-.+++  +.|||+|++++.|++|+..-      ...|+-+=|.|-.+.-.+.+.+-
T Consensus       134 i~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rh------re~iGhRYIEvF~Ss~~e~~~~~  188 (510)
T KOG4211|consen  134 ILLPMDQRGRPTGEAFVQFESQESAEIALGRH------RENIGHRYIEVFRSSRAEVKRAA  188 (510)
T ss_pred             eeeeccCCCCcccceEEEecCHHHHHHHHHHH------HHhhccceEEeehhHHHHHHhhc
Confidence               3333444  34899999999999998763      45577777777666665555543

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.29  E-value=1e-11  Score=98.58  Aligned_cols=68  Identities=34%  Similarity=0.453  Sum_probs=60.6

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      |||+|||++++.++|+++|+.||.|..|++.+++.  +.++|+|||+|.++++|.+|+..  +..++|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~--~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD--GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT--SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec--cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            79999999999999999999999999999998754  67899999999999999999996  5889999874

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 ....

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

Probab=99.28  E-value=1.8e-10  Score=110.42  Aligned_cols=189  Identities=18%  Similarity=0.175  Sum_probs=121.7

Q ss_pred             cceEEeccCCCCCcHHHHHH----HhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          113 VRTIAATPLEYDVKREDVEA----FFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~----~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ..||||.||+..+..++|+.    +|++||+|..|...+.    .+.+|-|||.|.+.+.|..|+..  +..|-|++++|
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt----~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri   84 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT----PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI   84 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC----CCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence            34999999999999999887    9999999999998764    45789999999999999999995  88899999998


Q ss_pred             eecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCC
Q 043731          187 KPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPD  266 (498)
Q Consensus       187 ~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~  266 (498)
                      +++..-.+-...                          ++|..+. +-++...... ...+.....|...........|.
T Consensus        85 qyA~s~sdii~~--------------------------~~~~~v~-~~~k~~~~~~-~~~~~~~~~ng~~~~~~~~~~p~  136 (221)
T KOG4206|consen   85 QYAKSDSDIIAQ--------------------------APGTFVE-KEKKINGEIL-ARIKQPLDTNGHFYNMNRMNLPP  136 (221)
T ss_pred             ecccCccchhhc--------------------------cCceecc-ccCccccccc-cccCCcccccccccccccccCCC
Confidence            876421111000                          1111110 0000000000 00000000000000000000000


Q ss_pred             CCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCc
Q 043731          267 SSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGT  346 (498)
Q Consensus       267 ~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~  346 (498)
                                                                +++  ...-..+..+|+-|||..++.+.|..+|.+|.-
T Consensus       137 ------------------------------------------p~~--~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g  172 (221)
T KOG4206|consen  137 ------------------------------------------PFL--AQMAPPNNILFLTNIPSESESEMLSDLFEQFPG  172 (221)
T ss_pred             ------------------------------------------Ccc--ccCCCCceEEEEecCCcchhHHHHHHHHhhCcc
Confidence                                                      000  111234557899999999999999999999987


Q ss_pred             eEEEEeecC-CceEEEEeCCHHHHHHHHHHHh
Q 043731          347 VKFIDFKIG-AESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       347 V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      .+.|++.++ .+.|||.|.+.-.|.-|..++.
T Consensus       173 ~keir~i~~~~~iAfve~~~d~~a~~a~~~lq  204 (221)
T KOG4206|consen  173 FKEIRLIPPRSGIAFVEFLSDRQASAAQQALQ  204 (221)
T ss_pred             cceeEeccCCCceeEEecchhhhhHHHhhhhc
Confidence            777777664 4569999999999999988874

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

Probab=99.25  E-value=1.2e-11  Score=108.83  Aligned_cols=84  Identities=18%  Similarity=0.279  Sum_probs=76.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      -..+.||||+||.+.+++++|.++|+.||.|..|.|-.++- ++.++||+||+|.+.++|..||+-  +..++.++|.+.
T Consensus        33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~-kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D  111 (153)
T KOG0121|consen   33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRF-KKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID  111 (153)
T ss_pred             HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccC-CcCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence            45678999999999999999999999999999999887765 678999999999999999999994  888999999998


Q ss_pred             ecchhHH
Q 043731          188 PKKEFEA  194 (498)
Q Consensus       188 ~k~d~~~  194 (498)
                      |..-|.+
T Consensus       112 ~D~GF~e  118 (153)
T KOG0121|consen  112 WDAGFVE  118 (153)
T ss_pred             ccccchh
Confidence            8876665

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

Probab=99.19  E-value=7.2e-11  Score=108.08  Aligned_cols=74  Identities=15%  Similarity=0.171  Sum_probs=66.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      .+.|||+|||..+++++|+++|++||.|..|.+..+      ++.|||+|.++++|++|++.+   |  +..|+|+.|.|
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l---n--g~~i~Gr~l~V  108 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM---D--GKELNGRHIRV  108 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc---C--CCEECCEEEEE
Confidence            447999999999999999999999999999998754      567999999999999999987   4  88999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus       109 ~~a~~  113 (144)
T PLN03134        109 NPAND  113 (144)
T ss_pred             EeCCc
Confidence            98865

>PF00076 RRM_1: RNA recognition motif

Probab=99.18  E-value=6.8e-11  Score=92.78  Aligned_cols=65  Identities=22%  Similarity=0.266  Sum_probs=58.8

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      |||+|||..+|+++|+++|++||.|..+.+.+.     .+.|||+|.++++|++|++.++     |..++|+.|.
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELN-----GKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHT-----TEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcC-----CCEECccCcC
Confidence            589999999999999999999999999998874     4459999999999999999984     8999998873

(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 ....

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.18  E-value=7.2e-11  Score=115.06  Aligned_cols=78  Identities=21%  Similarity=0.223  Sum_probs=70.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      ...||||+||++.+|+++|++||+.||+|.+|+|+++.    ..+|+|||+|.++++|+.|+.. +..+.|++|.|.+..
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~----et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG----EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG   79 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC----CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence            46899999999999999999999999999999999883    3468999999999999999985 899999999998876


Q ss_pred             hhH
Q 043731          191 EFE  193 (498)
Q Consensus       191 d~~  193 (498)
                      +|.
T Consensus        80 ~y~   82 (243)
T PLN03121         80 QYE   82 (243)
T ss_pred             ccc
Confidence            554

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

Probab=99.17  E-value=3.5e-11  Score=115.78  Aligned_cols=76  Identities=14%  Similarity=0.211  Sum_probs=69.5

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      -..|||+||||.++.+.|+++|++||+|+...++.|+. ++++|||+||+|.+.++|.+|++. ...++||.-.+...
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~-t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA   88 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKN-TGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLA   88 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccC-CccccceeeEEeecHHHHHHHhcCCCCcccccccccchh
Confidence            46799999999999999999999999999999999986 788999999999999999999997 78899998776543

>smart00362 RRM_2 RNA recognition motif

Probab=99.16  E-value=1.7e-10  Score=89.31  Aligned_cols=69  Identities=35%  Similarity=0.529  Sum_probs=62.7

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      +|||+|||..++.++|+++|.+||.|..+++.++.   +.++|+|||+|.+.++|+.|+..  +..++|+.|.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT---GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC---CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            68999999999999999999999999999998764   45789999999999999999985  68889998875

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

Probab=99.12  E-value=1.3e-10  Score=112.37  Aligned_cols=79  Identities=27%  Similarity=0.400  Sum_probs=72.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .+..||.|.|||.++++++|+++|.+||.|..|.|.+++. ++.++|||||+|.+.++|.+|++.  +.-|+.--|.|.|
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~-TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw  265 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKE-TGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW  265 (270)
T ss_pred             CccceeEEecCccccChhHHHHHhhccCccceeEEEEccc-cCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence            3667899999999999999999999999999999999987 899999999999999999999995  7778888888988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus       266 sk  267 (270)
T KOG0122|consen  266 SK  267 (270)
T ss_pred             cC
Confidence            75

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

Probab=99.10  E-value=1.3e-10  Score=108.00  Aligned_cols=129  Identities=12%  Similarity=0.026  Sum_probs=110.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++|++||+.-++++-|.++|-+.|.|..+.++++      ++.|||+|.+.|+|+-|+.-|+     ++.|=|+.|.|.
T Consensus        10 ~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln-----~VkLYgrpIrv~   84 (203)
T KOG0131|consen   10 ATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN-----MVKLYGRPIRVN   84 (203)
T ss_pred             ceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH-----HHHhcCceeEEE
Confidence            47899999999999999999999999999988764      5669999999999999999884     899999999999


Q ss_pred             EcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCC-CCCCCccccc
Q 043731          395 PVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKP-GISSGTSFVR  465 (498)
Q Consensus       395 ~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  465 (498)
                      .+....           ..--.+-|+-++||+.+++..-|-.+|+-+|+|-+.--+|||+. |-++|+|||.
T Consensus        85 kas~~~-----------~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~  145 (203)
T KOG0131|consen   85 KASAHQ-----------KNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFIN  145 (203)
T ss_pred             eccccc-----------ccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEe
Confidence            987211           11122478889999999999999999999999988655589986 8888899985

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

Probab=99.10  E-value=1.8e-09  Score=103.14  Aligned_cols=78  Identities=21%  Similarity=0.300  Sum_probs=58.9

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC---CeEEEE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA---GVELHL  186 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~---G~~l~v  186 (498)
                      .-|||||.|||.++..-+|..+|..|---+...|.......+-.+-+|||+|.+..+|..|++.  +..|+   +..|++
T Consensus        33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhi  112 (284)
T KOG1457|consen   33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHI  112 (284)
T ss_pred             ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEe
Confidence            4699999999999999999999999865566555433222334568999999999999999985  55553   346666


Q ss_pred             eec
Q 043731          187 KPK  189 (498)
Q Consensus       187 ~~k  189 (498)
                      ...
T Consensus       113 ElA  115 (284)
T KOG1457|consen  113 ELA  115 (284)
T ss_pred             eeh
Confidence            554

>PLN03213 repressor of silencing 3; Provisional

Probab=99.08  E-value=3.6e-10  Score=117.88  Aligned_cols=87  Identities=28%  Similarity=0.328  Sum_probs=74.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCH--HHHHHHHHh--CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTE--EDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~--e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ....+|||+||++++|+++|+.+|++||.|.+|.|+|.   ++  +|||||+|.+.  .++.+|+..  +..|+|+.|+|
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE---TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKV   82 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT---KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRL   82 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc---cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEE
Confidence            44578999999999999999999999999999999965   34  89999999987  689999995  89999999999


Q ss_pred             eecch-hHHHHHHhHHH
Q 043731          187 KPKKE-FEAERAKETEE  202 (498)
Q Consensus       187 ~~k~d-~~~~k~~~~~~  202 (498)
                      ..++. |..+-..+.++
T Consensus        83 NKAKP~YLeRLkrERee   99 (759)
T PLN03213         83 EKAKEHYLARLKREWEA   99 (759)
T ss_pred             eeccHHHHHHHHHHHHH
Confidence            98765 55554444443

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

Probab=99.06  E-value=2.6e-10  Score=110.06  Aligned_cols=170  Identities=21%  Similarity=0.292  Sum_probs=121.2

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecch
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKE  191 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d  191 (498)
                      ..|||++||+.+.+.+|+.||..||.+..|.|.         .||+||+|.++-+|.-|+..  +..|.|-.+.+++...
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk---------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~   72 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK---------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG   72 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee---------cccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence            368999999999999999999999999999762         48899999999999999974  6666666555544321


Q ss_pred             hHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchh
Q 043731          192 FEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNA  271 (498)
Q Consensus       192 ~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~  271 (498)
                      ..-..              ++            +                    .++....      ....         
T Consensus        73 ~~~~~--------------g~------------~--------------------~~g~r~~------~~~~---------   91 (216)
T KOG0106|consen   73 KRRGR--------------GR------------P--------------------RGGDRRS------DSRR---------   91 (216)
T ss_pred             ccccc--------------CC------------C--------------------CCCCccc------hhhc---------
Confidence            00000              00            0                    0000000      0000         


Q ss_pred             hhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEE
Q 043731          272 AAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID  351 (498)
Q Consensus       272 ~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~  351 (498)
                                                              ........+ -+++.|++..+++.+|++.|.++|.+.+++
T Consensus        92 ----------------------------------------~~~p~~s~~-r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~  130 (216)
T KOG0106|consen   92 ----------------------------------------YRPPSRTHF-RLIVRNLSLRVSWQDLKDHFRPAGEVTYVD  130 (216)
T ss_pred             ----------------------------------------cCCcccccc-eeeeccchhhhhHHHHhhhhcccCCCchhh
Confidence                                                    000000111 356789999999999999999999998877


Q ss_pred             eecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhH
Q 043731          352 FKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE  401 (498)
Q Consensus       352 ~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E  401 (498)
                      .+  ...|||+|.+.++|.+|++.+.     |..+.|+.+++.....+..
T Consensus       131 ~~--~~~~~v~Fs~~~da~ra~~~l~-----~~~~~~~~l~~~~~~~d~~  173 (216)
T KOG0106|consen  131 AR--RNFAFVEFSEQEDAKRALEKLD-----GKKLNGRRISVEKNSRDRS  173 (216)
T ss_pred             hh--ccccceeehhhhhhhhcchhcc-----chhhcCceeeecccCcchh
Confidence            63  4589999999999999999985     9999999999966655444

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

Probab=99.06  E-value=3.6e-10  Score=111.90  Aligned_cols=77  Identities=22%  Similarity=0.319  Sum_probs=72.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      -.-+||||.-|++++++..|+..|+.||+|..|+|++++. +++++|||||+|+.+-+...|.+.  +++++|+.|.|..
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~v-TgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv  177 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKV-TGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV  177 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecc-cCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence            3468999999999999999999999999999999999987 789999999999999999999996  8999999999865

>smart00360 RRM RNA recognition motif

Probab=99.05  E-value=6.4e-10  Score=85.56  Aligned_cols=68  Identities=38%  Similarity=0.493  Sum_probs=61.0

Q ss_pred             eccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          118 ATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       118 V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      |+|||..++.++|+++|++||.|..+.++++.. ++.++|+|||+|.+.++|.+|+..  +..++|+.|.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~-~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKD-TGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCC-CCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            689999999999999999999999999988764 467899999999999999999985  57788888875

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

Probab=99.04  E-value=6e-09  Score=107.59  Aligned_cols=77  Identities=25%  Similarity=0.320  Sum_probs=68.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhcc-CCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQ-HVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~-~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ...|++||.|+|+++...+|+++|.. .|+|+.|.+..|..  ++++|||.|||+++|.+++|++.  ...++|++|.|+
T Consensus        42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~--GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vK  119 (608)
T KOG4212|consen   42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES--GKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVK  119 (608)
T ss_pred             cccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC--CCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEe
Confidence            34588999999999999999999975 69999999998864  78999999999999999999995  788999999975


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      -.
T Consensus       120 Ed  121 (608)
T KOG4212|consen  120 ED  121 (608)
T ss_pred             cc
Confidence            43

>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=99.04  E-value=1.2e-09  Score=84.80  Aligned_cols=71  Identities=39%  Similarity=0.497  Sum_probs=63.8

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      +|+|+|||..++.++|+++|..||.|..+.++++..  ..++|+|||+|.+.++|..|+..  +..++|+.+.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~--~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD--TKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC--CCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            589999999999999999999999999999988754  25789999999999999999995  666899998875

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).

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

Probab=99.02  E-value=3.2e-10  Score=113.49  Aligned_cols=77  Identities=16%  Similarity=0.282  Sum_probs=70.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .-.+.|+|+|||+..-+-||+.+|.+||.|.+|.|+.+   .|-+|||+||+|++++||++|-.+  +..+.||+|.|..
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN---ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~  170 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN---ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNN  170 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec---cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEec
Confidence            34578999999999999999999999999999999987   455899999999999999999986  8999999999876


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       171 AT  172 (376)
T KOG0125|consen  171 AT  172 (376)
T ss_pred             cc
Confidence            54

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

Probab=99.02  E-value=8.8e-10  Score=106.16  Aligned_cols=77  Identities=32%  Similarity=0.458  Sum_probs=71.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++|+++|+++|.+||.|..|+|+++.. ++.++|+|||+|.++++|..|+..  +..|.|+.|.|.+..
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~-~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRE-TGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccc-cCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            59999999999999999999999999999999999874 678999999999999999999996  689999999998864

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

Probab=99.00  E-value=6.6e-10  Score=102.72  Aligned_cols=72  Identities=22%  Similarity=0.301  Sum_probs=65.9

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .+.|||+||+..++..+|+..|..||++.+|.|-+.      +-|||||||+++-+|+.|+..  +..+.|..|.|.+..
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn------PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~   83 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN------PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST   83 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec------CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence            578999999999999999999999999999999775      459999999999999999984  888999999998864

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

Probab=98.99  E-value=3.7e-09  Score=90.02  Aligned_cols=75  Identities=17%  Similarity=0.201  Sum_probs=66.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..|-|||+|||+++|.+++.++|++||.|..|||--.+    .-+|.|||.|++..+|.+|+..  +..+.++.|.|..=
T Consensus        17 vnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k----~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy   92 (124)
T KOG0114|consen   17 VNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK----ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY   92 (124)
T ss_pred             hheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc----CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence            46899999999999999999999999999999986543    3579999999999999999996  77889999998754


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        93 q   93 (124)
T KOG0114|consen   93 Q   93 (124)
T ss_pred             C
Confidence            3

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.99  E-value=2e-09  Score=85.25  Aligned_cols=65  Identities=18%  Similarity=0.268  Sum_probs=56.8

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      |||+|||..++.++|.++|+.||.|..|.+.+.+     +.|||+|.++++|.+|+..+   +  |..|+|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~---~--~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELL---N--GKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHH---T--TEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHC---C--CcEECCEEcC
Confidence            5889999999999999999999999999998773     56999999999999999986   3  8999999874

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 ....

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

Probab=98.98  E-value=6e-10  Score=105.35  Aligned_cols=76  Identities=26%  Similarity=0.441  Sum_probs=71.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..+|.|-||.+-++.++|+.+|++||.|-.|.||++.. ++.++|||||-|....+|+.|++.  +.+++|+.|.|++.
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~-Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a   90 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRY-TRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA   90 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccc-cccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence            46899999999999999999999999999999999987 789999999999999999999996  89999999999875

>smart00362 RRM_2 RNA recognition motif

Probab=98.97  E-value=2.6e-09  Score=82.57  Aligned_cols=66  Identities=26%  Similarity=0.296  Sum_probs=60.5

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ++++|||..+++++|+++|++||.|.++.+.+..    +.|||+|.++++|++|+..+.     |..+.|+.+.|
T Consensus         2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~-----~~~~~~~~i~v   71 (72)
T smart00362        2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALN-----GTKLGGRPLRV   71 (72)
T ss_pred             EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhC-----CcEECCEEEee
Confidence            6889999999999999999999999999998876    789999999999999998873     78899998876

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.96  E-value=1.9e-09  Score=106.66  Aligned_cols=71  Identities=17%  Similarity=0.372  Sum_probs=64.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC---ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA---ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~---~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      .+|||+|||+.+++++|+++|+.||.|..|.+.+++   ++|||.|+++++|++|+. |   |  |..|.|+.|.|.++.
T Consensus         5 rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-L---n--G~~l~gr~V~Vt~a~   78 (260)
T PLN03120          5 RTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-L---S--GATIVDQSVTITPAE   78 (260)
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-h---c--CCeeCCceEEEEecc
Confidence            368999999999999999999999999999998753   679999999999999995 5   4  899999999999986

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

Probab=98.92  E-value=3.4e-09  Score=102.12  Aligned_cols=139  Identities=17%  Similarity=0.129  Sum_probs=107.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+++++|.++|.+||.|..|.+..+.      +.|||.|.++++|..|+..+.     |..+.|+.+.|
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~-----~~~~~~~~~~v  189 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN-----GKELEGRPLRV  189 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC-----CCeECCceeEe
Confidence            3579999999999999999999999999888887654      669999999999999999873     89999999999


Q ss_pred             EEcCC-hhHHHHHH-----------HHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCc
Q 043731          394 EPVTG-EAEKEYWS-----------LLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGT  461 (498)
Q Consensus       394 ~~~~g-~~E~e~~~-----------~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  461 (498)
                      ..++. ...+..+.           ..............+..++........+...|...|.|....+.-........+.
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (306)
T COG0724         190 QKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSR  269 (306)
T ss_pred             eccccccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccc
Confidence            99653 22222222           1122333445777888899999999999999999999977666333333334555


Q ss_pred             cc
Q 043731          462 SF  463 (498)
Q Consensus       462 ~~  463 (498)
                      ++
T Consensus       270 ~~  271 (306)
T COG0724         270 SF  271 (306)
T ss_pred             cc
Confidence            55

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

Probab=98.91  E-value=1.6e-10  Score=107.26  Aligned_cols=83  Identities=17%  Similarity=0.251  Sum_probs=74.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ++-=|||+|||++.|+.+|.-+|++||+|.+|.+.||+. |++++||||..|++.-+.--|+.+  +..+.||.|+|.--
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~-TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKK-TGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCC-CCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            456799999999999999999999999999999999986 899999999999999999999986  89999999998755


Q ss_pred             chhHHH
Q 043731          190 KEFEAE  195 (498)
Q Consensus       190 ~d~~~~  195 (498)
                      ..|...
T Consensus       113 ~~Yk~p  118 (219)
T KOG0126|consen  113 SNYKKP  118 (219)
T ss_pred             ccccCC
Confidence            444443

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

Probab=98.90  E-value=2.3e-09  Score=99.18  Aligned_cols=77  Identities=17%  Similarity=0.218  Sum_probs=69.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+.|||+||+..++..+|..+|..||.+..|-+.+ .+++|||+|+++-+|+.|+..|.     |..|+|..|.|++.+|
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LD-----G~~~cG~r~rVE~S~G   84 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLD-----GKDICGSRIRVELSTG   84 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcC-----CccccCceEEEEeecC
Confidence            45799999999999999999999999997776654 46789999999999999999984     9999999999999999


Q ss_pred             hhH
Q 043731          399 EAE  401 (498)
Q Consensus       399 ~~E  401 (498)
                      ...
T Consensus        85 ~~r   87 (195)
T KOG0107|consen   85 RPR   87 (195)
T ss_pred             Ccc
Confidence            655

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

Probab=98.90  E-value=2.3e-09  Score=108.47  Aligned_cols=137  Identities=12%  Similarity=0.131  Sum_probs=107.3

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+.+++.+-++.|+..|..||.|++|+..      ..+++|||+|+=||+|+-|++.+   |  |..++||.+.|.+
T Consensus       115 RvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqM---N--g~mlGGRNiKVgr  189 (544)
T KOG0124|consen  115 RVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQM---N--GQMLGGRNIKVGR  189 (544)
T ss_pred             heeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHh---c--cccccCccccccC
Confidence            58999999999999999999999999999875      34667999999999999999998   4  9999999999986


Q ss_pred             cCChhHHH-HHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCC-CCCCCcccccc
Q 043731          396 VTGEAEKE-YWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKP-GISSGTSFVRP  466 (498)
Q Consensus       396 ~~g~~E~e-~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  466 (498)
                      -+.=.-.+ -...+.+-..+|  +|-|+...--+-.++.++.+|--||.|.+|+. -|++. +-.+|+||+-=
T Consensus       190 PsNmpQAQpiID~vqeeAk~f--nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~L-Ar~pt~~~HkGyGfiEy  259 (544)
T KOG0124|consen  190 PSNMPQAQPIIDMVQEEAKKF--NRIYVASVHPDLSETDIKSVFEAFGEIVKCQL-ARAPTGRGHKGYGFIEY  259 (544)
T ss_pred             CCCCcccchHHHHHHHHHHhh--heEEeeecCCCccHHHHHHHHHhhcceeeEEe-eccCCCCCccceeeEEe
Confidence            54422222 111111112222  45677766667778899999999999999999 77775 46799999753

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

Probab=98.84  E-value=9.3e-09  Score=100.56  Aligned_cols=77  Identities=19%  Similarity=0.245  Sum_probs=65.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh---CCeeCCe--EEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---GLFYAGV--ELH  185 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~---~~~~~G~--~l~  185 (498)
                      -+.|.|||+-|...-.++|++.+|..||.|..+.+.|...  +.+||||||.|.+.-+|+.|+..   ..++-|.  .|.
T Consensus        17 ~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d--g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLV   94 (371)
T KOG0146|consen   17 GDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD--GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLV   94 (371)
T ss_pred             ccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC--CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceE
Confidence            4678999999999999999999999999999999988764  67899999999999999999985   4455553  555


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      |+..
T Consensus        95 VK~A   98 (371)
T KOG0146|consen   95 VKFA   98 (371)
T ss_pred             EEec
Confidence            6554

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.84  E-value=8.9e-09  Score=100.57  Aligned_cols=72  Identities=10%  Similarity=0.182  Sum_probs=64.9

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC---ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA---ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~---~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      .++||+||++.+|+++|+++|+.||+|.+|.+.++.   +.|||+|+++++|+.|+. |   |  |..|.|+.|.+.++.
T Consensus         6 ~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-L---n--Ga~l~d~~I~It~~~   79 (243)
T PLN03121          6 YTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-L---S--GATIVDQRVCITRWG   79 (243)
T ss_pred             eEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-c---C--CCeeCCceEEEEeCc
Confidence            478999999999999999999999999999998865   459999999999999984 4   4  999999999999976


Q ss_pred             C
Q 043731          398 G  398 (498)
Q Consensus       398 g  398 (498)
                      .
T Consensus        80 ~   80 (243)
T PLN03121         80 Q   80 (243)
T ss_pred             c
Confidence            4

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

Probab=98.83  E-value=2e-08  Score=85.69  Aligned_cols=80  Identities=20%  Similarity=0.219  Sum_probs=70.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +..+||+|||+.+|.|+.-++|++||+|+-|++.-   .+|+|||.+++..+|.+|++.|.     |..+.++-+.|-..
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhls-----g~n~~~ryl~vlyy   92 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLS-----GYNVDNRYLVVLYY   92 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhc-----ccccCCceEEEEec
Confidence            44789999999999999999999999999999863   46779999999999999999985     88999999999888


Q ss_pred             CChhHHHH
Q 043731          397 TGEAEKEY  404 (498)
Q Consensus       397 ~g~~E~e~  404 (498)
                      +...+.+.
T Consensus        93 q~~~~~~~  100 (124)
T KOG0114|consen   93 QPEDAFKL  100 (124)
T ss_pred             CHHHHHHH
Confidence            77555443

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

Probab=98.83  E-value=7.7e-09  Score=109.81  Aligned_cols=78  Identities=23%  Similarity=0.294  Sum_probs=73.5

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecch
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKE  191 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d  191 (498)
                      ++|||+|+|+++++++|..+|+..|.|.++++..|.. +++++||+|++|.+.++|..|++.  +..+.|++|+|.++..
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~-tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRE-TGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeeccccc-CCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            8999999999999999999999999999999999986 788999999999999999999996  8999999999988754


Q ss_pred             h
Q 043731          192 F  192 (498)
Q Consensus       192 ~  192 (498)
                      .
T Consensus        98 ~   98 (435)
T KOG0108|consen   98 R   98 (435)
T ss_pred             c
Confidence            3

>PLN03213 repressor of silencing 3; Provisional

Probab=98.82  E-value=1.1e-08  Score=107.13  Aligned_cols=120  Identities=20%  Similarity=0.170  Sum_probs=84.9

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeec--CCceEEEEeCCH--HHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI--GAESGYIRFEEP--EGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~--g~~~GfV~F~~~--e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ..+|||||++.+++++|..+|++||.|..|.|+|  |+++|||.|.++  .++.+|++.|+     |..+.|+.|.|..+
T Consensus        11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLN-----GAEWKGR~LKVNKA   85 (759)
T PLN03213         11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYN-----GCVWKGGRLRLEKA   85 (759)
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhc-----CCeecCceeEEeec
Confidence            4689999999999999999999999999999986  677899999988  78999999994     99999999999987


Q ss_pred             CChhHHHHHHHHhhhhhccc-cccccchhhhhhhhhhhhhhhcccCCCccceee
Q 043731          397 TGEAEKEYWSLLRGNQERHR-DVKGEEKHLEAENKAASEKMIQQEDAQIKPGKF  449 (498)
Q Consensus       397 ~g~~E~e~~~~~~~~~~k~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  449 (498)
                      ..    .|+.+++.-..... .....++--.+.-...+|+-.|-.-+.+++--|
T Consensus        86 KP----~YLeRLkrEReea~s~~~~~~kl~k~~~e~~qLnifFPrLrKvKslPf  135 (759)
T PLN03213         86 KE----HYLARLKREWEAASSTSDNTIKAPSDSPPATHLNIFFPRLRKVKAMPL  135 (759)
T ss_pred             cH----HHHHHHHHHHHHhhccccccccccccCCccceeeEecccccccccccc
Confidence            43    25544332111111 011112212223344566666666666665444

>PF13893 RRM_5: RNA recognition motif

Probab=98.77  E-value=3.8e-08  Score=74.95  Aligned_cols=54  Identities=28%  Similarity=0.277  Sum_probs=49.2

Q ss_pred             HHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          337 LKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       337 Lke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      |.++|++||+|..|.+.+.. +.|||+|.++++|.+|++.++     |..++|+.|.|..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~-----~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLN-----GRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHT-----TSEETTEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCEECCcEEEEEE
Confidence            68999999999999999887 889999999999999999984     8999999999875

(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 ....

>smart00360 RRM RNA recognition motif

Probab=98.76  E-value=2.8e-08  Score=76.31  Aligned_cols=64  Identities=23%  Similarity=0.336  Sum_probs=56.7

Q ss_pred             ccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          325 YKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       325 v~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ++|||..+++++|+++|++||.|..+.+.+..      +.|||+|.++++|.+|+..+   +  +..++|+.+.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~---~--~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEAL---N--GKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHc---C--CCeeCCcEEEe
Confidence            46899999999999999999999999888764      47999999999999999887   3  78889988876

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

Probab=98.73  E-value=1.4e-08  Score=90.35  Aligned_cols=79  Identities=18%  Similarity=0.243  Sum_probs=72.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      .++..-|||.++...+|+++|.+.|..||+|.+|++-.+.. ++-.+|||.|+|++.++|++|+..  +..+.|++|.|.
T Consensus        69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRR-tGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD  147 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRR-TGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD  147 (170)
T ss_pred             ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccc-cccccceeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence            45677899999999999999999999999999999988875 788999999999999999999995  788999999998


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      |.
T Consensus       148 w~  149 (170)
T KOG0130|consen  148 WC  149 (170)
T ss_pred             EE
Confidence            86

>PF13893 RRM_5: RNA recognition motif

Probab=98.73  E-value=4.2e-08  Score=74.76  Aligned_cols=54  Identities=28%  Similarity=0.476  Sum_probs=47.1

Q ss_pred             HHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          130 VEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       130 L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      |.++|++||+|..|.+.+..      .|+|||+|.+.++|.+|+..  +..++|++|.|.++
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------RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS------TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            67899999999999997642      59999999999999999994  88999999998763

(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 ....

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

Probab=98.72  E-value=2.4e-08  Score=100.30  Aligned_cols=74  Identities=23%  Similarity=0.279  Sum_probs=66.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEee---c-CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK---I-GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~---~-g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .-+.|.|+||.--+-||+.+|++||.|..|+|.   | ++|+|||.|+++++|++|+++|.     |..|.||+|.|..+
T Consensus        97 kRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LH-----gt~VEGRkIEVn~A  171 (376)
T KOG0125|consen   97 KRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELH-----GTVVEGRKIEVNNA  171 (376)
T ss_pred             ceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhh-----cceeeceEEEEecc
Confidence            357899999999999999999999999998875   3 46679999999999999999995     99999999999998


Q ss_pred             CCh
Q 043731          397 TGE  399 (498)
Q Consensus       397 ~g~  399 (498)
                      +-.
T Consensus       172 Tar  174 (376)
T KOG0125|consen  172 TAR  174 (376)
T ss_pred             chh
Confidence            864

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

Probab=98.70  E-value=1.2e-08  Score=97.42  Aligned_cols=79  Identities=19%  Similarity=0.266  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...|||||++|..++|+.-|...|-+||.|..|.||.|.. +.+.+||+||+|.-.|+|..|+.+  ...+-|+.|+|..
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDye-sqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~   86 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYE-SQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL   86 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhccccccchhhcccccchh-cccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence            3579999999999999999999999999999999999986 677899999999999999999996  7889999999977


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      .+
T Consensus        87 Ak   88 (298)
T KOG0111|consen   87 AK   88 (298)
T ss_pred             cC
Confidence            54

>smart00361 RRM_1 RNA recognition motif

Probab=98.70  E-value=4.7e-08  Score=78.22  Aligned_cols=60  Identities=23%  Similarity=0.354  Sum_probs=50.2

Q ss_pred             HHHHHHHhc----cCCceeeEE-cccccCC-CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          127 REDVEAFFS----QHVKVNSVR-LPRHVAD-KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       127 ~e~L~~~F~----~~G~V~~Vr-i~r~~~~-~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      +++|+++|+    +||.|.+|. |+.+... +++++|+|||+|.+.++|.+|+..  +..++|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            578999999    999999985 5554432 267899999999999999999995  88899999875

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

Probab=98.69  E-value=9.3e-08  Score=74.09  Aligned_cols=67  Identities=27%  Similarity=0.303  Sum_probs=60.0

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ++++|||..+++++|+++|+.||.|..+.+.+.     .+.|||+|.++++|..|+..+.     +..++|+.+.|.
T Consensus         2 i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~-----~~~~~~~~~~v~   73 (74)
T cd00590           2 LFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALN-----GKELGGRPLRVE   73 (74)
T ss_pred             EEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEe
Confidence            578999999999999999999999999988865     4679999999999999999873     777999998875

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).

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

Probab=98.69  E-value=2e-08  Score=97.01  Aligned_cols=75  Identities=15%  Similarity=0.104  Sum_probs=64.2

Q ss_pred             ccCcceeeeccCCCccccHHHHHHHhccCCceEEEEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe
Q 043731          316 KEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF  389 (498)
Q Consensus       316 ~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~  389 (498)
                      .+...+.|||++|++.+..|.|+..|++||+|..+.+.      |+++.|||.|.|.++|.+|.+.      ..-.|+||
T Consensus         8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d------p~piIdGR   81 (247)
T KOG0149|consen    8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD------PNPIIDGR   81 (247)
T ss_pred             CCceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC------CCCccccc
Confidence            34466789999999999999999999999999876654      4667799999999999999764      37789999


Q ss_pred             EEEEEEc
Q 043731          390 IAVLEPV  396 (498)
Q Consensus       390 ~~~v~~~  396 (498)
                      +..+.++
T Consensus        82 ~aNcnlA   88 (247)
T KOG0149|consen   82 KANCNLA   88 (247)
T ss_pred             ccccchh
Confidence            9988876

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

Probab=98.66  E-value=4.5e-08  Score=96.93  Aligned_cols=114  Identities=13%  Similarity=0.154  Sum_probs=95.6

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE  401 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E  401 (498)
                      .+||+|||..++..+|+.+|++||+|..+||.+.  .|||..++..+|+-|+.-|.     |.+|.|..|.|+....+  
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--YgFVHiEdktaaedairNLh-----gYtLhg~nInVeaSksK--   74 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--YGFVHIEDKTAAEDAIRNLH-----GYTLHGVNINVEASKSK--   74 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCceEeeeeecc--cceEEeecccccHHHHhhcc-----cceecceEEEEEecccc--
Confidence            5799999999999999999999999999999966  89999999999999998773     99999999999987654  


Q ss_pred             HHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCcccc
Q 043731          402 KEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFV  464 (498)
Q Consensus       402 ~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  464 (498)
                             ....     -++-+-|+...-.+.-+|+.|+.+|.+.-|++ .       ++.+||
T Consensus        75 -------sk~s-----tkl~vgNis~tctn~ElRa~fe~ygpviecdi-v-------kdy~fv  117 (346)
T KOG0109|consen   75 -------SKAS-----TKLHVGNISPTCTNQELRAKFEKYGPVIECDI-V-------KDYAFV  117 (346)
T ss_pred             -------CCCc-----cccccCCCCccccCHHHhhhhcccCCceeeee-e-------cceeEE
Confidence                   1111     23344557777778889999999999999987 3       456776

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

Probab=98.64  E-value=2.3e-07  Score=95.49  Aligned_cols=188  Identities=20%  Similarity=0.227  Sum_probs=121.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v~  187 (498)
                      ..+-|.++|||+++++++|.+++.+||+|+++.+.+.       +.-||++|.++++|..-+.-    ...+.|++|-|+
T Consensus        27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkG-------knQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq   99 (492)
T KOG1190|consen   27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKG-------KNQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQ   99 (492)
T ss_pred             CcceeEeccCCccccHHHHHHhcccccceeeeeeecc-------chhhhhhhcchhhhhheeecccccCccccCcceeeh
Confidence            4688999999999999999999999999999988763       23699999999999885552    566888998877


Q ss_pred             ecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCC
Q 043731          188 PKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS  267 (498)
Q Consensus       188 ~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~  267 (498)
                      .+....- +       ....+    ++          .+|-.+....   +                     ..++.+..
T Consensus       100 ~sn~~~l-k-------t~s~p----~q----------~r~~~vy~~~---s---------------------~~q~~~~~  133 (492)
T KOG1190|consen  100 YSNHSEL-K-------TDSQP----NQ----------IRGQAVYQAV---S---------------------SVQEIVLP  133 (492)
T ss_pred             hhhHHHH-h-------ccCch----hh----------hhhhhHHhhh---h---------------------cccccccc
Confidence            6421000 0       00000    00          0011010000   0                     00000000


Q ss_pred             CchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCc--ceeeeccCCCccccHHHHHHHhccCC
Q 043731          268 SDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGK--TSIDTYKDNMDVVMREDLKSVFHKFG  345 (498)
Q Consensus       268 ~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~--~~~vfv~nL~~~vt~EdLke~F~~fG  345 (498)
                                                      +......     .| ...++  -..+++.|+.+.+|-+-|.++|++||
T Consensus       134 --------------------------------~s~~~~~-----~G-~~~~~n~vLr~iie~m~ypVslDVLHqvFS~fG  175 (492)
T KOG1190|consen  134 --------------------------------LSASAVV-----VG-NEDGPNPVLRTIIENMFYPVSLDVLHQVFSKFG  175 (492)
T ss_pred             --------------------------------ccccccc-----cc-ccCCCceeEEEEeccceeeeEHHHHHHHHhhcc
Confidence                                            0000000     00 00111  12468899999999999999999999


Q ss_pred             ceEE-EEeecCCce-EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          346 TVKF-IDFKIGAES-GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       346 ~V~~-V~~~~g~~~-GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .|.. |.|.+..++ |.|+|.+++.|+.|..+|.     |..|=+--+++++
T Consensus       176 ~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLd-----GqnIyngcCtLrI  222 (492)
T KOG1190|consen  176 FVLKIITFTKNNGFQALVQYTDAVSAQAAKLALD-----GQNIYNGCCTLRI  222 (492)
T ss_pred             eeEEEEEEecccchhhhhhccchhhHHHHHHhcc-----CCcccCceeEEEe
Confidence            9866 567777776 8999999999999998884     5555555555554

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

Probab=98.60  E-value=1.2e-07  Score=98.58  Aligned_cols=152  Identities=21%  Similarity=0.304  Sum_probs=98.4

Q ss_pred             ChHHHhhhCCCCCCceehHHHhcc-hhhHhhhccCCCCCCCCCcccHHHHHHHHhh--cCcceeecCcceeecccCCcch
Q 043731           28 DEFLRGKISESSDAMVSLALICSF-KRMKEHLHLGNVKSEDIPEDTLEAVAETLRK--SSSLKLSEDGMKVGRSAELPTA  104 (498)
Q Consensus        28 D~fL~~~~~~~~~g~V~l~~i~~F-~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~--S~~leVsedg~kVrR~~~~~~~  104 (498)
                      |.+|. .|.+-.+|.|.+.+..+= +++|+--      +..|-..+=...+.|=++  +..+.|-...-.|-=..|...|
T Consensus       179 eeIle-e~~kVteGVvdVivy~~p~dk~KNRG------FaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~  251 (506)
T KOG0117|consen  179 EEILE-EMKKVTEGVVDVIVYPSPDDKTKNRG------FAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEP  251 (506)
T ss_pred             HHHHH-HHHhhCCCeeEEEEecCccccccccc------eEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCC
Confidence            44443 455567898888777544 3443320      001111111111111111  1233444444445544555544


Q ss_pred             hhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCe
Q 043731          105 EEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGV  182 (498)
Q Consensus       105 ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~  182 (498)
                      ++. .-..-+-|||+||+.++|++.|+++|++||.|..|..+|         -||||-|.+.++|-+||++  +..++|.
T Consensus       252 ded-~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r---------DYaFVHf~eR~davkAm~~~ngkeldG~  321 (506)
T KOG0117|consen  252 DED-TMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR---------DYAFVHFAEREDAVKAMKETNGKELDGS  321 (506)
T ss_pred             Chh-hhhheeeeeeeccchhhhHHHHHHHHHhccceEEeeccc---------ceeEEeecchHHHHHHHHHhcCceecCc
Confidence            432 123346799999999999999999999999999997765         3899999999999999995  8999999


Q ss_pred             EEEEeecchhHHHH
Q 043731          183 ELHLKPKKEFEAER  196 (498)
Q Consensus       183 ~l~v~~k~d~~~~k  196 (498)
                      .|.|...+....++
T Consensus       322 ~iEvtLAKP~~k~k  335 (506)
T KOG0117|consen  322 PIEVTLAKPVDKKK  335 (506)
T ss_pred             eEEEEecCChhhhc
Confidence            99999887655443

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

Probab=98.58  E-value=2.2e-07  Score=99.67  Aligned_cols=77  Identities=14%  Similarity=0.202  Sum_probs=68.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ....+||++||...+++++.++...||.+...++..+.. ++.++||||.+|.++.-...|+..  +..+.+..|.|+..
T Consensus       288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~-~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A  366 (500)
T KOG0120|consen  288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSA-TGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA  366 (500)
T ss_pred             ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccc-cccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence            346799999999999999999999999999999988876 577999999999999999999985  77788888887654

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

Probab=98.58  E-value=5.6e-08  Score=92.16  Aligned_cols=70  Identities=19%  Similarity=0.204  Sum_probs=63.4

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+-|.||.+.|+.++|..+|++||.|--|.|+++      .++|||+|.+..+|+.|+++|.     |.+|+|++|.|.+
T Consensus        15 SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damD-----G~~ldgRelrVq~   89 (256)
T KOG4207|consen   15 SLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMD-----GAVLDGRELRVQM   89 (256)
T ss_pred             eEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhc-----ceeeccceeeehh
Confidence            4567899999999999999999999999999875      4569999999999999999984     9999999999987


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      +
T Consensus        90 a   90 (256)
T KOG4207|consen   90 A   90 (256)
T ss_pred             h
Confidence            6

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

Probab=98.52  E-value=3.7e-07  Score=94.63  Aligned_cols=134  Identities=13%  Similarity=0.124  Sum_probs=105.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhcc-CCceEEEEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHK-FGTVKFIDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~-fG~V~~V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+|+-|+|+++-|++||++|.+ -|+|+||.+--     .+++|.|+|+++|.++||++.|+     ...+.|++|.|
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~ln-----k~~~~GR~l~v  118 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLN-----KYEVNGRELVV  118 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhh-----hccccCceEEE
Confidence            345999999999999999999985 79999999864     45679999999999999999995     77899999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      +---+ +|+..+.     |.--.+.....-+++-......+...|.--|...-+ +..+|..+.|++-+|+.
T Consensus       119 KEd~d-~q~~~~~-----~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg-~~~~D~Dr~sr~~~t~t  183 (608)
T KOG4212|consen  119 KEDHD-EQRDQYG-----RIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRG-FSRRDDDRLSRRNNTNT  183 (608)
T ss_pred             eccCc-hhhhhhh-----heeeccCcccccCcceecccccccccCCCCccccCC-CCcccccccccccCccc
Confidence            86444 3333222     111224555666677777888888999888887777 44899999999888764

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

Probab=98.49  E-value=1.9e-07  Score=94.47  Aligned_cols=76  Identities=28%  Similarity=0.414  Sum_probs=68.1

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh---CCeeCCeEEE
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---GLFYAGVELH  185 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~---~~~~~G~~l~  185 (498)
                      ++...+||||++|-..+++.+|+++|-+||+|.+|++...       +|+|||+|.+.++|+.|...   ...++|..|.
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 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLK  296 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-------cccceeeehhhHHHHHHHHhhcceeeecceEEE
Confidence            5667899999999889999999999999999999998542       47999999999999999996   5779999999


Q ss_pred             Eeecch
Q 043731          186 LKPKKE  191 (498)
Q Consensus       186 v~~k~d  191 (498)
                      |.|...
T Consensus       297 i~Wg~~  302 (377)
T KOG0153|consen  297 IKWGRP  302 (377)
T ss_pred             EEeCCC
Confidence            999865

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

Probab=98.48  E-value=1e-07  Score=97.42  Aligned_cols=77  Identities=23%  Similarity=0.285  Sum_probs=70.7

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ..+.|||++||.++++++++++|.+||.|..+-++.+.. +.+.+||+||+|.+++++.+++.. .+.|+|+.+.|..+
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~-~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA  173 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKT-TSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRA  173 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccc-ccccccceeeEeccccccceecccceeeecCceeeEeec
Confidence            456899999999999999999999999999999998876 678999999999999999999997 78999999998665

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

Probab=98.38  E-value=5.6e-07  Score=79.64  Aligned_cols=83  Identities=13%  Similarity=0.135  Sum_probs=70.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      .+++|||+||++-+++|+|-++|+++|+|+.|.+.-++      ++.||.|-..++|+.|+..++     |..|+.++|.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryis-----gtrLddr~ir  109 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYIS-----GTRLDDRPIR  109 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhc-----cCccccccee
Confidence            35689999999999999999999999999999765332      336999999999999999884     9999999999


Q ss_pred             EEEcCChhHHHHHH
Q 043731          393 LEPVTGEAEKEYWS  406 (498)
Q Consensus       393 v~~~~g~~E~e~~~  406 (498)
                      +..=-|=.|=-.|-
T Consensus       110 ~D~D~GF~eGRQyG  123 (153)
T KOG0121|consen  110 IDWDAGFVEGRQYG  123 (153)
T ss_pred             eeccccchhhhhhc
Confidence            99877766654443

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

Probab=98.35  E-value=1.6e-07  Score=96.69  Aligned_cols=60  Identities=28%  Similarity=0.486  Sum_probs=50.2

Q ss_pred             HHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhh
Q 043731            9 AQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRK   82 (498)
Q Consensus         9 ~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~   82 (498)
                      ...+.+|||||||-.||..|.|||+++.  .+||||+++|..|.|...+.+            +..++..||+.
T Consensus       271 I~a~k~QiEyYFseenl~~d~~lrkk~~--kaGf~plsfi~kf~Rn~Sf~g------------d~nLilaa~ke  330 (438)
T COG5193         271 IMAKKEQIEYYFSEENLKSDEFLRKKFK--KAGFIPLSFIGKFYRNLSFGG------------DKNLILAAMKE  330 (438)
T ss_pred             hhhHHhhhHhhhhHHhhhhhhHHHhhhh--hcccccHhhhhhhhhccccCC------------chhhhHHHHHH
Confidence            4567889999999999999999999998  579999999999999777753            34556666654

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

Probab=98.34  E-value=1.1e-06  Score=87.47  Aligned_cols=83  Identities=16%  Similarity=0.218  Sum_probs=70.3

Q ss_pred             CcceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          318 GKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       318 ~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      .+..++||+-|+.++++..|+..|+.||.|+.|.+.++      .+.|||.|+++-+...|...+   .  |++|+|+.|
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~a---d--G~~Idgrri  173 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDA---D--GIKIDGRRI  173 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhc---c--CceecCcEE
Confidence            35678999999999999999999999999999998765      455899999999999998775   3  999999999


Q ss_pred             EEEEcCChhHHHHHH
Q 043731          392 VLEPVTGEAEKEYWS  406 (498)
Q Consensus       392 ~v~~~~g~~E~e~~~  406 (498)
                      .|.+=-|..= ..|.
T Consensus       174 ~VDvERgRTv-kgW~  187 (335)
T KOG0113|consen  174 LVDVERGRTV-KGWL  187 (335)
T ss_pred             EEEecccccc-cccc
Confidence            9998544332 2775

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

Probab=98.30  E-value=1.5e-06  Score=84.54  Aligned_cols=71  Identities=20%  Similarity=0.290  Sum_probs=62.7

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++=|-||++++++++|.++|.+||.|..|.+.+++      |+|||.|.+.++|++|++.|+     |+=+++-+|.|+-
T Consensus       191 tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~Ln-----G~gyd~LILrvEw  265 (270)
T KOG0122|consen  191 TVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLN-----GYGYDNLILRVEW  265 (270)
T ss_pred             eeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHcc-----CcccceEEEEEEe
Confidence            56778999999999999999999999999988754      458999999999999999984     8888888888886


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      +.
T Consensus       266 sk  267 (270)
T KOG0122|consen  266 SK  267 (270)
T ss_pred             cC
Confidence            54

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

Probab=98.29  E-value=1.4e-06  Score=88.44  Aligned_cols=70  Identities=19%  Similarity=0.317  Sum_probs=65.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++||++|.+.+++.+|++.|-+||+|+++.+..+++.|||+|.+.++|++|.++.-  |  .+.|+|+.|.+.
T Consensus       229 ~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~--n--~lvI~G~Rl~i~  298 (377)
T KOG0153|consen  229 KTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSF--N--KLVINGFRLKIK  298 (377)
T ss_pred             eEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhc--c--eeeecceEEEEE
Confidence            478999999999999999999999999999999999999999999999999987752  4  999999999987

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

Probab=98.28  E-value=1.3e-06  Score=96.04  Aligned_cols=74  Identities=22%  Similarity=0.281  Sum_probs=67.3

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      .+.+|||||++||..+++.+|..+|+.||.|.+|.|.-       ++|||||......+|.+||.+  ...+.++.|+|.
T Consensus       418 sV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~-------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~  490 (894)
T KOG0132|consen  418 SVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP-------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIA  490 (894)
T ss_pred             eEeeeeeeeccccchhhHHHHHHHHHhcccceeEeecc-------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEe
Confidence            46789999999999999999999999999999998854       469999999999999999996  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      |..
T Consensus       491 Wa~  493 (894)
T KOG0132|consen  491 WAV  493 (894)
T ss_pred             eec
Confidence            853

>smart00361 RRM_1 RNA recognition motif

Probab=98.26  E-value=2.3e-06  Score=68.41  Aligned_cols=55  Identities=27%  Similarity=0.312  Sum_probs=45.4

Q ss_pred             HHHHHHHhc----cCCceEEEE---eec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          334 REDLKSVFH----KFGTVKFID---FKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       334 ~EdLke~F~----~fG~V~~V~---~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +++|++.|+    +||.|..|.   +.+      .++.|||+|.++++|.+|+..|+     |..++|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~-----g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLN-----GRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEe
Confidence            468888888    999998874   222      25569999999999999999884     99999999876

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

Probab=98.26  E-value=1.3e-06  Score=92.60  Aligned_cols=78  Identities=15%  Similarity=0.190  Sum_probs=66.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecch
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKKE  191 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~d  191 (498)
                      ..+|||+|||.+++..+|+++|++||.|...+|.....+.+.+ +||||+|.+.++++.|+.. ...++|++|.|.-++.
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~-~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNP-CFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcC-ceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence            4569999999999999999999999999998876543222334 9999999999999999997 6779999999877654

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=98.25  E-value=1.7e-05  Score=84.24  Aligned_cols=167  Identities=15%  Similarity=0.138  Sum_probs=108.6

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEccc-ccCC-CCcccc---eEEEEeCCHHHHHHHHHhCCeeCCeE
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPR-HVAD-KRLFCG---TALIEFSTEEDAEKVLKQGLFYAGVE  183 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r-~~~~-~~~~kG---~aFVeF~s~e~A~kAl~~~~~~~G~~  183 (498)
                      ...-.|.|||++||++++++.|...|..||.+.. .-++ .... .-.++|   |+|.-|+++.++...|..-.. .+.+
T Consensus       255 ~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~V-dWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~~  332 (520)
T KOG0129|consen  255 SPRYSRKVFVGGLPWDITEAQINASFGQFGSVKV-DWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE-GEGN  332 (520)
T ss_pred             ccccccceeecCCCccccHHHHHhhcccccceEe-ecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh-cccc
Confidence            3456789999999999999999999999998653 2332 1111 123566   999999999999988875222 3333


Q ss_pred             EEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCC
Q 043731          184 LHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDG  263 (498)
Q Consensus       184 l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~  263 (498)
                      +-+.....-                                -+...|.+  ..|--     .       |          
T Consensus       333 ~yf~vss~~--------------------------------~k~k~VQI--rPW~l-----a-------D----------  356 (520)
T KOG0129|consen  333 YYFKVSSPT--------------------------------IKDKEVQI--RPWVL-----A-------D----------  356 (520)
T ss_pred             eEEEEecCc--------------------------------ccccceeE--EeeEe-----c-------c----------
Confidence            332221100                                00000111  11111     0       0          


Q ss_pred             CCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhc-
Q 043731          264 EPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFH-  342 (498)
Q Consensus       264 ~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~-  342 (498)
                                                 ...     ..           ..........+||||.||--++-++|..+|. 
T Consensus       357 ---------------------------s~f-----v~-----------d~sq~lDprrTVFVGgvprpl~A~eLA~imd~  393 (520)
T KOG0129|consen  357 ---------------------------SDF-----VL-----------DHNQPIDPRRTVFVGGLPRPLTAEELAMIMED  393 (520)
T ss_pred             ---------------------------chh-----hh-----------ccCcccCccceEEecCCCCcchHHHHHHHHHH
Confidence                                       000     00           0001122345899999999999999999999 


Q ss_pred             cCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHH
Q 043731          343 KFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAA  376 (498)
Q Consensus       343 ~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l  376 (498)
                      -||.|.||-|-.+      .|.|=|.|.+..+=-+||++-
T Consensus       394 lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsar  433 (520)
T KOG0129|consen  394 LFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISAR  433 (520)
T ss_pred             hcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhh
Confidence            5999999988776      456899999999999998874

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

Probab=98.25  E-value=1.9e-06  Score=82.04  Aligned_cols=77  Identities=18%  Similarity=0.162  Sum_probs=66.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccC-CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~-G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ...--+||..+|..+-+.++..+|.++ |.|..+|+-|++. ||.++|||||+|++++.|.=|.+.  +..+.|+-|.+.
T Consensus        47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkr-TGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~  125 (214)
T KOG4208|consen   47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKR-TGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH  125 (214)
T ss_pred             CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccc-cCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence            345569999999999999999999999 7888899988876 789999999999999999988884  677888877654


Q ss_pred             e
Q 043731          188 P  188 (498)
Q Consensus       188 ~  188 (498)
                      .
T Consensus       126 v  126 (214)
T KOG4208|consen  126 V  126 (214)
T ss_pred             E
Confidence            3

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

Probab=98.25  E-value=2.9e-07  Score=97.63  Aligned_cols=63  Identities=29%  Similarity=0.500  Sum_probs=55.8

Q ss_pred             HHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcCccee
Q 043731            9 AQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSSSLKL   88 (498)
Q Consensus         9 ~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~~leV   88 (498)
                      .+-|.+|||||||.+||.+|.||++       +||+|.+|++|+||..++.            |+++|.+||+.+-++++
T Consensus       301 ~~~~~~~ie~~FSeE~~~~d~~n~~-------k~~~l~~ia~F~r~ad~s~------------d~nli~~alr~s~ive~  361 (448)
T KOG2590|consen  301 IAFIQEPIEFYFSEENLQRDRFNRE-------KFVPLRVIAKFKRVADLSS------------DINLILAALRNSLIVEE  361 (448)
T ss_pred             ccccccccccccchHHHhhhhhhhc-------ccchhhhhhhhhhhhhccc------------CHHHHHHHHhhhhhhhc
Confidence            4567899999999999999999976       6788999999999999973            89999999999988876


Q ss_pred             ec
Q 043731           89 SE   90 (498)
Q Consensus        89 se   90 (498)
                      ..
T Consensus       362 ~~  363 (448)
T KOG2590|consen  362 TG  363 (448)
T ss_pred             cc
Confidence            53

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

Probab=98.22  E-value=1.5e-06  Score=85.63  Aligned_cols=82  Identities=22%  Similarity=0.313  Sum_probs=74.5

Q ss_pred             hhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEE
Q 043731          108 KEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHL  186 (498)
Q Consensus       108 ~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v  186 (498)
                      ...++.+++||+|+.+.+|.++++..|+.||.|..|.|+.+.. .++++||+||+|.+.+.+.+|+.. +..+.|+.+.+
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~-~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~v  174 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKF-RGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEV  174 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCccceeeecccc-CCCcceeEEEecccHhhhHHHhhcCCccccccccee
Confidence            3568899999999999999999999999999999999998876 566999999999999999999994 88899999998


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus       175 t~~r  178 (231)
T KOG4209|consen  175 TLKR  178 (231)
T ss_pred             eeee
Confidence            8874

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

Probab=98.20  E-value=9.6e-06  Score=83.83  Aligned_cols=73  Identities=19%  Similarity=0.232  Sum_probs=63.8

Q ss_pred             cceEEeccCC-CCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLE-YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp-~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ...|.|.||. ..+|.+-|..+|+-||.|..|.|..++.      -.|.|.+.+...|+-|+..  +..+.|+.|+|.++
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk------d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~S  370 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK------DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLS  370 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC------cceeeeecchhHHHHHHHHhhcceecCceEEEeec
Confidence            3568899995 5689999999999999999999988743      4699999999999999995  89999999999887


Q ss_pred             ch
Q 043731          190 KE  191 (498)
Q Consensus       190 ~d  191 (498)
                      +.
T Consensus       371 KH  372 (492)
T KOG1190|consen  371 KH  372 (492)
T ss_pred             cC
Confidence            53

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

Probab=98.18  E-value=1.8e-06  Score=80.74  Aligned_cols=126  Identities=16%  Similarity=0.178  Sum_probs=88.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+||+|||.++-+.+|.++|-+||.|..|++..   ....|||+|+++-+|+-||..-   +  |..++|..|.|+..-|
T Consensus         8 ~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygR---d--GYdydg~rLRVEfprg   82 (241)
T KOG0105|consen    8 RIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGR---D--GYDYDGCRLRVEFPRG   82 (241)
T ss_pred             eEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcc---c--ccccCcceEEEEeccC
Confidence            579999999999999999999999999999863   2557999999999999998763   3  9999999999999865


Q ss_pred             hhHHHHHH--------------HHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeecc
Q 043731          399 EAEKEYWS--------------LLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHE  453 (498)
Q Consensus       399 ~~E~e~~~--------------~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  453 (498)
                      -----+-.              ..+...-++-..|.-+.-|-.+-.=..|+...-+-|.+-=+.| ++|
T Consensus        83 gr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv-~rD  150 (241)
T KOG0105|consen   83 GRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADV-QRD  150 (241)
T ss_pred             CCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeee-ecc
Confidence            21000000              0011111222333334455555555566666666677766666 666

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.18  E-value=2e-07  Score=103.30  Aligned_cols=141  Identities=18%  Similarity=0.188  Sum_probs=110.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      .+..++||+||+..+...+|...|..+|.+..|++.... ++++++|.|||+|..++++.+|+.- ...+-|        
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~-n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g--------  735 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHK-NEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG--------  735 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHh-hccccccceeeEeecCCchhhhhhhhhhhhhh--------
Confidence            344679999999999999999999999999999987444 3678999999999999999999962 100000        


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                                                                                                      
T Consensus       736 --------------------------------------------------------------------------------  735 (881)
T KOG0128|consen  736 --------------------------------------------------------------------------------  735 (881)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                        -..+|+.|+|+..|.+.|+.+|+++|.++.
T Consensus       736 --------------------------------------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~  765 (881)
T KOG0128|consen  736 --------------------------------------------------KISVAISGPPFQGTKEELKSLASKTGNVTS  765 (881)
T ss_pred             --------------------------------------------------hhhhheeCCCCCCchHHHHhhccccCCccc
Confidence                                                              002477899999999999999999999988


Q ss_pred             EEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          350 IDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       350 V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +.+...     .+-+||.|.++.+|.++++...     ++.++...+.+.+
T Consensus       766 ~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d-----~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  766 LRLVTVRAGKPKGKARVDYNTEADASRKVASVD-----VAGKRENNGEVQV  811 (881)
T ss_pred             cchhhhhccccccceeccCCCcchhhhhcccch-----hhhhhhcCccccc
Confidence            765432     3458999999999999988753     5555555554444

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

Probab=98.08  E-value=7.1e-06  Score=87.47  Aligned_cols=81  Identities=19%  Similarity=0.129  Sum_probs=69.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+||||+|++.++|+|.++|++.|.|..+.+.-+      +|.||+.|.++++|.+|++.|   |  |..+.|+.+.|.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~l---N--g~~~~gr~l~v~   93 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNL---N--GAEFNGRKLRVN   93 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhc---C--CcccCCceEEee
Confidence            46899999999999999999999999988777643      345899999999999999998   4  999999999999


Q ss_pred             EcCChhHHH--HHH
Q 043731          395 PVTGEAEKE--YWS  406 (498)
Q Consensus       395 ~~~g~~E~e--~~~  406 (498)
                      ....+..++  +|.
T Consensus        94 ~~~~~~~~~~~~~~  107 (435)
T KOG0108|consen   94 YASNRKNAERSLAS  107 (435)
T ss_pred             cccccchhHHHHhh
Confidence            996655444  554

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

Probab=98.01  E-value=4e-05  Score=78.75  Aligned_cols=79  Identities=18%  Similarity=0.206  Sum_probs=55.1

Q ss_pred             eccCCCccccHHHHHHHhccCC-ceEE--EEee---cC--CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          324 TYKDNMDVVMREDLKSVFHKFG-TVKF--IDFK---IG--AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       324 fv~nL~~~vt~EdLke~F~~fG-~V~~--V~~~---~g--~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      -.++||+..+.|+|-..|..|. .|.+  |.+.   -|  .|.|||+|.+.|.|..|...-.     ...++++-+.|-.
T Consensus       284 RLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~h-----k~~mk~RYiEvfp  358 (508)
T KOG1365|consen  284 RLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCH-----KKLMKSRYIEVFP  358 (508)
T ss_pred             EecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHH-----HhhcccceEEEee
Confidence            4589999999999999999997 3555  4433   22  3448999999999988866532     3445677777666


Q ss_pred             cCChhHHHHHHH
Q 043731          396 VTGEAEKEYWSL  407 (498)
Q Consensus       396 ~~g~~E~e~~~~  407 (498)
                      ..+++=.+-+..
T Consensus       359 ~S~eeln~vL~~  370 (508)
T KOG1365|consen  359 CSVEELNEVLSG  370 (508)
T ss_pred             ccHHHHHHHHhc
Confidence            666444444443

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

Probab=97.97  E-value=9.5e-05  Score=78.33  Aligned_cols=76  Identities=20%  Similarity=0.247  Sum_probs=61.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ..-.|.+++||+.+|+++|.+||+-.-.|.. |.++.+..  +++.|-|||.|++.+.|++||.. ...++-+-|.|..+
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~r--gR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S  179 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQR--GRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS  179 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCC--CCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence            4567999999999999999999998866666 65666654  45899999999999999999986 44566666666544

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

Probab=97.95  E-value=1e-05  Score=82.20  Aligned_cols=78  Identities=21%  Similarity=0.212  Sum_probs=70.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      +...-|||.-|.+-+|.++|+-+|+.||+|.++.++|+.. ++.+.-||||+|++.+++++|.=.  ...++++.|+|..
T Consensus       237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~k-tgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF  315 (479)
T KOG0415|consen  237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRK-TGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF  315 (479)
T ss_pred             CCcceEEEEecCCcccccchhhHHhhcccceeeeEEeccc-ccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence            3457799999999999999999999999999999999986 788899999999999999999863  6779999999876


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      +
T Consensus       316 S  316 (479)
T KOG0415|consen  316 S  316 (479)
T ss_pred             h
Confidence            5

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

Probab=97.90  E-value=7.6e-06  Score=80.50  Aligned_cols=83  Identities=12%  Similarity=0.125  Sum_probs=71.3

Q ss_pred             hhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          107 MKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       107 ~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      .++..+.+.|||--||.+....+|.+.|-.||.|.+..+--|+. +..+|.|+||.|+++.+|+.|+..  +..++-+.|
T Consensus       279 qreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRA-TNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRL  357 (371)
T KOG0146|consen  279 QREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRA-TNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRL  357 (371)
T ss_pred             hhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhc-cccccceeeEecCCchhHHHHHHHhcchhhhhhhh
Confidence            45677889999999999999999999999999999988877776 678999999999999999999985  555666666


Q ss_pred             EEeecc
Q 043731          185 HLKPKK  190 (498)
Q Consensus       185 ~v~~k~  190 (498)
                      +|..|+
T Consensus       358 KVQLKR  363 (371)
T KOG0146|consen  358 KVQLKR  363 (371)
T ss_pred             hhhhcC
Confidence            666654

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

Probab=97.88  E-value=2.3e-05  Score=86.56  Aligned_cols=81  Identities=20%  Similarity=0.281  Sum_probs=71.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChh
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEA  400 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~  400 (498)
                      .++||+.|+..++++||+.+|+.||+|.+|.+...+++|||......+|.+|+.+|.     ...+.++.|++.-+.|.-
T Consensus       422 rTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~-----n~kv~~k~Iki~Wa~g~G  496 (894)
T KOG0132|consen  422 RTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLS-----NVKVADKTIKIAWAVGKG  496 (894)
T ss_pred             eeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHh-----cccccceeeEEeeeccCC
Confidence            379999999999999999999999999999999999999999999999999999995     788899988777666643


Q ss_pred             HHH----HHH
Q 043731          401 EKE----YWS  406 (498)
Q Consensus       401 E~e----~~~  406 (498)
                      =+.    ||.
T Consensus       497 ~kse~k~~wD  506 (894)
T KOG0132|consen  497 PKSEYKDYWD  506 (894)
T ss_pred             cchhhhhhhh
Confidence            333    665

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

Probab=97.83  E-value=2.6e-05  Score=83.32  Aligned_cols=77  Identities=16%  Similarity=0.176  Sum_probs=66.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..|.+||.+|...+-..+|+.+|++||+|....++.+....+ -++|+||++.+.++|.++|.+  .+.++|+.|.|...
T Consensus       404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPG-aRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka  482 (940)
T KOG4661|consen  404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPG-ARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA  482 (940)
T ss_pred             cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCC-cceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence            457899999999999999999999999999988876643222 468999999999999999996  67899999998654

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

Probab=97.82  E-value=4.2e-05  Score=75.62  Aligned_cols=75  Identities=23%  Similarity=0.373  Sum_probs=67.1

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..+|+|.|||+.++.++|+++|.+||.+..+.|..+..  +.+.|+|-|.|...++|..|++.  +..++|++|.+...
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~--G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i  159 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA--GRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII  159 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC--CCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence            36799999999999999999999999999998887764  67899999999999999999995  78899999887654

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

Probab=97.79  E-value=1.8e-05  Score=88.59  Aligned_cols=158  Identities=18%  Similarity=0.223  Sum_probs=116.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeec
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPK  189 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k  189 (498)
                      .+..+|||++||+..+++.+|+..|..+|.|..|.|-+...  +.-.-++||.|.+.+.+-+|...   ..|..|.    
T Consensus       369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~--~~esa~~f~~~~n~dmtp~ak~e---~s~~~I~----  439 (975)
T KOG0112|consen  369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI--KTESAYAFVSLLNTDMTPSAKFE---ESGPLIG----  439 (975)
T ss_pred             hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC--CcccchhhhhhhccccCcccchh---hcCCccc----
Confidence            56789999999999999999999999999999999876643  22346889999988888877753   1111111    


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                                                          .|... .     .-       |                      
T Consensus       440 ------------------------------------~g~~r-~-----gl-------G----------------------  448 (975)
T KOG0112|consen  440 ------------------------------------NGTHR-I-----GL-------G----------------------  448 (975)
T ss_pred             ------------------------------------cCccc-c-----cc-------c----------------------
Confidence                                                00000 0     00       0                      


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                  ....+.+.-+++++|+..+....|...|..||.|.-
T Consensus       449 --------------------------------------------~~kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~  484 (975)
T KOG0112|consen  449 --------------------------------------------QPKSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRI  484 (975)
T ss_pred             --------------------------------------------ccccccceeeccCCCCCCChHHHHHHHhhccCccee
Confidence                                                        001112234578999999999999999999999999


Q ss_pred             EEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEc
Q 043731          350 IDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPV  396 (498)
Q Consensus       350 V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~  396 (498)
                      |+|..|.-.+||.++++..|+.|+..+.     |.-|+|  +.+.|..+
T Consensus       485 Idy~hgq~yayi~yes~~~aq~a~~~~r-----gap~G~P~~r~rvdla  528 (975)
T KOG0112|consen  485 IDYRHGQPYAYIQYESPPAAQAATHDMR-----GAPLGGPPRRLRVDLA  528 (975)
T ss_pred             eecccCCcceeeecccCccchhhHHHHh-----cCcCCCCCcccccccc
Confidence            9999999999999999999999998875     555554  34444443

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

Probab=97.79  E-value=2.6e-05  Score=69.75  Aligned_cols=73  Identities=18%  Similarity=0.232  Sum_probs=62.0

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCce------EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES------GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..-.+||-++.+.+++|++.+.|..||+|+.+.+.-++-+      |.|.|++.+.|++|+.++   |  |..|-|..|.
T Consensus        71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~---N--g~~ll~q~v~  145 (170)
T KOG0130|consen   71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDAL---N--GAELLGQNVS  145 (170)
T ss_pred             eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhc---c--chhhhCCcee
Confidence            4457999999999999999999999999999988766554      568999999999999998   4  7778888776


Q ss_pred             EEEc
Q 043731          393 LEPV  396 (498)
Q Consensus       393 v~~~  396 (498)
                      |.-.
T Consensus       146 VDw~  149 (170)
T KOG0130|consen  146 VDWC  149 (170)
T ss_pred             EEEE
Confidence            6543

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

Probab=97.78  E-value=2.6e-05  Score=79.34  Aligned_cols=77  Identities=16%  Similarity=0.201  Sum_probs=68.4

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCce------EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES------GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.+.+||=-|.+.+++|||.-+|+.||.|..+.+.++..+      |||+|++.++.++|.=+|.     .+.|+++.|-
T Consensus       238 PeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMd-----NvLIDDrRIH  312 (479)
T KOG0415|consen  238 PENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMD-----NVLIDDRRIH  312 (479)
T ss_pred             CcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhc-----ceeeccceEE
Confidence            3446899999999999999999999999999999998776      7999999999999987763     8999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |...+.=+
T Consensus       313 VDFSQSVs  320 (479)
T KOG0415|consen  313 VDFSQSVS  320 (479)
T ss_pred             eehhhhhh
Confidence            99877643

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

Probab=97.76  E-value=2.5e-05  Score=82.92  Aligned_cols=67  Identities=24%  Similarity=0.290  Sum_probs=58.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeec----CC--ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI----GA--ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~----g~--~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+||+|||.+++..+|++.|.+||.|+...|..    +.  -+|||.|++.++++.|+.+.      .+.|+++.+.|+
T Consensus       290 ~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As------p~~ig~~kl~Ve  362 (419)
T KOG0116|consen  290 GIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS------PLEIGGRKLNVE  362 (419)
T ss_pred             ceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC------ccccCCeeEEEE
Confidence            389999999999999999999999998766653    11  45999999999999999873      899999999998

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

Probab=97.75  E-value=4.9e-06  Score=77.77  Aligned_cols=72  Identities=13%  Similarity=0.197  Sum_probs=63.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCce------EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES------GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .-+|++|||+..|+-||--+|++||+|.-|.+.|+..+      +|+.|++.-+---||.-|   |  |+.|.|+.|.|.
T Consensus        36 A~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~---N--Giki~gRtirVD  110 (219)
T KOG0126|consen   36 AYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNL---N--GIKILGRTIRVD  110 (219)
T ss_pred             eEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEecc---C--CceecceeEEee
Confidence            35899999999999999999999999999999886544      799999988888887765   3  999999999998


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      -+.
T Consensus       111 Hv~  113 (219)
T KOG0126|consen  111 HVS  113 (219)
T ss_pred             ecc
Confidence            764

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

Probab=97.69  E-value=2.8e-05  Score=74.68  Aligned_cols=72  Identities=21%  Similarity=0.188  Sum_probs=63.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++||++|-+.+++--|...|=+||.|+-|.++.      .+++|||+|+..|+|..|+.-++     +..|-|+.|.|..
T Consensus        12 tlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn-----esEL~GrtirVN~   86 (298)
T KOG0111|consen   12 TLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN-----ESELFGRTIRVNL   86 (298)
T ss_pred             eEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCc-----hhhhcceeEEEee
Confidence            689999999999999999999999999888764      56779999999999999988763     7789999999988


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +..
T Consensus        87 AkP   89 (298)
T KOG0111|consen   87 AKP   89 (298)
T ss_pred             cCC
Confidence            754

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

Probab=97.66  E-value=0.00062  Score=70.06  Aligned_cols=143  Identities=21%  Similarity=0.198  Sum_probs=100.1

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v~~  188 (498)
                      +--|.|++|-..+++.+|.+..+.||.|..|.++..       +-.|.|+|++.+.|+.++.-    ...++|+.-.+..
T Consensus        31 spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~-------~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~Ny  103 (494)
T KOG1456|consen   31 SPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPH-------KRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNY  103 (494)
T ss_pred             CceEEEeccccccchhHHHHHHhcCCceEEEEeccc-------cceeeeeeccccchhhheehhccCcccccCchhhccc
Confidence            446999999999999999999999999999886543       23489999999999999972    2334444322111


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      +.                     +.                   .   +.      ..|                     
T Consensus       104 St---------------------sq-------------------~---i~------R~g---------------------  113 (494)
T KOG1456|consen  104 ST---------------------SQ-------------------C---IE------RPG---------------------  113 (494)
T ss_pred             ch---------------------hh-------------------h---hc------cCC---------------------
Confidence            10                     00                   0   00      000                     


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccC--cceeeeccCCCccccHHHHHHHhccCCc
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEG--KTSIDTYKDNMDVVMREDLKSVFHKFGT  346 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~--~~~~vfv~nL~~~vt~EdLke~F~~fG~  346 (498)
                                                                   .+..+  +-.++-+-|.-+.+|-+-|..++...|.
T Consensus       114 ---------------------------------------------~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~Gk  148 (494)
T KOG1456|consen  114 ---------------------------------------------DESATPNKVLLFTILNPQYPITVDVLYTICNPQGK  148 (494)
T ss_pred             ---------------------------------------------CCCCCCCeEEEEEeecCccccchhhhhhhcCCCCc
Confidence                                                         00000  1122334566678999999999999999


Q ss_pred             eEEEEeecCC-ceEEEEeCCHHHHHHHHHHHh
Q 043731          347 VKFIDFKIGA-ESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       347 V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      |.+|.+.+-. -.|.|+|++.+.|++|.++|+
T Consensus       149 VlRIvIfkkngVQAmVEFdsv~~AqrAk~alN  180 (494)
T KOG1456|consen  149 VLRIVIFKKNGVQAMVEFDSVEVAQRAKAALN  180 (494)
T ss_pred             eEEEEEEeccceeeEEeechhHHHHHHHhhcc
Confidence            9998776544 359999999999999999985

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

Probab=97.64  E-value=7.7e-05  Score=80.39  Aligned_cols=187  Identities=15%  Similarity=0.228  Sum_probs=127.3

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccC-----------C-ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-C
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQH-----------V-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-G  176 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~-----------G-~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~  176 (498)
                      ..+++.+||+++|..++++..-.+|..-           | .|..+.+.       .-++|||++|.+.++|..|+.. +
T Consensus       172 t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n-------~~~nfa~ie~~s~~~at~~~~~~~  244 (500)
T KOG0120|consen  172 TRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLN-------LEKNFAFIEFRSISEATEAMALDG  244 (500)
T ss_pred             hhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeec-------ccccceeEEecCCCchhhhhcccc
Confidence            5678999999999999999999999864           2 24445442       2468999999999999999986 7


Q ss_pred             CeeCCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCc
Q 043731          177 LFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSE  256 (498)
Q Consensus       177 ~~~~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~  256 (498)
                      ..|.|.++.+..-.+|..                              ..++++.+.-             ..+...   
T Consensus       245 ~~f~g~~~~~~r~~d~~~------------------------------~p~~~~~~~~-------------~~~~~~---  278 (500)
T KOG0120|consen  245 IIFEGRPLKIRRPHDYQP------------------------------VPGITLSPSQ-------------LGKVGL---  278 (500)
T ss_pred             hhhCCCCceecccccccC------------------------------Cccchhhhcc-------------ccccCC---
Confidence            789999887543322221                              2222222210             000000   


Q ss_pred             CCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHH
Q 043731          257 NACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMRED  336 (498)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~Ed  336 (498)
                          ....+                                                 ....-+..+|+++||...++..
T Consensus       279 ----~~~~t-------------------------------------------------~~~~~~~ki~v~~lp~~l~~~q  305 (500)
T KOG0120|consen  279 ----LPAST-------------------------------------------------DVPDSPNKIFVGGLPLYLTEDQ  305 (500)
T ss_pred             ----ccccc-------------------------------------------------CcccccchhhhccCcCccCHHH
Confidence                00000                                                 0000122468999999999999


Q ss_pred             HHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc-CChhHHHHHHH
Q 043731          337 LKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV-TGEAEKEYWSL  407 (498)
Q Consensus       337 Lke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~-~g~~E~e~~~~  407 (498)
                      ++|+...||.+....+..      +.+.+|-+|.++.-...|++.|   |  |..++++.+.|..+ .|.-=..-|..
T Consensus       306 ~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agL---n--Gm~lgd~~lvvq~A~~g~~~~~~~~~  378 (500)
T KOG0120|consen  306 VKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGL---N--GMQLGDKKLVVQRAIVGASNANVNFN  378 (500)
T ss_pred             HHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhccc---c--hhhhcCceeEeehhhccchhccccCC
Confidence            999999999876655443      3456899999999999999988   4  99999999988877 55333333333

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

Probab=97.60  E-value=0.00014  Score=71.90  Aligned_cols=80  Identities=16%  Similarity=0.272  Sum_probs=68.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ....+.|.|||..|+.+||+++|..||.++.|-+.-     ..++|-|.|...++|..|+..++     |+.++|+.+.+
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~-----gv~ldG~~mk~  156 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYN-----GVALDGRPMKI  156 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhc-----CcccCCceeee
Confidence            345788999999999999999999999888877653     34679999999999999999984     79999999999


Q ss_pred             EEcCChhHHH
Q 043731          394 EPVTGEAEKE  403 (498)
Q Consensus       394 ~~~~g~~E~e  403 (498)
                      .++..-....
T Consensus       157 ~~i~~~~~~~  166 (243)
T KOG0533|consen  157 EIISSPSQSK  166 (243)
T ss_pred             EEecCccccc
Confidence            9887755443

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

Probab=97.54  E-value=4.5e-05  Score=73.36  Aligned_cols=74  Identities=19%  Similarity=0.098  Sum_probs=64.3

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      .|||||.||-..++++-|.++|-+.|+|..|.||..+.  +..+ ||||+|.++-++.-|+..  +..+.+.++.+.+.
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d--~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r   84 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD--QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR   84 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc--CCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence            59999999999999999999999999999999998865  4456 999999999999999984  67777777766543

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

Probab=97.51  E-value=6.1e-05  Score=80.78  Aligned_cols=70  Identities=21%  Similarity=0.299  Sum_probs=60.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      ....++|+|-|||.+++.++|+.+|+.||+|..|++-+.      ..|.+||+|-+.-+|+.|++.  ...+.|+.|.
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~------~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN------KRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc------cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            567899999999999999999999999999999887443      458999999999999999995  5666666554

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

Probab=97.49  E-value=0.00033  Score=66.94  Aligned_cols=80  Identities=15%  Similarity=0.174  Sum_probs=69.0

Q ss_pred             eeeccCCCccccHHHHHHHhccC-CceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKF-GTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~f-G~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++++.+|..+.+.++-.+|.+| |.|+.+++.|..      +.|||+|++++-|+-|-+.|+     +..|-++-+.+.
T Consensus        51 ~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMN-----NYLl~e~lL~c~  125 (214)
T KOG4208|consen   51 VVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMN-----NYLLMEHLLECH  125 (214)
T ss_pred             ceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhh-----hhhhhhheeeeE
Confidence            56889999999999999999998 789999997643      448999999999999999984     889999999999


Q ss_pred             EcCC--hhHHHHHH
Q 043731          395 PVTG--EAEKEYWS  406 (498)
Q Consensus       395 ~~~g--~~E~e~~~  406 (498)
                      +.-.  .-|+.+|+
T Consensus       126 vmppe~~v~~~~~k  139 (214)
T KOG4208|consen  126 VMPPEQKVEKNLKK  139 (214)
T ss_pred             EeCchhhhhhhhhh
Confidence            9954  46777776

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.47  E-value=0.00015  Score=73.67  Aligned_cols=177  Identities=16%  Similarity=0.092  Sum_probs=119.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CC-eeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GL-FYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~-~~~G~~l~v~~k  189 (498)
                      ...+.|++++.+.+...++..++..+|.+...++-.... ...++|++++.|...+.+..||.. .. ...++.+..   
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~-~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~---  162 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLED-SLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEK---  162 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhcc-ccccccceeeccccHHHHHHHHHhhhccccccccccC---
Confidence            467899999999999898999999999888777655332 356899999999999999999985 22 222222210   


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                                                +     ..+..++....    ..                               
T Consensus       163 --------------------------d-----l~~~~~~~~~n----~~-------------------------------  176 (285)
T KOG4210|consen  163 --------------------------D-----LNTRRGLRPKN----KL-------------------------------  176 (285)
T ss_pred             --------------------------c-----ccccccccccc----hh-------------------------------
Confidence                                      0     00111100000    00                               


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                ......+.....+|+||++.+++++|+..|..+|.|..
T Consensus       177 ------------------------------------------~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~  214 (285)
T KOG4210|consen  177 ------------------------------------------SRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITS  214 (285)
T ss_pred             ------------------------------------------cccccCccccceeecccccccchHHHhhhccCcCccee
Confidence                                                      00000001112348999999999999999999999999


Q ss_pred             EEeecCCce------EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHH
Q 043731          350 IDFKIGAES------GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWS  406 (498)
Q Consensus       350 V~~~~g~~~------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~  406 (498)
                      |+++..+.+      |||+|.+...+.+|+..      +...+.++.+.++.-.......-|.
T Consensus       215 ~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~  271 (285)
T KOG4210|consen  215 VRLPTDEESGDSKGFAYVDFSAGNSKKLALND------QTRSIGGRPLRLEEDEPRPKSDGGL  271 (285)
T ss_pred             eccCCCCCccchhhhhhhhhhhchhHHHHhhc------ccCcccCcccccccCCCCccccccc
Confidence            998865544      79999999999998664      2667778777776655544444443

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

Probab=97.46  E-value=0.00031  Score=60.13  Aligned_cols=61  Identities=18%  Similarity=0.264  Sum_probs=54.0

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccC--CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQH--VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~--G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      .||=++|+|...|.+.|.+++...  |...-+-||-|.. ++...|||||.|.+++.|.+..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~-~~~N~GYAFVNf~~~~~~~~F~~~   64 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFK-NKCNLGYAFVNFTSPQAAIRFYKA   64 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeecc-CCCceEEEEEEcCCHHHHHHHHHH
Confidence            689999999999999999888763  7777888998876 677899999999999999999985

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

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

Probab=97.31  E-value=0.00041  Score=67.15  Aligned_cols=72  Identities=18%  Similarity=0.214  Sum_probs=61.7

Q ss_pred             eeeccCCCccccHHHHHH----HhccCCceEEEEee---cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKS----VFHKFGTVKFIDFK---IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke----~F~~fG~V~~V~~~---~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ++||.||++-+..++|+.    +|++||.|.-|...   +-+|-|||.|.+.++|..|+.+|+     |.-+=|+.+.+-
T Consensus        11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~-----gfpFygK~mriq   85 (221)
T KOG4206|consen   11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQ-----GFPFYGKPMRIQ   85 (221)
T ss_pred             eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhc-----CCcccCchhhee
Confidence            789999999999999999    99999998777654   345679999999999999999985     888888888777


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+-.
T Consensus        86 yA~s   89 (221)
T KOG4206|consen   86 YAKS   89 (221)
T ss_pred             cccC
Confidence            6643

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

Probab=97.19  E-value=0.00055  Score=75.30  Aligned_cols=80  Identities=20%  Similarity=0.235  Sum_probs=68.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCC--CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVAD--KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~--~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      +.....+||+||++.++++.|...|+.||+|.+|+|+-....  .++...|+||-|-+..+|++|++.  +..+.+.++.
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K  250 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK  250 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence            455678999999999999999999999999999998755432  345678999999999999999995  7888888888


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      +-|.
T Consensus       251 ~gWg  254 (877)
T KOG0151|consen  251 LGWG  254 (877)
T ss_pred             eccc
Confidence            7775

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=97.18  E-value=0.00071  Score=51.45  Aligned_cols=52  Identities=21%  Similarity=0.351  Sum_probs=43.5

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHH
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL  173 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl  173 (498)
                      +.|-|.|+|.+.. +.+..+|.+||+|..+.++.       ...+.||.|.++.+|++||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~-------~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPE-------STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCC-------CCcEEEEEECCHHHHHhhC
Confidence            6789999997765 55667999999999998862       1357999999999999996

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

Probab=97.14  E-value=0.00044  Score=67.20  Aligned_cols=128  Identities=16%  Similarity=0.119  Sum_probs=94.4

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh-h
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE-A  400 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~-~  400 (498)
                      .+||++||+.+.+.+|..+|.+||.+..|++..+  .|||.|+++-+|.-|+-.++     +..|.|..+.++.+.+. -
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~g--f~fv~fed~rda~Dav~~l~-----~~~l~~e~~vve~~r~~~~   75 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMKNG--FGFVEFEDPRDADDAVHDLD-----GKELCGERLVVEHARGKRR   75 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceeecc--cceeccCchhhhhcccchhc-----Cceecceeeeeeccccccc
Confidence            3699999999999999999999999999887755  66999999999999998874     88888888888887741 1


Q ss_pred             HH--------HHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          401 EK--------EYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       401 E~--------e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ++        .-|.....-. -.-..++.+.++.....-..+..+|...|+++. .+.       +.+++||+
T Consensus        76 ~~g~~~~g~r~~~~~~~~~p-~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~-~~~-------~~~~~~v~  139 (216)
T KOG0106|consen   76 GRGRPRGGDRRSDSRRYRPP-SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTY-VDA-------RRNFAFVE  139 (216)
T ss_pred             ccCCCCCCCccchhhccCCc-ccccceeeeccchhhhhHHHHhhhhcccCCCch-hhh-------hcccccee
Confidence            11        0122111110 112456677788888888899999999999943 342       45566664

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

Probab=97.12  E-value=0.0071  Score=62.49  Aligned_cols=72  Identities=17%  Similarity=0.225  Sum_probs=59.1

Q ss_pred             cceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..-+-|-+|... ++-+.|-.+|..||.|..|..++.+.      |.|.|++-++.++++|+..  ...+-|.+|.|..+
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~------gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~S  360 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP------GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVS  360 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc------ceeEEEcCcHHHHHHHHHHhccCccccceEEEeec
Confidence            345677788764 67788999999999999999988643      8899999999999999984  66667778887765


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      +
T Consensus       361 k  361 (494)
T KOG1456|consen  361 K  361 (494)
T ss_pred             c
Confidence            3

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

Probab=97.04  E-value=0.0026  Score=55.31  Aligned_cols=81  Identities=26%  Similarity=0.329  Sum_probs=48.7

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-------CCeeCCeEEEEe
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-------GLFYAGVELHLK  187 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-------~~~~~G~~l~v~  187 (498)
                      .|++.|++..++.++|++.|++||.|..|-+.+.       ...|||-|.+++.|++|+..       ...+.+..+.+.
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~   75 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE   75 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT--------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence            5889999999999999999999999999987653       24689999999999999984       345677666655


Q ss_pred             ec-----chhHHHHHHhHHH
Q 043731          188 PK-----KEFEAERAKETEE  202 (498)
Q Consensus       188 ~k-----~d~~~~k~~~~~~  202 (498)
                      .-     ..|+.+-...+..
T Consensus        76 vLeGeeE~~Yw~ki~e~~~~   95 (105)
T PF08777_consen   76 VLEGEEEEEYWKKIIEDRQK   95 (105)
T ss_dssp             ---HHHHHHHHHHHHHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHH
Confidence            42     3466554444443

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=96.98  E-value=0.00062  Score=65.67  Aligned_cols=117  Identities=15%  Similarity=0.158  Sum_probs=91.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCce----EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES----GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~----GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ++||+|+...+++|-|.++|-+-|.|..|.|+.++++    |||.|+++-...-|++.+   |  |..+-+.++.+.+-.
T Consensus        11 tl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~---n--g~~l~~~e~q~~~r~   85 (267)
T KOG4454|consen   11 TLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLE---N--GDDLEEDEEQRTLRC   85 (267)
T ss_pred             HHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhc---c--cchhccchhhccccc
Confidence            6899999999999999999999999999999877654    999999999999998876   4  777777766665554


Q ss_pred             ChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          398 GEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       398 g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      |..                     -.-|+....-+-+-+.|+.-|-|..+.+ -++..|.+.-+|||-
T Consensus        86 G~s---------------------hapld~r~~~ei~~~v~s~a~p~~~~R~-~~~~d~rnrn~~~~~  131 (267)
T KOG4454|consen   86 GNS---------------------HAPLDERVTEEILYEVFSQAGPIEGVRI-PTDNDGRNRNFGFVT  131 (267)
T ss_pred             CCC---------------------cchhhhhcchhhheeeecccCCCCCccc-cccccCCccCccchh
Confidence            432                     2235555556667777888888888877 555568888888874

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=96.93  E-value=0.0015  Score=64.35  Aligned_cols=75  Identities=15%  Similarity=0.218  Sum_probs=65.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      -+.-.||.+.|--+++.+-|-..|.+|-.....++.|++. +++++||+||.|.++.++..|+.+  +..++.++|..
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkR-TgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpikl  264 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKR-TGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKL  264 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhccchhhcccccccc-ccccccceeeeecCHHHHHHHHHhhcccccccchhHh
Confidence            4557899999999999999999999999888888888886 788999999999999999999996  55556666653

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=96.92  E-value=0.0033  Score=52.20  Aligned_cols=65  Identities=23%  Similarity=0.245  Sum_probs=44.9

Q ss_pred             ceEEeccCCCCCcHHH----HHHHhccCC-ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          114 RTIAATPLEYDVKRED----VEAFFSQHV-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~----L~~~F~~~G-~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ..|||.|||.+.+...    |++++..|| +|..|.           .|.|+|-|.+++.|.+|.+.  +-..-|+.|.|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-----------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v   71 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISV   71 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EE
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-----------CCEEEEEeCCHHHHHHHHHhhcccccccceEEE
Confidence            4699999999887655    567888895 777772           37899999999999999995  66788899998


Q ss_pred             eec
Q 043731          187 KPK  189 (498)
Q Consensus       187 ~~k  189 (498)
                      ...
T Consensus        72 ~~~   74 (90)
T PF11608_consen   72 SFS   74 (90)
T ss_dssp             ESS
T ss_pred             EEc
Confidence            776

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=96.84  E-value=0.011  Score=61.35  Aligned_cols=72  Identities=21%  Similarity=0.242  Sum_probs=51.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEE-cccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEE
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVR-LPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHL  186 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vr-i~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v  186 (498)
                      ..-|..++||+..+..+|-.||.---....-+ |+...  .++-.|.+.|.|.++|.-+-|++. .....++.|.|
T Consensus        60 ~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~--qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryiev  133 (508)
T KOG1365|consen   60 NVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNA--QGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEV  133 (508)
T ss_pred             ceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehh--hhccccceEEEecCchhhhhhhHhhhhhccCCceee
Confidence            34567889999999999999998653333222 33332  244579999999999999999996 45556666664

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

Probab=96.81  E-value=0.002  Score=69.35  Aligned_cols=73  Identities=15%  Similarity=0.144  Sum_probs=60.6

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEee---cCCce---EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK---IGAES---GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~---~g~~~---GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++.|.+|+..+--.+||.||++||.|.-..+.   +.++.   |||.+.+.++|-+||+.|.     -..|-|+.|.|+
T Consensus       406 RNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLH-----rTELHGrmISVE  480 (940)
T KOG4661|consen  406 RNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLH-----RTELHGRMISVE  480 (940)
T ss_pred             cceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhh-----hhhhcceeeeee
Confidence            368999999998889999999999988544333   44443   9999999999999999986     567999999999


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+..
T Consensus       481 kaKN  484 (940)
T KOG4661|consen  481 KAKN  484 (940)
T ss_pred             eccc
Confidence            8754

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

Probab=96.73  E-value=0.0025  Score=70.30  Aligned_cols=71  Identities=18%  Similarity=0.221  Sum_probs=61.4

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEee---------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK---------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF  389 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~---------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~  389 (498)
                      ..+++||+||+..++++.|-..|+.||+|..|.++         +++.+|||-|-+..+|++|+..|+     |+.+-+.
T Consensus       173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lq-----g~iv~~~  247 (877)
T KOG0151|consen  173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQ-----GIIVMEY  247 (877)
T ss_pred             cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhc-----ceeeeee
Confidence            45689999999999999999999999999998875         355679999999999999999884     8888877


Q ss_pred             EEEEE
Q 043731          390 IAVLE  394 (498)
Q Consensus       390 ~~~v~  394 (498)
                      ++.+.
T Consensus       248 e~K~g  252 (877)
T KOG0151|consen  248 EMKLG  252 (877)
T ss_pred             eeeec
Confidence            76554

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=96.67  E-value=0.001  Score=67.70  Aligned_cols=74  Identities=26%  Similarity=0.375  Sum_probs=64.0

Q ss_pred             cceEE-eccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEe
Q 043731          113 VRTIA-ATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLK  187 (498)
Q Consensus       113 ~rtV~-V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~  187 (498)
                      ..++| |++|+++++.++|..+|..+|.|..++++.+.. ++..+|+|||.|.+...+..++.. ...+.++++.+.
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~-s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEE-SGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLE  259 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcCcceeeccCCCCC-ccchhhhhhhhhhhchhHHHHhhcccCcccCcccccc
Confidence            34566 999999999999999999999999999998876 678999999999999999999983 556677776643

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.63  E-value=0.0037  Score=63.66  Aligned_cols=78  Identities=19%  Similarity=0.303  Sum_probs=59.0

Q ss_pred             cccceEEeccCCCCCcHHHH------HHHhccCCceeeEEcccccCCCCcccc--eEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLEYDVKREDV------EAFFSQHVKVNSVRLPRHVADKRLFCG--TALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L------~~~F~~~G~V~~Vri~r~~~~~~~~kG--~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ++..-|||-+||+.+..+++      .++|++||+|..|.+-+.......-.|  -+||+|.+.|+|.+|+..  +..++
T Consensus       112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D  191 (480)
T COG5175         112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD  191 (480)
T ss_pred             eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc
Confidence            34556999999998877662      389999999999988654321111122  359999999999999997  78899


Q ss_pred             CeEEEEee
Q 043731          181 GVELHLKP  188 (498)
Q Consensus       181 G~~l~v~~  188 (498)
                      |+-|+..+
T Consensus       192 Gr~lkatY  199 (480)
T COG5175         192 GRVLKATY  199 (480)
T ss_pred             CceEeeec
Confidence            99988654

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=96.52  E-value=0.0018  Score=72.71  Aligned_cols=55  Identities=24%  Similarity=0.224  Sum_probs=47.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEee------cCCceEEEEeCCHHHHHHHHHHH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK------IGAESGYIRFEEPEGAQKARAAA  376 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~------~g~~~GfV~F~~~e~A~kAv~~l  376 (498)
                      ++|+.||+..++.++|+..|..+|.+..|.+.      +-+|.|||.|..++.|.+||+..
T Consensus       669 ~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~  729 (881)
T KOG0128|consen  669 KIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFR  729 (881)
T ss_pred             HHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhh
Confidence            57999999999999999999999987665543      23567999999999999999875

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=96.50  E-value=0.0023  Score=65.81  Aligned_cols=77  Identities=17%  Similarity=0.173  Sum_probs=64.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee--------EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS--------VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~--------Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ...-||||.++|..++.++|.++|.+||.|..        |.|-+++. |..+||-|.|+|.++..|+.|+..  ...|.
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dke-T~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKE-TGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhcccccc-ccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            45679999999999999999999999998862        44556663 788999999999999999999985  67788


Q ss_pred             CeEEEEee
Q 043731          181 GVELHLKP  188 (498)
Q Consensus       181 G~~l~v~~  188 (498)
                      |..|.|.+
T Consensus       143 gn~ikvs~  150 (351)
T KOG1995|consen  143 GNTIKVSL  150 (351)
T ss_pred             CCCchhhh
Confidence            87776543

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

Probab=96.21  E-value=0.01  Score=60.87  Aligned_cols=135  Identities=10%  Similarity=0.006  Sum_probs=89.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEE--------EEeecCCc-----eEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFKIGAE-----SGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~~g~~-----~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      .++.|||.|||.++|-+++.++|++||.|..        |.+-+...     -|.+.|--.|+..-|+..|.     +-.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilD-----e~~  207 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILD-----EDE  207 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhC-----ccc
Confidence            3556999999999999999999999998753        34444332     38999999999999999884     667


Q ss_pred             ecCeEEEEEEcC--ChhHHH----------HHHHHhhhhhcc---cccc--------------ccchhhhhhhhh-----
Q 043731          386 VKNFIAVLEPVT--GEAEKE----------YWSLLRGNQERH---RDVK--------------GEEKHLEAENKA-----  431 (498)
Q Consensus       386 i~g~~~~v~~~~--g~~E~e----------~~~~~~~~~~k~---~~~~--------------~~~~~~~~~~~~-----  431 (498)
                      ++|+.+.|++|.  -+.|..          ..+++...|+|.   +.-+              .|.=|..+-.++     
T Consensus       208 ~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~  287 (382)
T KOG1548|consen  208 LRGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLN  287 (382)
T ss_pred             ccCcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHH
Confidence            889999999883  222221          223344444441   1111              011122221111     


Q ss_pred             ---hhhhhhcccCCCccceeeeeccCCCCC
Q 043731          432 ---ASEKMIQQEDAQIKPGKFEQHEKPGIS  458 (498)
Q Consensus       432 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~  458 (498)
                         +.+++--+.+|++++-.|--|.|.|.-
T Consensus       288 dlkedl~eec~K~G~v~~vvv~d~hPdGvv  317 (382)
T KOG1548|consen  288 DLKEDLTEECEKFGQVRKVVVYDRHPDGVV  317 (382)
T ss_pred             HHHHHHHHHHHHhCCcceEEEeccCCCcee
Confidence               345555678999999999777877753

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=96.20  E-value=0.016  Score=48.22  Aligned_cols=67  Identities=16%  Similarity=0.096  Sum_probs=44.6

Q ss_pred             eeeeccCCCccccH----HHHHHHhccCC-ceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMR----EDLKSVFHKFG-TVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~----EdLke~F~~fG-~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++++|-|||...+.    --|++++.-+| .|-.|    ..++|+|+|.+++.|++|..-|.     |-.+=|..|.|..
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v----~~~tAilrF~~~~~A~RA~KRme-----gEdVfG~kI~v~~   73 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV----SGGTAILRFPNQEFAERAQKRME-----GEDVFGNKISVSF   73 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------TT-EEEEESSHHHHHHHHHHHT-----T--SSSS--EEES
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE----eCCEEEEEeCCHHHHHHHHHhhc-----ccccccceEEEEE
Confidence            36788999987665    56777888886 67666    46899999999999999988874     5556677777776


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      .
T Consensus        74 ~   74 (90)
T PF11608_consen   74 S   74 (90)
T ss_dssp             S
T ss_pred             c
Confidence            5

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=96.01  E-value=0.01  Score=45.09  Aligned_cols=47  Identities=19%  Similarity=0.242  Sum_probs=38.0

Q ss_pred             cCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHH
Q 043731          326 KDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKAR  373 (498)
Q Consensus       326 ~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv  373 (498)
                      .+.+.... +.+...|..||+|..+.+.......||+|.++.+|++|+
T Consensus         7 ~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    7 SGFPPDLA-EEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             EeECchHH-HHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            34444433 556669999999999999988889999999999999984

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

Probab=95.99  E-value=0.0038  Score=67.35  Aligned_cols=66  Identities=14%  Similarity=0.100  Sum_probs=56.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCc-eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE-SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~-~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +++|=|||.+|+.++|..+|+.||+|+-|.-.+... --||.|=|.-+|+.|+.+|.     +..|.|+.+.
T Consensus        77 ~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~-----~~~~~~~~~k  143 (549)
T KOG4660|consen   77 TLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALN-----RREIAGKRIK  143 (549)
T ss_pred             eEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHH-----HHHhhhhhhc
Confidence            567889999999999999999999999987766544 47999999999999999985     6667766554

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.90  E-value=0.013  Score=59.80  Aligned_cols=72  Identities=19%  Similarity=0.180  Sum_probs=57.1

Q ss_pred             eeeeccCCCccccHHH----H--HHHhccCCceEEEEeecCC---------ceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          321 SIDTYKDNMDVVMRED----L--KSVFHKFGTVKFIDFKIGA---------ESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       321 ~~vfv~nL~~~vt~Ed----L--ke~F~~fG~V~~V~~~~g~---------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      .++||-+||.-+-.|+    |  .++|++||.|..|.+.+-.         -+-||.|.+.|+|++|+++..     |..
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vD-----gs~  189 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVD-----GSL  189 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhc-----ccc
Confidence            3688888888777766    3  4899999999999887532         123999999999999999873     888


Q ss_pred             ecCeEEEEEEcC
Q 043731          386 VKNFIAVLEPVT  397 (498)
Q Consensus       386 i~g~~~~v~~~~  397 (498)
                      ++|+.+....=+
T Consensus       190 ~DGr~lkatYGT  201 (480)
T COG5175         190 LDGRVLKATYGT  201 (480)
T ss_pred             ccCceEeeecCc
Confidence            999988765433

>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=95.89  E-value=0.036  Score=47.77  Aligned_cols=78  Identities=14%  Similarity=0.110  Sum_probs=51.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEE-cccccCC-----CCcccceEEEEeCCHHHHHHHHHh-CCeeCCeE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVR-LPRHVAD-----KRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vr-i~r~~~~-----~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~  183 (498)
                      ...+.|.|=|+|.. ....|.+.|++||.|.... +.++...     .-.-.....|+|+++.+|.+||.. +..++|.-
T Consensus         4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~   82 (100)
T PF05172_consen    4 DSETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSL   82 (100)
T ss_dssp             GGCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCE
T ss_pred             cCCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcE
Confidence            34577999999988 5677889999999998875 3332100     011246789999999999999996 88888864


Q ss_pred             EE-Eeec
Q 043731          184 LH-LKPK  189 (498)
Q Consensus       184 l~-v~~k  189 (498)
                      |. |.+.
T Consensus        83 mvGV~~~   89 (100)
T PF05172_consen   83 MVGVKPC   89 (100)
T ss_dssp             EEEEEE-
T ss_pred             EEEEEEc
Confidence            44 5554

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.

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=95.76  E-value=0.011  Score=58.45  Aligned_cols=71  Identities=18%  Similarity=0.142  Sum_probs=58.6

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEE------EEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKF------IDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~------V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .||+++|+..++++-|...|.+|-....      -+-..+.+.|||-|.++.++..|+..+   |  |..++++++.++.
T Consensus       192 RIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem---~--gkyVgsrpiklRk  266 (290)
T KOG0226|consen  192 RIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREM---N--GKYVGSRPIKLRK  266 (290)
T ss_pred             eeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhh---c--ccccccchhHhhh
Confidence            4799999999999999999999975433      333345667999999999999998887   3  9999999999885


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      .+
T Consensus       267 S~  268 (290)
T KOG0226|consen  267 SE  268 (290)
T ss_pred             hh
Confidence            43

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

Probab=95.76  E-value=0.0098  Score=58.83  Aligned_cols=70  Identities=11%  Similarity=0.057  Sum_probs=59.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|+.+.++.+++...|+.||.|..|.+..      .+++|||.|.+.+.+.+|+. |   |  |-.|.|+.+.+
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l---~--gs~i~~~~i~v  174 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-L---D--GSEIPGPAIEV  174 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-c---C--Cccccccccee
Confidence            34689999999999999999999999998877764      35579999999999999987 5   4  78888888877


Q ss_pred             EE
Q 043731          394 EP  395 (498)
Q Consensus       394 ~~  395 (498)
                      ..
T Consensus       175 t~  176 (231)
T KOG4209|consen  175 TL  176 (231)
T ss_pred             ee
Confidence            64

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.72  E-value=0.026  Score=60.72  Aligned_cols=63  Identities=16%  Similarity=0.142  Sum_probs=57.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhc-cCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFS-QHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~-~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ..|||||++||.-++.++|-.+|. -||.|..|-|=.|.. -+-++|.+=|+|++..+--+||..
T Consensus       369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k-~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPK-LKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcc-cCCCCCcceeeecccHHHHHHHhh
Confidence            368999999999999999999999 699999999977743 467899999999999999999986

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=95.68  E-value=0.017  Score=60.12  Aligned_cols=77  Identities=14%  Similarity=0.279  Sum_probs=62.3

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCC--CcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADK--RLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~--~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      .-|-|.||.+.+|.++++.+|+-.|+|..++|.-...+.  -...-.|||-|.+...+.-|-.. ...|=|+.|.|.+-.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~   87 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG   87 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence            468899999999999999999999999999986544322  12346899999999998888775 677888888877653

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

Probab=95.62  E-value=0.011  Score=57.48  Aligned_cols=64  Identities=14%  Similarity=0.196  Sum_probs=51.1

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEE
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELH  185 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~  185 (498)
                      .||||-||..++|+++|+.+|+.|--...++|+-.     .....|||+|++.+.|..|+..   +.|..|.
T Consensus       211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~-----~g~~vaf~~~~~~~~at~am~~---lqg~~~s  274 (284)
T KOG1457|consen  211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR-----GGMPVAFADFEEIEQATDAMNH---LQGNLLS  274 (284)
T ss_pred             hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC-----CCcceEeecHHHHHHHHHHHHH---hhcceec
Confidence            47999999999999999999999976666665432     1246899999999999999975   5555554

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=95.61  E-value=0.02  Score=62.04  Aligned_cols=79  Identities=18%  Similarity=0.201  Sum_probs=57.1

Q ss_pred             ccceEEeccCCCC--CcHHH----HHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee-CCe
Q 043731          112 DVRTIAATPLEYD--VKRED----VEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY-AGV  182 (498)
Q Consensus       112 ~~rtV~V~nLp~~--~t~e~----L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~-~G~  182 (498)
                      ....|+|-|+|.-  ...+-    |..+|+++|+|+++.+|.+..  +..+|+.|++|.+..+|+.|++.  +..+ ..+
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~--ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknH  134 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE--GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNH  134 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc--CCeeeEEEEEecChhhHHHHHHhcccceecccc
Confidence            3467888898862  33333    457899999999999998764  34899999999999999999996  3222 334


Q ss_pred             EEEEeecchh
Q 043731          183 ELHLKPKKEF  192 (498)
Q Consensus       183 ~l~v~~k~d~  192 (498)
                      .+.|..-+++
T Consensus       135 tf~v~~f~d~  144 (698)
T KOG2314|consen  135 TFFVRLFKDF  144 (698)
T ss_pred             eEEeehhhhH
Confidence            4555544443

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

Probab=95.48  E-value=0.034  Score=61.57  Aligned_cols=72  Identities=22%  Similarity=0.404  Sum_probs=57.8

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCcee-eEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVN-SVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~-~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      --|-|-+.|+|++++.+||.+||..|-.+- +|+++++  +.+...|-+-|-|++.++|..|...  +..+..+.+.
T Consensus       866 Gp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n--d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~  940 (944)
T KOG4307|consen  866 GPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN--DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVS  940 (944)
T ss_pred             CCeEEEecCCCccccHHHHHHHhcccccCCCceeEeec--CCCCcccceeEeecCHHHHHhhhhccccCcccceeEE
Confidence            345788999999999999999999997554 5777776  3588999999999999999999974  4444444443

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

Probab=95.20  E-value=0.087  Score=45.19  Aligned_cols=57  Identities=16%  Similarity=0.244  Sum_probs=45.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccC--CceEEEEeecC------CceEEEEeCCHHHHHHHHHHHh
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKF--GTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~f--G~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ++|-++|+|...|.++|.+++...  |..-++-++.+      .|.|||.|.+++.|.+-..++.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~   66 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFN   66 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHc
Confidence            357789999999999999999864  56655555543      4559999999999999988874

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

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=94.81  E-value=0.012  Score=58.13  Aligned_cols=72  Identities=10%  Similarity=0.141  Sum_probs=59.6

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCce------------------EEEEeCCHHHHHHHHHHHhhcccCC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES------------------GYIRFEEPEGAQKARAAAVLAQEGG  383 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------------------GfV~F~~~e~A~kAv~~l~~~n~~g  383 (498)
                      .||+.++|+-....-|+++|+.||.|-.|-+.+...+                  |+|+|.+.-.|..+.+.|+     +
T Consensus        76 VvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln-----n  150 (278)
T KOG3152|consen   76 VVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN-----N  150 (278)
T ss_pred             EEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC-----C
Confidence            6799999999999999999999999999988763322                  8999999999999988885     5


Q ss_pred             eEecC--------eEEEEEEcCC
Q 043731          384 LSVKN--------FIAVLEPVTG  398 (498)
Q Consensus       384 ~~i~g--------~~~~v~~~~g  398 (498)
                      ..|+|        -.|.++.|.+
T Consensus       151 ~~Iggkk~S~~~~dlWNmKYLpr  173 (278)
T KOG3152|consen  151 TPIGGKKKSPFRDDLWNMKYLPR  173 (278)
T ss_pred             CccCCCCCCchHHhhhhhhhccC
Confidence            55665        3566777666

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

Probab=94.37  E-value=0.034  Score=58.54  Aligned_cols=58  Identities=24%  Similarity=0.236  Sum_probs=49.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-------------------CceEEEEeCCHHHHHHHHHHHh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-------------------AESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-------------------~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ..+|.+-|||.+-+-|-|.+||+.+|.|+.|++-..                   +..|+|+|++.++|.||.+.+.
T Consensus       231 srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~  307 (484)
T KOG1855|consen  231 SRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN  307 (484)
T ss_pred             cceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence            346788999999999999999999999999987432                   2238999999999999999873

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=94.26  E-value=0.094  Score=53.96  Aligned_cols=77  Identities=8%  Similarity=0.034  Sum_probs=60.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCC--ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHV--KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G--~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..-.+||+||-|.+|.++|.+....-|  .+..+.+-.+.. .+.+||||.|...+..++++.++-  ..+++|+.=.|.
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~-NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~  157 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRT-NGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL  157 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhccc-CCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence            345799999999999999998888776  444555444444 477999999999999999999985  677888876665


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      +-
T Consensus       158 ~~  159 (498)
T KOG4849|consen  158 SY  159 (498)
T ss_pred             cc
Confidence            53

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=93.97  E-value=0.19  Score=46.15  Aligned_cols=58  Identities=22%  Similarity=0.290  Sum_probs=45.0

Q ss_pred             HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec-chhH
Q 043731          127 REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK-KEFE  193 (498)
Q Consensus       127 ~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k-~d~~  193 (498)
                      ..+|.+.|.+||.|.-||+..         |.-+|+|.+-++|-+|+.. +..++|+.|.|..| .+|.
T Consensus        50 ~~~ll~~~~~~GevvLvRfv~---------~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpdW~  109 (146)
T PF08952_consen   50 MDELLQKFAQYGEVVLVRFVG---------DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPDWL  109 (146)
T ss_dssp             HHHHHHHHHCCS-ECEEEEET---------TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE------
T ss_pred             HHHHHHHHHhCCceEEEEEeC---------CeEEEEECccHHHHHHHccCCcEECCEEEEEEeCCccHH
Confidence            357888999999988886643         4579999999999999996 89999999999998 4455

; PDB: 1UFW_A 2DNR_A.

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=93.81  E-value=0.031  Score=55.32  Aligned_cols=60  Identities=23%  Similarity=0.420  Sum_probs=49.6

Q ss_pred             HHHHHHhc-cCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          128 EDVEAFFS-QHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       128 e~L~~~F~-~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ++|...|+ +||+|+.+.++.+..  -+..|-+||.|..+++|++|+..  +..|+|++|.....
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 EDVFTELEDKYGEIEELNVCDNLG--DHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccc--hhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            44444555 899999999988764  45789999999999999999995  88999999986654

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=93.79  E-value=0.22  Score=45.70  Aligned_cols=56  Identities=20%  Similarity=0.357  Sum_probs=45.6

Q ss_pred             HHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          335 EDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       335 EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+|-+.|..||+|.-|+|.-  +.=+|.|.+...|-+|+..    +  |++|+|+.+.+++-+.
T Consensus        51 ~~ll~~~~~~GevvLvRfv~--~~mwVTF~dg~sALaals~----d--g~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   51 DELLQKFAQYGEVVLVRFVG--DTMWVTFRDGQSALAALSL----D--GIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             HHHHHHHHCCS-ECEEEEET--TCEEEEESSCHHHHHHHHG----C--CSEETTEEEEEEE---
T ss_pred             HHHHHHHHhCCceEEEEEeC--CeEEEEECccHHHHHHHcc----C--CcEECCEEEEEEeCCc
Confidence            47888999999998888875  4889999999999998764    3  9999999999998766

; PDB: 1UFW_A 2DNR_A.

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

Probab=92.94  E-value=0.21  Score=55.63  Aligned_cols=80  Identities=14%  Similarity=0.132  Sum_probs=62.1

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCC-eEEEEeec
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAG-VELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G-~~l~v~~k  189 (498)
                      .-.|||.+||..++...+..+|...-.|+. |.|-+-..  .+-.+.|||+|..++++.+|+.- .+.|.| +.|+|...
T Consensus       434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~--~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si  511 (944)
T KOG4307|consen  434 GGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPT--DLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI  511 (944)
T ss_pred             cceEEeccCCccccccchhhhhhhhhhhhheeEeccCCc--ccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence            457999999999999999999999888877 66655443  45678999999998888888874 444555 66778776


Q ss_pred             chhHH
Q 043731          190 KEFEA  194 (498)
Q Consensus       190 ~d~~~  194 (498)
                      .+|.-
T Consensus       512 ~~~~m  516 (944)
T KOG4307|consen  512 ADYAM  516 (944)
T ss_pred             hhHHH
Confidence            66654

>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=92.28  E-value=0.67  Score=39.97  Aligned_cols=59  Identities=20%  Similarity=0.193  Sum_probs=40.3

Q ss_pred             CCCccccHHHHHHHhccCCceEEEE-------------eecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          327 DNMDVVMREDLKSVFHKFGTVKFID-------------FKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       327 nL~~~vt~EdLke~F~~fG~V~~V~-------------~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.|.. .-..+-+.|++||+|....             ...+..--.|+|.++.+|.+|+..    |  |..|+|..+-
T Consensus        13 Gfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~----N--G~i~~g~~mv   84 (100)
T PF05172_consen   13 GFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK----N--GTIFSGSLMV   84 (100)
T ss_dssp             ---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT----T--TEEETTCEEE
T ss_pred             ccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh----C--CeEEcCcEEE
Confidence            56666 3456678999999985553             233334468999999999999765    5  9999997654

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.

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=92.28  E-value=0.077  Score=52.59  Aligned_cols=70  Identities=14%  Similarity=0.093  Sum_probs=53.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCC-------CCcccc----eEEEEeCCHHHHHHHHHh--CCee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVAD-------KRLFCG----TALIEFSTEEDAEKVLKQ--GLFY  179 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~-------~~~~kG----~aFVeF~s~e~A~kAl~~--~~~~  179 (498)
                      .--||+++||+.+...-|+++|++||.|-.|.+-.....       .+.+.+    -++|||.+...|.++...  +..+
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I  153 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI  153 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence            346999999999999999999999999999988643321       011111    378999999999988874  5556


Q ss_pred             CCe
Q 043731          180 AGV  182 (498)
Q Consensus       180 ~G~  182 (498)
                      +|+
T Consensus       154 ggk  156 (278)
T KOG3152|consen  154 GGK  156 (278)
T ss_pred             CCC
Confidence            665

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=92.18  E-value=0.098  Score=54.07  Aligned_cols=82  Identities=16%  Similarity=0.088  Sum_probs=64.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE--------EEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      ..++||.+||+.++..+|.+.|.++|.|+.        |.+-      +.++.|.|.|+++-.|+.|+.-++     +..
T Consensus        66 ~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~a-----gkd  140 (351)
T KOG1995|consen   66 NETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFA-----GKD  140 (351)
T ss_pred             cccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhc-----ccc
Confidence            447899999999999999999999998743        2221      234458999999999999988764     788


Q ss_pred             ecCeEEEEEEcCChhHHHHHH
Q 043731          386 VKNFIAVLEPVTGEAEKEYWS  406 (498)
Q Consensus       386 i~g~~~~v~~~~g~~E~e~~~  406 (498)
                      +.|..++|-.|+...=.+|..
T Consensus       141 f~gn~ikvs~a~~r~~ve~~r  161 (351)
T KOG1995|consen  141 FCGNTIKVSLAERRTGVESVR  161 (351)
T ss_pred             ccCCCchhhhhhhccCccccc
Confidence            888888888887665444443

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=91.91  E-value=0.51  Score=43.17  Aligned_cols=75  Identities=21%  Similarity=0.178  Sum_probs=57.7

Q ss_pred             ccccceEEeccCCCCCc-HHH---HHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEE
Q 043731          110 QLDVRTIAATPLEYDVK-RED---VEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVEL  184 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t-~e~---L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l  184 (498)
                      +..-.||.|+-|..++. .++   +....+.||+|.+|.++-        +-.|.|.|.+..+|-+|+.. ....-|..+
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG--------rqsavVvF~d~~SAC~Av~Af~s~~pgtm~  154 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG--------RQSAVVVFKDITSACKAVSAFQSRAPGTMF  154 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC--------CceEEEEehhhHHHHHHHHhhcCCCCCceE
Confidence            45568999998877763 334   456678899999998753        24699999999999999997 556778888


Q ss_pred             EEeecchh
Q 043731          185 HLKPKKEF  192 (498)
Q Consensus       185 ~v~~k~d~  192 (498)
                      ...|...|
T Consensus       155 qCsWqqrF  162 (166)
T PF15023_consen  155 QCSWQQRF  162 (166)
T ss_pred             Eeeccccc
Confidence            88776544

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=91.87  E-value=0.31  Score=49.25  Aligned_cols=57  Identities=19%  Similarity=0.142  Sum_probs=46.0

Q ss_pred             HHHHHHHhccCCceEEEEeecCCce-------EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          334 REDLKSVFHKFGTVKFIDFKIGAES-------GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       334 ~EdLke~F~~fG~V~~V~~~~g~~~-------GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++++++-+++||.|..|.|.-....       -||+|+.++.|-+|+=.|   |  |+.++|+.+....
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdl---n--GRyFGGr~v~A~F  363 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDL---N--GRYFGGRVVSACF  363 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhc---C--Cceecceeeehee
Confidence            3678999999999988776543322       599999999999998776   4  9999999887654

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=91.69  E-value=0.4  Score=37.77  Aligned_cols=50  Identities=22%  Similarity=0.367  Sum_probs=40.0

Q ss_pred             eeeccCCCccccHHHHHHHhccC----C--ceEEEEeecCCceEEEEeCCHHHHHHHHHHH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKF----G--TVKFIDFKIGAESGYIRFEEPEGAQKARAAA  376 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~f----G--~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l  376 (498)
                      .+.+.+++ ..+-++++.+|..|    +  .|.||    +..++-|.|.+++.|.+|+.+|
T Consensus         7 avhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWI----dDtScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    7 AVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWI----DDTSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEe----cCCcEEEEECCHHHHHHHHHcC
Confidence            34556664 36778999999999    5  37787    5788999999999999998763

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=91.56  E-value=0.077  Score=54.50  Aligned_cols=75  Identities=21%  Similarity=0.319  Sum_probs=56.5

Q ss_pred             cccceEEeccCCCCCcHHHHH---HHhccCCceeeEEcccccC--CCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          111 LDVRTIAATPLEYDVKREDVE---AFFSQHVKVNSVRLPRHVA--DKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~---~~F~~~G~V~~Vri~r~~~--~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      +..+-+||-+||.....+.+.   ++|.+||.|..|.+.++..  ..-.+...+||+|...++|..|+..  +..++|+.
T Consensus        75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~  154 (327)
T KOG2068|consen   75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA  154 (327)
T ss_pred             hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence            445678999999876555543   6899999999999988652  1111233599999999999999996  67777776


Q ss_pred             EE
Q 043731          184 LH  185 (498)
Q Consensus       184 l~  185 (498)
                      |.
T Consensus       155 lk  156 (327)
T KOG2068|consen  155 LK  156 (327)
T ss_pred             hH
Confidence            54

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=89.86  E-value=0.17  Score=50.32  Aligned_cols=57  Identities=18%  Similarity=0.169  Sum_probs=45.0

Q ss_pred             HHHHHHhc-cCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          335 EDLKSVFH-KFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       335 EdLke~F~-~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      |+|-.-|+ +||+|..+.+-..-     +-.||.|...|+|++|++.|+     +..+.|++|.+++.
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~ln-----nRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLN-----NRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHc-----CccccCCcceeeec
Confidence            45555555 89999887554322     237999999999999999984     99999999988876

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=89.74  E-value=0.18  Score=50.14  Aligned_cols=74  Identities=19%  Similarity=0.209  Sum_probs=56.5

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceE----EEEee-cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVK----FIDFK-IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~----~V~~~-~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .++|.||+.-++.|.|.+.|+.||.|.    +|+.. +..+.|+|.|...-.|.+|..... ....+++..++.+.|.+.
T Consensus        33 ~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   33 ELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR-EGGFGGTTGGRPVGVEPM  111 (275)
T ss_pred             eEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc-cCccccCCCCCccCCChh
Confidence            579999999999999999999999764    44433 223348999999999999987763 122356777888877765

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=88.43  E-value=0.27  Score=51.95  Aligned_cols=68  Identities=15%  Similarity=0.194  Sum_probs=52.3

Q ss_pred             eccCCCccccHHHHHHHhccCCceEEEEe-ecCCceE--EEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          324 TYKDNMDVVMREDLKSVFHKFGTVKFIDF-KIGAESG--YIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       324 fv~nL~~~vt~EdLke~F~~fG~V~~V~~-~~g~~~G--fV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      -++|+|...-||-|..+..+||.|..+.. +.+..++  -|.+...+.+.-|+..++     |..+.+..+.+...
T Consensus        84 Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~-----g~Q~en~~~k~~Yi  154 (584)
T KOG2193|consen   84 QIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLN-----GPQLENQHLKVGYI  154 (584)
T ss_pred             hHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhc-----chHhhhhhhhcccC
Confidence            34899999999999999999999987654 3455555  356778888888988874     77777766666544

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=87.80  E-value=1.8  Score=36.25  Aligned_cols=50  Identities=16%  Similarity=0.224  Sum_probs=38.2

Q ss_pred             eccCCCccccHHHHHHHhccCCc--eEEEEeecCCceEEEEeCCHHHHHHHHHHHh
Q 043731          324 TYKDNMDVVMREDLKSVFHKFGT--VKFIDFKIGAESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       324 fv~nL~~~vt~EdLke~F~~fG~--V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      |.=..|..=-..||.++|+.||.  |.++    +..+|||-..+.+.|..|+..+.
T Consensus        12 FhltFPkeWK~~DI~qlFspfG~I~VsWi----~dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   12 FHLTFPKEWKTSDIYQLFSPFGQIYVSWI----NDTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEE--TT--HHHHHHHCCCCCCEEEEEE----CTTEEEEEECCCHHHHHHHHHHT
T ss_pred             EEEeCchHhhhhhHHHHhccCCcEEEEEE----cCCcEEEEeecHHHHHHHHHHhc
Confidence            43345666667899999999996  5667    68899999999999999988774

; 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.

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

Probab=87.65  E-value=0.7  Score=50.42  Aligned_cols=73  Identities=21%  Similarity=0.156  Sum_probs=58.0

Q ss_pred             cceeeeccCCCccccHHHHHHHhcc--CCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHK--FGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~--fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +.+.+.++.+|+.+-.|++|.||+.  +-.+..+.|.- .+.=||.|++..+|+.|...|.   +.-.+|.|+.|..++
T Consensus       174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~-N~nWyITfesd~DAQqAykylr---eevk~fqgKpImARI  248 (684)
T KOG2591|consen  174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAH-NDNWYITFESDTDAQQAYKYLR---EEVKTFQGKPIMARI  248 (684)
T ss_pred             ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeee-cCceEEEeecchhHHHHHHHHH---HHHHhhcCcchhhhh
Confidence            4557788999999999999999986  66777777763 4567999999999999988874   335667777776665

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=87.59  E-value=0.41  Score=47.65  Aligned_cols=75  Identities=13%  Similarity=0.177  Sum_probs=61.4

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh------CCeeCCeEEEEe
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ------GLFYAGVELHLK  187 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~------~~~~~G~~l~v~  187 (498)
                      ..|||.||+.-++.+.|++-|+.||+|....++-|.  .++..|-++|+|...-.|.+|+..      ..+..+++..|.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~--r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve  109 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD--RGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE  109 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc--cccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence            689999999999999999999999999987776664  356788899999999999999984      345566666665


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       110 P~e  112 (275)
T KOG0115|consen  110 PME  112 (275)
T ss_pred             hhh
Confidence            543

>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=86.98  E-value=1  Score=42.68  Aligned_cols=64  Identities=14%  Similarity=0.079  Sum_probs=39.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhcc-CCce---eeEE--cccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQ-HVKV---NSVR--LPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~-~G~V---~~Vr--i~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      .....|.|+.||++.|++++.+.++. ++.-   ..+.  ...... ....-.-|||.|.+.+++..+...
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~-~~~~~SRaYi~F~~~~~~~~F~~~   74 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSF-KPPTYSRAYINFKNPEDLLEFRDR   74 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSS-TTS--EEEEEEESSCHHHHHHHHH
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccC-CCCcceEEEEEeCCHHHHHHHHHh
Confidence            34568999999999999999987777 5655   2333  111111 111234699999999999998885

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.

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=86.87  E-value=0.55  Score=49.65  Aligned_cols=116  Identities=11%  Similarity=0.055  Sum_probs=80.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE  401 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E  401 (498)
                      .+|++||++.++..+|..+|.....--.-.|..-.+.+||..-+..-|.+|++.+    .|...+.|+...+.-...+  
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~----sgk~elqGkr~e~~~sv~k--   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETL----SGKVELQGKRQEVEHSVPK--   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhh----chhhhhcCceeeccchhhH--
Confidence            3578999999999999999986532222334444667999999999999999986    4578888888877643322  


Q ss_pred             HHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCC
Q 043731          402 KEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKP  455 (498)
Q Consensus       402 ~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (498)
                           +.+.++       ..+.|..-.-.-+-+..+...+|+..+|-+.|.|+.
T Consensus        77 -----kqrsrk-------~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~e  118 (584)
T KOG2193|consen   77 -----KQRSRK-------IQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSE  118 (584)
T ss_pred             -----HHHhhh-------hhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchH
Confidence                 222222       223333334444557778899999999988777753

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=86.68  E-value=1.9  Score=36.02  Aligned_cols=51  Identities=14%  Similarity=0.241  Sum_probs=37.9

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ||--.||......||.++|+.||.|.--.| -        -.+|||.....+.|..|+..
T Consensus        11 VFhltFPkeWK~~DI~qlFspfG~I~VsWi-~--------dTSAfV~l~~r~~~~~v~~~   61 (87)
T PF08675_consen   11 VFHLTFPKEWKTSDIYQLFSPFGQIYVSWI-N--------DTSAFVALHNRDQAKVVMNT   61 (87)
T ss_dssp             EEEEE--TT--HHHHHHHCCCCCCEEEEEE-C--------TTEEEEEECCCHHHHHHHHH
T ss_pred             EEEEeCchHhhhhhHHHHhccCCcEEEEEE-c--------CCcEEEEeecHHHHHHHHHH
Confidence            444449999999999999999998765444 1        25699999999999999885

; 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.

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=86.51  E-value=2.4  Score=33.39  Aligned_cols=53  Identities=17%  Similarity=0.308  Sum_probs=40.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccC---CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHH
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQH---VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK  174 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~---G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~  174 (498)
                      ...|+|+|+. +++.++|..+|..|   .....|.-.-|        .+|-|.|.+++.|.+||.
T Consensus         5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdD--------tScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDD--------TSCNVVFKDEETAARALV   60 (62)
T ss_pred             eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecC--------CcEEEEECCHHHHHHHHH
Confidence            4579999985 57889999999999   12345554443        248899999999999996

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=86.35  E-value=0.41  Score=51.25  Aligned_cols=75  Identities=15%  Similarity=0.232  Sum_probs=60.8

Q ss_pred             ccccceEEeccCCCCC-cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHH-hCCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDV-KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-QGLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~-t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~-~~~~~~G~~l~v~  187 (498)
                      ..+.+++-+.-.|+.. |.++|...|.+||+|.+|.+...       .-.|.|+|.+..+|-+|.. .+..|+++.|.+.
T Consensus       369 ~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~-------~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~  441 (526)
T KOG2135|consen  369 VVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS-------SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLF  441 (526)
T ss_pred             hcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc-------hhhheeeeeccccccchhccccceecCceeEEE
Confidence            4567777777777764 67899999999999999988543       2348999999999977776 4889999999999


Q ss_pred             ecch
Q 043731          188 PKKE  191 (498)
Q Consensus       188 ~k~d  191 (498)
                      |..+
T Consensus       442 whnp  445 (526)
T KOG2135|consen  442 WHNP  445 (526)
T ss_pred             EecC
Confidence            8753

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=85.83  E-value=1  Score=49.30  Aligned_cols=77  Identities=21%  Similarity=0.230  Sum_probs=56.3

Q ss_pred             CcceeeeccCCCcc------ccHHHHHHHhccCCceEEEEeecCCce-----EEEEeCCHHHHHHHHHHHhhcccCCeEe
Q 043731          318 GKTSIDTYKDNMDV------VMREDLKSVFHKFGTVKFIDFKIGAES-----GYIRFEEPEGAQKARAAAVLAQEGGLSV  386 (498)
Q Consensus       318 ~~~~~vfv~nL~~~------vt~EdLke~F~~fG~V~~V~~~~g~~~-----GfV~F~~~e~A~kAv~~l~~~n~~g~~i  386 (498)
                      |..+-|+|.|.|-.      .-.--|..+|+++|.|..+.++.+..+     .|+.|.++.+|+.|+..|+    |....
T Consensus        56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~----G~~ld  131 (698)
T KOG2314|consen   56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLN----GKRLD  131 (698)
T ss_pred             CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcc----cceec
Confidence            33445677777642      223467889999999988888865444     4899999999999999983    35555


Q ss_pred             cCeEEEEEEcCC
Q 043731          387 KNFIAVLEPVTG  398 (498)
Q Consensus       387 ~g~~~~v~~~~g  398 (498)
                      +++...|+....
T Consensus       132 knHtf~v~~f~d  143 (698)
T KOG2314|consen  132 KNHTFFVRLFKD  143 (698)
T ss_pred             ccceEEeehhhh
Confidence            678888887643

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=85.43  E-value=1.4  Score=40.39  Aligned_cols=48  Identities=33%  Similarity=0.437  Sum_probs=38.2

Q ss_pred             cCCCccccHHHHHHH---hccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHh
Q 043731          326 KDNMDVVMREDLKSV---FHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       326 ~nL~~~vt~EdLke~---F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      +|+...   |||+.+   .+.||+|.+|..- |+.+|.|.|++..+|=+|+.|+.
T Consensus        96 knm~~~---edl~sV~~~Ls~fGpI~SVT~c-GrqsavVvF~d~~SAC~Av~Af~  146 (166)
T PF15023_consen   96 KNMQPT---EDLKSVIQRLSVFGPIQSVTLC-GRQSAVVVFKDITSACKAVSAFQ  146 (166)
T ss_pred             hcCChH---HHHHHHHHHHHhcCCcceeeec-CCceEEEEehhhHHHHHHHHhhc
Confidence            455444   555555   5679999999654 89999999999999999999984

>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=83.57  E-value=4.1  Score=35.76  Aligned_cols=64  Identities=16%  Similarity=0.197  Sum_probs=46.8

Q ss_pred             eEEeccCCCCCcHHHHHHHhccC-CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEE
Q 043731          115 TIAATPLEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVEL  184 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~-G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l  184 (498)
                      .+.+-..|.-++.+.|..+.+.+ ..|..+||+|+..   ..+=.+.+.|.+.++|..+...   |||++.
T Consensus        15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~---pnrymVLikF~~~~~Ad~Fy~~---fNGk~F   79 (110)
T PF07576_consen   15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGT---PNRYMVLIKFRDQESADEFYEE---FNGKPF   79 (110)
T ss_pred             EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCC---CceEEEEEEECCHHHHHHHHHH---hCCCcc
Confidence            34444445566667787777766 5777899998743   3556899999999999999986   777654

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []

Probab=83.38  E-value=1.2  Score=51.86  Aligned_cols=48  Identities=31%  Similarity=0.508  Sum_probs=38.9

Q ss_pred             CCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHh-hcCcceeecCcceee
Q 043731           37 ESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLR-KSSSLKLSEDGMKVG   96 (498)
Q Consensus        37 ~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk-~S~~leVsedg~kVr   96 (498)
                      ...+|||-|.+||+.-.|--+    +|        +.+.|..|+. .|+.++|+.||.|||
T Consensus       473 pDaeGWVYLNLL~NmAQLHii----NV--------TPdFVRsAV~E~StKfQLSpDGrKIR  521 (989)
T PF09421_consen  473 PDAEGWVYLNLLCNMAQLHII----NV--------TPDFVRSAVSEKSTKFQLSPDGRKIR  521 (989)
T ss_pred             cccccceehHHHHHHHHHHhh----cc--------CHHHHHHHHHhcccceeeCCCCCeee
Confidence            347899999999998776444    33        3478888887 688999999999998

This protein has been shown to interact with itself via a coiled-coil [].

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=80.59  E-value=0.76  Score=47.37  Aligned_cols=81  Identities=17%  Similarity=0.108  Sum_probs=57.2

Q ss_pred             eeeeccCCCccccHHHH---HHHhccCCceEEEEeecCCc---------eEEEEeCCHHHHHHHHHHHhhcccCCeEecC
Q 043731          321 SIDTYKDNMDVVMREDL---KSVFHKFGTVKFIDFKIGAE---------SGYIRFEEPEGAQKARAAAVLAQEGGLSVKN  388 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdL---ke~F~~fG~V~~V~~~~g~~---------~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g  388 (498)
                      .++|+-+|+..+-+|.+   .+.|++||.|..|...++..         ++||.|+..|+|..|+....     |..++|
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~-----g~~~dg  152 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVD-----GFVDDG  152 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhh-----hHHhhh
Confidence            35677788876655544   36899999999998877541         27999999999999998763     888888


Q ss_pred             eEEEEEEcCChhHHHHHH
Q 043731          389 FIAVLEPVTGEAEKEYWS  406 (498)
Q Consensus       389 ~~~~v~~~~g~~E~e~~~  406 (498)
                      +.+....-+-..+--|+.
T Consensus       153 ~~lka~~gttkycs~~l~  170 (327)
T KOG2068|consen  153 RALKASLGTTKYCSFYLR  170 (327)
T ss_pred             hhhHHhhCCCcchhHHhh
Confidence            885444444333333333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	498
1s29_A	92	La Autoantigen N-Terminal Domain Length = 92		5e-12
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		1e-07
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		2e-06
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		2e-06
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		1e-04

>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain Length = 92

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 56/99 (56%), Gaps = 12/99 (12%)
Query: 4   LDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNV 63
           L  E  Q + +QVEFYFSD N+  D FL+GK +E+++  VSL  + +FKR+       N 
Sbjct: 6   LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRV-------NS 58
Query: 64  KSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELP 102
            + D+ E     V E +R S  L LSEDG+ V R   LP
Sbjct: 59  VTTDVKE-----VVEAIRPSEKLVLSEDGLXVRRRDPLP 92

>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/178 (25%), Positives = 85/178 (47%), Gaps = 24/178 (13%)
Query: 1   MASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHL 60
           MA+L+ +    +  Q+E+YF D N+P D+FL+ +I +  +  V L ++  F R+      
Sbjct: 9   MAALEAK----ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIMIKFNRLNRLTTD 63
Query: 61  GNVKSEDIPEDTLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRT 115
            NV            + E L KS +  +++SED  K+ RS   P  E   E K  +  R+
Sbjct: 64  FNV------------IVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRS 111
Query: 116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
           +       D   +D++ +     +V ++++ R +   + F G+  + F + E A+K +
Sbjct: 112 VYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL--HKAFKGSIFVVFDSIESAKKFV 167

>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/167 (25%), Positives = 76/167 (45%), Gaps = 20/167 (11%)
Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           +  Q+E+YF D N+P D+FL+ +I +  +  V L +   F R+       NV        
Sbjct: 18  ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIXIKFNRLNRLTTDFNV-------- 68
Query: 72  TLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAATPLEYDVK 126
               + E L KS +   ++SED  K+ RS   P  E   E K  +  R++       D  
Sbjct: 69  ----IVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 124
Query: 127 REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
            +D++ +     +V +++  R +   + F G+  + F + E A+K +
Sbjct: 125 LDDIKEWLEDKGQVLNIQXRRTL--HKAFKGSIFVVFDSIESAKKFV 169

>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/167 (25%), Positives = 76/167 (45%), Gaps = 20/167 (11%)
Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           +  Q+E+YF D N+P D+FL+ +I +  +  V L +   F R+       NV        
Sbjct: 17  ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIXIKFNRLNRLTTDFNV-------- 67
Query: 72  TLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAATPLEYDVK 126
               + E L KS +   ++SED  K+ RS   P  E   E K  +  R++       D  
Sbjct: 68  ----IVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123
Query: 127 REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
            +D++ +     +V +++  R +   + F G+  + F + E A+K +
Sbjct: 124 LDDIKEWLEDKGQVLNIQXRRTLH--KAFKGSIFVVFDSIESAKKFV 168

>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein Length = 103

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 15/96 (15%)
Query: 12  VLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPED 71
           +  Q+E+YF D N+P D+FL+ +I +  +  V L ++  F R+       NV        
Sbjct: 17  ICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIMIKFNRLNRLTTDFNV-------- 67
Query: 72  TLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAE 105
               + E L KS +  +++SED  K+ RS   P  E
Sbjct: 68  ----IVEALSKSKAELMEISEDKTKIRRSPSKPLPE 99

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	498
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-26
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	2e-25
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	4e-19
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	2e-17
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	4e-16
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	9e-08
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	5e-07
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	6e-07
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	1e-06
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	1e-06
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	2e-06
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-06
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	3e-06
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	4e-06
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	4e-06
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	5e-06
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	6e-06
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	7e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	7e-06
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	1e-05
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	1e-05
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	1e-05
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	2e-05
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	2e-05
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	2e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	3e-05
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	3e-05
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	4e-05
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	4e-05
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	5e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-05
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-05
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	7e-05
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	9e-05
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-04
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	2e-04
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	3e-04
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	4e-04
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	5e-04
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	6e-04
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	6e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	6e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	7e-04
2dis_A	109	Unnamed protein product; structural genomics, RRM	7e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	8e-04
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	9e-04

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score =  105 bits (262), Expect = 2e-26
 Identities = 37/195 (18%), Positives = 80/195 (41%), Gaps = 11/195 (5%)

Query: 5   DEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVK 64
                  +  Q+E+YF D N+P D+FL+ +I       V L ++  F R+       NV 
Sbjct: 9   MAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEG-WVPLEIMIKFNRLNRLTTDFNVI 67

Query: 65  SEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYD 124
            E + +   E +  +       +      +          +E K  +  R++       D
Sbjct: 68  VEALSKSKAELMEIS-------EDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTD 120

Query: 125 VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVE 183
              +D++ +     +V ++++ R     + F G+  + F + E A+K ++  G  Y   +
Sbjct: 121 ATLDDIKEWLEDKGQVLNIQMRRT--LHKAFKGSIFVVFDSIESAKKFVETPGQKYKETD 178

Query: 184 LHLKPKKEFEAERAK 198
           L +  K ++ A++ +
Sbjct: 179 LLILFKDDYFAKKNE 193

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Length = 92

 Score = 99.1 bits (247), Expect = 2e-25
 Identities = 38/99 (38%), Positives = 54/99 (54%), Gaps = 12/99 (12%)

Query: 4   LDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNV 63
           L  E  Q + +QVEFYFSD N+  D FL+GK++E+++  VSL  + +FKR+         
Sbjct: 6   LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSV------ 59

Query: 64  KSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELP 102
                    ++ V E +R S  L LSEDG+ V R   LP
Sbjct: 60  ------TTDVKEVVEAIRPSEKLVLSEDGLMVRRRDPLP 92

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 121

 Score = 82.0 bits (202), Expect = 4e-19
 Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 2/97 (2%)

Query: 327 DNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV 386
           D  D   REDL  +F   G +K+IDF  GA+ G I F+E   A++A   A  A  G L +
Sbjct: 26  DLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEK--AKEALGKAKDANNGNLQL 83

Query: 387 KNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEK 423
           +N     E + GE EKE    +  +Q+   +    + 
Sbjct: 84  RNKEVTWEVLEGEVEKEALKKIIEDQQESLNKWKSKG 120

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46 Length = 101

 Score = 76.8 bits (189), Expect = 2e-17
 Identities = 21/98 (21%), Positives = 44/98 (44%), Gaps = 14/98 (14%)

Query: 5   DEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVK 64
            E+  + + +Q+EF FS  N+  D +L  ++    D  + +  + + + +K+        
Sbjct: 11  TEDLKECLKKQLEFCFSRENLSKDLYLISQMDS--DQFIPIWTVANMEEIKKL------- 61

Query: 65  SEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELP 102
           + D      + + E LR S  +++ E G KV  S +  
Sbjct: 62  TTDP-----DLILEVLRSSPMVQVDEKGEKVRPSHKRC 94

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 73.2 bits (180), Expect = 4e-16
 Identities = 18/97 (18%), Positives = 47/97 (48%), Gaps = 3/97 (3%)

Query: 107 MKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTE 166
           +K  +  R++       D   +D++ +     +V ++++ R     + F G+  + F + 
Sbjct: 5   LKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT--LHKAFKGSIFVVFDSI 62

Query: 167 EDAEKVLKQ-GLFYAGVELHLKPKKEFEAERAKETEE 202
           E A+K ++  G  Y   +L +  K ++ A++ +E ++
Sbjct: 63  ESAKKFVETPGQKYKETDLLILFKDDYFAKKNEERKQ 99

>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 = 49.6 bits (119), Expect = 9e-08
 Identities = 24/102 (23%), Positives = 38/102 (37%), Gaps = 2/102 (1%)

Query: 91  DGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVA 150
            G         P      E+ D RT+    L   ++  D+E FFS   KV  VR+     
Sbjct: 3   SGSSGKSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRN 62

Query: 151 DKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKKE 191
            +R   G A +EF   +     +   G    GV + ++  + 
Sbjct: 63  SRR-SKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQA 103

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 46.9 bits (112), Expect = 5e-07
 Identities = 13/54 (24%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
             ++V  ++V  F +  +K  ++R+ R+        G   ++FS EE+ ++ LK
Sbjct: 18  APFNVTEKNVMEFLAP-LKPVAIRIVRNAHGN--KTGYIFVDFSNEEEVKQALK 68

>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 = 49.9 bits (118), Expect = 6e-07
 Identities = 36/262 (13%), Positives = 71/262 (27%), Gaps = 22/262 (8%)

Query: 121 LEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-- 174
           L   +K+++++    A FSQ  ++  + + R +  +    G A + F     A   L+  
Sbjct: 17  LNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMR----GQAFVIFKEVSSATNALRSM 72

Query: 175 QGLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTL 234
           QG  +    + ++  K      AK    F +        +  +    A            
Sbjct: 73  QGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAV--QGGGA 130

Query: 235 KNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEK 294
                       G               G+P        +     A      G    ++ 
Sbjct: 131 TPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQL 190

Query: 295 NELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI 354
                      S+              I    +  +      L  +F++F   K +    
Sbjct: 191 MPGQMPPAQPLSE---------NPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP 241

Query: 355 GAES-GYIRFEEPEGAQKARAA 375
           G     ++ F+    A  AR A
Sbjct: 242 GRHDIAFVEFDNEVQAGAARDA 263

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 45.9 bits (109), Expect = 1e-06
 Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 3/54 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L Y     D+  FFS  +    V +      +    G A +EF+T EDA   + 
Sbjct: 23  LPYRATENDIYNFFSP-LNPMRVHIEIGPDGR--VTGEADVEFATHEDAVAAMA 73

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 46.3 bits (110), Expect = 1e-06
 Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           + +     DV  FF   ++V++V L +    +    G  L++F + +D  + LK
Sbjct: 24  MPFSAMENDVRDFFHG-LRVDAVHLLKDHVGRNN--GNGLVKFLSPQDTFEALK 74

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 46.4 bits (110), Expect = 2e-06
 Identities = 19/81 (23%), Positives = 28/81 (34%), Gaps = 4/81 (4%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL-KQGLFY 179
           L Y     D+  FFS  +    V +     D R   G A +EF+T E+A   + K     
Sbjct: 54  LPYKATENDIYNFFSP-LNPVRVHIEIG-PDGR-VTGEADVEFATHEEAVAAMSKDRANM 110

Query: 180 AGVELHLKPKKEFEAERAKET 200
               + L       A     +
Sbjct: 111 QHRYIELFLNSTTGASNGAYS 131

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 8/108 (7%)

Query: 93  MKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQ---HVKVNSVRLPRHV 149
           M  G+     +     E  +   +    L +    EDV+ F S    H     V      
Sbjct: 24  MTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTR 83

Query: 150 ADKRLFCGTALIEFSTEEDAEKVLKQGLFYAG---VELHLKPKKEFEA 194
             ++   G A +E  +E+D +  LK+     G   +E+    + E + 
Sbjct: 84  EGRQS--GEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRTEMDW 129

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 44.5 bits (106), Expect = 3e-06
 Identities = 16/55 (29%), Positives = 27/55 (49%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L  +V ++ +   FS + K+  + +P       L  G A +EF   ++AEK LK 
Sbjct: 12  LTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKH 66

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 44.6 bits (106), Expect = 4e-06
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L YDV  E ++ FF   + +++VRLPR  ++     G    EF   +     L 
Sbjct: 23  LPYDVTEESIKEFFRG-LNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 75

>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 = 44.7 bits (106), Expect = 4e-06
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           + + + + DV  F     V  N+V +      + L  G AL++F  E+DA K  +
Sbjct: 23  IPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGL--GQALVQFKNEDDARKSER 75

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 44.4 bits (105), Expect = 5e-06
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L +   +E++  FFS   +  N + LP     +    G A ++F+++E AEK LK
Sbjct: 23  LPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRST--GEAFVQFASQEIAEKALK 75

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 43.8 bits (104), Expect = 6e-06
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L YDV  E ++ FF   + +++VRLPR  ++     G    EF   +     L 
Sbjct: 27  LPYDVTEESIKEFFRG-LNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 79

>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 = 44.4 bits (105), Expect = 7e-06
 Identities = 19/95 (20%), Positives = 39/95 (41%), Gaps = 7/95 (7%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL-KQGLF 178
           L ++ + + V  FF +  +  +S+ +      K    G   +EF  E D +  L +   +
Sbjct: 33  LPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKAT--GEGFVEFRNEADYKAALCRHKQY 90

Query: 179 YAG--VELHLKPKKEFEAERAKETEEFEKSRPAVG 211
                +++H   KK    E+     +  +S P+ G
Sbjct: 91  MGNRFIQVHPITKKGML-EKIDMIRKRLQSGPSSG 124

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 44.1 bits (104), Expect = 7e-06
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 11/94 (11%)

Query: 121 LEYDVKREDVEAFFSQ---HVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGL 177
           L +    EDV  FFS        N +    +   K    G ALIE  +E+D +K L++  
Sbjct: 19  LPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGK--RRGDALIEMESEQDVQKALEKHR 76

Query: 178 FYAG---VELHLKPKKEFEAERAKETEEFEKSRP 208
            Y G   VE++    ++ +A          KS P
Sbjct: 77  MYMGQRYVEVYEINNEDVDALMKS---LQVKSSP 107

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 44.1 bits (104), Expect = 1e-05
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 3/86 (3%)

Query: 90  EDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQH-VKVNSVRLPRH 148
                +    ++       +  +   +    L +   +E++  FFS   +  N + LP  
Sbjct: 19  SHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVD 78

Query: 149 VADKRLFCGTALIEFSTEEDAEKVLK 174
              K    G A ++F+++E AEK L 
Sbjct: 79  PEGK--ITGEAFVQFASQELAEKALG 102

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 43.6 bits (103), Expect = 1e-05
 Identities = 23/118 (19%), Positives = 47/118 (39%), Gaps = 5/118 (4%)

Query: 75  AVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFF 134
           A+A  ++ + S                P + E K+++D R++    ++Y    +D+EA F
Sbjct: 1   AIAPCMQTTHS---KMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHF 57

Query: 135 SQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK-QGLFYAGVELHLKPKKE 191
           S    +N + +           G A IEF+     +  +      + G  + + PK+ 
Sbjct: 58  SSCGSINRITILCDKFSGH-PKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRT 114

>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 = 43.5 bits (103), Expect = 1e-05
 Identities = 17/99 (17%), Positives = 39/99 (39%), Gaps = 10/99 (10%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLF 178
           L Y +  E++   F ++  +  +R+      +    GTA + +    DA+  +    G  
Sbjct: 16  LPYKITAEEMYDIFGKYGPIRQIRVGNTPETR----GTAYVVYEDIFDAKNAVDHLSGFN 71

Query: 179 YAGVELHL---KPKKEF-EAERAKETEEFEKSRPAVGSN 213
            +   L +      + F + +  K+ E+ +  +   G N
Sbjct: 72  VSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGIN 110

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 21/96 (21%), Positives = 34/96 (35%), Gaps = 8/96 (8%)

Query: 121 LEYDVKREDVEAFFSQHVKV----NSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL-KQ 175
           L +    E+V AFF QH  +      +    +   +    G A + F+ EE A+  L K 
Sbjct: 31  LPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPT--GDAFVLFACEEYAQNALRKH 88

Query: 176 GLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVG 211
                   + L      E ++         S P+ G
Sbjct: 89  KDLLGKRYIELFRSTAAEVQQVLNRFS-SASGPSSG 123

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 19/108 (17%), Positives = 35/108 (32%), Gaps = 19/108 (17%)

Query: 94  KVGRSAELPTAEEMKEQLDVRTIAAT-----PLEYDVKREDVEAFFSQHVKVNSVRLPRH 148
               S+ L              ++ T     P   DV+  ++   F     +  V++   
Sbjct: 7   HHHHSSGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN- 65

Query: 149 VADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL---KPKKE 191
                   G A +EF   E A K +++  G  +A   L +   K   +
Sbjct: 66  --------GFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPAK 105

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 42.3 bits (100), Expect = 2e-05
 Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 6/51 (11%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEK 171
           L     + ++E  FS +  + +V + R   +   F   A +EF    DAE 
Sbjct: 8   LGTGAGKGELERAFSYYGPLRTVWIAR---NPPGF---AFVEFEDPRDAED 52

>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 = 41.8 bits (99), Expect = 3e-05
 Identities = 14/41 (34%), Positives = 21/41 (51%)

Query: 335 EDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAA 375
             L   F +FG+++ ID   G    YI++E  + AQ A A 
Sbjct: 32  AALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAK 72

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 41.9 bits (99), Expect = 3e-05
 Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 3/56 (5%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           + + V  +++  FF  + V   SV L  +  +K +  G A++ F + ++A   +  
Sbjct: 23  MPFTVSIDEILDFFYGYQVIPGSVCLKYN--EKGMPTGEAMVAFESRDEATAAVID 76

>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 = 42.9 bits (101), Expect = 4e-05
 Identities = 17/96 (17%), Positives = 33/96 (34%), Gaps = 1/96 (1%)

Query: 80  LRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVK 139
           L+   S    E      +       E+ K      T+    L +    E +   FS+   
Sbjct: 6   LKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGD 65

Query: 140 VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           +  + +      K+  CG   +E+ +  DAE  ++ 
Sbjct: 66  IKKIIMGLD-KMKKTACGFCFVEYYSRADAENAMRY 100

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 41.5 bits (98), Expect = 4e-05
 Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 3/56 (5%)

Query: 121 LEYDVKREDVEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           + + V  +++  FF  + V   SV L  +  +K +  G A++ F + ++A   +  
Sbjct: 23  MPFTVSIDEILDFFYGYQVIPGSVCLKYN--EKGMPTGEAMVAFESRDEATAAVID 76

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 41.8 bits (98), Expect = 5e-05
 Identities = 22/95 (23%), Positives = 36/95 (37%), Gaps = 9/95 (9%)

Query: 123 YDVKREDVEAFFSQ---HVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFY 179
           +    EDV+ F S    H  V  V        +    G A +E  +E+D +  LK+    
Sbjct: 27  WSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGR--QSGEAFVELESEDDVKLALKKDRES 84

Query: 180 AG---VELHLKPKKEFEAERAKETEEFEKSRPAVG 211
            G   +E+    + E +    K +     S P+ G
Sbjct: 85  MGHRYIEVFKSHRTEMD-WVLKHSGPNSASGPSSG 118

>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 = 41.4 bits (98), Expect = 5e-05
 Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 11/93 (11%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF 178
           L Y    ED+E  FS +  ++ +  P     K+   G A + F   E A K   +  G  
Sbjct: 16  LSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPK-GFAFVTFMFPEHAVKAYAEVDGQV 74

Query: 179 YAGVELHLKPKKEFEAERAKETEEFEKSRPAVG 211
           + G  LH+ P        +   +E  +S P+ G
Sbjct: 75  FQGRMLHVLP--------STIKKEASQSGPSSG 99

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 41.2 bits (97), Expect = 5e-05
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 7/79 (8%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQG-LFY 179
               V    +  +F     V SV + +   DK +F   A++E       E VL Q     
Sbjct: 16  FPRGVDSAQLSEYFLAFGPVASVVMDK---DKGVF---AIVEMGDVGAREAVLSQSQHSL 69

Query: 180 AGVELHLKPKKEFEAERAK 198
            G  L ++P+++ E +   
Sbjct: 70  GGHRLRVRPREQKEFQSPA 88

>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 = 41.2 bits (97), Expect = 7e-05
 Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L  D++ +D+E  F ++  +  + L      +R     A +EF    DAE  +  
Sbjct: 30  LPPDIRTKDIEDVFYKYGAIRDIDLKN----RRGGPPFAFVEFEDPRDAEDAVYG 80

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 40.7 bits (96), Expect = 9e-05
 Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           L ++  + D++A F     + SVRL R     + F G   +EF   +  ++ L 
Sbjct: 23  LPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDK-FKGFCYVEFDEVDSLKEALT 74

>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 = 39.5 bits (93), Expect = 2e-04
 Identities = 7/51 (13%), Positives = 17/51 (33%), Gaps = 9/51 (17%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEK 171
           +      +++ A F ++  V    + +           A +     EDA +
Sbjct: 18  ISPTCTNQELRAKFEEYGPVIECDIVK---------DYAFVHMERAEDAVE 59

>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 = 2e-04
 Identities = 12/55 (21%), Positives = 27/55 (49%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           + +   + ++   FS   ++ +VRLP+ +       G   ++F T++DA+K    
Sbjct: 23  IPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNA 77

>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 = 38.7 bits (91), Expect = 3e-04
 Identities = 7/55 (12%), Positives = 19/55 (34%), Gaps = 9/55 (16%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L  +   +++ + F Q+ KV    + +             +    +  AE  ++ 
Sbjct: 16  LPREATEQEIRSLFEQYGKVLECDIIK---------NYGFVHIEDKTAAEDAIRN 61

>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 = 39.3 bits (92), Expect = 4e-04
 Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L +D + E +     Q   +  VR+  H   +    G A  +F T+E A+K L  
Sbjct: 23  LSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH-SKGCAFAQFMTQEAAQKCLAA 76

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 38.3 bits (90), Expect = 4e-04
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           ++Y    E++EA F     VN V +           G A IEFS +E     L 
Sbjct: 14  VDYGATAEELEAHFHGCGSVNRVTILCDKFSGH-PKGFAYIEFSDKESVRTSLA 66

>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 = 42.1 bits (98), Expect = 4e-04
 Identities = 28/155 (18%), Positives = 43/155 (27%), Gaps = 55/155 (35%)

Query: 64  KSEDIPEDTL------------EAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQL 111
            S  IP   L              V   L K S ++       +     +P+       L
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS----IPSI-----YL 433

Query: 112 DVRTIAATPLEYDVKREDVEAFFSQHVK-VNSVRLPRHVADKRLFCGTALIEFSTEEDAE 170
           +++          VK E+  A    H   V+   +P+       F    LI      D  
Sbjct: 434 ELK----------VKLENEYAL---HRSIVDHYNIPKT------FDSDDLIP--PYLD-- 470

Query: 171 KVLKQGLFYAGVELHLKPKKEFEAERAKETEEFEK 205
                  FY+ +  HLK       E  +    F  
Sbjct: 471 -----QYFYSHIGHHLK-----NIEHPERMTLFRM 495

>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 = 42.1 bits (98), Expect = 5e-04
 Identities = 72/514 (14%), Positives = 131/514 (25%), Gaps = 175/514 (34%)

Query: 14  RQVEFYFSDSNIPTDEFLRGKIS-ESSD-AMVSLALICSFKRMKEHLHL---GNVKSEDI 68
             V+ +  +      +FL   I  E    +M++   I    R+     +    NV     
Sbjct: 77  EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ- 135

Query: 69  PEDTLEAVAETLRKSSSLKLSEDGMK-VGRSAELPTAEEMKEQLDVRTIAATPLEYDVKR 127
           P   L      LR + ++ +  DG+   G++                 +A      DV  
Sbjct: 136 PYLKLRQALLELRPAKNVLI--DGVLGSGKT----------------WVAL-----DVCL 172

Query: 128 -EDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLFYAGVEL 184
              V+      +                F     +        E VL+  Q L Y     
Sbjct: 173 SYKVQCKMDFKI----------------F----WLNLKNCNSPETVLEMLQKLLY----- 207

Query: 185 HLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIV-----------AFT 233
            + P     ++ +       K R                Y   L+V           AF 
Sbjct: 208 QIDPNWTSRSDHSSNI----KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 234 LKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEE 293
           L  K           L      +            D  +A  +   + ++ S      E 
Sbjct: 264 LSCK----------ILLTTRFKQVT----------DFLSAATTTHISLDHHSMTLTPDEV 303

Query: 294 KNELDSEDGDKSSDGSIEK-----------GEE-KEGKTSIDTYKDNMDVVMREDLKSVF 341
           K+ L      +  D   E             E  ++G  + D +K     V  + L ++ 
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH----VNCDKLTTI- 358

Query: 342 HKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAE 401
                                                       +++ + VLEP   E  
Sbjct: 359 --------------------------------------------IESSLNVLEP--AEYR 372

Query: 402 KEYWSL--LRGNQERHRDVKGEEKHLE---AENKAASEKMIQQEDAQIKPGKFEQHEKPG 456
           K +  L                   L     +   +   ++  +    K    E+  K  
Sbjct: 373 KMFDRLSVFP------PSAHIPTILLSLIWFDVIKSDVMVVVNKLH--KYSLVEKQPKES 424

Query: 457 ISSGTSFVRPHLIFLLRIKCAS-YWISRCLVRYY 489
             S      P +   L++K  + Y + R +V +Y
Sbjct: 425 TIS-----IPSIYLELKVKLENEYALHRSIVDHY 453

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L +   +E++E     H  V  +RL  + A K    G A +E+  E  A + + +
Sbjct: 25  LPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPK--GLAYVEYENESQASQAVMK 77

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 40.0 bits (94), Expect = 6e-04
 Identities = 9/55 (16%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           ++ D +   +  +F Q+ K+  + +       +   G A + F   +  +K++ Q
Sbjct: 112 IKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK-KRGFAFVTFDDHDSVDKIVIQ 165

>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 = 38.0 bits (89), Expect = 6e-04
 Identities = 6/51 (11%), Positives = 17/51 (33%), Gaps = 9/51 (17%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEK 171
           +      +++ + F +  +V    + +           A +    E DA+ 
Sbjct: 17  VSAACTSQELRSLFERRGRVIECDVVK---------DYAFVHMEKEADAKA 58

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 38.5 bits (90), Expect = 6e-04
 Identities = 10/55 (18%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L  +V+   ++    ++ +V  V +  H   ++   G A + F++   A++ +K 
Sbjct: 14  LNDNVRETFLKDMCRKYGEVEEVEILLHPRTRK-HLGLARVLFTSTRGAKETVKN 67

>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 = 39.1 bits (91), Expect = 7e-04
 Identities = 18/123 (14%), Positives = 38/123 (30%), Gaps = 13/123 (10%)

Query: 60  LGNVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAAT 119
            G   +E +   T E V +     + +          ++  +            R     
Sbjct: 13  KGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMHRDSCPL 72

Query: 120 P-------LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKV 172
                   L  +  + ++E  F  +  + SV + R   +   F   A +EF    DA   
Sbjct: 73  DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVAR---NPPGF---AFVEFEDPRDAADA 126

Query: 173 LKQ 175
           +++
Sbjct: 127 VRE 129

>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 = 38.2 bits (89), Expect = 7e-04
 Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVK-VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK 174
           +    KRE++    ++  + V  V +    ADK    G A +E+ +   A    +
Sbjct: 16  IPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARR 70

>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 = 38.3 bits (89), Expect = 8e-04
 Identities = 15/100 (15%), Positives = 32/100 (32%), Gaps = 10/100 (10%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF 178
           L      +D++    +   V    + R         GT ++EF  +ED    +++     
Sbjct: 24  LPPSGSWQDLKDHMREAGDVCYADVYRD--------GTGVVEFVRKEDMTYAVRKLDNTK 75

Query: 179 YAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNS 218
           +   E      +         +    +SR    S  ++ S
Sbjct: 76  FRSHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRSRSRS 115

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 37.6 bits (88), Expect = 9e-04
 Identities = 13/93 (13%), Positives = 28/93 (30%), Gaps = 19/93 (20%)

Query: 123 YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLFYA 180
            +V +ED+   FS +  +  + +               I+F   +     ++        
Sbjct: 21  KNVSKEDLFRIFSPYGHIMQINIKN---------AFGFIQFDNPQSVRDAIECESQEMNF 71

Query: 181 GVELHLKPKKEFEAERAKETEEFEKSRPAVGSN 213
           G +L L        E +      +      G+N
Sbjct: 72  GKKLIL--------EVSSSNARPQFDHGDHGTN 96

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	498
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	100.0
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.96
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.96
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.96
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.95
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.94
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.94
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.93
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.93
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.93
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.93
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.92
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.92
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.9
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.9
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.9
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.9
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.89
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.89
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.89
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.89
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.88
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.87
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.79
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.7
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.7
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.7
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.7
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.69
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.69
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.69
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.68
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.68
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.67
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.66
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.66
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.65
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.65
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.64
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.61
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.6
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.6
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.59
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.58
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.57
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.57
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.56
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.56
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.56
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.56
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.56
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.55
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.55
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.55
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.55
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.55
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.55
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.54
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.54
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.54
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.54
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.54
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.54
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.54
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.53
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.53
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.53
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.53
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.53
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.53
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.53
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.53
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.53
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.52
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.52
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.52
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.52
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.52
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.52
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.52
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.52
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.52
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.51
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.51
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.51
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.51
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.51
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.51
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.51
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.51
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.51
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.51
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.51
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.5
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.5
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.5
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.5
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.5
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.5
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.5
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.49
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.49
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.49
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.49
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.49
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.49
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.49
2div_A	99	TRNA selenocysteine associated protein; structural	99.49
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.49
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.48
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.48
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.48
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.48
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.48
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.48
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.48
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.48
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.48
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.48
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.47
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.47
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.47
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.47
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.47
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.47
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.47
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.47
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.47
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.46
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.46
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.46
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.46
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.46
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.46
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.46
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.46
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.46
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.46
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.45
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.44
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.44
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.44
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.44
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.44
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.44
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.43
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.43
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.43
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.43
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.43
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.43
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.43
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.42
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.42
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.42
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.42
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.42
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.42
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.41
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.41
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.41
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.41
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.41
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.41
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.41
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.41
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.41
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.4
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.4
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.4
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.4
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.4
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.39
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.39
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.38
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.38
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.38
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.38
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.38
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.38
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.38
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.37
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.37
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.37
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.36
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.36
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.36
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.05
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.35
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.35
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.35
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.35
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.35
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.35
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.34
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.34
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.34
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.34
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.34
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.34
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.33
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.33
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.33
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.33
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.33
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.33
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.33
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.33
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.32
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.32
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.32
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.32
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.32
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.32
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.32
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.32
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.32
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.32
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.31
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.31
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.31
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.31
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.31
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.31
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.3
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.3
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.29
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.29
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.29
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.29
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.29
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.29
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.29
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.29
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.29
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.29
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.29
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.29
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.28
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.28
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.28
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.28
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.27
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.27
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.27
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.27
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.27
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.27
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.27
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.27
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.27
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.27
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.27
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.26
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.26
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.26
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.26
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.26
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.26
1x5p_A	97	Negative elongation factor E; structure genomics,	99.26
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.26
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.26
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.25
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.25
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.25
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.25
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.25
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.25
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.25
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.24
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.24
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.24
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.24
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.24
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.24
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.24
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.24
1x5p_A	97	Negative elongation factor E; structure genomics,	99.23
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.23
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.23
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.23
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.23
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.23
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.23
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.22
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.22
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.22
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.22
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.22
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.22
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.22
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.22
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.21
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.21
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.21
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.21
2div_A	99	TRNA selenocysteine associated protein; structural	99.21
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.2
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.2
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.2
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.2
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.2
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.19
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.19
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.19
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.19
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.19
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.19
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.19
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.19
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.18
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.18
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.18
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.18
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.18
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.18
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.18
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.18
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.17
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.17
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.17
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.16
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.16
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.16
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.15
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.15
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.15
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.14
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.14
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.14
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.13
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.13
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.13
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.13
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.12
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.12
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.11
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.1
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.1
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.09
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.09
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.09
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.08
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.08
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.07
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.07
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.06
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.64
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.05
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.05
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.05
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.05
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.04
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.04
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.04
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.03
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.03
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.01
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.01
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.0
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.99
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.99
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.94
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.93
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.89
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.87
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.83
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.82
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.82
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.75
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.73
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.66
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.65
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.6
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.33
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.28
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.18
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.06
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.02
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.01
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.01
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.29
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.09
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.51
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.03
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	95.89
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	95.79
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.46
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	94.9
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	94.84
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	94.69
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	94.48
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.17
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	94.13
4eyt_A	129	Telomerase associated protein P65; RNA, LA protein	93.76
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	93.7
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	93.51
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	93.06
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	91.39
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	88.12
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	83.57
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	81.36

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=100.00  E-value=9.7e-41  Score=317.40  Aligned_cols=178  Identities=25%  Similarity=0.474  Sum_probs=157.2

Q ss_pred             CHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhc-
Q 043731            5 DEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKS-   83 (498)
Q Consensus         5 ~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S-   83 (498)
                      .+++..+|++||||||||+||++|+||+++|.++ +|||||.+|++|+|||.|+.            ++..|++||+.| 
T Consensus         9 ~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~-~g~V~l~~i~sF~r~k~l~~------------d~~~I~~Al~~S~   75 (193)
T 2voo_A            9 MAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTT------------DFNVIVEALSKSK   75 (193)
T ss_dssp             CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHT-TTCEEHHHHTTSHHHHHHCC------------CHHHHHHHHHTCS
T ss_pred             cHHHHHHHHHHhheecchhhcccCHHHHHHhccc-CCcEEeHHHhhhhHHHHhcC------------CHHHHHHHHhhcc
Confidence            3678999999999999999999999999999864 99999999999999999974            689999999999 


Q ss_pred             -CcceeecCcceeecccCCcchh---hhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceE
Q 043731           84 -SSLKLSEDGMKVGRSAELPTAE---EMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTA  159 (498)
Q Consensus        84 -~~leVsedg~kVrR~~~~~~~e---e~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~a  159 (498)
                       ..|++++++.+|||..+.|.|+   +.+.....++|||+|||+++|+++|+++|++||.|..|+|+++..  +.++|||
T Consensus        76 ~~~lev~ed~~~vrR~~~~p~p~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~--~~~kG~a  153 (193)
T 2voo_A           76 AELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH--KAFKGSI  153 (193)
T ss_dssp             SCCEEECTTSSEEEECTTSCCCCCCHHHHHHHHHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT--CCEEEEE
T ss_pred             cceEEEecccceEEecccCCCcccchhhhhccccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC--CCcccEE
Confidence             8999999999999996444432   233456789999999999999999999999999999999999864  7799999


Q ss_pred             EEEeCCHHHHHHHHHh-CCeeCCeEEEEeecchhHHHHH
Q 043731          160 LIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKKEFEAERA  197 (498)
Q Consensus       160 FVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~d~~~~k~  197 (498)
                      ||+|.++++|++|+.. +..++|++|.|+++.+|..+|.
T Consensus       154 FVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~~y~~~K~  192 (193)
T 2voo_A          154 FVVFDSIESAKKFVETPGQKYKETDLLILFKDDYFAKKN  192 (193)
T ss_dssp             EEEESSHHHHHHHHHCTTCEETTEECEEEETTTC-----
T ss_pred             EEEECCHHHHHHHHHhCCCeECCEEEEEEEhHHHHHHhc
Confidence            9999999999999986 7799999999999999987653

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.96  E-value=4.6e-29  Score=248.58  Aligned_cols=213  Identities=11%  Similarity=0.092  Sum_probs=175.9

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||+|..|+|+++..  + .+|+|||+|.++++|.+|++. +..++|+.|.|.+
T Consensus        38 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~--~-~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~  114 (292)
T 2ghp_A           38 NRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK--K-NFRFARIEFARYDGALAAITKTHKVVGQNEIIVSH  114 (292)
T ss_dssp             ----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTT--S-SSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC--C-CcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEEEE
Confidence            45689999999999999999999999999999999998764  2 479999999999999999974 7788888887644


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ..                                                                              
T Consensus       115 ~~------------------------------------------------------------------------------  116 (292)
T 2ghp_A          115 LT------------------------------------------------------------------------------  116 (292)
T ss_dssp             CC------------------------------------------------------------------------------
T ss_pred             CC------------------------------------------------------------------------------
Confidence            20                                                                              


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCC-ce
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFG-TV  347 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG-~V  347 (498)
                                                                         ...+||+|||..+++++|+++|++|| .|
T Consensus       117 ---------------------------------------------------~~~l~v~nlp~~~t~~~l~~~f~~~G~~i  145 (292)
T 2ghp_A          117 ---------------------------------------------------ECTLWMTNFPPSYTQRNIRDLLQDINVVA  145 (292)
T ss_dssp             ---------------------------------------------------SCEEEEECCCTTCCHHHHHHHHHHTTCCC
T ss_pred             ---------------------------------------------------CCEEEEECCCCCCCHHHHHHHHHHhCCCe
Confidence                                                               12469999999999999999999999 99


Q ss_pred             EEEEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHHHhhhhhccccccccc
Q 043731          348 KFIDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEE  422 (498)
Q Consensus       348 ~~V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~~  422 (498)
                      ..|.+.+     ..+.|||+|.++++|.+|++.++     |..|.|+.|.|..+........-     .........+++
T Consensus       146 ~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~~~~~~~~-----~~~~~~~~~l~v  215 (292)
T 2ghp_A          146 LSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLN-----GLKIEGYTLVTKVSNPLEKSKRT-----DSATLEGREIMI  215 (292)
T ss_dssp             CEEECC-------CCEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEECCCC--------------CCTTTEEEE
T ss_pred             EEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEeCCcEEEEEECCCCcccccc-----cccCCCCceEEE
Confidence            9999875     45679999999999999999884     89999999999998765433211     123345678999


Q ss_pred             hhhhhh-hhhhhhhhhcccCCCccceeeeeccCC--CCCCCccccc
Q 043731          423 KHLEAE-NKAASEKMIQQEDAQIKPGKFEQHEKP--GISSGTSFVR  465 (498)
Q Consensus       423 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~  465 (498)
                      .||... ...+.++++|+.+|.|.++++ ++|+.  |.++|+|||.
T Consensus       216 ~nlp~~~~t~~~l~~~F~~~G~v~~v~i-~~~~~~tg~~~g~afV~  260 (292)
T 2ghp_A          216 RNLSTELLDENLLRESFEGFGSIEKINI-PAGQKEHSFNNCCAFMV  260 (292)
T ss_dssp             EEECTTTCCHHHHHHHHGGGSCEEEEEC-CSCCC---CCCEEEEEE
T ss_pred             ECCCcccCCHHHHHHHHhccCCeeEEEE-EecCCcCCCCceEEEEE
Confidence            999999 999999999999999999998 77877  9999999996

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.96  E-value=3.4e-28  Score=241.38  Aligned_cols=205  Identities=12%  Similarity=0.095  Sum_probs=176.7

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++|| |..+.+       +.++|+|||+|.++++|.+|+..  +..+.|+.|.|.
T Consensus        19 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~-------~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~   90 (284)
T 3smz_A           19 FRNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV-------DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQ   90 (284)
T ss_dssp             HHCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE-------ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE-------ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEE
Confidence            35678999999999999999999999999 999987       23579999999999999999974  778899888865


Q ss_pred             ecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCC
Q 043731          188 PKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS  267 (498)
Q Consensus       188 ~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~  267 (498)
                      +..                                                                             
T Consensus        91 ~~~-----------------------------------------------------------------------------   93 (284)
T 3smz_A           91 LQP-----------------------------------------------------------------------------   93 (284)
T ss_dssp             ECC-----------------------------------------------------------------------------
T ss_pred             ecC-----------------------------------------------------------------------------
Confidence            421                                                                             


Q ss_pred             CchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCce
Q 043731          268 SDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTV  347 (498)
Q Consensus       268 ~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V  347 (498)
                                                                         ...++||+|||..+++++|+++|++||.|
T Consensus        94 ---------------------------------------------------~~~~l~v~nlp~~~t~~~l~~~f~~~G~i  122 (284)
T 3smz_A           94 ---------------------------------------------------TDALLCVANLPPSLTQQQFEELVRPFGSL  122 (284)
T ss_dssp             ---------------------------------------------------CSCEEEEESCCTTCCHHHHHHHHGGGSCE
T ss_pred             ---------------------------------------------------CCCEEEEcCCCCcCCHHHHHHHHHhcCCe
Confidence                                                               01147999999999999999999999999


Q ss_pred             EEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHHHhhhhhcccccccc
Q 043731          348 KFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGE  421 (498)
Q Consensus       348 ~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~  421 (498)
                      ..|.+.++.      +.|||+|.++++|.+|++.+.     |..|+|+.|.|..+.....         ........++|
T Consensus       123 ~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----~~~~~g~~i~v~~a~~~~~---------~~~~~~~~~l~  188 (284)
T 3smz_A          123 ERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL-----GKPLGPRTLYVHWTDAGQL---------TPALLHSRCLC  188 (284)
T ss_dssp             EEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECCGGGC---------CTTTTSCSEEE
T ss_pred             eEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhC-----CCEeCCcEEEEEECCCCCC---------CcccCCccEEE
Confidence            999887543      459999999999999998884     8999999999999876432         23335678899


Q ss_pred             chhhhhhh-hhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          422 EKHLEAEN-KAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       422 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      +.||...+ +.+.++++|+.+|.|.++++ ++|+.|.++|+|||.
T Consensus       189 v~nlp~~~~~~~~l~~~f~~~G~i~~v~i-~~~~~g~~~g~afV~  232 (284)
T 3smz_A          189 VDRLPPGFNDVDALCRALSAVHSPTFCQL-ACGQDGQLKGFAVLE  232 (284)
T ss_dssp             EECCCTTCCCHHHHHHHTCSSSCCSEEEE-EECSSCCEEEEEEEE
T ss_pred             EecCCcccCCHHHHHHHhhCCCCeEEEEE-EECCCCCcccEEEEE
Confidence            99999996 88999999999999999998 888899999999996

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46

Probab=99.96  E-value=1.4e-29  Score=212.00  Aligned_cols=89  Identities=43%  Similarity=0.690  Sum_probs=85.1

Q ss_pred             CCCCHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHh
Q 043731            2 ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLR   81 (498)
Q Consensus         2 ~~~~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk   81 (498)
                      .++++++..+|++||||||||+||++|+||+++|.++++|||||++|++|+|||+++.            +++.|++||+
T Consensus         4 ~~~~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~------------d~~~i~~al~   71 (92)
T 1s29_A            4 MPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTT------------DVKEVVEAIR   71 (92)
T ss_dssp             SCCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCS------------CHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcC------------CHHHHHHHHh
Confidence            3799999999999999999999999999999999888999999999999999999984            7899999999


Q ss_pred             hcCcceeecCcceeecccCCc
Q 043731           82 KSSSLKLSEDGMKVGRSAELP  102 (498)
Q Consensus        82 ~S~~leVsedg~kVrR~~~~~  102 (498)
                      .|+.|+|++||++|||+.|+|
T Consensus        72 ~S~~lev~edg~~VRR~~PlP   92 (92)
T 1s29_A           72 PSEKLVLSEDGLMVRRRDPLP   92 (92)
T ss_dssp             TCSSEEECTTSSEEEESSCCC
T ss_pred             hCCeEEEeCCCCEEeCCCCCC
Confidence            999999999999999999886

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

Probab=99.95  E-value=1.3e-26  Score=221.80  Aligned_cols=168  Identities=18%  Similarity=0.208  Sum_probs=141.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...+||||+|||+++|+++|+++|++||+|.+|+|+++.. +++++|||||+|.+.++|.+|+..  +..+.|+.|.+.+
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~-tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~   91 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMI-TRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMW   91 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccC-CCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccc
Confidence            3468999999999999999999999999999999999876 678999999999999999999985  7788898887655


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ......                                                                          
T Consensus        92 ~~~~~~--------------------------------------------------------------------------   97 (213)
T 4f02_A           92 SQRDPS--------------------------------------------------------------------------   97 (213)
T ss_dssp             CCCCTH--------------------------------------------------------------------------
T ss_pred             cccccc--------------------------------------------------------------------------
Confidence            421000                                                                          


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                               ..                                     .....++||+|||..+|+++|+++|++||.|.
T Consensus        98 ---------~~-------------------------------------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~  131 (213)
T 4f02_A           98 ---------LR-------------------------------------KSGVGNIFIKNLDKSIDNKALYDTFSAFGNIL  131 (213)
T ss_dssp             ---------HH-------------------------------------HHCTTEEEEESCCTTCCHHHHHHHHGGGSCEE
T ss_pred             ---------cc-------------------------------------ccccccceECCcccccHHHHHHHHHhhcCCeE
Confidence                     00                                     00012579999999999999999999999999


Q ss_pred             EEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHH
Q 043731          349 FIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEY  404 (498)
Q Consensus       349 ~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~  404 (498)
                      .|.+.++    ++.|||+|.++++|.+|++.|+     |..|+|+.|.|..+..+.+++.
T Consensus       132 ~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~ln-----g~~~~g~~i~V~~a~~~~~~~~  186 (213)
T 4f02_A          132 SCKVVCDENGSKGYGFVHFETQEAAERAIEKMN-----GMLLNDRKVFVGRFKSRKEREA  186 (213)
T ss_dssp             EEEEEEETTEEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECCCHHHHHH
T ss_pred             EEEeeccCCCCceEEEEEeCCHHHHHHHHHHhC-----CCEECCEEEEEEEcCCCcccch
Confidence            9998764    3469999999999999999984     9999999999999998877654

>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=99.94  E-value=4.1e-26  Score=212.95  Aligned_cols=171  Identities=13%  Similarity=0.192  Sum_probs=137.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|.+|+.. +..++|+.|.|.+
T Consensus        10 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v~~   88 (196)
T 1l3k_A           10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN-TKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKR   88 (196)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCC-CCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeec
Confidence            34679999999999999999999999999999999998875 577999999999999999999996 7889999999876


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ......                 .                          .     ..+                     
T Consensus        89 ~~~~~~-----------------~--------------------------~-----~~~---------------------   99 (196)
T 1l3k_A           89 AVSRED-----------------S--------------------------Q-----RPG---------------------   99 (196)
T ss_dssp             CCC-----------------------------------------------------------------------------
T ss_pred             ccCccc-----------------c--------------------------c-----ccc---------------------
Confidence            531100                 0                          0     000                     


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                                                                     .......+||+|||..+++++|+++|++||.|.
T Consensus       100 -----------------------------------------------~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~  132 (196)
T 1l3k_A          100 -----------------------------------------------AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE  132 (196)
T ss_dssp             --------------------------------------------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEE
T ss_pred             -----------------------------------------------cCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeE
Confidence                                                           000123689999999999999999999999999


Q ss_pred             EEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHH
Q 043731          349 FIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       349 ~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e  403 (498)
                      .|.+.++.      +.|||+|.++++|.+|++.    +  |..|+|+.|.|..+..+++..
T Consensus       133 ~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~----~--~~~~~G~~i~v~~a~~k~~~~  187 (196)
T 1l3k_A          133 VIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ----K--YHTVNGHNCEVRKALSKQEMA  187 (196)
T ss_dssp             EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC----S--CCEETTEECEEEECC------
T ss_pred             EEEEeecCCCCCccceEEEEECCHHHHHHHHHh----C--CcEECCEEEEEEecCChhHhc
Confidence            99998753      4599999999999999874    3  899999999999998877653

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

Probab=99.94  E-value=1.4e-25  Score=203.02  Aligned_cols=157  Identities=14%  Similarity=0.139  Sum_probs=133.1

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecch
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKE  191 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d  191 (498)
                      |+|||+|||.++|+++|+++|++||.|.+|+++++..  +.++|+|||+|.+.++|.+|+..  +..+.|+.|.|.+...
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~--~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~   78 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN--NKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQ   78 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC---CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC--CCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCC
Confidence            7999999999999999999999999999999998864  55899999999999999999974  7889999988766421


Q ss_pred             hHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchh
Q 043731          192 FEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNA  271 (498)
Q Consensus       192 ~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~  271 (498)
                      ..                                                   .                          
T Consensus        79 ~~---------------------------------------------------~--------------------------   81 (166)
T 3md3_A           79 SQ---------------------------------------------------Q--------------------------   81 (166)
T ss_dssp             CC---------------------------------------------------C--------------------------
T ss_pred             CC---------------------------------------------------C--------------------------
Confidence            00                                                   0                          


Q ss_pred             hhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEE
Q 043731          272 AAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID  351 (498)
Q Consensus       272 ~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~  351 (498)
                                                                 ........+||+|||..+++++|+++|++||.|..+.
T Consensus        82 -------------------------------------------~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~  118 (166)
T 3md3_A           82 -------------------------------------------SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGH  118 (166)
T ss_dssp             -------------------------------------------CCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEE
T ss_pred             -------------------------------------------CCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEE
Confidence                                                       0000123689999999999999999999999999999


Q ss_pred             eecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          352 FKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       352 ~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +.++      .+.|||+|.++++|.+|+..++     |..|+|+.|.|..+.
T Consensus       119 i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~i~v~~a~  165 (166)
T 3md3_A          119 VMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQ-----GQDLNGRPLRINWAA  165 (166)
T ss_dssp             EEECTTTCCEEEEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEEESC
T ss_pred             EEecCCCCCcceEEEEEeCCHHHHHHHHHHhC-----CCccCCcEEEEEecC
Confidence            9865      3459999999999999999884     899999999998864

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46

Probab=99.93  E-value=2.1e-27  Score=201.63  Aligned_cols=87  Identities=24%  Similarity=0.403  Sum_probs=81.3

Q ss_pred             CHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcC
Q 043731            5 DEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSS   84 (498)
Q Consensus         5 ~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~   84 (498)
                      ++++.++|++||||||||+||++|.||+++|+  ++|||||++|++|+|||+|+.            +++.|++||+.|+
T Consensus        11 ~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md--~~G~Vpl~~iasF~r~k~lt~------------d~~~i~~al~~S~   76 (101)
T 2cqk_A           11 TEDLKECLKKQLEFCFSRENLSKDLYLISQMD--SDQFIPIWTVANMEEIKKLTT------------DPDLILEVLRSSP   76 (101)
T ss_dssp             HHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSC--TTSCEEHHHHHHCHHHHHHCC------------CHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHhhcchhhhccCHHHHHhhh--cCCCEEhHHHhCChHHHHHcC------------CHHHHHHHHHhCC
Confidence            46779999999999999999999999999996  899999999999999999984            7899999999999


Q ss_pred             cceeecCcceeecccCCcchh
Q 043731           85 SLKLSEDGMKVGRSAELPTAE  105 (498)
Q Consensus        85 ~leVsedg~kVrR~~~~~~~e  105 (498)
                      .|+|++||++|||+.+.+.++
T Consensus        77 ~levsedg~kVRr~~~~~i~~   97 (101)
T 2cqk_A           77 MVQVDEKGEKVRPSHKRCISG   97 (101)
T ss_dssp             SEEECSSSSEEEECCSCCCCS
T ss_pred             cEEEcCCCCeeeeCCCCCcCC
Confidence            999999999999998877654

>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=99.93  E-value=3.7e-26  Score=207.91  Aligned_cols=159  Identities=12%  Similarity=0.213  Sum_probs=135.8

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecch
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKKE  191 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~d  191 (498)
                      +.++|||+|||+++|+++|+++|++||.|.+|+|+++.. ++.++|||||+|.++++|.+|+.....++|+.|.+.+...
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~~~~~~g~~i~v~~~~~   80 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPA-TGRSRGFGFLSFEKPSSVDEVVKTQHILDGKVIDPKRAIP   80 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTT-TSSCCSCEEEEESSTHHHHHHHHSCCEETTEECCCEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCC-CCCccceEEEEEccHHHHHHHHhcccccCCeEcccccccc
Confidence            468999999999999999999999999999999999875 5779999999999999999999987789998887544321


Q ss_pred             hHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchh
Q 043731          192 FEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNA  271 (498)
Q Consensus       192 ~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~  271 (498)
                      ...                                                                             
T Consensus        81 ~~~-----------------------------------------------------------------------------   83 (167)
T 2cjk_A           81 RDE-----------------------------------------------------------------------------   83 (167)
T ss_dssp             HHH-----------------------------------------------------------------------------
T ss_pred             hhh-----------------------------------------------------------------------------
Confidence            000                                                                             


Q ss_pred             hhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEE
Q 043731          272 AAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID  351 (498)
Q Consensus       272 ~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~  351 (498)
                                                                   ......+||+|||..+++++|+++|++||.|..|.
T Consensus        84 ---------------------------------------------~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~  118 (167)
T 2cjk_A           84 ---------------------------------------------QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQ  118 (167)
T ss_dssp             ---------------------------------------------HHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEE
T ss_pred             ---------------------------------------------ccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEE
Confidence                                                         00122579999999999999999999999999999


Q ss_pred             eecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          352 FKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       352 ~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      +.++.      +.|||+|.++++|.+|++ +   +  |..|+|+.|.|..+..+
T Consensus       119 i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~---~--~~~~~g~~i~V~~a~pk  166 (167)
T 2cjk_A          119 LMLDKDTGQSRGFGFVTYDSADAVDRVCQ-N---K--FIDFKDRKIEIKRAEPR  166 (167)
T ss_dssp             CCCSSSSSTTSEEEEEEESSHHHHHHHHH-C---S--EECSSSSCEEEEECCCC
T ss_pred             EEEcCCCCccceEEEEEECCHHHHHHHHh-C---C--CEEeCCeEEEEeecCCC
Confidence            88653      579999999999999987 4   4  99999999999998754

>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=99.93  E-value=3.1e-25  Score=201.68  Aligned_cols=157  Identities=17%  Similarity=0.238  Sum_probs=134.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+++++.. ++.++|+|||+|.++++|.+|+..  +..++|+.|.|.+.
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~   80 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYK-TGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYA   80 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETT-TTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCC-CCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEec
Confidence            358999999999999999999999999999999998875 577999999999999999999984  88899999987664


Q ss_pred             chhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCc
Q 043731          190 KEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSD  269 (498)
Q Consensus       190 ~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~  269 (498)
                      ...                   .                          .                              
T Consensus        81 ~~~-------------------~--------------------------~------------------------------   85 (168)
T 1b7f_A           81 RPG-------------------G--------------------------E------------------------------   85 (168)
T ss_dssp             CCC-------------------S--------------------------S------------------------------
T ss_pred             CCC-------------------c--------------------------c------------------------------
Confidence            200                   0                          0                              


Q ss_pred             hhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEE
Q 043731          270 NAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKF  349 (498)
Q Consensus       270 ~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~  349 (498)
                                                                     ......+||+|||..+++++|+++|++||.|..
T Consensus        86 -----------------------------------------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~  118 (168)
T 1b7f_A           86 -----------------------------------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQ  118 (168)
T ss_dssp             -----------------------------------------------TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEE
T ss_pred             -----------------------------------------------cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEE
Confidence                                                           001225799999999999999999999999999


Q ss_pred             EEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEc
Q 043731          350 IDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPV  396 (498)
Q Consensus       350 V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~  396 (498)
                      +.+.++.      +.|||+|.++++|.+|+..|+     |..+.|  +.|.|..+
T Consensus       119 ~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          119 KNILRDKLTGRPRGVAFVRYNKREEAQEAISALN-----NVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCCCTTCSSCCEEEEC
T ss_pred             EEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhc-----CCEecCCCeEEEEEeC
Confidence            9998765      569999999999999999984     888877  88888754

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

Probab=99.93  E-value=3.3e-25  Score=209.86  Aligned_cols=172  Identities=15%  Similarity=0.216  Sum_probs=137.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..++|+.|.|.+
T Consensus        26 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~  104 (216)
T 2qfj_A           26 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSV-TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGR  104 (216)
T ss_dssp             HHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-C-C-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEEC
T ss_pred             CcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCC-CCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEec
Confidence            4578999999999999999999999999999999998875 567899999999999999999984  7889999998855


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ............                                                                    
T Consensus       105 ~~~~~~~~~~~~--------------------------------------------------------------------  116 (216)
T 2qfj_A          105 PSNIGQAQPIID--------------------------------------------------------------------  116 (216)
T ss_dssp             CSCCGGGHHHHH--------------------------------------------------------------------
T ss_pred             CCCccccchhhh--------------------------------------------------------------------
Confidence            432110000000                                                                    


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                             ...                                    ........+||+|||..+++++|+++|++||.|.
T Consensus       117 -------~~~------------------------------------~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~  153 (216)
T 2qfj_A          117 -------QLA------------------------------------EEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIK  153 (216)
T ss_dssp             -------HHH------------------------------------HHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEE
T ss_pred             -------hhh------------------------------------cccCCCcEEEEeCCCCcCCHHHHHHHHhccCCee
Confidence                   000                                    0001123689999999999999999999999999


Q ss_pred             EEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          349 FIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       349 ~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      .|.+.++      .+.|||+|.+.++|.+|++.|+     |..|+|+.|.|..+...
T Consensus       154 ~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~-----g~~~~g~~i~V~~a~~~  205 (216)
T 2qfj_A          154 SATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMN-----LFDLGGQYLRVGKAVTP  205 (216)
T ss_dssp             EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCBCSSSBCEEEECSSC
T ss_pred             EEEEEecCCCCCcCceEEEEecCHHHHHHHHHHcc-----CCEeCCcEEEEEEecCC
Confidence            9999876      4569999999999999999984     89999999999987653

>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=99.92  E-value=1e-24  Score=197.41  Aligned_cols=155  Identities=15%  Similarity=0.238  Sum_probs=131.2

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++|+++|+++|++||.|..|+++++.. ++.++|+|||+|.++++|.+|+..  +..++|++|.|.+..
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~-~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   80 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKI-TGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCC-CCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecC
Confidence            58999999999999999999999999999999998874 577999999999999999999984  888999999876542


Q ss_pred             hhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCch
Q 043731          191 EFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDN  270 (498)
Q Consensus       191 d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~  270 (498)
                      ...                                             .                               
T Consensus        81 ~~~---------------------------------------------~-------------------------------   84 (167)
T 1fxl_A           81 PSS---------------------------------------------A-------------------------------   84 (167)
T ss_dssp             CCC---------------------------------------------G-------------------------------
T ss_pred             CCc---------------------------------------------c-------------------------------
Confidence            000                                             0                               


Q ss_pred             hhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEE
Q 043731          271 AAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFI  350 (498)
Q Consensus       271 ~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V  350 (498)
                                                                    ......+||+|||..+++++|+++|++||.|..+
T Consensus        85 ----------------------------------------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~  118 (167)
T 1fxl_A           85 ----------------------------------------------SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITS  118 (167)
T ss_dssp             ----------------------------------------------GGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEE
T ss_pred             ----------------------------------------------cCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEE
Confidence                                                          0001257999999999999999999999999999


Q ss_pred             EeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE--EEEEE
Q 043731          351 DFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI--AVLEP  395 (498)
Q Consensus       351 ~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~--~~v~~  395 (498)
                      .+.++.      +.|||+|.++++|.+|+..|+     |..+.|+.  |.|..
T Consensus       119 ~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~~~i~v~~  166 (167)
T 1fxl_A          119 RILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLN-----GQKPSGATEPITVKF  166 (167)
T ss_dssp             EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCCCTTCSSCCEEEE
T ss_pred             EEEecCCCCCccceEEEEeCCHHHHHHHHHHhc-----CCccCCCccceEEEe
Confidence            988653      569999999999999999984     88999975  56553

>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=99.92  E-value=1.7e-24  Score=197.73  Aligned_cols=158  Identities=15%  Similarity=0.156  Sum_probs=123.9

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCC--cccceEEEEeCCHHHHHHHHHh--CCeeC---CeEE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKR--LFCGTALIEFSTEEDAEKVLKQ--GLFYA---GVEL  184 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~--~~kG~aFVeF~s~e~A~kAl~~--~~~~~---G~~l  184 (498)
                      +.++|||+|||+++|+++|+++|++||+|.+|+|+++.. ++  .++|||||+|.++++|.+|++.  +..+.   ++.+
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~   80 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRS-QNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPI   80 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECS-SSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCC-CCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccce
Confidence            468999999999999999999999999999999998875 43  7899999999999999999984  22222   1222


Q ss_pred             EEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCC
Q 043731          185 HLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGE  264 (498)
Q Consensus       185 ~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~  264 (498)
                      .+.+..                                                .     . .                 
T Consensus        81 ~~~~~~------------------------------------------------~-----~-~-----------------   89 (175)
T 3nmr_A           81 QMKPAD------------------------------------------------S-----E-K-----------------   89 (175)
T ss_dssp             EEEECG------------------------------------------------G-----G-C-----------------
T ss_pred             EEcccc------------------------------------------------c-----c-c-----------------
Confidence            211110                                                0     0 0                 


Q ss_pred             CCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccC
Q 043731          265 PDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKF  344 (498)
Q Consensus       265 ~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~f  344 (498)
                                                                        ........+||+|||..+|+++|+++|++|
T Consensus        90 --------------------------------------------------~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~  119 (175)
T 3nmr_A           90 --------------------------------------------------NNAVEDRKLFIGMISKKCTENDIRVMFSSF  119 (175)
T ss_dssp             --------------------------------------------------CSCGGGSEEEEESCCTTCCHHHHHHHHGGG
T ss_pred             --------------------------------------------------cccCCCCeEEEcCCCCcCCHHHHHHHHHhC
Confidence                                                              000012368999999999999999999999


Q ss_pred             CceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEec---CeEEEEEEc
Q 043731          345 GTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK---NFIAVLEPV  396 (498)
Q Consensus       345 G~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~---g~~~~v~~~  396 (498)
                      |.|..|.+.++     .+.|||+|.++++|.+|+.+|+     |..+.   |+.|.|..+
T Consensus       120 G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A          120 GQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH-----QAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             SCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHT-----TSCCCTTCSSCCEEEEC
T ss_pred             CCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhc-----CCcccCCCCCCeEEEec
Confidence            99999999876     4459999999999999999984     55444   489988875

>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=99.90  E-value=6.2e-24  Score=195.14  Aligned_cols=162  Identities=18%  Similarity=0.178  Sum_probs=132.1

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||.|..+.+. +.. ++.++|||||+|.++++|.+|++. +..+.|+.|.|.+
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~-~~~-~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~   87 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVR-TGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEK   87 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCC-EEE-EETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEEC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEE-ECC-CCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEec
Confidence            3567999999999999999999999999998884333 332 467899999999999999999974 7889999998766


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      .....                      .                      .                             
T Consensus        88 ~~~~~----------------------~----------------------~-----------------------------   94 (175)
T 1fje_B           88 PKGRD----------------------S----------------------K-----------------------------   94 (175)
T ss_dssp             CCCSS----------------------C----------------------S-----------------------------
T ss_pred             CCCcc----------------------c----------------------c-----------------------------
Confidence            42100                      0                      0                             


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceE
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVK  348 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~  348 (498)
                                                                     .......+||+|||..+++++|+++|++||.|.
T Consensus        95 -----------------------------------------------~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~  127 (175)
T 1fje_B           95 -----------------------------------------------KVRAARTLLAKNLSFNITEDELKEVFEDALEIR  127 (175)
T ss_dssp             -----------------------------------------------TTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEE
T ss_pred             -----------------------------------------------ccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEE
Confidence                                                           000123689999999999999999999999999


Q ss_pred             EEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          349 FIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       349 ~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      .+ ..  +..+.|||+|.++++|.+|+..|+     |..|+|+.|.|..+..+
T Consensus       128 ~~-~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~i~v~~a~~k  174 (175)
T 1fje_B          128 LV-SQDGKSKGIAYIEFKSEADAEKNLEEKQ-----GAEIDGRSVSLYYTGEK  174 (175)
T ss_dssp             EE-CSSSSCCSEEEEECSSHHHHHHHHHHHT-----EEEETTEEEEEEECSSC
T ss_pred             Ee-cCCCCCceEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEEEecCCC
Confidence            88 22  345679999999999999999984     89999999999988654

>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=99.90  E-value=5.2e-23  Score=203.96  Aligned_cols=196  Identities=11%  Similarity=0.031  Sum_probs=154.6

Q ss_pred             ccHHHHHHHHhhcCcceeecCcceeecccCCcchhhhhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccC
Q 043731           71 DTLEAVAETLRKSSSLKLSEDGMKVGRSAELPTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVA  150 (498)
Q Consensus        71 ~~~~~V~eALk~S~~leVsedg~kVrR~~~~~~~ee~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~  150 (498)
                      .+.+....|+..-....+.  |..++-..          ....++|||+|||+++|+++|+++|++||.|..|+++++..
T Consensus        65 ~~~~~A~~A~~~l~~~~~~--g~~i~v~~----------~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~  132 (284)
T 3smz_A           65 LNGEQAEAAINAFHQSRLR--ERELSVQL----------QPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSER  132 (284)
T ss_dssp             SSHHHHHHHHHHHTTCEET--TEECEEEE----------CCCSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT
T ss_pred             CCHHHHHHHHHHcCCCeeC--CeEEEEEe----------cCCCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCC
Confidence            4566777777654433343  33322111          12357999999999999999999999999999999988765


Q ss_pred             CCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCc
Q 043731          151 DKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGL  228 (498)
Q Consensus       151 ~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~  228 (498)
                       ++.++|+|||+|.+.++|.+|+..  +..++|+.|.|.+.....                  .   .            
T Consensus       133 -~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~------------------~---~------------  178 (284)
T 3smz_A          133 -TGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQ------------------L---T------------  178 (284)
T ss_dssp             -TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGG------------------C---C------------
T ss_pred             -CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCC------------------C---C------------
Confidence             577999999999999999999974  888999999987653100                  0   0            


Q ss_pred             EEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCC
Q 043731          229 IVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDG  308 (498)
Q Consensus       229 iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g  308 (498)
                                                                                                      
T Consensus       179 --------------------------------------------------------------------------------  178 (284)
T 3smz_A          179 --------------------------------------------------------------------------------  178 (284)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             cccccccccCcceeeeccCCCccc-cHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccC
Q 043731          309 SIEKGEEKEGKTSIDTYKDNMDVV-MREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEG  382 (498)
Q Consensus       309 ~~~~~~~~~~~~~~vfv~nL~~~v-t~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~  382 (498)
                            .......++||+|||..+ ++++|+++|++||.|..|.+.++     .+.|||+|.++++|.+|+..|+     
T Consensus       179 ------~~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----  247 (284)
T 3smz_A          179 ------PALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQAD-----  247 (284)
T ss_dssp             ------TTTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHT-----
T ss_pred             ------cccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhC-----
Confidence                  000012368999999995 99999999999999999998875     5569999999999999999984     


Q ss_pred             CeEecCeEEEEEEcCChhHHH
Q 043731          383 GLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       383 g~~i~g~~~~v~~~~g~~E~e  403 (498)
                      |..|+|+.|.|..+..+.++.
T Consensus       248 g~~~~g~~l~v~~a~~~~~~~  268 (284)
T 3smz_A          248 GLSLGGSHLRVSFCAPGPPGR  268 (284)
T ss_dssp             TCEETTEECEEEECCSSSCHH
T ss_pred             CCccCCeEEEEEEecCCCccc
Confidence            999999999999998777654

>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=99.90  E-value=2.6e-23  Score=189.89  Aligned_cols=152  Identities=13%  Similarity=0.272  Sum_probs=126.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccC----C-------ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQH----V-------KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFY  179 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~----G-------~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~  179 (498)
                      +.++|||+|||+++|+++|+++|++|    |       .|..+++.+       .+|+|||+|.++++|.+|+.. +..+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~-------~~g~afV~f~~~~~A~~A~~~~~~~~   75 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-------DKNFAFLEFRSVDETTQAMAFDGIIF   75 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET-------TTTEEEEEESSHHHHHHHGGGTTCEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC-------CCCEEEEEeCCHHHHHHHHHhCCcEe
Confidence            46899999999999999999999999    5       566665533       479999999999999999953 7889


Q ss_pred             CCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCC
Q 043731          180 AGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENAC  259 (498)
Q Consensus       180 ~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~  259 (498)
                      +|+.|.|.+...+..                                                                 
T Consensus        76 ~g~~i~v~~~~~~~~-----------------------------------------------------------------   90 (172)
T 2g4b_A           76 QGQSLKIRRPHDYQP-----------------------------------------------------------------   90 (172)
T ss_dssp             TTEECEEECCSSCCC-----------------------------------------------------------------
T ss_pred             cCceeeecCCcccCC-----------------------------------------------------------------
Confidence            999988755321000                                                                 


Q ss_pred             CCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHH
Q 043731          260 KPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKS  339 (498)
Q Consensus       260 ~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke  339 (498)
                                                                               ......+||+|||..+++++|++
T Consensus        91 ---------------------------------------------------------~~~~~~l~v~nlp~~~t~~~l~~  113 (172)
T 2g4b_A           91 ---------------------------------------------------------LPGAHKLFIGGLPNYLNDDQVKE  113 (172)
T ss_dssp             ---------------------------------------------------------CTTTTCEEEECCCTTCCHHHHHH
T ss_pred             ---------------------------------------------------------CCCCCEEEEEcCCCcCCHHHHHH
Confidence                                                                     00022579999999999999999


Q ss_pred             HhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          340 VFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       340 ~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +|++||.|..|.+.++.      +.|||+|.++++|.+|++.|+     |..|+|+.|.|..+.
T Consensus       114 ~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          114 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLN-----GMQLGDKKLLVQRAS  172 (172)
T ss_dssp             HHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHT-----TCEETTEECEEEECC
T ss_pred             HHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcC-----CCEECCeEEEEEeCC
Confidence            99999999999998763      569999999999999999884     899999999998763

>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=99.90  E-value=5.5e-23  Score=203.57  Aligned_cols=258  Identities=14%  Similarity=0.105  Sum_probs=140.6

Q ss_pred             cccceEEeccCCCCCcHHHHH----HHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          111 LDVRTIAATPLEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~----~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      ...++|||+|||+++|+++|+    ++|++||.|..|+|+++    ++++|||||+|.+.++|.+|++.  +..+.|+.|
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   82 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRS----LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPM   82 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCC----CCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEE
Confidence            457999999999999999977    89999999999999873    55899999999999999999974  888999999


Q ss_pred             EEeecchhHHH---HHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCC
Q 043731          185 HLKPKKEFEAE---RAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKP  261 (498)
Q Consensus       185 ~v~~k~d~~~~---k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~  261 (498)
                      .|.+.......   +........+... ..+..............+.....     ....   ..+........+ ...+
T Consensus        83 ~v~~a~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-----~~~~---~~~~~~~~~~~~-~~~~  152 (282)
T 3pgw_A           83 RIQYAKTDSDIIAKMKGTFVERDRKRE-KRKPKSQETPATKKAVQGGGATP-----VVGA---VQGPVPGMPPMT-QAPR  152 (282)
T ss_pred             EEEEeccCcchhhhhcCCcccchhhhh-hhhccccchhhhhhhccCcCCcc-----cCCC---CCCCCCCCCccc-cccc
Confidence            99886432211   0000000000000 00000000000000000000000     0000   000000000000 0000


Q ss_pred             CCCCCCCchhhhHHhhhhhcccCCCCCCccccccc--cccc-cCCCCCCCccc--ccccccCcceeeeccCCCccccHHH
Q 043731          262 DGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNE--LDSE-DGDKSSDGSIE--KGEEKEGKTSIDTYKDNMDVVMRED  336 (498)
Q Consensus       262 ~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~--~~~E-~~~~~~~g~~~--~~~~~~~~~~~vfv~nL~~~vt~Ed  336 (498)
                      ...+...     ...--..+-..    .-.+....  .... .......+.+.  ........+.+|||+|||..+++++
T Consensus       153 ~~~~~~g-----~~~~~~~p~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~  223 (282)
T 3pgw_A          153 IMHHMPG-----QPPYMPPPGMI----PPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELM  223 (282)
T ss_pred             ccccCCC-----CCCCCCCCCCC----CCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHH
Confidence            0000000     00000000000    00000000  0000 00000000000  0001112345799999999999999


Q ss_pred             HHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEec-CeEEEEEEc
Q 043731          337 LKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSVK-NFIAVLEPV  396 (498)
Q Consensus       337 Lke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~-g~~~~v~~~  396 (498)
                      |+++|++||.|..|.+.+++ +.|||+|.+.++|.+|+..|+     |..|. |+.|.|..+
T Consensus       224 l~~~F~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          224 LSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQ-----GFKITQNNAMKISFA  280 (282)
T ss_pred             HHHHHHhcCCeEEEEEecCCCcEEEEEeCCHHHHHHHHHHcC-----CcEeCCCCEEEEEEe
Confidence            99999999999999999877 789999999999999999984     89999 999999875

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

Probab=99.89  E-value=1.2e-22  Score=189.76  Aligned_cols=174  Identities=12%  Similarity=0.224  Sum_probs=130.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCc-----------eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVK-----------VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFY  179 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~-----------V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~  179 (498)
                      ..|+|||+|||+++|+++|+++|++||.           |..+.+       +.++|||||+|.++++|.+|+.. +..+
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~-------~~~~g~afV~F~~~~~A~~Al~l~g~~~   75 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI-------NQDKNFAFLEFRSVDETTQAMAFDGIIF   75 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEE-------ETTTTEEEEEESCSHHHHHHGGGTTEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEe-------cCCCCEEEEEeCCHHHHHHHHHhcCCEE
Confidence            4699999999999999999999999954           444443       34579999999999999999963 7889


Q ss_pred             CCeEEEEeecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCC
Q 043731          180 AGVELHLKPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENAC  259 (498)
Q Consensus       180 ~G~~l~v~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~  259 (498)
                      +|+.|.|.+...+..                ..   ..                    ..     ....           
T Consensus        76 ~g~~i~v~~~~~~~~----------------~~---~~--------------------~~-----~~~~-----------  100 (198)
T 2yh0_A           76 QGQSLKIRRPHDYQP----------------LP---GM--------------------SE-----NPSV-----------  100 (198)
T ss_dssp             TTEEEEEECCCCCCC----------------CC---CS--------------------SS-----CSSC-----------
T ss_pred             cCceEEEeCCCCCCC----------------CC---CC--------------------cC-----CCcC-----------
Confidence            999999876532110                00   00                    00     0000           


Q ss_pred             CCCCCCCCCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHH
Q 043731          260 KPDGEPDSSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKS  339 (498)
Q Consensus       260 ~~~~~~~~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke  339 (498)
                         ..+.                          .                  ...........+||+|||..+++++|++
T Consensus       101 ---~~~~--------------------------~------------------~~~~~~~~~~~l~v~nl~~~~~~~~l~~  133 (198)
T 2yh0_A          101 ---YVPG--------------------------V------------------VSTVVPDSAHKLFIGGLPNYLNDDQVKE  133 (198)
T ss_dssp             ---CCTT--------------------------S------------------SCCCSSCCCCEEEEECCCTTCCHHHHHH
T ss_pred             ---CCCC--------------------------C------------------ccCCCCCCCCEEEEeCCCCCCCHHHHHH
Confidence               0000                          0                  0000011234789999999999999999


Q ss_pred             HhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          340 VFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       340 ~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      +|++||.|..|.+.++      .+.|||+|.++++|.+|++.|+     |..|+|+.|.|..+...
T Consensus       134 ~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~~  194 (198)
T 2yh0_A          134 LLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLN-----GMQLGDKKLLVQRASVG  194 (198)
T ss_dssp             HHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHT-----TCEETTEECEEEESCCC
T ss_pred             HHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEECCCC
Confidence            9999999999999876      3569999999999999999884     89999999999988653

>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=99.89  E-value=3.3e-22  Score=193.26  Aligned_cols=190  Identities=15%  Similarity=0.125  Sum_probs=137.7

Q ss_pred             ccccceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          110 QLDVRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       110 ~~~~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ....++|||+|||+ ++++++|+++|++||.|..|+|+++.      +|||||+|.++++|.+|++.  +..+.|+.|.|
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 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK------KENALVQMADGNQAQLAMSHLNGHKLHGKPIRI  104 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT------SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC------CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            35679999999999 99999999999999999999998863      69999999999999999983  88899999999


Q ss_pred             eecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCC
Q 043731          187 KPKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPD  266 (498)
Q Consensus       187 ~~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~  266 (498)
                      .+.......            .  .+   ....     ..+..-.+     ..                   ........
T Consensus       105 ~~a~~~~~~------------~--~~---~~~~-----~~~~~~~~-----~~-------------------~~~~~~~~  138 (229)
T 2adc_A          105 TLSKHQNVQ------------L--PR---EGQE-----DQGLTKDY-----GN-------------------SPLHRFKK  138 (229)
T ss_dssp             ECCSCCCCC------------C--CC---SSSS-----TTTTEEEC-----TT-------------------CSSCCCCS
T ss_pred             EEecCcccc------------C--cc---cccc-----cccccccc-----cc-------------------CcccccCC
Confidence            876421100            0  00   0000     00000000     00                   00000000


Q ss_pred             CCchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCC-
Q 043731          267 SSDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFG-  345 (498)
Q Consensus       267 ~~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG-  345 (498)
                      .                        ..                 .........+.++||+|||..+++++|+++|++|| 
T Consensus       139 ~------------------------~~-----------------~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~  177 (229)
T 2adc_A          139 P------------------------GS-----------------KNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGG  177 (229)
T ss_dssp             T------------------------TS-----------------GGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSC
T ss_pred             c------------------------cc-----------------cccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCC
Confidence            0                        00                 00000112345799999999999999999999999 


Q ss_pred             ceEEEEe-ecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEec-CeEEEEEEcC
Q 043731          346 TVKFIDF-KIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVK-NFIAVLEPVT  397 (498)
Q Consensus       346 ~V~~V~~-~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~-g~~~~v~~~~  397 (498)
                      .|..|.+ .++++.|||+|.++++|.+|+..|+     |..|+ |+.|.|..+.
T Consensus       178 ~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~~g~~l~v~~a~  226 (229)
T 2adc_A          178 VVKGFKFFQKDRKMALIQMGSVEEAVQALIDLH-----NHDLGENHHLRVSFSK  226 (229)
T ss_dssp             CEEEEEECSSSTTCEEEEESSHHHHHHHHHHHT-----TCBSSSSCBCEEEECS
T ss_pred             CeeEEEEEECCCcEEEEEECCHHHHHHHHHHHC-----CCccCCCCeEEEEEec
Confidence            9999999 4478899999999999999999984     88899 9999998764

>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=99.89  E-value=1.2e-22  Score=194.24  Aligned_cols=188  Identities=13%  Similarity=0.174  Sum_probs=130.5

Q ss_pred             ccceEEeccCC-CCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLE-YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp-~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      +.++|||+||| +.+|+++|+++|++||.|.+|+|+++      .+|||||+|.++++|++|++.  +..+.|++|.|.+
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~------~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~   76 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS------KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCV   76 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT------STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC------CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence            46899999999 89999999999999999999999875      269999999999999999984  8999999999987


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ++.-..            .+         .. ....+.+... .+     .     ..+           +......   
T Consensus        77 s~~~~~------------~p---------~~-~~~~~~~~~~-~~-----~-----~~~-----------~~~~r~~---  109 (205)
T 3tyt_A           77 SKQPAI------------MP---------GQ-SYGLEDGSCS-YK-----D-----FSE-----------SRNNRFS---  109 (205)
T ss_dssp             CSCSCC------------CC---------CS-CCBCTTSCBS-EE-----E-----CTT-----------CTTCSCS---
T ss_pred             ccCCcc------------CC---------Cc-ccccccCCcc-cc-----c-----cCC-----------Ccccccc---
Confidence            631000            00         00 0000000000 00     0     000           0000000   


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCce-
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTV-  347 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V-  347 (498)
                                           ..+.      ..           ......++.++||+|||+.+|+++|+++|++||.| 
T Consensus       110 ---------------------~~~~------~~-----------~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~  151 (205)
T 3tyt_A          110 ---------------------TPEQ------AA-----------KNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKR  151 (205)
T ss_dssp             ---------------------SHHH------HT-----------TSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCC
T ss_pred             ---------------------Cccc------cc-----------ccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcc
Confidence                                 0000      00           00001234579999999999999999999999998 


Q ss_pred             -EEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe----EEEEEE
Q 043731          348 -KFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF----IAVLEP  395 (498)
Q Consensus       348 -~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~----~~~v~~  395 (498)
                       ..|.+.++    .+.|||+|.+.++|.+|+..|+     |..|.|+    +++|+.
T Consensus       152 ~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~ln-----g~~~~g~~~~~p~~vk~  203 (205)
T 3tyt_A          152 PTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLN-----HYQMKNPNGPYPYTLKL  203 (205)
T ss_dssp             CSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHT-----TCEECCSSSSSCEECEE
T ss_pred             eEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhC-----CCCccCCCCCcceEEEe
Confidence             88888765    3579999999999999999984     8889887    466654

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

Probab=99.89  E-value=2.5e-22  Score=188.48  Aligned_cols=188  Identities=15%  Similarity=0.139  Sum_probs=135.6

Q ss_pred             ccceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+ ++++++|+++|++||.|..|+|+++.      +|||||+|.++++|.+|+..  +..+.|+.|.|.+
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 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK------KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITL   75 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC------SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEE
Confidence            468999999999 99999999999999999999998863      69999999999999999983  8889999999987


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      .......           .+   +   ....     ..+..-..     .         ... .         .....  
T Consensus        76 a~~~~~~-----------~~---~---~~~~-----~~~~~~~~-----~---------~~~-~---------~r~~~--  107 (198)
T 1qm9_A           76 SKHQNVQ-----------LP---R---EGQE-----DQGLTKDY-----G---------NSP-L---------HRFKK--  107 (198)
T ss_dssp             CCCCSCC-----------CS---S---SSSS-----SSSCEEES-----S---------CCC-T---------TSSSS--
T ss_pred             ecCCCcC-----------CC---C---cCCc-----cccccccc-----c---------CCc-h---------hhccC--
Confidence            6421100           00   0   0000     00000000     0         000 0         00000  


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCC-ce
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFG-TV  347 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG-~V  347 (498)
                                  +                   ...        ........+.++||+|||..+++++|+++|++|| .|
T Consensus       108 ------------~-------------------~~~--------~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v  148 (198)
T 1qm9_A          108 ------------P-------------------GSK--------NFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVV  148 (198)
T ss_dssp             ------------C-------------------CCC--------CCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCC
T ss_pred             ------------c-------------------ccc--------ccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCc
Confidence                        0                   000        0000112345789999999999999999999999 99


Q ss_pred             EEEEeec-CCceEEEEeCCHHHHHHHHHHHhhcccCCeEec-CeEEEEEEcC
Q 043731          348 KFIDFKI-GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVK-NFIAVLEPVT  397 (498)
Q Consensus       348 ~~V~~~~-g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~-g~~~~v~~~~  397 (498)
                      ..|.+.+ +++.|||+|.++++|.+|+..++     |..++ |+.|.|..+.
T Consensus       149 ~~v~i~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~g~~l~v~~a~  195 (198)
T 1qm9_A          149 KGFKFFQKDRKMALIQMGSVEEAVQALIDLH-----NHDLGENHHLRVSFSK  195 (198)
T ss_dssp             CEEEESSTTSSCEEEECSSHHHHHHHHHHHT-----SSCCSSCCSCCEEEEC
T ss_pred             eEEEEEeCCCcEEEEEeCCHHHHHHHHHHhc-----CCccCCCCeEEEEeec
Confidence            9999854 77889999999999999999984     88899 9999888764

>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=99.88  E-value=6.1e-22  Score=197.03  Aligned_cols=165  Identities=18%  Similarity=0.194  Sum_probs=131.8

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCC-ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHV-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G-~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+++|+++|+++|++|| .|..|+|+++..  +.++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~--~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  193 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF--NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKV  193 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC---------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCC--CCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            468999999999999999999999999 999999998864  56899999999999999999994  8889999999876


Q ss_pred             cchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCC
Q 043731          189 KKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSS  268 (498)
Q Consensus       189 k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~  268 (498)
                      ......                 .   ...                    .                             
T Consensus       194 a~~~~~-----------------~---~~~--------------------~-----------------------------  204 (292)
T 2ghp_A          194 SNPLEK-----------------S---KRT--------------------D-----------------------------  204 (292)
T ss_dssp             CCCC----------------------------------------------------------------------------
T ss_pred             CCCCcc-----------------c---ccc--------------------c-----------------------------
Confidence            531000                 0   000                    0                             


Q ss_pred             chhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCcc-ccHHHHHHHhccCCce
Q 043731          269 DNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDV-VMREDLKSVFHKFGTV  347 (498)
Q Consensus       269 ~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~-vt~EdLke~F~~fG~V  347 (498)
                                                                    ........+||+|||.. +++++|+++|++||.|
T Consensus       205 ----------------------------------------------~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v  238 (292)
T 2ghp_A          205 ----------------------------------------------SATLEGREIMIRNLSTELLDENLLRESFEGFGSI  238 (292)
T ss_dssp             ------------------------------------------------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCE
T ss_pred             ----------------------------------------------ccCCCCceEEEECCCcccCCHHHHHHHHhccCCe
Confidence                                                          00011236899999999 9999999999999999


Q ss_pred             EEEEeecCC-------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          348 KFIDFKIGA-------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       348 ~~V~~~~g~-------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ..|.+.++.       +.|||+|.++++|.+|+ .+   |  |..|+|+.|.|..+..+
T Consensus       239 ~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l---~--g~~~~g~~i~V~~a~~k  291 (292)
T 2ghp_A          239 EKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QM---N--RSLLGNREISVSLADKK  291 (292)
T ss_dssp             EEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GG---T--TEEETTEEEEEEECCCC
T ss_pred             eEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-Hh---c--CCEECCcEEEEEEecCC
Confidence            999997653       45999999999999999 77   4  99999999999998754

>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=99.87  E-value=9.9e-22  Score=193.69  Aligned_cols=152  Identities=20%  Similarity=0.227  Sum_probs=130.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|.+       .+|||||+|.++++|.+|+..  +..+.|+.|.|.
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 YTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR-------DRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIR   91 (261)
T ss_dssp             SCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET-------TTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC-------CCcEEEEEECCHHHHHHHHHHcCCcEECCceeEee
Confidence            35678999999999999999999999999999999864       369999999999999999984  788899888865


Q ss_pred             ecchhHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCC
Q 043731          188 PKKEFEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDS  267 (498)
Q Consensus       188 ~k~d~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~  267 (498)
                      +...                                                                            
T Consensus        92 ~a~~----------------------------------------------------------------------------   95 (261)
T 3sde_A           92 FATH----------------------------------------------------------------------------   95 (261)
T ss_dssp             ECCC----------------------------------------------------------------------------
T ss_pred             eccc----------------------------------------------------------------------------
Confidence            5310                                                                            


Q ss_pred             CchhhhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCce
Q 043731          268 SDNAAAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTV  347 (498)
Q Consensus       268 ~~~~~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V  347 (498)
                                                                          ...+||+|||..+|+++|+++|++||.|
T Consensus        96 ----------------------------------------------------~~~l~v~nl~~~~t~~~l~~~F~~~G~i  123 (261)
T 3sde_A           96 ----------------------------------------------------GAALTVKNLSPVVSNELLEQAFSQFGPV  123 (261)
T ss_dssp             ----------------------------------------------------SSEEEEESCCTTCCHHHHHHHHGGGSCE
T ss_pred             ----------------------------------------------------CCcccccCCCCCCCHHHHHHHHHhcCCe
Confidence                                                                1146999999999999999999999999


Q ss_pred             EEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEec---CeEEEEEEcCChh
Q 043731          348 KFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK---NFIAVLEPVTGEA  400 (498)
Q Consensus       348 ~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~---g~~~~v~~~~g~~  400 (498)
                      ..|.+.++     .+.|||+|.++++|.+|+..++  +  |..+.   ++.+.|..+....
T Consensus       124 ~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~--~--~~~~~~~~~r~i~v~~~~~~~  180 (261)
T 3sde_A          124 EKAVVVVDDRGRATGKGFVEFAAKPPARKALERCG--D--GAFLLTTTPRPVIVEPMEQFD  180 (261)
T ss_dssp             EEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHH--H--SCEESSSSCCBCEEEECCCEE
T ss_pred             EEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhc--C--CeEEecCCCceEEEeeccccC
Confidence            99998765     4569999999999999999984  2  55555   8999999987653

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=1.2e-19  Score=159.48  Aligned_cols=92  Identities=32%  Similarity=0.476  Sum_probs=85.8

Q ss_pred             cceeeeccCCCcc-ccHHHHHHHhccCCceEEEEeecCCceEEEEeCC-HHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMDV-VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEE-PEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~-vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~-~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +++.|+|+||+.. +++++|+++|++||+|.||+|.+|..+|||+|.+ +++|++|+.++   |++|++|+|..+++++|
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~l---n~~~~~i~g~~~~~evL   93 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDA---NNGNLQLRNKEVTWEVL   93 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHT---TTSCBCTTSSSEEEEEC
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCChHHHHHHHHHh---hcCCcEEeCcEEEEEEC
Confidence            4567899999999 9999999999999999999999999999999999 78999999987   79999999999999999


Q ss_pred             CChhHHHHHHHHhhhhh
Q 043731          397 TGEAEKEYWSLLRGNQE  413 (498)
Q Consensus       397 ~g~~E~e~~~~~~~~~~  413 (498)
                      +|++|++||+++.+.++
T Consensus        94 ~GeeE~~yw~Ki~ed~~  110 (121)
T 1owx_A           94 EGEVEKEALKKIIEDQQ  110 (121)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            99999999999887443

>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=99.70  E-value=2.3e-17  Score=162.41  Aligned_cols=123  Identities=17%  Similarity=0.147  Sum_probs=114.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ...+|||+|||..+|+++|+++|++||.|..|.+.++++.|||.|.++++|.+|+..++     |..|.|+.+.|..+..
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~-----g~~i~g~~l~v~~a~~   95 (261)
T 3sde_A           21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELD-----GTILKSRPLRIRFATH   95 (261)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCCCcEEEEEECCHHHHHHHHHHcC-----CcEECCceeEeeeccc
Confidence            44589999999999999999999999999999999999999999999999999999884     8999999999998863


Q ss_pred             hhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          399 EAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       399 ~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                                        +.++++.||......+.++++|+.+|.|.++++ ++|+.|.|+|+|||.
T Consensus        96 ------------------~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i-~~~~~g~~~g~afV~  143 (261)
T 3sde_A           96 ------------------GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVV-VVDDRGRATGKGFVE  143 (261)
T ss_dssp             ------------------SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEE-EEETTSCEEEEEEEE
T ss_pred             ------------------CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEe-eeCCCCCcCcEEEEE
Confidence                              568999999999999999999999999999999 777899999999996

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

Probab=99.70  E-value=1.4e-17  Score=142.33  Aligned_cols=87  Identities=18%  Similarity=0.384  Sum_probs=79.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||+|.+|+|+++..  +.++|||||+|.++++|.+|+.. +..++|+.|.|.+
T Consensus         8 ~~~~~~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            8 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH--KAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILF   85 (103)
T ss_dssp             CSGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT--TSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEE
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC--CCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEE
Confidence            45679999999999999999999999999999999999875  77999999999999999999996 7889999999999


Q ss_pred             cchhHHHHHH
Q 043731          189 KKEFEAERAK  198 (498)
Q Consensus       189 k~d~~~~k~~  198 (498)
                      +.+|..++..
T Consensus        86 ~~~~~~~k~~   95 (103)
T 1s79_A           86 KDDYFAKKNE   95 (103)
T ss_dssp             HHHHHHHHHC
T ss_pred             chHHHHHHHH
Confidence            9998876543

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

Probab=99.70  E-value=3.2e-17  Score=156.51  Aligned_cols=129  Identities=16%  Similarity=0.014  Sum_probs=111.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+|+++|+++|++||+|..|.+.++.      +.|||+|.++++|.+|++.+.     +..+.|+.+.+
T Consensus        15 ~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~-----~~~~~g~~i~~   89 (213)
T 4f02_A           15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMN-----FDVIKGKPVRI   89 (213)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhh-----hhhcCCccccc
Confidence            4579999999999999999999999999999998643      469999999999999999874     89999999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ...........          -...++++.||......+.|+++|+.+|.|.+|++ ++|. +-++|+|||.
T Consensus        90 ~~~~~~~~~~~----------~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i-~~d~-~~~~g~~fV~  149 (213)
T 4f02_A           90 MWSQRDPSLRK----------SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKV-VCDE-NGSKGYGFVH  149 (213)
T ss_dssp             EECCCCTHHHH----------HCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEE-EEET-TEEEEEEEEE
T ss_pred             ccccccccccc----------cccccceECCcccccHHHHHHHHHhhcCCeEEEEe-eccC-CCCceEEEEE
Confidence            98866443221          13457999999999999999999999999999999 6775 5599999996

>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=99.70  E-value=5.1e-17  Score=146.63  Aligned_cols=128  Identities=16%  Similarity=0.218  Sum_probs=113.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|.+|++.++     |..+.|+.+.|.
T Consensus         3 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~-----~~~~~g~~l~v~   77 (167)
T 1fxl_A            3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLN-----GLRLQTKTIKVS   77 (167)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcC-----CCccCCceEEEE
Confidence            368999999999999999999999999999998766      679999999999999999884     899999999999


Q ss_pred             EcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          395 PVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       395 ~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      .+....+            .....++++.||......+.++++|+.+|.|..+++......|.++|++||.
T Consensus        78 ~~~~~~~------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~  136 (167)
T 1fxl_A           78 YARPSSA------------SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIR  136 (167)
T ss_dssp             ECCCCCG------------GGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEE
T ss_pred             ecCCCcc------------cCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEE
Confidence            9875432            2346779999999999999999999999999999995444589999999996

>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=99.69  E-value=3.7e-17  Score=148.22  Aligned_cols=125  Identities=14%  Similarity=0.147  Sum_probs=110.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+|+++|+++|++||.|..|.+.++.      +.|||.|.++++|++|+..       +..++|+.+.+.
T Consensus         4 ~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-------~~~~~g~~i~v~   76 (167)
T 2cjk_A            4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-------QHILDGKVIDPK   76 (167)
T ss_dssp             GEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS-------CCEETTEECCCE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc-------ccccCCeEcccc
Confidence            478999999999999999999999999999988653      5799999999999999873       678999999999


Q ss_pred             EcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeecc-CCCCCCCccccc
Q 043731          395 PVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHE-KPGISSGTSFVR  465 (498)
Q Consensus       395 ~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  465 (498)
                      .+....+..            ...++|+.||......+.++++|+.+|.|.++++ ++| ..|.|+|+|||.
T Consensus        77 ~~~~~~~~~------------~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i-~~~~~~g~~~g~afV~  135 (167)
T 2cjk_A           77 RAIPRDEQD------------KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQL-MLDKDTGQSRGFGFVT  135 (167)
T ss_dssp             ECCCHHHHH------------HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEEC-CCSSSSSTTSEEEEEE
T ss_pred             cccchhhcc------------CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEE-EEcCCCCccceEEEEE
Confidence            988765432            3557999999999999999999999999999999 565 479999999986

>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=99.69  E-value=2.6e-17  Score=149.92  Aligned_cols=129  Identities=17%  Similarity=0.194  Sum_probs=109.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC--------CceEEEEeCCHHHHHHHHHHHhhcccCCeEec---C
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG--------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK---N  388 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g--------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~---g  388 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++        .+.|||+|.++++|++|++.++     |..+.   +
T Consensus         3 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----~~~~~~~~~   77 (175)
T 3nmr_A            3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH-----NMKVLPGMH   77 (175)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHT-----TTCCCTTCS
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhc-----CcEEccCCc
Confidence            357899999999999999999999999999998743        4569999999999999999884     44443   5


Q ss_pred             eEEEEEEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          389 FIAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       389 ~~~~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      +.+.+.......           .......++++.||......+.++++|+.+|.|.++++ ++|+.|.++|+|||.
T Consensus        78 ~~~~~~~~~~~~-----------~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~-~~~~~g~~~g~afV~  142 (175)
T 3nmr_A           78 HPIQMKPADSEK-----------NNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRI-LRGPDGLSRGCAFVT  142 (175)
T ss_dssp             SCCEEEECGGGC-----------CSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEE-EECTTSCEEEEEEEE
T ss_pred             cceEEccccccc-----------cccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEE-EECCCCCEEEEEEEE
Confidence            677777664322           22345678999999999999999999999999999999 888889999999996

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

Probab=99.69  E-value=4.4e-17  Score=146.90  Aligned_cols=129  Identities=14%  Similarity=0.135  Sum_probs=112.6

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +|||+|||..+|+++|+++|++||.|..|.+.++.     +.|||+|.++++|.+|++.++     |..+.|+.+.+..+
T Consensus         2 ~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----~~~~~g~~i~v~~~   76 (166)
T 3md3_A            2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN-----GKQIENNIVKINWA   76 (166)
T ss_dssp             EEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEEC
T ss_pred             EEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcC-----CCccCCCeeEEEEc
Confidence            57999999999999999999999999999997654     469999999999999998884     99999999999998


Q ss_pred             CChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          397 TGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       397 ~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      .....          .......++++.||......+.++++|+.+|.|.++++......|.++|+|||.
T Consensus        77 ~~~~~----------~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~  135 (166)
T 3md3_A           77 FQSQQ----------SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVS  135 (166)
T ss_dssp             CCCCC----------CCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEE
T ss_pred             CCCCC----------CCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEE
Confidence            65432          223346789999999999999999999999999999994444679999999996

>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=99.68  E-value=7.9e-17  Score=145.97  Aligned_cols=127  Identities=16%  Similarity=0.154  Sum_probs=112.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.+.     |..+.|+.+.|.
T Consensus         4 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~-----~~~~~g~~l~v~   78 (168)
T 1b7f_A            4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLN-----GITVRNKRLKVS   78 (168)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcC-----CCEeCCcEEEEE
Confidence            478999999999999999999999999999987653      579999999999999999874     899999999999


Q ss_pred             EcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccC-CCCCCCccccc
Q 043731          395 PVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEK-PGISSGTSFVR  465 (498)
Q Consensus       395 ~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  465 (498)
                      .+....+            .......++.||......+.++++|+.+|.|.++++ ++++ .|.++|++||.
T Consensus        79 ~~~~~~~------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i-~~~~~~~~~~g~afV~  137 (168)
T 1b7f_A           79 YARPGGE------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNI-LRDKLTGRPRGVAFVR  137 (168)
T ss_dssp             ECCCCSS------------TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEE-EECTTTCCEEEEEEEE
T ss_pred             ecCCCcc------------cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEE-EEcCCCCCcceEEEEE
Confidence            8865432            234678999999999999999999999999999999 5554 89999999995

>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=99.68  E-value=6.4e-17  Score=154.50  Aligned_cols=140  Identities=10%  Similarity=-0.040  Sum_probs=110.4

Q ss_pred             ceeeeccCCC-ccccHHHHHHHhccCCceEEEEeecC-CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNM-DVVMREDLKSVFHKFGTVKFIDFKIG-AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~-~~vt~EdLke~F~~fG~V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ++++||+||| +.+++++|+++|++||.|..|.+.++ ++.|||+|.++++|++|++.|+     |..|.|+.|.|..+.
T Consensus         4 ~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~ln-----g~~~~g~~l~v~~s~   78 (205)
T 3tyt_A            4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLN-----NNFMFGQKMNVCVSK   78 (205)
T ss_dssp             CSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTSTTCEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCCCCEEEEEECCHHHHHHHHHHhC-----CCEECCceEEEEEcc
Confidence            4579999999 89999999999999999999999875 5789999999999999999984     999999999999875


Q ss_pred             Chh--HHH--HHHH-------H-hhhhhcc-------------ccccccchhhhhhhhhhhhhhhcccCCCc--cceeee
Q 043731          398 GEA--EKE--YWSL-------L-RGNQERH-------------RDVKGEEKHLEAENKAASEKMIQQEDAQI--KPGKFE  450 (498)
Q Consensus       398 g~~--E~e--~~~~-------~-~~~~~k~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  450 (498)
                      .+.  +++  .+..       . .....++             ....+|+.||..+..++.|+++|+.+|.|  +++++ 
T Consensus        79 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~-  157 (205)
T 3tyt_A           79 QPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKV-  157 (205)
T ss_dssp             CSCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEE-
T ss_pred             CCccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEE-
Confidence            321  000  0000       0 0000011             12358999999999999999999999999  88887 


Q ss_pred             eccCCCCCCCcccccc
Q 043731          451 QHEKPGISSGTSFVRP  466 (498)
Q Consensus       451 ~~~~~~~~~~~~~~~~  466 (498)
                      +++. |-++|+|||.=
T Consensus       158 ~~~~-~~~~g~gfV~f  172 (205)
T 3tyt_A          158 FSGK-SERSSSGLLEW  172 (205)
T ss_dssp             CSCC-SSSSEEEEEEC
T ss_pred             EcCC-CCCceEEEEEe
Confidence            6665 67789999973

>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=99.67  E-value=1.7e-16  Score=147.62  Aligned_cols=133  Identities=13%  Similarity=0.065  Sum_probs=109.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+|+++|+++|++||.|..|.+.++      .+.|||.|.++++|.+|++.    +  +..|.|+.+.+
T Consensus        13 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~----~--~~~~~g~~l~v   86 (196)
T 1l3k_A           13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA----R--PHKVDGRVVEP   86 (196)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT----C--SCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc----C--CCEECCEEeee
Confidence            457999999999999999999999999999998865      34699999999999999865    3  89999999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeecc-CCCCCCCccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHE-KPGISSGTSFVR  465 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  465 (498)
                      ..+........-      .......++|+.||......+.++++|+.+|.|.++++ ++| ..|.++|+|||.
T Consensus        87 ~~~~~~~~~~~~------~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i-~~~~~~g~~~g~afV~  152 (196)
T 1l3k_A           87 KRAVSREDSQRP------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEI-MTDRGSGKKRGFAFVT  152 (196)
T ss_dssp             EECCC-----------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEE-EECTTTCCEEEEEEEE
T ss_pred             ecccCccccccc------ccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEE-eecCCCCCccceEEEE
Confidence            998775443211      11123467999999999999999999999999999999 555 479999999996

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

Probab=99.66  E-value=2e-16  Score=149.30  Aligned_cols=140  Identities=14%  Similarity=0.122  Sum_probs=115.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+|+++|+++|++||.|..|.+.++      .+.|||.|.++++|.+|++.++     |..|.|+.|.|
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----~~~~~g~~l~v  102 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN-----SVMLGGRNIKV  102 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHS-----SCCCC-CCCEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHcc-----CCeeCCeeEEE
Confidence            347999999999999999999999999999998753      5679999999999999999884     89999999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ..........-..... .........+++.||......+.++++|+.+|.|..+++......|.++|++||.
T Consensus       103 ~~~~~~~~~~~~~~~~-~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~  173 (216)
T 2qfj_A          103 GRPSNIGQAQPIIDQL-AEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIE  173 (216)
T ss_dssp             ECCSCCGGGHHHHHHH-HHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEE
T ss_pred             ecCCCccccchhhhhh-hcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEE
Confidence            9887665443221111 1122346789999999999999999999999999999994443579999999995

>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=99.66  E-value=2.4e-16  Score=133.43  Aligned_cols=79  Identities=18%  Similarity=0.320  Sum_probs=73.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .+.++|||+|||+++|+++|+++|++||+|.+|+|++++. ++.++|||||+|.++++|.+|++.  +..++|++|.|.+
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~-tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~   95 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKV-AGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSY   95 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSS-SCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCC-CCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            4578999999999999999999999999999999999875 678999999999999999999984  8999999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        96 Ak   97 (99)
T 4fxv_A           96 AR   97 (99)
T ss_dssp             CC
T ss_pred             ee
Confidence            64

>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=99.65  E-value=7.7e-17  Score=146.80  Aligned_cols=126  Identities=13%  Similarity=0.074  Sum_probs=111.5

Q ss_pred             eeeeccCCCccccHHHHHHHhccC----C-------ceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKF----G-------TVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF  389 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~f----G-------~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~  389 (498)
                      .+|||+|||..+|+++|+++|++|    |       .|..+.+.++++.|||+|.++++|++|+ .+   +  |..|.|+
T Consensus         5 ~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~-~~---~--~~~~~g~   78 (172)
T 2g4b_A            5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AF---D--GIIFQGQ   78 (172)
T ss_dssp             GEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHG-GG---T--TCEETTE
T ss_pred             cEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHH-Hh---C--CcEecCc
Confidence            478999999999999999999999    7       8899999999999999999999999998 55   4  8999999


Q ss_pred             EEEEEEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccC-CCCCCCccccc
Q 043731          390 IAVLEPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEK-PGISSGTSFVR  465 (498)
Q Consensus       390 ~~~v~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  465 (498)
                      .+.+.......            ..-...++++.||......+.++++|+.+|.|.++.+ ++|+ .|.++|+|||.
T Consensus        79 ~i~v~~~~~~~------------~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i-~~~~~~g~~~g~afV~  142 (172)
T 2g4b_A           79 SLKIRRPHDYQ------------PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL-VKDSATGLSKGYAFCE  142 (172)
T ss_dssp             ECEEECCSSCC------------CCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEE-EECTTTCSEEEEEEEE
T ss_pred             eeeecCCcccC------------CCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEE-EecCCCCCcceEEEEE
Confidence            99998765432            1122678999999999999999999999999999999 6664 89999999995

>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=99.65  E-value=2.5e-16  Score=136.48  Aligned_cols=75  Identities=16%  Similarity=0.231  Sum_probs=68.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ...+|||+|||+++|+++|+++|++||.|.+|+|+++.   +.++|||||+|.++++|++|++.  +..++|+.|.|.+.
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~---~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a   80 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE---NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   80 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEET---TEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecC---CCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            35789999999999999999999999999999999885   34789999999999999999984  88999999998765

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

Probab=99.64  E-value=2.3e-16  Score=131.32  Aligned_cols=77  Identities=21%  Similarity=0.284  Sum_probs=70.2

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCC-ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh---CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHV-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G-~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~---~~~~~G~~l~v~~  188 (498)
                      +++|||+|||+++|+++|+++|++|| +|.+|+|++++. ++.++|||||+|.++++|.+|++.   +..++|++|.|.+
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~-t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~   79 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKS-SGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHY   79 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSS-SCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCC-CCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEE
Confidence            37899999999999999999999999 899999999876 678999999999999999999974   4569999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        80 a~   81 (91)
T 2lxi_A           80 SD   81 (91)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

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

Probab=99.61  E-value=1.3e-15  Score=128.31  Aligned_cols=79  Identities=20%  Similarity=0.240  Sum_probs=70.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc--eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--C----CeeCCe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK--VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--G----LFYAGV  182 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~--V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~----~~~~G~  182 (498)
                      ..-.||||+|||+++|+++|+++|++||.  |.+|+|++++. +++++|||||+|.++++|.+|++.  +    ..++|+
T Consensus         7 ~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~-tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr   85 (95)
T 2lkz_A            7 HHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQ-TQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGK   85 (95)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSS-SSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTE
T ss_pred             CccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCC-CCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCE
Confidence            34679999999999999999999999995  67999999986 688999999999999999999984  3    369999


Q ss_pred             EEEEeecc
Q 043731          183 ELHLKPKK  190 (498)
Q Consensus       183 ~l~v~~k~  190 (498)
                      +|.|.+++
T Consensus        86 ~i~V~~Ak   93 (95)
T 2lkz_A           86 TIGVDFAK   93 (95)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEcc
Confidence            99998875

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

Probab=99.60  E-value=3e-15  Score=129.19  Aligned_cols=80  Identities=16%  Similarity=0.211  Sum_probs=73.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. +++++|||||+|.+.++|++|++.  +..++|+.|.|.+
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~-tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~   82 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPR-TRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQL   82 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCC-CCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            3568999999999999999999999999999999999875 678999999999999999999984  8899999999988


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      ...
T Consensus        83 a~~   85 (110)
T 3s8s_A           83 DIK   85 (110)
T ss_dssp             CST
T ss_pred             CCC
Confidence            753

>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=99.60  E-value=2.5e-15  Score=122.89  Aligned_cols=78  Identities=21%  Similarity=0.271  Sum_probs=71.7

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|.+|++. +..++|+.|.|.+
T Consensus         8 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v~~   86 (87)
T 3s7r_A            8 EEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPN-TGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKK   86 (87)
T ss_dssp             CSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-TCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCC-CCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEe
Confidence            35679999999999999999999999999999999998865 678999999999999999999985 7789999999875

>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=99.59  E-value=3.3e-15  Score=121.29  Aligned_cols=78  Identities=18%  Similarity=0.244  Sum_probs=72.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|+|||+|.++++|.+|+..  +..++|+.|.|.+
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   83 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYE-TEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   83 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETT-TTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCC-CCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            4579999999999999999999999999999999998865 677899999999999999999974  8899999999987


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      +
T Consensus        84 a   84 (85)
T 3mdf_A           84 A   84 (85)
T ss_dssp             C
T ss_pred             c
Confidence            5

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

Probab=99.58  E-value=2.9e-15  Score=139.37  Aligned_cols=138  Identities=12%  Similarity=0.046  Sum_probs=112.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccC----C-------ceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKF----G-------TVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF  389 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~f----G-------~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~  389 (498)
                      .+|||+|||..+++++|+++|++|    |       .|..+.+.++++.|||.|.++++|++|+ .+   |  |..|.|+
T Consensus         5 ~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al-~l---~--g~~~~g~   78 (198)
T 2yh0_A            5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AF---D--GIIFQGQ   78 (198)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHG-GG---T--TEEETTE
T ss_pred             eEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHH-Hh---c--CCEEcCc
Confidence            478999999999999999999999    6       7888889999999999999999999999 65   4  9999999


Q ss_pred             EEEEEEcCChhHHHHHH--------HHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccC-CCCCCC
Q 043731          390 IAVLEPVTGEAEKEYWS--------LLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEK-PGISSG  460 (498)
Q Consensus       390 ~~~v~~~~g~~E~e~~~--------~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  460 (498)
                      .|.|..+.......-..        ............++++.||......+.++++|+.+|.|.++++ ++|+ .|.++|
T Consensus        79 ~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~-~~~~~~~~~~g  157 (198)
T 2yh0_A           79 SLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL-VKDSATGLSKG  157 (198)
T ss_dssp             EEEEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEE-EECTTTCSEEE
T ss_pred             eEEEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEE-eecCCCCCcce
Confidence            99999875531100000        0000111134578999999999999999999999999999999 6664 899999


Q ss_pred             ccccc
Q 043731          461 TSFVR  465 (498)
Q Consensus       461 ~~~~~  465 (498)
                      ++||.
T Consensus       158 ~afV~  162 (198)
T 2yh0_A          158 YAFCE  162 (198)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            99995

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

Probab=99.57  E-value=3.6e-15  Score=125.98  Aligned_cols=79  Identities=23%  Similarity=0.249  Sum_probs=73.0

Q ss_pred             ccceEEeccCCC------CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC-e
Q 043731          112 DVRTIAATPLEY------DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG-V  182 (498)
Q Consensus       112 ~~rtV~V~nLp~------~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G-~  182 (498)
                      ..++|||+|||+      ++++++|+++|++||.|..|+|+++.. +++++|||||+|.++++|++|++.  +..++| +
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~-tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r   83 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEA-TGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH   83 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETT-TTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCC-CCccceEEEEEECCHHHHHHHHHHhCCcccCCCe
Confidence            368999999999      999999999999999999999999875 688999999999999999999984  889999 9


Q ss_pred             EEEEeecch
Q 043731          183 ELHLKPKKE  191 (498)
Q Consensus       183 ~l~v~~k~d  191 (498)
                      .|.|.+..+
T Consensus        84 ~l~V~~a~~   92 (100)
T 3ns6_A           84 RLFLYTMKD   92 (100)
T ss_dssp             BCEEEESHH
T ss_pred             EEEEEECch
Confidence            999998754

>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=99.57  E-value=6.7e-15  Score=119.99  Aligned_cols=78  Identities=17%  Similarity=0.269  Sum_probs=71.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||.++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMA-TGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   83 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEec
Confidence            468999999999999999999999999999999998865 577999999999999999999994  88899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        84 ~   84 (87)
T 3bs9_A           84 T   84 (87)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.56  E-value=9.8e-15  Score=120.88  Aligned_cols=78  Identities=19%  Similarity=0.221  Sum_probs=71.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|.+|++.  +..++|+.|.|.+
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKD-TRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSS-SCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCC-CCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            4578999999999999999999999999999999999875 577899999999999999999974  7889999999987


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      +
T Consensus        93 a   93 (94)
T 2e5h_A           93 A   93 (94)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=99.56  E-value=5.1e-15  Score=121.25  Aligned_cols=79  Identities=28%  Similarity=0.379  Sum_probs=72.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      .+.++|||+|||+++|+++|+++|++||.|..|+++++.. ++.++|+|||+|.++++|.+|+.. +..++|+.|.|.++
T Consensus         4 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V~~a   82 (89)
T 3ucg_A            4 ADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKF-SGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPK   82 (89)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCS-SSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEET
T ss_pred             CcCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCC-CCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEEc
Confidence            4579999999999999999999999999999999998865 577899999999999999999953 88899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (89)
T 3ucg_A           83 R   83 (89)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.56  E-value=1.1e-14  Score=117.77  Aligned_cols=76  Identities=16%  Similarity=0.208  Sum_probs=70.6

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .+|||+|||+++++++|+++|++||.|..|+++++.. ++.++|+|||+|.++++|++|+..  +..++|+.|.|.+..
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~-~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQ-TGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTT-TCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCC-CCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            5899999999999999999999999999999998865 577999999999999999999994  889999999998874

>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=99.56  E-value=8.6e-15  Score=123.56  Aligned_cols=79  Identities=18%  Similarity=0.236  Sum_probs=73.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+.++..++|+.|.|.+..
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~~~~~~g~~l~v~~a~   91 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLK-TGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCDCKLPN   91 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSS-SCSEEEEEEEEESSHHHHHHHHHSCEEETTEEEEEECCC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCC-CCCccceEEEEECCHHHHHHHHHcCCeeCCeEEEEEecC
Confidence            4578999999999999999999999999999999998865 578999999999999999999998888999999998874

>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=99.56  E-value=1.1e-14  Score=121.80  Aligned_cols=79  Identities=24%  Similarity=0.346  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   84 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSL-TKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLP   84 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTT-TCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCC-CCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            4678999999999999999999999999999999999874 577899999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        85 a~   86 (99)
T 1whw_A           85 ST   86 (99)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

>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=99.55  E-value=1.5e-14  Score=120.67  Aligned_cols=77  Identities=18%  Similarity=0.182  Sum_probs=71.6

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||.++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..++|+.|.|.++.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQ-TGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTT-TCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCC-CCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            58999999999999999999999999999999998865 577899999999999999999984  889999999998874

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

Probab=99.55  E-value=1.2e-14  Score=124.80  Aligned_cols=80  Identities=16%  Similarity=0.172  Sum_probs=71.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+.. +..++|+.|.|.+
T Consensus        22 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~  100 (109)
T 2rs2_A           22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPL-TKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKV  100 (109)
T ss_dssp             ----CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTT-TCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCC-CCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEE
Confidence            45679999999999999999999999999999999999875 578999999999999999999996 7889999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       101 a~  102 (109)
T 2rs2_A          101 AF  102 (109)
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=99.55  E-value=6.1e-15  Score=117.20  Aligned_cols=73  Identities=23%  Similarity=0.206  Sum_probs=67.7

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      +|||+|||+++|+++|+++|++||.|..|++++++. ++.++|||||+|.++++|++|++. +..++|+.|.|.+
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~   74 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKT-TNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSS-STTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEEC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEe
Confidence            589999999999999999999999999999998875 577999999999999999999985 7889999999875

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

Probab=99.55  E-value=1.2e-14  Score=120.35  Aligned_cols=79  Identities=16%  Similarity=0.201  Sum_probs=72.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|+|||+|.++++|.+|+..  +..++|+.|.|.+
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQ-SRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG   91 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSS-SSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            3468999999999999999999999999999999998875 577899999999999999999994  7889999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        92 a~   93 (95)
T 2cqc_A           92 PS   93 (95)
T ss_dssp             CS
T ss_pred             cC
Confidence            64

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

Probab=99.55  E-value=1.4e-14  Score=121.38  Aligned_cols=79  Identities=14%  Similarity=0.182  Sum_probs=72.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||.++++++|+++|++||.|..|+|++++. ++.++|||||+|.+.++|++|++. +..++|+.|.|.+.
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAE-KQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTT-TCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCC-CCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            4579999999999999999999999999999999998875 577899999999999999999985 78899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        87 ~   87 (99)
T 2dgs_A           87 E   87 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.55  E-value=1.2e-14  Score=120.77  Aligned_cols=78  Identities=13%  Similarity=0.160  Sum_probs=72.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeE-EcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSV-RLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~V-ri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+++|+++|+++|++||.|..| +|++++. ++.++|||||+|.++++|++|+..  +..++|+.|.|.+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   82 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPD-TGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   82 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTT-TCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCC-CCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            56899999999999999999999999999999 9998865 577899999999999999999994  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        83 a~   84 (96)
T 1x5t_A           83 AF   84 (96)
T ss_dssp             SC
T ss_pred             ec
Confidence            74

>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=99.54  E-value=1.1e-14  Score=118.72  Aligned_cols=79  Identities=24%  Similarity=0.340  Sum_probs=71.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++....+.++|+|||+|.++++|.+|+..  +..++|+.|.|.+.
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            4689999999999999999999999999999999988753344899999999999999999994  89999999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (88)
T 4a8x_A           83 L   83 (88)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.54  E-value=4.8e-15  Score=118.10  Aligned_cols=75  Identities=17%  Similarity=0.224  Sum_probs=68.9

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ++|||+|||+++++++|+++|++||.|..|++++++. ++.++|+|||+|.++++|++|+.. ...++|++|.|.++
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 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPL-TKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCC-SSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCC-CCCcCceEEEEEcCHHHHHHHHHhCCCccCCEEEEEEec
Confidence            5899999999999999999999999999999998875 577999999999999999999995 67899999998764

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.54  E-value=4.5e-15  Score=122.65  Aligned_cols=77  Identities=14%  Similarity=0.150  Sum_probs=67.6

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCC--ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHV--KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G--~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      .+|||+|||+++|+++|+++|++||  .|..|+|++++. +++++|||||+|.+.++|++|++.  +..++|+.|.|.+.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~-~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~   80 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRA-NGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPS   80 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTT-TCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCC-CCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEEC
Confidence            5899999999999999999999999  999999999875 678999999999999999999974  78999999999887


Q ss_pred             ch
Q 043731          190 KE  191 (498)
Q Consensus       190 ~d  191 (498)
                      ..
T Consensus        81 ~~   82 (90)
T 3p5t_L           81 NK   82 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            53

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

Probab=99.54  E-value=1.3e-14  Score=122.54  Aligned_cols=80  Identities=25%  Similarity=0.338  Sum_probs=73.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   90 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKT-TGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVE   90 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSS-SCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCC-CCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            34579999999999999999999999999999999998865 577999999999999999999994  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        91 ~a~   93 (103)
T 2cq0_A           91 WAK   93 (103)
T ss_dssp             ESS
T ss_pred             ECC
Confidence            864

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

Probab=99.54  E-value=1.6e-14  Score=119.86  Aligned_cols=78  Identities=19%  Similarity=0.310  Sum_probs=72.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||.++|+++|+++|++||.|..|+|+++.. +++++|||||+|.+.++|.+|+..  +..++|+.|.|.+.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSD-TGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSS-SCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCC-CCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            468999999999999999999999999999999998875 677999999999999999999994  88899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (95)
T 2dnz_A           83 T   83 (95)
T ss_dssp             S
T ss_pred             c
Confidence            4

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

Probab=99.54  E-value=1.6e-14  Score=121.60  Aligned_cols=79  Identities=19%  Similarity=0.255  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|++.  +..++|+.|.|.+
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYE-TEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   88 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSS-SCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCC-CCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEe
Confidence            4578999999999999999999999999999999998865 577999999999999999999974  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        89 a~   90 (102)
T 2cqb_A           89 AK   90 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=99.54  E-value=4.7e-15  Score=117.68  Aligned_cols=73  Identities=22%  Similarity=0.271  Sum_probs=67.6

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      +|||+|||+++|+++|+++|++||.|..|+++++.. ++.++|||||+|.++++|.+|+.. +..++|+.|.|.+
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~   74 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNK-TNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCC-CSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            699999999999999999999999999999998875 577899999999999999999996 7889999998765

>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=99.53  E-value=1.6e-14  Score=132.08  Aligned_cols=126  Identities=17%  Similarity=0.126  Sum_probs=106.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCce-----EEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTV-----KFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V-----~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+|||+|||..+++++|+++|++||.|     ......+.++.|||+|.++++|.+|++ +   +  |..|.|+.|.|
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l---~--g~~~~g~~l~v   85 (175)
T 1fje_B           12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-L---T--GLKVFGNEIKL   85 (175)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-G---G--GEEETTEEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHh-c---C--CCEeCCeEEEE
Confidence            35589999999999999999999999853     444455678899999999999999994 6   4  99999999999


Q ss_pred             EEcCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          394 EPVTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       394 ~~~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      ..+.....          ...-...++++.||......+.++++|+.+|.|..+     ...|.++|+|||.
T Consensus        86 ~~~~~~~~----------~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~-----~~~~~~~g~afV~  142 (175)
T 1fje_B           86 EKPKGRDS----------KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSKGIAYIE  142 (175)
T ss_dssp             ECCCCSSC----------STTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE-----CSSSSCCSEEEEE
T ss_pred             ecCCCccc----------cccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe-----cCCCCCceEEEEE
Confidence            99876432          122346789999999999999999999999998766     5579999999995

>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=99.53  E-value=1.5e-14  Score=124.37  Aligned_cols=80  Identities=26%  Similarity=0.356  Sum_probs=73.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      +...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+.. +..++|+.|.|.+
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~  100 (114)
T 2cq4_A           22 ERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRN-SRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQA  100 (114)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCC-SSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCC-CCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEEe
Confidence            35679999999999999999999999999999999998875 577899999999999999999953 7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       101 a~  102 (114)
T 2cq4_A          101 SQ  102 (114)
T ss_dssp             HH
T ss_pred             cC
Confidence            64

>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=99.53  E-value=2.1e-14  Score=121.45  Aligned_cols=79  Identities=20%  Similarity=0.228  Sum_probs=72.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRV-TGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSS-SCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            4578999999999999999999999999999999999875 577999999999999999999994  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        92 a~   93 (105)
T 1x5u_A           92 AS   93 (105)
T ss_dssp             TT
T ss_pred             CC
Confidence            64

>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=99.53  E-value=1.8e-14  Score=119.48  Aligned_cols=78  Identities=17%  Similarity=0.149  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++..  +.++|||||+|.++++|++|+..  +..++|+.|.|.+
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~--g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   91 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE--GKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSG   91 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT--SCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC--CCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEE
Confidence            4568999999999999999999999999999999998864  67899999999999999999984  8889999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        92 a~   93 (95)
T 2ywk_A           92 PS   93 (95)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>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=99.53  E-value=2.9e-14  Score=121.69  Aligned_cols=80  Identities=14%  Similarity=0.201  Sum_probs=73.3

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.
T Consensus        23 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  101 (110)
T 1oo0_B           23 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRR-TGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD  101 (110)
T ss_dssp             BTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTT-TSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            35678999999999999999999999999999999998875 577999999999999999999984  889999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       102 ~a~  104 (110)
T 1oo0_B          102 WCF  104 (110)
T ss_dssp             ESE
T ss_pred             Ecc
Confidence            864

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

Probab=99.53  E-value=1.6e-14  Score=121.92  Aligned_cols=79  Identities=22%  Similarity=0.334  Sum_probs=72.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   89 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPH-TKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV   89 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSS-SCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEE
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCC-CCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            4579999999999999999999999999999999998875 577999999999999999999994  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        90 a~   91 (103)
T 2dnm_A           90 AR   91 (103)
T ss_dssp             CS
T ss_pred             CC
Confidence            74

>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=99.53  E-value=1.3e-14  Score=125.58  Aligned_cols=103  Identities=16%  Similarity=0.131  Sum_probs=69.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.++    ++.|||+|.++++|++|++.|.     |..|+|+.|.|..+
T Consensus         6 ~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~-----~~~~~g~~i~V~~a   80 (115)
T 4f25_A            6 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN-----GMLLNDRKVFVGRF   80 (115)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEEES
T ss_pred             CEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEEC
Confidence            37999999999999999999999999999998765    3469999999999999999884     89999999999999


Q ss_pred             CChhHHHHHHHHhhhhhccccccccchhhhhhhhhh
Q 043731          397 TGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAA  432 (498)
Q Consensus       397 ~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~  432 (498)
                      ..+.++..-..    ...-...+.|++||......+
T Consensus        81 ~~~~~~~~~~~----~~~~~~~~lyv~Nl~~~~T~~  112 (115)
T 4f25_A           81 KSRKEREAELG----ARAKEFTNVYIKNFGPGSTRA  112 (115)
T ss_dssp             SCCCC-------------------------------
T ss_pred             CCccccccccc----cccCCCCceEeCCCCCCcccc
Confidence            87666542211    111234578999998766544

>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=99.53  E-value=9.9e-14  Score=125.82  Aligned_cols=75  Identities=16%  Similarity=0.154  Sum_probs=67.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..++||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.+.++|++|+..|+     |..|+|+.|.|
T Consensus        70 ~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v  144 (158)
T 2kn4_A           70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMD-----GAVLDGRELRV  144 (158)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHST-----TEESSSSEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEE
Confidence            347899999999999999999999999999998765      3469999999999999999874     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+...
T Consensus       145 ~~a~~~  150 (158)
T 2kn4_A          145 QMARYG  150 (158)
T ss_dssp             EEECCS
T ss_pred             EECCCC
Confidence            998653

>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=99.53  E-value=1e-14  Score=122.97  Aligned_cols=80  Identities=21%  Similarity=0.282  Sum_probs=69.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++++++|+++|++|| |..|+|+++...+++++|||||+|.+.++|.+|+.. +..++|+.|.|.+
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~l~V~~   94 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDV   94 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEe
Confidence            45679999999999999999999999999 999999998733578999999999999999999953 7889999999887


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        95 a~   96 (100)
T 2j76_E           95 AD   96 (100)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

>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=99.52  E-value=1.4e-14  Score=130.78  Aligned_cols=75  Identities=16%  Similarity=0.192  Sum_probs=68.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..++||+|||+.+++++|+++|++||.|..|.+.++ ++.|||+|.++++|.+|+..++     |..|+|+.|.|..+..
T Consensus        73 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~  147 (150)
T 2i2y_A           73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELD-----GRTLCGCRVRVELSNG  147 (150)
T ss_dssp             SCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHS-----SSCSSSSCCEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEEcCC
Confidence            457899999999999999999999999999999887 7899999999999999999884     8899999999998865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      +
T Consensus       148 ~  148 (150)
T 2i2y_A          148 E  148 (150)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.52  E-value=2.3e-14  Score=120.32  Aligned_cols=79  Identities=18%  Similarity=0.292  Sum_probs=72.3

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.  ++.++|||||+|.++++|.+|+..  +..++|+.|.|.
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   91 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR--AGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVA   91 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT--TSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC--CCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3567999999999999999999999999999999999886  467899999999999999999974  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        92 ~a~   94 (100)
T 2do4_A           92 ISN   94 (100)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            864

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

Probab=99.52  E-value=1.8e-14  Score=122.07  Aligned_cols=80  Identities=15%  Similarity=0.221  Sum_probs=73.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.
T Consensus        20 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   98 (106)
T 1p27_B           20 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRR-TGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD   98 (106)
T ss_dssp             BTTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCC-CCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEE
Confidence            35678999999999999999999999999999999998875 678999999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        99 ~a~  101 (106)
T 1p27_B           99 WCF  101 (106)
T ss_dssp             ESE
T ss_pred             eec
Confidence            864

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

Probab=99.52  E-value=2.4e-14  Score=123.22  Aligned_cols=80  Identities=19%  Similarity=0.301  Sum_probs=73.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   90 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMA-TGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   90 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC-CCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            35679999999999999999999999999999999998865 577999999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        91 ~a~   93 (115)
T 2dgo_A           91 WAT   93 (115)
T ss_dssp             ESS
T ss_pred             Ecc
Confidence            874

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

Probab=99.52  E-value=3.4e-14  Score=122.54  Aligned_cols=80  Identities=11%  Similarity=0.162  Sum_probs=73.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      +...++|||+|||+++|+++|+++|++||.|..|+|++++. +++++|||||+|.+.++|++|+.. ...++|+.|.|.+
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~   92 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQ-TGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNL   92 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSS-SCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCC-CCccceEEEEEECCHHHHHHHHHhCCCcCCCEEEEEEE
Confidence            35679999999999999999999999999999999999875 577999999999999999999996 4489999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        93 a~   94 (116)
T 2cqd_A           93 AY   94 (116)
T ss_dssp             ST
T ss_pred             cc
Confidence            74

>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=99.52  E-value=3.5e-14  Score=121.13  Aligned_cols=79  Identities=25%  Similarity=0.329  Sum_probs=72.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--------CCeeCCe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--------GLFYAGV  182 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--------~~~~~G~  182 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..        +..++|+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~   91 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPD-TEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   91 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSS-SCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCE
Confidence            4578999999999999999999999999999999999875 677999999999999999999984        6789999


Q ss_pred             EEEEeecc
Q 043731          183 ELHLKPKK  190 (498)
Q Consensus       183 ~l~v~~k~  190 (498)
                      .|.|.+..
T Consensus        92 ~l~v~~a~   99 (111)
T 1x4h_A           92 QLKVDLAV   99 (111)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEECC
Confidence            99998864

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

Probab=99.52  E-value=2.9e-14  Score=119.11  Aligned_cols=79  Identities=22%  Similarity=0.347  Sum_probs=71.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCC--CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVAD--KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~--~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+++...  ++.++|||||+|.+.++|++|+..  +..++|+.|.|.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            4689999999999999999999999999999999987642  347899999999999999999994  889999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        84 ~a~   86 (98)
T 2cpf_A           84 ISE   86 (98)
T ss_dssp             CSS
T ss_pred             Ecc
Confidence            864

>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=99.52  E-value=3.4e-14  Score=122.26  Aligned_cols=75  Identities=17%  Similarity=0.206  Sum_probs=67.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+++.    .++|||||+|.+.++|.+|+..  +..++|+.|.|.+.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~----~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   82 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP----ETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYY   82 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST----TTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC----CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            46899999999999999999999999999999998763    3589999999999999999994  78899999988776


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (115)
T 3lqv_A           83 N   83 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.52  E-value=1.7e-14  Score=121.43  Aligned_cols=79  Identities=16%  Similarity=0.282  Sum_probs=72.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|.+|++.  +..++|+.|.|.+
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   88 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRE-TQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   88 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSS-SCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            4578999999999999999999999999999999998875 577899999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        89 a~   90 (102)
T 1x5s_A           89 AG   90 (102)
T ss_dssp             EE
T ss_pred             CC
Confidence            64

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

Probab=99.51  E-value=2.2e-14  Score=123.96  Aligned_cols=79  Identities=15%  Similarity=0.143  Sum_probs=72.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|++.  +..++|+.|.|.
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  115 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQ-TSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQ  115 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSS-SSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCC-CCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            35679999999999999999999999999999999998865 577999999999999999999984  888999999988


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      ++
T Consensus       116 ~a  117 (118)
T 2khc_A          116 LK  117 (118)
T ss_dssp             EC
T ss_pred             ec
Confidence            75

>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=99.51  E-value=3e-14  Score=123.00  Aligned_cols=79  Identities=20%  Similarity=0.176  Sum_probs=72.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCce-eeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKV-NSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V-~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.| ..|+|+++.  +++++|||||+|.+.++|++||.. +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~--~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~v~~   90 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN--NGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHV   90 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT--TSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC--CCCcceEEEEEECCHHHHHHHHHhCCCccCCeEEEEEE
Confidence            457899999999999999999999999999 899999986  477999999999999999999986 7889999999988


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      ...
T Consensus        91 a~~   93 (114)
T 2cpy_A           91 VTL   93 (114)
T ss_dssp             ECH
T ss_pred             CCH
Confidence            753

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

Probab=99.51  E-value=2.2e-14  Score=123.81  Aligned_cols=79  Identities=15%  Similarity=0.228  Sum_probs=72.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+.. +..++|+.|.|.+.
T Consensus        25 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a  103 (116)
T 1x4b_A           25 EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPA-SKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRA  103 (116)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTT-TSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-CCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEEEEC
Confidence            4568999999999999999999999999999999999865 577999999999999999999996 77899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus       104 ~  104 (116)
T 1x4b_A          104 V  104 (116)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.51  E-value=1.6e-14  Score=122.38  Aligned_cols=79  Identities=16%  Similarity=0.246  Sum_probs=72.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|++|+.. +..++|+.|.|.+.
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~V~~a   92 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKT-TNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKPC   92 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSS-SCCEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBCCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCC-CCCcceEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEc
Confidence            4679999999999999999999999999999999999865 577999999999999999999995 78899999998776


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        93 ~   93 (105)
T 2dh8_A           93 T   93 (105)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.51  E-value=2.6e-14  Score=119.85  Aligned_cols=78  Identities=21%  Similarity=0.256  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee--------EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS--------VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~--------Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ...++|||+|||+++|+++|+++|++||.|..        |+|++++. +++++|||||+|.+.++|++|++.  +..++
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~-~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRE-TGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTT-TCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCC-CCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            45789999999999999999999999999999        99998865 577999999999999999999984  88899


Q ss_pred             CeEEEEeec
Q 043731          181 GVELHLKPK  189 (498)
Q Consensus       181 G~~l~v~~k  189 (498)
                      |+.|.|.++
T Consensus        90 g~~l~V~~A   98 (99)
T 2la6_A           90 GNPIKVSFA   98 (99)
T ss_dssp             SSBCEEEEC
T ss_pred             CcEEEEEec
Confidence            999998775

>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=99.51  E-value=1.8e-14  Score=121.45  Aligned_cols=80  Identities=20%  Similarity=0.302  Sum_probs=73.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..++|+.|.|.+
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   84 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRE-TGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDN   84 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETT-TTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEE
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCC-CCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEe
Confidence            3569999999999999999999999999999999998865 578999999999999999999984  7889999999998


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      ...
T Consensus        85 a~~   87 (104)
T 1p1t_A           85 AAS   87 (104)
T ss_dssp             TTC
T ss_pred             CCC
Confidence            754

>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=99.51  E-value=2.8e-14  Score=122.94  Aligned_cols=79  Identities=13%  Similarity=0.138  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  101 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ-TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL  101 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSS-SCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-CCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            4568999999999999999999999999999999998875 577999999999999999999974  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       102 a~  103 (115)
T 2cpz_A          102 KR  103 (115)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

>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=99.51  E-value=3.4e-14  Score=140.26  Aligned_cols=136  Identities=14%  Similarity=0.143  Sum_probs=107.4

Q ss_pred             ceeeeccCCCccccHHHHH----HHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLK----SVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLk----e~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.+|||+|||..+++++|+    ++|++||.|..|.+.+   .++.|||+|.++++|.+|++.++     |..|.|+.|.
T Consensus         9 ~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~   83 (282)
T 3pgw_A            9 NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQ-----GFPFYDKPMR   83 (282)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCCCCcceEEEEEECCHHHHHHHHHHhc-----CCeeCCcEEE
Confidence            4579999999999999977    9999999999998775   45789999999999999999884     8999999999


Q ss_pred             EEEcCChhHHH------HHHHHh---h----------h------------------------------------------
Q 043731          393 LEPVTGEAEKE------YWSLLR---G----------N------------------------------------------  411 (498)
Q Consensus       393 v~~~~g~~E~e------~~~~~~---~----------~------------------------------------------  411 (498)
                      |..+..+....      +..+..   .          .                                          
T Consensus        84 v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  163 (282)
T 3pgw_A           84 IQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPY  163 (282)
T ss_pred             EEEeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCC
Confidence            99885543210      000000   0          0                                          


Q ss_pred             --------------------------------------hhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeecc
Q 043731          412 --------------------------------------QERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHE  453 (498)
Q Consensus       412 --------------------------------------~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  453 (498)
                                                            ...-....+++.||......+.++++|+.||.|.++++ +.+
T Consensus       164 ~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~-~~~  242 (282)
T 3pgw_A          164 MPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRL-VPG  242 (282)
T ss_pred             CCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEE-ecC
Confidence                                                  00012355999999999999999999999999999998 555


Q ss_pred             CCCCCCCccccc
Q 043731          454 KPGISSGTSFVR  465 (498)
Q Consensus       454 ~~~~~~~~~~~~  465 (498)
                      .    +|+|||.
T Consensus       243 ~----~g~afV~  250 (282)
T 3pgw_A          243 R----HDIAFVE  250 (282)
T ss_pred             C----CcEEEEE
Confidence            3    6899986

>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=99.51  E-value=2.3e-14  Score=122.83  Aligned_cols=80  Identities=20%  Similarity=0.294  Sum_probs=73.1

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..++|+.|.|.
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  101 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSE-TGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVG  101 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETT-TTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC-CCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34678999999999999999999999999999999998865 678999999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       102 ~a~  104 (108)
T 2jrs_A          102 HVT  104 (108)
T ss_dssp             CSC
T ss_pred             Ecc
Confidence            864

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

Probab=99.51  E-value=4.7e-14  Score=121.00  Aligned_cols=80  Identities=19%  Similarity=0.233  Sum_probs=73.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCcee--------eEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVN--------SVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY  179 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~--------~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~  179 (498)
                      ....++|||+|||+++|+++|+++|++||.|.        .|+|++++. ++.++|||||+|.+.++|++|+..  +..+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   90 (113)
T 2cpe_A           12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKE-TGKPKGDATVSYEDPPTAKAAVEWFDGKDF   90 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTT-TCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCC-CCCeeeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            45679999999999999999999999999999        699998865 577999999999999999999984  8899


Q ss_pred             CCeEEEEeecc
Q 043731          180 AGVELHLKPKK  190 (498)
Q Consensus       180 ~G~~l~v~~k~  190 (498)
                      +|+.|.|.+..
T Consensus        91 ~g~~l~V~~a~  101 (113)
T 2cpe_A           91 QGSKLKVSLAR  101 (113)
T ss_dssp             TTEECEEECSS
T ss_pred             CCCEEEEEECC
Confidence            99999998864

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

Probab=99.51  E-value=4.1e-14  Score=119.89  Aligned_cols=80  Identities=20%  Similarity=0.393  Sum_probs=72.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccc-cCCCCcccceEEEEeCCHHHHHHHHH---hCCeeCCeEEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRH-VADKRLFCGTALIEFSTEEDAEKVLK---QGLFYAGVELH  185 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~-~~~~~~~kG~aFVeF~s~e~A~kAl~---~~~~~~G~~l~  185 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++ .. ++.++|||||+|.+.++|.+|+.   ++..++|+.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~   90 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTG-TGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLV   90 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSS-SCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCC-CCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEE
Confidence            356799999999999999999999999999999999988 43 57789999999999999999998   37889999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.+..
T Consensus        91 v~~a~   95 (107)
T 2cph_A           91 LEWAD   95 (107)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            98874

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

Probab=99.50  E-value=1.6e-14  Score=135.20  Aligned_cols=135  Identities=12%  Similarity=0.082  Sum_probs=106.9

Q ss_pred             eeeeccCCCc-cccHHHHHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          321 SIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       321 ~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+|||+|||. .+++++|+++|++||.|..|.+.++. +.|||+|.++++|++|++.++     |..+.|+.+.|..+..
T Consensus         4 ~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~-----~~~~~g~~l~v~~a~~   78 (198)
T 1qm9_A            4 SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLN-----GHKLHGKPIRITLSKH   78 (198)
T ss_dssp             CEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTCSSCCEEECTTTHHHHHHHHHHT-----TCCCSSCCCEEEECCC
T ss_pred             cEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCeecCeEEEEEEecC
Confidence            4789999999 99999999999999999999998775 679999999999999999884     8999999999998864


Q ss_pred             hhHHHH--HHHHhhhhhcc---------------------ccccccchhhhhhhhhhhhhhhcccCC-CccceeeeeccC
Q 043731          399 EAEKEY--WSLLRGNQERH---------------------RDVKGEEKHLEAENKAASEKMIQQEDA-QIKPGKFEQHEK  454 (498)
Q Consensus       399 ~~E~e~--~~~~~~~~~k~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  454 (498)
                      .....-  ..........|                     ....+++.||......+.++++|+.+| .|.++++ +++ 
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i-~~~-  156 (198)
T 1qm9_A           79 QNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKF-FQK-  156 (198)
T ss_dssp             CSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEE-SST-
T ss_pred             CCcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEE-EeC-
Confidence            321000  00000000000                     145588999999999999999999999 9999988 444 


Q ss_pred             CCCCCCccccc
Q 043731          455 PGISSGTSFVR  465 (498)
Q Consensus       455 ~~~~~~~~~~~  465 (498)
                         ++|+|||.
T Consensus       157 ---~~g~afV~  164 (198)
T 1qm9_A          157 ---DRKMALIQ  164 (198)
T ss_dssp             ---TSSCEEEE
T ss_pred             ---CCcEEEEE
Confidence               37999996

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

Probab=99.50  E-value=2e-14  Score=116.31  Aligned_cols=71  Identities=14%  Similarity=0.177  Sum_probs=63.7

Q ss_pred             cceEEeccCCCCC------cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCe-E
Q 043731          113 VRTIAATPLEYDV------KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGV-E  183 (498)
Q Consensus       113 ~rtV~V~nLp~~~------t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~-~  183 (498)
                      .++|||+|||+++      |+++|+++|++||.|..|+|++.   +++++|||||+|.++++|.+|+..  +..++|+ +
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 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEE---DGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHT   77 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCB---TTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCC---CCcEeEEEEEEECCHHHHHHHHHHhcCcccCCcee
Confidence            3799999999999      78999999999999999999843   567999999999999999999994  7888888 7


Q ss_pred             EEE
Q 043731          184 LHL  186 (498)
Q Consensus       184 l~v  186 (498)
                      |.|
T Consensus        78 l~V   80 (81)
T 2krb_A           78 FRV   80 (81)
T ss_dssp             CCC
T ss_pred             EEe
Confidence            764

>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=99.50  E-value=6.6e-14  Score=118.42  Aligned_cols=79  Identities=22%  Similarity=0.281  Sum_probs=71.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++|| |..|+|+++....+.++|||||+|.+.++|++|+.. +..++|+.|.|.+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEc
Confidence            3468999999999999999999999999 999999998753277899999999999999999953 88899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        92 ~   92 (104)
T 1wi8_A           92 D   92 (104)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.50  E-value=6.4e-14  Score=119.22  Aligned_cols=78  Identities=18%  Similarity=0.294  Sum_probs=70.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ++.++||+|||+.+|+++|+++|++||.|..|.+.++++.|||+|++.++|.+|+..++   ...+.|+|+.|+|..+..
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln---~~~~~i~Gr~i~V~~S~~   96 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAA---DNQIYIAGHPAFVNYSTS   96 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHH---HSCEEETTEEEEEEECSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhc---CCCceeCCcEEEEEeccc
Confidence            34579999999999999999999999999999999999999999999999999999984   336789999999998865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      +
T Consensus        97 k   97 (100)
T 3r27_A           97 Q   97 (100)
T ss_dssp             S
T ss_pred             c
Confidence            4

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

Probab=99.50  E-value=3.6e-14  Score=123.76  Aligned_cols=81  Identities=21%  Similarity=0.370  Sum_probs=73.6

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEe
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLK  187 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~  187 (498)
                      .....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+.. +..++|+.|.|.
T Consensus        32 ~~~~~~~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           32 KEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKF-SGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVL  110 (124)
T ss_dssp             HHHHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECT-TSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEE
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            345679999999999999999999999999999999998865 577899999999999999999953 788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus       111 ~a~  113 (124)
T 2jwn_A          111 PKR  113 (124)
T ss_dssp             ESS
T ss_pred             ECC
Confidence            874

>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=99.50  E-value=3.2e-14  Score=120.52  Aligned_cols=80  Identities=14%  Similarity=0.236  Sum_probs=72.0

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee---CCeEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY---AGVEL  184 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~---~G~~l  184 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..+   +|+.|
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l   88 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRF-TGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPI   88 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSS-SCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCC-CCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceE
Confidence            35679999999999999999999999999999999999875 677999999999999999999984  6666   88999


Q ss_pred             EEeecc
Q 043731          185 HLKPKK  190 (498)
Q Consensus       185 ~v~~k~  190 (498)
                      .|.+..
T Consensus        89 ~v~~a~   94 (106)
T 2dgp_A           89 QVKPAD   94 (106)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            998864

>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=99.50  E-value=4.3e-14  Score=120.04  Aligned_cols=77  Identities=22%  Similarity=0.287  Sum_probs=70.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|.. |+|+++.  +++++|||||+|.++++|++||.. +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~--~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~v~~   90 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDF--QGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFK   90 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCS--SSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECC--CCCcceEEEEEECCHHHHHHHHHhCcchhCCcEEEEEE
Confidence            45689999999999999999999999999997 9999883  578999999999999999999996 7889999999877


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      .
T Consensus        91 ~   91 (104)
T 1wg5_A           91 S   91 (104)
T ss_dssp             E
T ss_pred             C
Confidence            5

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

Probab=99.49  E-value=2.5e-14  Score=122.84  Aligned_cols=77  Identities=12%  Similarity=0.052  Sum_probs=70.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ..+|||+|||+.+++++|+++|++||.|..|.+.++++.|||+|+++++|++|++.+   +..+..|+|+.|.|..+..+
T Consensus        16 ~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l---~~~~~~l~Gr~l~V~~A~~~   92 (105)
T 1sjq_A           16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYY---TSVTPVLRGQPIYIQFSNHK   92 (105)
T ss_dssp             CCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETTTTEEEEEESSHHHHHHHHHHH---TTSCCEETTEECCBCCCSSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHh---ccCCceECCEEEEEEEcCCC
Confidence            457999999999999999999999999999999999999999999999999999987   33478999999999987653

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

Probab=99.49  E-value=4.4e-14  Score=121.09  Aligned_cols=78  Identities=14%  Similarity=0.287  Sum_probs=71.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++..   .++|||||+|.+.++|++|+..  +..++|+.|.|.
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 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN  102 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT---BCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC---CCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            45679999999999999999999999999999999998853   3899999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       103 ~a~  105 (109)
T 2err_A          103 NAT  105 (109)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            864

>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=99.49  E-value=3.7e-14  Score=136.62  Aligned_cols=137  Identities=12%  Similarity=0.098  Sum_probs=108.1

Q ss_pred             cceeeeccCCCc-cccHHHHHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+.+|||+|||. .+++++|+++|++||.|..|.+.++. +.|||+|.++++|++|++.++     |..|.|+.|.|..+
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~-----g~~~~g~~l~v~~a  107 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLN-----GHKLHGKPIRITLS  107 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHT-----TCBCSSSBCEEECC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECCCCEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEEEe
Confidence            456899999999 99999999999999999999998875 779999999999999999884     89999999999988


Q ss_pred             CChhHH-----HHHHHHh-----hhhhc-------------cccccccchhhhhhhhhhhhhhhcccCC-Cccceeeeec
Q 043731          397 TGEAEK-----EYWSLLR-----GNQER-------------HRDVKGEEKHLEAENKAASEKMIQQEDA-QIKPGKFEQH  452 (498)
Q Consensus       397 ~g~~E~-----e~~~~~~-----~~~~k-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  452 (498)
                      ......     +......     ....+             -....+++.||......+.++++|+.+| .|.++++ ++
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i-~~  186 (229)
T 2adc_A          108 KHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKF-FQ  186 (229)
T ss_dssp             SCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEE-CS
T ss_pred             cCccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEE-EE
Confidence            643100     0000000     00000             0135688999999999999999999999 9999998 44


Q ss_pred             cCCCCCCCccccc
Q 043731          453 EKPGISSGTSFVR  465 (498)
Q Consensus       453 ~~~~~~~~~~~~~  465 (498)
                      +    ++|+|||.
T Consensus       187 ~----~~g~afV~  195 (229)
T 2adc_A          187 K----DRKMALIQ  195 (229)
T ss_dssp             S----STTCEEEE
T ss_pred             C----CCcEEEEE
Confidence            3    47999996

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

Probab=99.49  E-value=6.2e-14  Score=118.39  Aligned_cols=78  Identities=22%  Similarity=0.324  Sum_probs=71.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++|| |..|+|+++.. +++++|||||+|.+.++|++|+.. +..++|+.|.|.+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   90 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKD-TDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIA   90 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSS-SCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCC-CCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEe
Confidence            3568999999999999999999999997 99999999875 678999999999999999999953 88899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        91 ~   91 (103)
T 2dng_A           91 E   91 (103)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.49  E-value=9.6e-14  Score=117.09  Aligned_cols=78  Identities=14%  Similarity=0.283  Sum_probs=70.9

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++..   .++|||||+|.+.++|.+|+..  +..++|+.|.|.
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 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN   88 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT---TTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC---CCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            35679999999999999999999999999999999998753   3899999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        89 ~a~   91 (103)
T 2cq3_A           89 NAT   91 (103)
T ss_dssp             ECC
T ss_pred             Ecc
Confidence            864

>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=99.49  E-value=3.8e-14  Score=117.53  Aligned_cols=77  Identities=13%  Similarity=0.197  Sum_probs=69.7

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..++++++.. +++++|||||+|.++++|++|++.  +..++|+.|.|...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~-~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a   92 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE-KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP   92 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCC-CCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEec
Confidence            458999999999999999999999999999988888765 677999999999999999999984  88999999998765

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

Probab=99.49  E-value=3.5e-14  Score=121.86  Aligned_cols=73  Identities=22%  Similarity=0.240  Sum_probs=66.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.|.+|+|+++       +|||||+|.++++|.+|++.    +..++|++|.|
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~-------kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V   86 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYI   86 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEE
Confidence            35689999999999999999999999999999999864       59999999999999999983    36899999998


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus        87 ~~A~   90 (105)
T 1sjq_A           87 QFSN   90 (105)
T ss_dssp             CCCS
T ss_pred             EEcC
Confidence            8764

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

Probab=99.49  E-value=3.7e-14  Score=118.62  Aligned_cols=78  Identities=21%  Similarity=0.214  Sum_probs=71.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCcee-eEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE----
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVN-SVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE----  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~-~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~----  183 (498)
                      ...++|||+|||+++++++|+++|++||.|. .|+|++++. ++.++|||||+|.++++|++|+..  +..++|+.    
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~   85 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRL-TGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKR   85 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSS-SCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCC-CCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCccee
Confidence            3578999999999999999999999999999 999998875 677999999999999999999994  78899998    


Q ss_pred             EEEeec
Q 043731          184 LHLKPK  189 (498)
Q Consensus       184 l~v~~k  189 (498)
                      |.|.+.
T Consensus        86 l~v~~a   91 (99)
T 2div_A           86 FKLNYA   91 (99)
T ss_dssp             CCEEET
T ss_pred             EEEeec
Confidence            887765

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

Probab=99.49  E-value=1.1e-13  Score=126.69  Aligned_cols=79  Identities=13%  Similarity=0.197  Sum_probs=72.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCC--ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHV--KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G--~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..++|||+|||+++|+++|+++|++||  .|..|+|+++.. +++++|||||+|.+.++|.+|+..  +..++|+.|.|.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~-tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~  132 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRA-NGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTT-TCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            468999999999999999999999999  999999998875 678999999999999999999995  889999999999


Q ss_pred             ecch
Q 043731          188 PKKE  191 (498)
Q Consensus       188 ~k~d  191 (498)
                      +...
T Consensus       133 ~a~~  136 (156)
T 3n9u_C          133 PATR  136 (156)
T ss_dssp             ECCH
T ss_pred             EcCC
Confidence            8754

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

Probab=99.48  E-value=4.5e-14  Score=119.10  Aligned_cols=78  Identities=19%  Similarity=0.236  Sum_probs=71.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++   ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~---~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   88 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME---GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVA   88 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC---SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC---CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            346799999999999999999999999999999999987   467899999999999999999994  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        89 ~a~   91 (103)
T 2d9p_A           89 LAQ   91 (103)
T ss_dssp             ECS
T ss_pred             Eec
Confidence            874

>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=99.48  E-value=5.4e-14  Score=122.10  Aligned_cols=78  Identities=21%  Similarity=0.258  Sum_probs=72.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++|+++|+++|++||.|..|+|+++.  ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus         5 ~~~~~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            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR--TSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQ   82 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST--TTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC--CCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            457899999999999999999999999999999999886  477899999999999999999984  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        83 a~   84 (116)
T 2fy1_A           83 AK   84 (116)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

>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=99.48  E-value=7.3e-14  Score=117.81  Aligned_cols=78  Identities=22%  Similarity=0.172  Sum_probs=70.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++++++|+++|++||.|..|+|+++..   ..+|||||+|.++++|.+|+..  +..++|+.|.|.
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 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT---SNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVN   88 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCC---SSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCC---CCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEE
Confidence            34679999999999999999999999999999999998853   2689999999999999999984  788999999999


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        89 ~a~   91 (103)
T 2cqi_A           89 WAT   91 (103)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            875

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.48  E-value=7.8e-14  Score=118.33  Aligned_cols=77  Identities=19%  Similarity=0.299  Sum_probs=71.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+.+|+++|+++|++||.|..|+|+++.  ++.++|+|||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  104 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR--SGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL  104 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT--TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--CCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            357899999999999999999999999999999999886  477899999999999999999994  8899999999987


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      .
T Consensus       105 a  105 (107)
T 3ulh_A          105 V  105 (107)
T ss_dssp             E
T ss_pred             e
Confidence            5

>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=99.48  E-value=2.4e-14  Score=129.89  Aligned_cols=79  Identities=22%  Similarity=0.386  Sum_probs=72.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  146 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRY-TKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM  146 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSS-CTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC-CCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            4578999999999999999999999999999999999875 678999999999999999999984  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       147 a~  148 (158)
T 2kn4_A          147 AR  148 (158)
T ss_dssp             EC
T ss_pred             CC
Confidence            64

>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=99.48  E-value=7.2e-14  Score=122.13  Aligned_cols=80  Identities=15%  Similarity=0.221  Sum_probs=73.3

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|.|+++.. ++.++|||||+|.+.++|++|++.  +..++|+.|.|.
T Consensus        19 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   97 (126)
T 3ex7_B           19 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRR-TGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD   97 (126)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTT-TSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            35678999999999999999999999999999999998875 677899999999999999999974  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        98 ~a~  100 (126)
T 3ex7_B           98 WCF  100 (126)
T ss_dssp             ESE
T ss_pred             Eec
Confidence            874

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

Probab=99.48  E-value=8.6e-14  Score=123.28  Aligned_cols=78  Identities=18%  Similarity=0.245  Sum_probs=71.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|++++. ++.++|||||+|.++++|++|++.  +..++|+.|.|.
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  138 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYE-TEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN  138 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTT-TCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCC-CCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            34679999999999999999999999999999999999865 577999999999999999999974  788999999987


Q ss_pred             e
Q 043731          188 P  188 (498)
Q Consensus       188 ~  188 (498)
                      +
T Consensus       139 ~  139 (140)
T 2ku7_A          139 L  139 (140)
T ss_dssp             C
T ss_pred             e
Confidence            5

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

Probab=99.48  E-value=1.7e-14  Score=117.28  Aligned_cols=76  Identities=11%  Similarity=0.058  Sum_probs=68.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+++++++|+++|++||.|..|+|++++. ++.++|||||+|.++++|.+|+..  +..++|+.|++.+
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~   81 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKT-TNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSG   81 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSS-SCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecC
Confidence            568999999999999999999999999999999998865 577899999999999999999984  6778888776543

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

Probab=99.48  E-value=5.4e-14  Score=119.66  Aligned_cols=78  Identities=13%  Similarity=0.118  Sum_probs=70.1

Q ss_pred             cccceEEeccCCCCC------cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCe
Q 043731          111 LDVRTIAATPLEYDV------KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGV  182 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~------t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~  182 (498)
                      ...++|||+|||+.+      |+++|+++|++||.|..|+|++.   ++.++|||||+|.++++|.+|+..  +..++|+
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~---~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~   89 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEE---DGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ   89 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCB---TTBSCCEEEEEECSSSHHHHHHHHCSSEECSTT
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCC---CCCeeeEEEEEECCHHHHHHHHHHhCCcccCCC
Confidence            346899999999999      88999999999999999999842   567999999999999999999994  8889998


Q ss_pred             -EEEEeecch
Q 043731          183 -ELHLKPKKE  191 (498)
Q Consensus       183 -~l~v~~k~d  191 (498)
                       .|.|.+..+
T Consensus        90 ~~l~V~~a~~   99 (105)
T 2nlw_A           90 HTFRVNLFTD   99 (105)
T ss_dssp             CEEEEECSCC
T ss_pred             ceEEEEEcch
Confidence             999988754

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

Probab=99.48  E-value=5.5e-14  Score=115.87  Aligned_cols=77  Identities=17%  Similarity=0.250  Sum_probs=70.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++   ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
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 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME---NGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRI   82 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES---SSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc---CCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            35789999999999999999999999999999999874   467899999999999999999994  7889999999887


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        83 a~   84 (92)
T 2dgv_A           83 DR   84 (92)
T ss_dssp             CS
T ss_pred             cC
Confidence            64

>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=99.47  E-value=7.8e-14  Score=117.92  Aligned_cols=78  Identities=19%  Similarity=0.186  Sum_probs=70.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC---eEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG---VELH  185 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G---~~l~  185 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++.  ++.++|||||+|.+.++|.+|+..  +..+.|   +.|.
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~   90 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP--DGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLV   90 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECS--SSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--CCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEE
Confidence            457999999999999999999999999999999999886  467899999999999999999984  777887   9999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.+..
T Consensus        91 V~~a~   95 (105)
T 2dnh_A           91 VKFAD   95 (105)
T ss_dssp             EEESC
T ss_pred             EEECc
Confidence            98874

>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=99.47  E-value=5.3e-14  Score=117.47  Aligned_cols=79  Identities=13%  Similarity=0.167  Sum_probs=70.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..+.++++.. +++++|||||+|.++++|++|++.  +..++|+.|.|.+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~-~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   91 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE-KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   91 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECS-SSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECC-CCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            3468999999999999999999999999999888877764 677899999999999999999974  7899999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        92 a~   93 (98)
T 2cqp_A           92 GS   93 (98)
T ss_dssp             SS
T ss_pred             cC
Confidence            64

>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=99.47  E-value=5.5e-14  Score=120.77  Aligned_cols=80  Identities=14%  Similarity=0.201  Sum_probs=71.3

Q ss_pred             cccceEEeccCCCCCcHHHHH---HHhccCCceeeEEcccccCC--CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          111 LDVRTIAATPLEYDVKREDVE---AFFSQHVKVNSVRLPRHVAD--KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~---~~F~~~G~V~~Vri~r~~~~--~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      ...++|||+|||+++++++|+   ++|++||.|..|+|+++...  .+.++|||||+|.++++|++|++.  +..++|+.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~   92 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   92 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEE
Confidence            457899999999999999999   99999999999999887642  245779999999999999999994  88899999


Q ss_pred             EEEeecc
Q 043731          184 LHLKPKK  190 (498)
Q Consensus       184 l~v~~k~  190 (498)
                      |.|.+..
T Consensus        93 l~V~~a~   99 (111)
T 2cpi_A           93 LKASLGT   99 (111)
T ss_dssp             EEEESCC
T ss_pred             EEEEecc
Confidence            9998864

>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=99.47  E-value=1.2e-13  Score=117.78  Aligned_cols=76  Identities=24%  Similarity=0.293  Sum_probs=69.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+.+    +.++|||||+|.+.++|++|++.  +..++|+.|.|.+
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   95 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR----RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEF   95 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS----SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC----CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            46789999999999999999999999999999999764    34789999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        96 a~   97 (109)
T 1x4a_A           96 PR   97 (109)
T ss_dssp             CC
T ss_pred             cc
Confidence            74

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.47  E-value=9.6e-14  Score=119.79  Aligned_cols=76  Identities=20%  Similarity=0.347  Sum_probs=69.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      +.++|||+|||+++|+++|+++|++| .|..|+|+++..  ++++|||||+|.++++|++||.. +..++|+.|.|....
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~--g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~   91 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV--GRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPAT   91 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT--CCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC--CCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            45799999999999999999999999 899999999864  67899999999999999999975 788999999998764

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

Probab=99.47  E-value=1.3e-13  Score=117.36  Aligned_cols=74  Identities=15%  Similarity=0.102  Sum_probs=65.7

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--C--CeeCCeEEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--G--LFYAGVELH  185 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~--~~~~G~~l~  185 (498)
                      ....++|||+|||+++|+++|+++|++||.|.+|+|++       .+|+|||+|.+.++|.+|++.  +  ..+.|++|.
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~-------~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~   90 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP-------KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAF   90 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET-------TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc-------CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEE
Confidence            34578999999999999999999999999999999875       369999999999999999984  3  358999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.+++
T Consensus        91 V~~S~   95 (100)
T 3r27_A           91 VNYST   95 (100)
T ss_dssp             EEECS
T ss_pred             EEecc
Confidence            98864

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.47  E-value=7.1e-14  Score=121.69  Aligned_cols=78  Identities=19%  Similarity=0.204  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc---eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK---VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~---V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.   |..|+|+++..  ++++|||||+|.++++|++||.. +..++|+.|.|
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~--g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V   92 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE--GRQSGEAFVELESEDDVKLALKKDRESMGHRYIEV   92 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS--SCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC--CCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEE
Confidence            45789999999999999999999999999   89999998864  67999999999999999999996 78899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        93 ~~a~   96 (118)
T 2db1_A           93 FKSH   96 (118)
T ss_dssp             EEEC
T ss_pred             EECC
Confidence            8764

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

Probab=99.47  E-value=1.2e-13  Score=118.41  Aligned_cols=78  Identities=17%  Similarity=0.187  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++..  +.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~--g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   90 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD--GKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKM   90 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT--CSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC--CCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEE
Confidence            4578999999999999999999999999999999998863  67899999999999999999984  8899999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        91 a~   92 (114)
T 2do0_A           91 DE   92 (114)
T ss_dssp             CS
T ss_pred             cc
Confidence            63

>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=99.47  E-value=7e-14  Score=123.84  Aligned_cols=79  Identities=16%  Similarity=0.187  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~-tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQ-SRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSS-SSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            4578999999999999999999999999999999998875 577999999999999999999994  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       123 a~  124 (129)
T 2kxn_B          123 SI  124 (129)
T ss_dssp             CS
T ss_pred             ec
Confidence            64

>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=99.46  E-value=1.2e-13  Score=115.54  Aligned_cols=75  Identities=17%  Similarity=0.289  Sum_probs=68.8

Q ss_pred             ccceEEeccCCCCCcHHHHH----HHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          112 DVRTIAATPLEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~----~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      +.++|||+|||+++++++|+    ++|++||.|..|+|+++.. +   +|||||+|.++++|++|+..  +..++|+.|.
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~-~---rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~   83 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTD-Y---QLKAVVQMENLQDAIGAVNSLHRYKIGSKKIL   83 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCS-T---TCCEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCC-C---CeEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            46899999999999999999    9999999999999998864 2   79999999999999999994  8889999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.+..
T Consensus        84 V~~a~   88 (96)
T 2dgx_A           84 VSLAT   88 (96)
T ss_dssp             EEECC
T ss_pred             EEEcC
Confidence            98864

>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=99.46  E-value=7.6e-14  Score=119.15  Aligned_cols=78  Identities=14%  Similarity=0.018  Sum_probs=70.9

Q ss_pred             cceeeeccCCCc-cccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          319 KTSIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       319 ~~~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +..+|||+|||+ .+++++|+++|++||.|..|.+.++++.|||+|+++++|.+|++.++   ..+..|.|+.|.|..+.
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~---~~~~~~~Gr~l~V~~a~   90 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYT---TTPALVFGKPVRVHLSQ   90 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHH---HSCCEETTEECEEEEEC
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHHc---CCCceECCcEEEEEECC
Confidence            345799999999 99999999999999999999999999999999999999999999984   33678999999999987


Q ss_pred             Ch
Q 043731          398 GE  399 (498)
Q Consensus       398 g~  399 (498)
                      ..
T Consensus        91 ~~   92 (102)
T 1x4d_A           91 KY   92 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

Probab=99.46  E-value=6.7e-14  Score=124.42  Aligned_cols=80  Identities=14%  Similarity=0.211  Sum_probs=73.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  117 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRE-TRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA  117 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETT-TTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC-CCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            35679999999999999999999999999999999998875 678899999999999999999994  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus       118 ~a~  120 (139)
T 1u6f_A          118 LAA  120 (139)
T ss_dssp             ESS
T ss_pred             ECC
Confidence            874

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

Probab=99.46  E-value=3.8e-14  Score=119.34  Aligned_cols=78  Identities=17%  Similarity=0.371  Sum_probs=71.7

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeec
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPK  189 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k  189 (498)
                      ....++|||+|||+++++++|+++|++||.|..|+|+++.  ++.++|||||+|.+.++|++|+.++..++|+.|.|.+.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~afV~f~~~~~a~~Ai~~~~~~~g~~l~v~~a   83 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR--TGVSKGYGFVSFYNDVDVQKIVESQINFHGKKLKLGPA   83 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT--TSCEEEEEEEEESSCCCHHHHTTCCCEETTEECEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC--CCCccceEEEEECCHHHHHHHHhCCCeECCEEEEEEEC
Confidence            3567999999999999999999999999999999999986  47799999999999999999999777899999998765

>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=99.46  E-value=9.9e-14  Score=125.97  Aligned_cols=80  Identities=16%  Similarity=0.259  Sum_probs=73.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|++|+..  +..++|+.|.|.+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  115 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW  115 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            4578999999999999999999999999999999998875 577999999999999999999994  8899999999999


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      +..
T Consensus       116 a~~  118 (156)
T 1h2v_Z          116 DAG  118 (156)
T ss_dssp             ESC
T ss_pred             CCC
Confidence            754

>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=99.46  E-value=1.5e-13  Score=117.02  Aligned_cols=73  Identities=18%  Similarity=0.166  Sum_probs=66.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++       +|||||+|.+.++|.+|++.    +..+.|++|.|
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~-------kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V   85 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG-------KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYI   85 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC-------CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEE
Confidence            34689999999999999999999999999999998763       69999999999999999983    57799999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        86 ~~a~   89 (101)
T 2cq1_A           86 QYSN   89 (101)
T ss_dssp             EECS
T ss_pred             EEcC
Confidence            8874

>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=99.46  E-value=2e-14  Score=118.15  Aligned_cols=75  Identities=23%  Similarity=0.317  Sum_probs=69.2

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ++|||+|||.++++++|+++|++||.|..|+|+++.. ++.++|||||+|.+.+ |.+|+..  +..++|+.|.|.++.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~   78 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRE-TKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEAN   78 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSS-SCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC-
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCC-CCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcC
Confidence            6899999999999999999999999999999999875 5778999999999999 9999995  788999999998864

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

Probab=99.46  E-value=1.5e-13  Score=113.27  Aligned_cols=77  Identities=21%  Similarity=0.345  Sum_probs=70.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++| .|..|+|+++.  +++++|+|||+|.++++|++|+.. +..++|+.|.|.+.
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~--~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~~a   84 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNA--HGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFRE   84 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECT--TSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEEEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECC--CCCCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEEEC
Confidence            457899999999999999999999999 99999999983  577999999999999999999995 78899999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        85 ~   85 (91)
T 2dgw_A           85 K   85 (91)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.46  E-value=4.8e-14  Score=119.82  Aligned_cols=76  Identities=21%  Similarity=0.193  Sum_probs=68.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||. ..|+|+++.  +++++|||||+|.++++|++||.. +..++|+.|.|.+.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~v~i~~d~--~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~~   89 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGP--DGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLN   89 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESS--SSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eEEEEEECC--CCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEEC
Confidence            45689999999999999999999999995 499999886  478999999999999999999975 78899999998765

>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=99.46  E-value=1.6e-13  Score=116.85  Aligned_cols=77  Identities=12%  Similarity=0.073  Sum_probs=70.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ..+|||+|||+.+++++|+++|++||.|..|.+.++++.|||+|.+.++|.+|++.+.   ..+..|+|+.|.|..+..+
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~---~~~~~~~Gr~l~V~~a~~~   91 (101)
T 2cq1_A           15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYS---AVTPHLRNQPIYIQYSNHK   91 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHH---HSCCEETTEECEEEECSCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhc---cCCceECCcEEEEEEcCcc
Confidence            4579999999999999999999999999999999999999999999999999999874   3388999999999998653

>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=99.45  E-value=1.2e-13  Score=117.88  Aligned_cols=72  Identities=14%  Similarity=0.164  Sum_probs=65.2

Q ss_pred             ccceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          112 DVRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       112 ~~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ..++|||+|||+ ++|+++|+++|++||.|.+|+|+++       +|||||+|.++++|.+|+..    ...+.|++|.|
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~-------kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V   86 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK-------INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRV   86 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS-------SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC-------CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEE
Confidence            468999999999 9999999999999999999999864       48999999999999999984    35699999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus        87 ~~a~   90 (102)
T 1x4d_A           87 HLSQ   90 (102)
T ss_dssp             EEEC
T ss_pred             EECC
Confidence            8874

>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=99.44  E-value=1.5e-13  Score=120.48  Aligned_cols=73  Identities=22%  Similarity=0.240  Sum_probs=66.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.|.+|+|+++       +|||||+|.+.++|.+|++.    +..+.|++|.|
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~-------kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V  101 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYI  101 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG-------GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC-------CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEE
Confidence            34689999999999999999999999999999999864       69999999999999999983    46899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus       102 ~~a~  105 (119)
T 2ad9_A          102 QFSN  105 (119)
T ss_dssp             EECS
T ss_pred             EEcc
Confidence            8864

>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=99.44  E-value=1.5e-13  Score=116.95  Aligned_cols=79  Identities=14%  Similarity=0.090  Sum_probs=70.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc-eeeEEcc-cccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK-VNSVRLP-RHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVEL  184 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~-V~~Vri~-r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l  184 (498)
                      ...++|||+|||+++|+++|+++|++||. |..|+|+ ++.. ++.++|||||+|.++++|.+|+..    +..++|+.|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l   84 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAAD-KMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQI   84 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCT-TTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCC
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCC-CCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeE
Confidence            45789999999999999999999999998 9999998 5554 667999999999999999999984    378999999


Q ss_pred             EEeecc
Q 043731          185 HLKPKK  190 (498)
Q Consensus       185 ~v~~k~  190 (498)
                      .|.+..
T Consensus        85 ~V~~a~   90 (109)
T 2dis_A           85 AVDWAE   90 (109)
T ss_dssp             EEEESC
T ss_pred             EEEEcC
Confidence            998874

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

Probab=99.44  E-value=8.6e-14  Score=117.45  Aligned_cols=78  Identities=14%  Similarity=0.165  Sum_probs=70.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhcc-CCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCe-eCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQ-HVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF-YAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~-~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~-~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++ ||.|..|+|+++.  ++.++|||||+|.+.++|.+|+..  +.. ++|+.|.|
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~--~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v   84 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ--TGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRL   84 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT--TCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC--CCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEE
Confidence            35689999999999999999999999 9999999999886  467899999999999999999994  677 99999998


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        85 ~~a~   88 (104)
T 2dhg_A           85 SVAI   88 (104)
T ss_dssp             CBCC
T ss_pred             EEcc
Confidence            7763

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

Probab=99.44  E-value=3.3e-14  Score=119.50  Aligned_cols=79  Identities=20%  Similarity=0.177  Sum_probs=69.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ....++|||+|||+++|+++|+++|++||.|.. .++++.. ++.++|||||+|.+.++|++|++. +..++|+.|.|.+
T Consensus        14 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~-~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~   91 (101)
T 1fj7_A           14 STTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVR-TGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEK   91 (101)
T ss_dssp             CSCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEE-EETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCC-CCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEEEE
Confidence            446789999999999999999999999999999 6666654 567899999999999999999985 7889999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        92 a~   93 (101)
T 1fj7_A           92 PK   93 (101)
T ss_dssp             CS
T ss_pred             cC
Confidence            64

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

Probab=99.44  E-value=2.8e-13  Score=112.36  Aligned_cols=71  Identities=14%  Similarity=0.111  Sum_probs=67.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      -+||+||++.+|+++|+++|.+||+|..+.+..++|.|||+|.++++|++|+.+|   |  |..+.|+.|.|..++
T Consensus         9 wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~L---n--~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            9 WLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQMAL---N--NCVLANTTIFAESPS   79 (89)
T ss_dssp             EEEEECCCTTCCCHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHH---T--TEEETTEEEEEECCC
T ss_pred             eEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcCCCcEEEEEECCHHHHHHHHHHh---c--CCEECCcEEEEEECC
Confidence            4789999999999999999999999999999999999999999999999999998   4  999999999999993

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

Probab=99.44  E-value=1.2e-13  Score=123.10  Aligned_cols=79  Identities=22%  Similarity=0.386  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        45 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~-~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  123 (135)
T 2lea_A           45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRY-TKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM  123 (135)
T ss_dssp             GGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSS-SSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            4579999999999999999999999999999999998875 577999999999999999999984  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       124 a~  125 (135)
T 2lea_A          124 AR  125 (135)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

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

Probab=99.43  E-value=2.4e-13  Score=118.67  Aligned_cols=78  Identities=19%  Similarity=0.290  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++++++|+++|++||.|..|+|+++.  ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~--~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  110 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR--SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  110 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS--SSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC--CCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            356899999999999999999999999999999999886  467899999999999999999994  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus       111 a~  112 (124)
T 2kt5_A          111 VA  112 (124)
T ss_dssp             EC
T ss_pred             eC
Confidence            64

>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=99.43  E-value=3e-13  Score=109.75  Aligned_cols=72  Identities=21%  Similarity=0.291  Sum_probs=65.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHH---hCCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK---QGLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~---~~~~~~G~~l~v~  187 (498)
                      ...++|||+|||.++++++|+++|++||.|..|+++++       +|||||+|.+.++|.+|+.   ++..++|+.|.|.
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~-------kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~   82 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR-------QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVK   82 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG-------GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEE
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC-------CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEE
Confidence            45789999999999999999999999999999999863       6999999999999999998   3688999999988


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      +.
T Consensus        83 ~a   84 (85)
T 2ytc_A           83 WG   84 (85)
T ss_dssp             EC
T ss_pred             ec
Confidence            75

>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=99.43  E-value=1.3e-13  Score=123.70  Aligned_cols=78  Identities=18%  Similarity=0.190  Sum_probs=71.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc---eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK---VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~---V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.   |..|+|+++..  ++++|||||+|.++++|++|++. +..++|+.|.|
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~--g~srG~aFV~F~~~e~a~~Al~~~g~~l~gr~i~V  119 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE--GRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEV  119 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS--SCEEEEEEEECSSHHHHHHHHTTTEEESSSSEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC--CCCCeEEEEEECCHHHHHHHHhcCCCEECCEEEEE
Confidence            35689999999999999999999999999   89999999864  77999999999999999999985 78899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus       120 ~~a~  123 (136)
T 2hgl_A          120 FKSH  123 (136)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            8874

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

Probab=99.43  E-value=6.1e-14  Score=124.04  Aligned_cols=78  Identities=22%  Similarity=0.234  Sum_probs=70.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee--EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CC----eeCCe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS--VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GL----FYAGV  182 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~--Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~----~~~G~  182 (498)
                      ...++|||+|||+++|+++|+++|++||.|..  |+|++++. +++++|||||+|.+. +|.+|+..  +.    .++|+
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~-tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr   98 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQ-TQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGK   98 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSS-SSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCC-CCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCE
Confidence            45789999999999999999999999999977  99999975 678999999999999 99999985  66    89999


Q ss_pred             EEEEeecc
Q 043731          183 ELHLKPKK  190 (498)
Q Consensus       183 ~l~v~~k~  190 (498)
                      .|.|.+..
T Consensus        99 ~l~V~~a~  106 (131)
T 2m2b_A           99 TINVEFAK  106 (131)
T ss_dssp             CCCCEECC
T ss_pred             EEEEEECC
Confidence            99988764

>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=99.43  E-value=2.1e-13  Score=113.50  Aligned_cols=77  Identities=19%  Similarity=0.323  Sum_probs=69.7

Q ss_pred             cccceEEeccCCCCCcHHHHH----HHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          111 LDVRTIAATPLEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~----~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      ...++|||+|||.++++++|+    ++|++||.|..|+|++.    +.++|||||+|.+.++|.+|+..  +..++|+.|
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   81 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS----LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPM   81 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH----HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC----CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEE
Confidence            457899999999999999999    99999999999999853    45789999999999999999984  888999999


Q ss_pred             EEeecch
Q 043731          185 HLKPKKE  191 (498)
Q Consensus       185 ~v~~k~d  191 (498)
                      .|.+...
T Consensus        82 ~v~~a~~   88 (97)
T 1nu4_A           82 RIQYAKT   88 (97)
T ss_dssp             EEEECSS
T ss_pred             EEEEccC
Confidence            9988753

>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=99.43  E-value=2.8e-13  Score=112.13  Aligned_cols=74  Identities=20%  Similarity=0.365  Sum_probs=63.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ....+|||+|||+++|+++|+++|++||.|..|+|+++      ++|||||+|.++++|+++......+.|+.|.|.+..
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~------srGfaFV~F~~~~~A~~~~~~~~~~~g~~v~v~~a~   82 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP------FRAFAFVTFADDKVAQSLCGEDLIIKGISVHISNAE   82 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS------CCSEEEEEESCHHHHHHHTTCEEEETTEEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC------CCCEEEEEECCHHHHHHHcCCCcccCCEEEEEEEcC
Confidence            45789999999999999999999999999999999874      679999999999999965444455779999988764

>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=99.43  E-value=4e-13  Score=113.45  Aligned_cols=73  Identities=14%  Similarity=0.197  Sum_probs=65.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      .+++||+|||..+|+++|+++|++||.|..|.+.+++      +.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~ln-----g~~~~gr~l~V   93 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLN-----GLRLQSKTIKV   93 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            3579999999999999999999999999999998654      359999999999999999984     99999999999


Q ss_pred             EEcC
Q 043731          394 EPVT  397 (498)
Q Consensus       394 ~~~~  397 (498)
                      ..+.
T Consensus        94 ~~Ak   97 (99)
T 4fxv_A           94 SYAR   97 (99)
T ss_dssp             EECC
T ss_pred             EEee
Confidence            8764

>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=99.42  E-value=3e-13  Score=115.67  Aligned_cols=73  Identities=15%  Similarity=0.147  Sum_probs=65.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++++++|+++|++||.|..|+|+++       +|||||+|.+.++|.+|++.    ...++|++|.|
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~-------kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V   85 (104)
T 1wex_A           13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF-------KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFF   85 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC-------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEE
Confidence            34689999999999999999999999999999998753       69999999999999999983    45699999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        86 ~~a~   89 (104)
T 1wex_A           86 NYST   89 (104)
T ss_dssp             EECS
T ss_pred             EEcc
Confidence            8874

>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=99.42  E-value=3.1e-13  Score=124.12  Aligned_cols=80  Identities=14%  Similarity=0.201  Sum_probs=72.7

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+||..  +..++|+.|.|.
T Consensus        69 ~~~~~~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           69 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRR-TGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD  147 (165)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCC-CCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            35578999999999999999999999999999999998865 677999999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       148 ~a~  150 (165)
T 1rk8_A          148 WCF  150 (165)
T ss_dssp             ESE
T ss_pred             Eec
Confidence            874

>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=99.42  E-value=2.5e-13  Score=116.10  Aligned_cols=76  Identities=17%  Similarity=0.242  Sum_probs=69.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..+|||+|||+.+++++|+++|++||.|..|.+.++++.|||+|++.++|.+|++.+.   ..++.|+|+.|.|..+..
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~---~~~~~i~Gr~l~V~~a~~   90 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAA---DVPVYIAGQQAFFNYSTS   90 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHH---HSCCBSSSSBCEEEECSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhc---cCCceECCEEEEEEEccC
Confidence            4579999999999999999999999999999999999999999999999999999884   336789999999999865

>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=99.42  E-value=1.1e-13  Score=118.20  Aligned_cols=78  Identities=27%  Similarity=0.308  Sum_probs=71.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc---eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK---VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~---V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.   |..|+|+++..  ++++|||||+|.+.++|++||.. +..++|+.|.|
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~--g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V   86 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD--GKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEV   86 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT--STTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCCCC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC--CCEeeEEEEEECCHHHHHHHHHhCcceeCCeEEEE
Confidence            45789999999999999999999999998   99999998864  67999999999999999999996 77899999998


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        87 ~~a~   90 (107)
T 2lmi_A           87 YEIN   90 (107)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            8764

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.42  E-value=1.8e-13  Score=120.69  Aligned_cols=78  Identities=21%  Similarity=0.266  Sum_probs=69.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCce----eeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKV----NSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELH  185 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V----~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~  185 (498)
                      .+.++|||+|||+++|+++|+++|++||.|    ..|+|+++.  +++++|||||+|.++++|++||.. +..++|+.|.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~--~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~   98 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP--DGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIE   98 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT--TSCEEEEEEECCSSHHHHHHHHTTTTEESSSCEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC--CCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEE
Confidence            456899999999999999999999999975    689999884  577999999999999999999986 7789999998


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |....
T Consensus        99 V~~a~  103 (123)
T 2dha_A           99 LFRST  103 (123)
T ss_dssp             CEEEC
T ss_pred             EEECC
Confidence            87653

>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=99.42  E-value=1.3e-13  Score=120.98  Aligned_cols=77  Identities=12%  Similarity=0.052  Sum_probs=70.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      +.+|||+|||+.+++++|+++|++||.|..|.+.++++.|||+|++.++|.+|++.+.   ..+..|+|+.|.|..+..+
T Consensus        31 s~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~---~~~~~l~Gr~l~V~~a~~k  107 (119)
T 2ad9_A           31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYT---SVTPVLRGQPIYIQFSNHK  107 (119)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGGTEEEEECSCHHHHHHHHHHHH---HHCCCBTTBCCEEEECSSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEECCHHHHHHHHHHhc---cCCceECCeEEEEEEccCC
Confidence            4579999999999999999999999999999999999999999999999999999874   2268899999999998653

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

Probab=99.41  E-value=1.1e-12  Score=113.08  Aligned_cols=84  Identities=19%  Similarity=0.190  Sum_probs=73.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||+.+++++|+++|++||.|..|.+.++.      +.|||.|.++++|++|++.|+     |..|+|+.|.|
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~ln-----g~~~~gr~i~V   80 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLH-----LTSVMGNIIHA   80 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEE
Confidence            3479999999999999999999999999999987653      459999999999999999984     99999999999


Q ss_pred             EEcCChhHHH-HHHHH
Q 043731          394 EPVTGEAEKE-YWSLL  408 (498)
Q Consensus       394 ~~~~g~~E~e-~~~~~  408 (498)
                      ..+....++. +|..+
T Consensus        81 ~~a~~~~~~~~~~~~~   96 (110)
T 3s8s_A           81 QLDIKGQQRMKYYELI   96 (110)
T ss_dssp             EECSTTHHHHHHHHHH
T ss_pred             EECCCCcHHHHHHHHh
Confidence            9997766665 55443

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

Probab=99.41  E-value=4.1e-13  Score=115.86  Aligned_cols=77  Identities=18%  Similarity=0.189  Sum_probs=67.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCC--CcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADK--RLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~--~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|. +.++.+....  ++++|||||+|.++++|++|++.-..++|+.|.+..
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~~~   84 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKLYLCVS   84 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEEEEEEC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcEEEecc
Confidence            3568999999999999999999999999999 8888776421  578999999999999999999975568999988654

>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=99.41  E-value=2.4e-13  Score=111.50  Aligned_cols=73  Identities=21%  Similarity=0.376  Sum_probs=65.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+++      ++|||||+|.+.++|++|+.....++|+.|.|.+..
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~~~~~~~~~~g~~l~v~~a~   76 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP------FRAFAFVTFADDQIAQSLCGEDLIIKGISVHISNAE   76 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS------CCSCCEEECSCHHHHHHTTTCEEEETTEEEEEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC------CCCEEEEEECCHHHHHHHhcCCceeCCEEEEEEecC
Confidence            4689999999999999999999999999999999864      679999999999999987665566799999987753

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.41  E-value=5.6e-13  Score=111.94  Aligned_cols=75  Identities=23%  Similarity=0.367  Sum_probs=66.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|   +++++.  ++.++|||||+|.++++|++|+..  +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   87 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQ--NGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLEL   87 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCS--SSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECC--CCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEE
Confidence            457999999999999999999999999987   566663  467899999999999999999994  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        88 a~   89 (101)
T 2fc9_A           88 QG   89 (101)
T ss_dssp             CS
T ss_pred             cC
Confidence            74

>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=99.41  E-value=2e-13  Score=120.84  Aligned_cols=77  Identities=19%  Similarity=0.286  Sum_probs=68.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCcee--eEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVN--SVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~--~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~  187 (498)
                      ...++|||+|||+++|+++|+++|++| .|.  .|+|+++..  ++++|||||+|.++++|++||+. +..++|+.|.|.
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~--GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~  116 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE--GKITGEAFVQFASQELAEKALGKHKERIGHRYIEVF  116 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS--SSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC--CCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEE
Confidence            356899999999999999999999999 566  999999864  67999999999999999999986 788999999987


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       117 ~a~  119 (126)
T 2hgm_A          117 KSS  119 (126)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            653

>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=99.41  E-value=3.7e-13  Score=115.86  Aligned_cols=74  Identities=23%  Similarity=0.194  Sum_probs=67.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|++       .+|||||+|.+.++|++|+..  +..++|+.|.|.
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 GRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-------GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLE   79 (111)
T ss_dssp             SEEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-------SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC-------CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            34578999999999999999999999999999999874       468999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        80 ~a~   82 (111)
T 1whx_A           80 WAP   82 (111)
T ss_dssp             EEE
T ss_pred             ECC
Confidence            874

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

Probab=99.41  E-value=3.5e-13  Score=111.79  Aligned_cols=71  Identities=17%  Similarity=0.154  Sum_probs=65.7

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ...|||+||++.+|+++|+++|.+||+|.++++..       ++|||||+|.++++|.+|++.  +..+.|++|.|....
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-------NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-------TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-------CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            56899999999999999999999999999999854       579999999999999999995  889999999998874

>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=99.41  E-value=1.2e-13  Score=119.80  Aligned_cols=79  Identities=9%  Similarity=0.024  Sum_probs=71.4

Q ss_pred             cceeeeccCCCcc-ccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          319 KTSIDTYKDNMDV-VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       319 ~~~~vfv~nL~~~-vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ...+|||+|||+. +++++|+++|++||.|..|.+.++++.|||+|+++++|.+|++.++   ..+..|+|+.|.|..+.
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~---~~~~~l~Gr~l~V~~a~  100 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCL---KKALWFQGRCVKVDLSE  100 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHH---HSCCCSSSSCCEEEEEC
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhc---cCCceECCEEEEEEECc
Confidence            3558999999998 9999999999999999999999999999999999999999999884   34788999999999987


Q ss_pred             Chh
Q 043731          398 GEA  400 (498)
Q Consensus       398 g~~  400 (498)
                      ...
T Consensus       101 ~~~  103 (112)
T 1x4f_A          101 KYK  103 (112)
T ss_dssp             SCS
T ss_pred             ccc
Confidence            643

>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=99.41  E-value=7e-13  Score=111.31  Aligned_cols=73  Identities=15%  Similarity=0.205  Sum_probs=66.1

Q ss_pred             hccccceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          109 EQLDVRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      .....++|||+|||+ ++++++|+++|++||.|..|+|.         +|||||+|.+.++|.+|+..  +..++|+.|.
T Consensus        18 ~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   88 (97)
T 2xnq_A           18 GSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---------NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLI   88 (97)
T ss_dssp             -CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC---------SSEEEEEESSHHHHHHHHHHHTTSEETTEECE
T ss_pred             CCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---------CCEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            346689999999998 99999999999999999999983         59999999999999999994  8889999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.+..
T Consensus        89 V~~a~   93 (97)
T 2xnq_A           89 LEVSS   93 (97)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            98764

>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=99.40  E-value=1.7e-13  Score=119.92  Aligned_cols=80  Identities=15%  Similarity=0.180  Sum_probs=69.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|..+.++.+.. +++++|||||+|.+.++|.+||.. +..++|+.|.|.+.
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~-~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGP-NGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECT-TSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECC-CCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEEC
Confidence            3568999999999999999999999999999855544443 577999999999999999999995 78899999999887


Q ss_pred             ch
Q 043731          190 KE  191 (498)
Q Consensus       190 ~d  191 (498)
                      ..
T Consensus       102 ~~  103 (124)
T 1wel_A          102 TK  103 (124)
T ss_dssp             CH
T ss_pred             CH
Confidence            53

>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=99.40  E-value=4.9e-13  Score=114.11  Aligned_cols=74  Identities=18%  Similarity=0.176  Sum_probs=68.1

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||.++|+++|+++|++||.|..|+|+++       +|||||+|.+.++|.+|+..  +..++|+.|.|.
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-------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCY   94 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC-------CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            456789999999999999999999999999999999874       69999999999999999974  889999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        95 ~a~   97 (109)
T 1x4g_A           95 WGK   97 (109)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            874

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.40  E-value=5.3e-13  Score=115.56  Aligned_cols=74  Identities=16%  Similarity=0.242  Sum_probs=67.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCC-ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHV-KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G-~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+++|+++|+++|++|| .|..+.|+..     .++|||||+|.+.++|++|++.  +..++|+.|.|.+
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~-----~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~  101 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR-----DFDGTGALEFPSEEILVEALERLNNIEFRGSVITVER  101 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC-----SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC-----CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            457999999999999999999999999 9999998642     3689999999999999999984  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       102 a~  103 (111)
T 2jvr_A          102 DD  103 (111)
T ss_dssp             SC
T ss_pred             CC
Confidence            74

>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=99.40  E-value=4.8e-13  Score=114.82  Aligned_cols=78  Identities=19%  Similarity=0.246  Sum_probs=68.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee--------C
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY--------A  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~--------~  180 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++.  ++.++|||||+|.+.++|.+|+..  +..+        .
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~--~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~  100 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS--SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAP  100 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS--SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC--CCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCC
Confidence            457899999999999999999999999999999999886  467899999999999999999984  6667        5


Q ss_pred             CeEEEEeecc
Q 043731          181 GVELHLKPKK  190 (498)
Q Consensus       181 G~~l~v~~k~  190 (498)
                      |++|.|.+..
T Consensus       101 ~~~l~v~~a~  110 (114)
T 1x5o_A          101 TEPLLCKFSG  110 (114)
T ss_dssp             SSCBEEEECC
T ss_pred             CCceeEEccC
Confidence            6777777653

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

Probab=99.40  E-value=5.8e-13  Score=109.64  Aligned_cols=71  Identities=14%  Similarity=0.246  Sum_probs=65.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++|+++|+++|++||.|..|+|+         +|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   76 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII---------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEA   76 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE---------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE---------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEE
Confidence            357899999999999999999999999999999986         58999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        77 a~   78 (90)
T 2dnq_A           77 SK   78 (90)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

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

Probab=99.39  E-value=4.8e-13  Score=112.34  Aligned_cols=73  Identities=16%  Similarity=0.131  Sum_probs=66.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++++++|+++|++||.|..|+|++       ++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~-------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~   97 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP-------EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGW   97 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET-------TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCB
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec-------CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEe
Confidence            3468999999999999999999999999999999873       469999999999999999974  8899999999887


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      .+
T Consensus        98 a~   99 (101)
T 2la4_A           98 GK   99 (101)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

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

Probab=99.39  E-value=8.6e-13  Score=113.10  Aligned_cols=73  Identities=23%  Similarity=0.412  Sum_probs=66.9

Q ss_pred             hccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       109 ~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      .....++|||+|||.++|+++|+++|++||.|..|+|+         +|||||+|.+.++|++|+..  +..++|+.|.|
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~---------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   97 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL---------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEV   97 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE---------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE---------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            35678999999999999999999999999999999986         59999999999999999984  88999999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        98 ~~a~  101 (108)
T 2jvo_A           98 VYSK  101 (108)
T ss_dssp             ESCS
T ss_pred             EEec
Confidence            8874

>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=99.38  E-value=5e-13  Score=111.97  Aligned_cols=73  Identities=18%  Similarity=0.209  Sum_probs=66.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++       +|||||+|.+.++|.+|++.  +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~-------kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~   85 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRF   85 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT-------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC-------CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEE
Confidence            45789999999999999999999999999999999753       69999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        86 a~   87 (99)
T 2cpj_A           86 AC   87 (99)
T ss_dssp             SS
T ss_pred             cC
Confidence            64

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

Probab=99.38  E-value=5.1e-13  Score=111.02  Aligned_cols=75  Identities=27%  Similarity=0.397  Sum_probs=66.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..+    .  .++.++|||||+|.++++|.+|+..  +..++|+.|.|.
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~----~--~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   86 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV----S--QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY   86 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE----E--ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe----C--CCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            3467999999999999999999999999998777    2  1467899999999999999999994  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        87 ~a~   89 (96)
T 1fjc_A           87 YTG   89 (96)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            864

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

Probab=99.38  E-value=5.2e-13  Score=118.28  Aligned_cols=76  Identities=20%  Similarity=0.278  Sum_probs=67.5

Q ss_pred             ccceEEeccCCCCCcHHHHH----HHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          112 DVRTIAATPLEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~----~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      ..++|||+|||+.+++++|+    ++|++||.|..|.+++.    ++++|||||+|.+.++|.+|+..  +..+.|++|.
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~----~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~  103 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS----DDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLV  103 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCC----CSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccC----CCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEE
Confidence            46899999999999999876    79999999999998753    45799999999999999999984  8889999999


Q ss_pred             Eeecch
Q 043731          186 LKPKKE  191 (498)
Q Consensus       186 v~~k~d  191 (498)
                      |.++..
T Consensus       104 V~~a~~  109 (127)
T 2a3j_A          104 ITFSET  109 (127)
T ss_dssp             EEECCC
T ss_pred             EEEccC
Confidence            998753

>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=99.38  E-value=8.3e-13  Score=110.19  Aligned_cols=73  Identities=11%  Similarity=0.109  Sum_probs=66.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC--CeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA--GVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~--G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++       +|||||+|.+.++|++|++.  +..++  |+.|.|
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V   87 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG-------DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRV   87 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS-------SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC-------CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEE
Confidence            34689999999999999999999999999999998753       68999999999999999994  78888  999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        88 ~~a~   91 (97)
T 1why_A           88 DFAK   91 (97)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            8864

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

Probab=99.38  E-value=3.6e-13  Score=113.16  Aligned_cols=71  Identities=21%  Similarity=0.306  Sum_probs=65.7

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ++|||+|||+++|+++|+++|++||.|..|+|+++      ++|||||+|.++++|.+|+..  +..++|+.|.|.+..
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN------PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELST   73 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS------SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC------CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEcc
Confidence            48999999999999999999999999999999875      579999999999999999994  788999999998874

>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=99.38  E-value=2.1e-13  Score=122.66  Aligned_cols=76  Identities=20%  Similarity=0.186  Sum_probs=68.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++|| |..|+|+++..  ++++|||||+|.++++|++||.. +..++|+.|.|...
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~--g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i~V~~a  120 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD--GRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLN  120 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS--SCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC--CCCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEEEC
Confidence            4568999999999999999999999999 77999999864  77999999999999999999964 77899999988665

>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=99.38  E-value=3.3e-13  Score=117.14  Aligned_cols=72  Identities=22%  Similarity=0.248  Sum_probs=64.9

Q ss_pred             ccceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          112 DVRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       112 ~~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ..++|||+|||++ +|+++|+++|++||.|.+|+|++       .+|||||+|.+.++|.+|++.    ...+.|++|.|
T Consensus        24 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           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-------MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKV   96 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-------TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEE
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec-------CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEE
Confidence            4689999999998 99999999999999999999964       369999999999999999983    46699999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .++.
T Consensus        97 ~~a~  100 (112)
T 1x4f_A           97 DLSE  100 (112)
T ss_dssp             EEEC
T ss_pred             EECc
Confidence            8864

>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=99.37  E-value=1.4e-12  Score=105.20  Aligned_cols=74  Identities=16%  Similarity=0.069  Sum_probs=67.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.|.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~-----g~~~~g~~l~v~   76 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQ-----GQDLNGRPLRIN   76 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhc-----CCeeCCcEEEEE
Confidence            36899999999999999999999999999998866      4569999999999999999884     899999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+..+
T Consensus        77 ~a~~~   81 (83)
T 3md1_A           77 WAAKL   81 (83)
T ss_dssp             ECCCC
T ss_pred             ecCcC
Confidence            98754

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.37  E-value=7.1e-13  Score=128.67  Aligned_cols=79  Identities=14%  Similarity=0.132  Sum_probs=71.9

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCC--ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHV--KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G--~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..++|||+|||+++|+++|+++|++||  .|..|+|++++. +++++|||||+|.+.++|.+||..  +..|+|+.|.|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~-tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~  145 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRA-NGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT  145 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTT-TCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCC-CCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEE
Confidence            567899999999999999999999999  999999999875 678999999999999999999984  789999999999


Q ss_pred             ecch
Q 043731          188 PKKE  191 (498)
Q Consensus       188 ~k~d  191 (498)
                      +...
T Consensus       146 ~a~~  149 (229)
T 3q2s_C          146 PVNK  149 (229)
T ss_dssp             ECCH
T ss_pred             ECCC
Confidence            8754

>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=99.37  E-value=6.8e-13  Score=114.07  Aligned_cols=99  Identities=16%  Similarity=0.243  Sum_probs=82.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC---CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG---AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g---~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +.++||+|||..+++++|+++|++||.|..|.+.++   .+.|||.|.++++|.+|+..|+     |..|+|+.|.|..+
T Consensus         8 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~v~~a   82 (115)
T 3lqv_A            8 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLS-----GFNVSNRYLVVLYY   82 (115)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHT-----TCBSSSCBCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEEe
Confidence            347899999999999999999999999999998653   4679999999999999999884     89999999999998


Q ss_pred             CChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCC
Q 043731          397 TGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQ  443 (498)
Q Consensus       397 ~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  443 (498)
                      ......                    ++++.....+.+.++|+.+|.
T Consensus        83 ~~~~~~--------------------~~~~~~~~~~~l~~~~~~~g~  109 (115)
T 3lqv_A           83 NANRAF--------------------QKMDTKKKEEQLKLLKEKYGI  109 (115)
T ss_dssp             CHHHHT--------------------TTSCHHHHHHHHHHHHHHHCC
T ss_pred             cCChhh--------------------hhhhHhHhHHHHHHHHHHhCC
Confidence            753322                    345566667777888887775

>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=99.36  E-value=1.4e-12  Score=111.36  Aligned_cols=72  Identities=15%  Similarity=0.225  Sum_probs=65.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC-----eE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG-----VE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G-----~~  183 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|+++        |||||+|.+.++|++|++.  +..++|     +.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~--------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~   84 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAY   84 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT--------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC--------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceE
Confidence            34689999999999999999999999999999999764        8999999999999999994  778999     99


Q ss_pred             EEEeecc
Q 043731          184 LHLKPKK  190 (498)
Q Consensus       184 l~v~~k~  190 (498)
                      |.|.+..
T Consensus        85 i~V~~a~   91 (108)
T 1x4c_A           85 IRVKVDG   91 (108)
T ss_dssp             EEEEESS
T ss_pred             EEEEeCC
Confidence            9998864

>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=99.36  E-value=1.8e-12  Score=108.34  Aligned_cols=78  Identities=22%  Similarity=0.264  Sum_probs=70.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~   81 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD-----GQVFQGRMLH   81 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTT-----TEESSSCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhC-----CCEECCcEEE
Confidence            35689999999999999999999999999999997654      679999999999999999874     8999999999


Q ss_pred             EEEcCChhH
Q 043731          393 LEPVTGEAE  401 (498)
Q Consensus       393 v~~~~g~~E  401 (498)
                      |..+..+.+
T Consensus        82 V~~a~~~~~   90 (99)
T 1whw_A           82 VLPSTIKKE   90 (99)
T ss_dssp             EEECCCCST
T ss_pred             EEEcCCCcc
Confidence            999877544

>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=99.36  E-value=2.5e-13  Score=116.62  Aligned_cols=79  Identities=19%  Similarity=0.195  Sum_probs=67.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..+.+..+.. ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~-~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~  101 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM-TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEF  101 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE-CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC-CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            3568999999999999999999999999996554433322 467899999999999999999984  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus       102 a~  103 (115)
T 2cpx_A          102 GK  103 (115)
T ss_dssp             CC
T ss_pred             cc
Confidence            74

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

Probab=99.05  E-value=6.4e-14  Score=120.98  Aligned_cols=79  Identities=20%  Similarity=0.253  Sum_probs=71.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceee--------EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNS--------VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~--------Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ...++|||+|||+++++++|+++|++||.|..        |+|+++.. ++.++|||||+|.+.++|++|+..  +..++
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 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRE-TGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   83 (116)
Confidence            46789999999999999999999999999999        89988865 577899999999999999999984  78899


Q ss_pred             CeEEEEeecc
Q 043731          181 GVELHLKPKK  190 (498)
Q Consensus       181 G~~l~v~~k~  190 (498)
                      |+.|.|.+..
T Consensus        84 g~~l~V~~a~   93 (116)
T 2lcw_A           84 GNPIKVSFAT   93 (116)
Confidence            9999988764

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

Probab=99.35  E-value=2.3e-12  Score=106.42  Aligned_cols=71  Identities=13%  Similarity=0.224  Sum_probs=65.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|++         |||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~---------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   78 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK---------DYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQL   78 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS---------SEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC---------CEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEE
Confidence            4578999999999999999999999999999999863         5999999999999999984  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        79 a~   80 (92)
T 2dgt_A           79 ST   80 (92)
T ss_dssp             SS
T ss_pred             cc
Confidence            74

>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=99.35  E-value=1.8e-12  Score=108.15  Aligned_cols=76  Identities=21%  Similarity=0.214  Sum_probs=70.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEec--CeEEEEEEc
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVK--NFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~--g~~~~v~~~  396 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++++.|||+|.++++|++|++.|+     |..|+  |+.|.|..+
T Consensus        16 ~~~~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           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMR-----GFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHT-----TCBCSSSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCCCCEEEEEECCHHHHHHHHHHHC-----CCEeCCCCcEEEEEEC
Confidence            44689999999999999999999999999999999999999999999999999999884     88899  999999988


Q ss_pred             CCh
Q 043731          397 TGE  399 (498)
Q Consensus       397 ~g~  399 (498)
                      ..+
T Consensus        91 ~~~   93 (97)
T 1why_A           91 KSG   93 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.35  E-value=1.2e-12  Score=113.30  Aligned_cols=76  Identities=14%  Similarity=0.088  Sum_probs=68.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCC-ceEEEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFG-TVKFIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG-~V~~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ...|||+|||+.+++++|+++|++|| +|.++.+.  +.++.|||+|.++++|++|++.|   |  |..|+|+.|.|+.+
T Consensus        28 ~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~l---n--g~~l~Gr~i~V~~a  102 (111)
T 2jvr_A           28 RYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERL---N--NIEFRGSVITVERD  102 (111)
T ss_dssp             CEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHT---T--TEEETTEEEEEEES
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHc---C--CCEECCeEEEEEEC
Confidence            45799999999999999999999999 99999985  45788999999999999999988   4  99999999999998


Q ss_pred             CChh
Q 043731          397 TGEA  400 (498)
Q Consensus       397 ~g~~  400 (498)
                      .+..
T Consensus       103 ~~~p  106 (111)
T 2jvr_A          103 DNPP  106 (111)
T ss_dssp             CC--
T ss_pred             CCCC
Confidence            7653

>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=99.35  E-value=1.6e-12  Score=105.38  Aligned_cols=74  Identities=18%  Similarity=0.201  Sum_probs=67.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ...++||+|||..+++++|+++|++||.|..|.+.++++.|||+|.++++|++|++.|.    +|..++|+.|.|+.+
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~----~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSF----NKLIVNGRRLNVKWG   84 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHTTT----TTCEETTEECCEEEC
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCCCEEEEEECCHHHHHHHHHHhc----CCeeECCCEEEEEec
Confidence            34579999999999999999999999999999999999999999999999999998761    289999999998865

>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=99.35  E-value=1.6e-12  Score=109.73  Aligned_cols=70  Identities=26%  Similarity=0.307  Sum_probs=64.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+         +|||||+|.++++|.+|+..  +..++|+.|.|.+.
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~---------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   80 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL---------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFA   80 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC---------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE---------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEc
Confidence            46899999999999999999999999999999885         46999999999999999994  78899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        81 ~   81 (103)
T 2dgu_A           81 K   81 (103)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.35  E-value=1.4e-13  Score=114.26  Aligned_cols=76  Identities=9%  Similarity=0.146  Sum_probs=66.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCC-ceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFG-TVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG-~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      .+|||+|||+.+|+++|+++|++|| +|..|.++++      ++.|||+|.++++|++|++++    .+++.|+|+.|.|
T Consensus         2 ~~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            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEAN----QHSLNILGQKVSM   77 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTT----TTEEEETTEEEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhc----CCCeEECCEEEEE
Confidence            4689999999999999999999999 8999988754      456999999999999999875    3488999999999


Q ss_pred             EEcCChh
Q 043731          394 EPVTGEA  400 (498)
Q Consensus       394 ~~~~g~~  400 (498)
                      ..+..+.
T Consensus        78 ~~a~~~~   84 (91)
T 2lxi_A           78 HYSDPKP   84 (91)
T ss_dssp             ECCCSCC
T ss_pred             EEcCCCC
Confidence            9886543

>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=99.34  E-value=1.2e-12  Score=112.64  Aligned_cols=74  Identities=18%  Similarity=0.170  Sum_probs=69.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..++||+|||..+++++|+++|++||.|..|.+.++++.|||+|.++++|++|+..|+     |..|+|+.|.|..+..
T Consensus        10 ~~~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           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLA-----YSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHT-----TCBSSSSBCEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhC-----CCEECCeEEEEEECCC
Confidence            3579999999999999999999999999999999999999999999999999999984     8999999999998754

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

Probab=99.34  E-value=1.9e-12  Score=106.49  Aligned_cols=71  Identities=14%  Similarity=0.242  Sum_probs=65.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|+|++         |||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~---------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   77 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK---------DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVEL   77 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS---------SCEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC---------CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            4578999999999999999999999999999999863         5999999999999999984  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        78 a~   79 (90)
T 2dnp_A           78 ST   79 (90)
T ss_dssp             SC
T ss_pred             CC
Confidence            74

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=3.4e-12  Score=106.59  Aligned_cols=75  Identities=15%  Similarity=0.147  Sum_probs=68.5

Q ss_pred             ceeeeccCCCccccHHHHH----HHhccCCceEEEEeecC---CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLK----SVFHKFGTVKFIDFKIG---AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLk----e~F~~fG~V~~V~~~~g---~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+||+|||..+++++|+    ++|++||.|..|.+.++   ++.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus         9 ~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~-----g~~~~gr~l~   83 (96)
T 2dgx_A            9 GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLH-----RYKIGSKKIL   83 (96)
T ss_dssp             CEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHT-----TEEETTEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhC-----CCEECCeEEE
Confidence            4579999999999999999    99999999999999865   5679999999999999999984     9999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+.+.
T Consensus        84 V~~a~~~   90 (96)
T 2dgx_A           84 VSLATGA   90 (96)
T ss_dssp             EEECCCS
T ss_pred             EEEcCCC
Confidence            9998654

>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=99.34  E-value=4.6e-12  Score=106.70  Aligned_cols=76  Identities=18%  Similarity=0.247  Sum_probs=69.0

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++    .+.|||+|.++++|++|+..|+     |..|+|+.|.|.
T Consensus        14 ~~~~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           14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH-----GTVVEGRKIEVN   88 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEE
Confidence            3458999999999999999999999999999999876    5679999999999999999884     899999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+..+
T Consensus        89 ~a~~~   93 (103)
T 2cq3_A           89 NATAR   93 (103)
T ss_dssp             ECCSS
T ss_pred             EcccC
Confidence            98653

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

Probab=99.34  E-value=4.2e-12  Score=104.83  Aligned_cols=74  Identities=14%  Similarity=0.144  Sum_probs=68.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++  .|||+|.++++|.+|+..|+     |..|+|+.|.|..+..
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~--~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V~~a~~   81 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--YAFVHMERAEDAVEAIRGLD-----NTEFQGKRMHVQLSTS   81 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSS--EEEEEESCHHHHHHHHHHHT-----TEEETTEEEEEEESSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECC--EEEEEECCHHHHHHHHHHhC-----CCeeCCcEEEEEEccC
Confidence            3568999999999999999999999999999999866  99999999999999999884     9999999999999865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      .
T Consensus        82 ~   82 (92)
T 2dgt_A           82 R   82 (92)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.34  E-value=1.6e-12  Score=105.88  Aligned_cols=74  Identities=20%  Similarity=0.341  Sum_probs=66.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..++||+|||..+++++|+++|++||.|..|.+.+       ..+.|||+|.++++|.+|++.++     |..|+|+.|.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~   78 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMD-----GGQIDGQEIT   78 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHT-----TCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcC-----CCeECCeEEE
Confidence            45789999999999999999999999999999864       45679999999999999999884     9999999999


Q ss_pred             EEEcCC
Q 043731          393 LEPVTG  398 (498)
Q Consensus       393 v~~~~g  398 (498)
                      |..+..
T Consensus        79 v~~a~~   84 (88)
T 4a8x_A           79 ATAVLA   84 (88)
T ss_dssp             EEEECC
T ss_pred             EEECCC
Confidence            998754

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

Probab=99.33  E-value=1.2e-12  Score=109.15  Aligned_cols=71  Identities=15%  Similarity=0.211  Sum_probs=64.6

Q ss_pred             cccceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ...++|||+|||+ ++|+++|+++|++||.|..|+|+         +|||||+|.+.++|.+|+..  +..+.|+.|.|.
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   78 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILE   78 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE---------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            4678999999998 99999999999999999999983         58999999999999999994  788999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        79 ~a~   81 (96)
T 2kvi_A           79 VSS   81 (96)
T ss_dssp             EEE
T ss_pred             EcC
Confidence            864

>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=99.33  E-value=2.3e-12  Score=104.79  Aligned_cols=70  Identities=17%  Similarity=0.410  Sum_probs=63.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccC----C-------ceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQH----V-------KVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLF  178 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~----G-------~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~  178 (498)
                      ...++|||+|||+++|+++|+++|++|    |       .|.+++++++       +|||||+|.++++|.+|+.. +..
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~-------kg~afV~f~~~~~a~~A~~l~g~~   76 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD-------KNFAFLEFRSVDETTQAMAFDGII   76 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS-------SSEEEEEESSHHHHHHHGGGTTCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC-------CcEEEEEcCCHHHHHHHHhcCCCE
Confidence            357899999999999999999999999    8       9999998753       69999999999999999953 888


Q ss_pred             eCCeEEEEe
Q 043731          179 YAGVELHLK  187 (498)
Q Consensus       179 ~~G~~l~v~  187 (498)
                      ++|+.|.|.
T Consensus        77 ~~g~~l~V~   85 (87)
T 2hzc_A           77 FQGQSLKIR   85 (87)
T ss_dssp             ETTEECEEE
T ss_pred             ECCeEEEEe
Confidence            999999875

>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=99.33  E-value=2.3e-12  Score=105.81  Aligned_cols=70  Identities=14%  Similarity=0.197  Sum_probs=64.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++++++|+++|++| .|..|+|.       +++|||||+|.++++|++|++.  +..++|+.|.|.+.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~-------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   75 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD-------RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQ   75 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE-------GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe-------CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEc
Confidence            46899999999999999999999999 99999984       3679999999999999999994  88899999999876

>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=99.33  E-value=1.2e-12  Score=117.99  Aligned_cols=75  Identities=19%  Similarity=0.231  Sum_probs=68.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||.|..|+|+++      ++|||||+|.+.++|.+|+..  +..++|++|.|.
T Consensus        70 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  143 (150)
T 2i2y_A           70 CPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN------PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVE  143 (150)
T ss_dssp             STTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS------SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC------CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            356799999999999999999999999999999999875      479999999999999999984  888999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus       144 ~a~  146 (150)
T 2i2y_A          144 LSN  146 (150)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            864

>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=99.33  E-value=3.4e-12  Score=103.82  Aligned_cols=75  Identities=13%  Similarity=0.033  Sum_probs=66.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.++     |..++|+.|.|
T Consensus         6 ~~~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            6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMG-----GQWLGGRQIRT   80 (87)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEE
Confidence            4578999999999999999999999999999998763      569999999999999999884     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+..+
T Consensus        81 ~~a~~k   86 (87)
T 3bs9_A           81 NWATRK   86 (87)
T ss_dssp             EEEC--
T ss_pred             EecCCC
Confidence            987653

>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=99.33  E-value=3.8e-12  Score=108.57  Aligned_cols=73  Identities=14%  Similarity=0.064  Sum_probs=68.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecC-----eEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN-----FIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g-----~~~~v~  394 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.++ +.|||+|.++++|++|++.|   |  |..|.|     +.|.|.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-g~afV~f~~~~~a~~Ai~~l---~--g~~~~g~~~~~~~i~V~   88 (108)
T 1x4c_A           15 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-GTGVVEFVRKEDMTYAVRKL---D--NTKFRSHEGETAYIRVK   88 (108)
T ss_dssp             CCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-TEEEEEESSHHHHHHHHHHS---S--SEEEECTTSCEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-CEEEEEECCHHHHHHHHHHH---C--cCCccCCcCcceEEEEE
Confidence            457999999999999999999999999999999987 89999999999999999987   4  999999     999999


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+..
T Consensus        89 ~a~~   92 (108)
T 1x4c_A           89 VDGP   92 (108)
T ss_dssp             ESSC
T ss_pred             eCCC
Confidence            9876

>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=99.33  E-value=4e-12  Score=105.84  Aligned_cols=77  Identities=10%  Similarity=0.062  Sum_probs=69.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.|.
T Consensus         3 ~~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            3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLN-----GYQLGSRFLKCG   77 (96)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             cEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEE
Confidence            47899999999999999999999999999999765      4679999999999999999884     899999999999


Q ss_pred             EcCChhHH
Q 043731          395 PVTGEAEK  402 (498)
Q Consensus       395 ~~~g~~E~  402 (498)
                      .+......
T Consensus        78 ~a~~~~~~   85 (96)
T 2x1f_A           78 YSSNSDIS   85 (96)
T ss_dssp             ECSCSSGG
T ss_pred             EcCCCCCC
Confidence            99775543

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.33  E-value=2.7e-12  Score=107.84  Aligned_cols=77  Identities=21%  Similarity=0.231  Sum_probs=66.8

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++|+   .|+++++.. ++.++|||||+|.++++|.+|+..  +..++|+.|.|.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   87 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRE-TGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLD   87 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSS-SCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCC-CCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            34679999999999999999999999885   556666654 567899999999999999999984  889999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        88 ~a~   90 (102)
T 2fc8_A           88 WAK   90 (102)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            874

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

Probab=99.32  E-value=3.5e-12  Score=104.93  Aligned_cols=74  Identities=22%  Similarity=0.157  Sum_probs=67.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++  .|||+|.++++|++|++.++     |..|+|+.|.|..+..
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~--~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~   80 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--YAFVHMEKEADAKAAIAQLN-----GKEVKGKRINVELSTK   80 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSS--CEEEEESCHHHHHHHHHHHT-----TCEETTEECEEEESCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECC--EEEEEECCHHHHHHHHHHhC-----CCEECCcEEEEEECCC
Confidence            3457899999999999999999999999999999866  99999999999999999884     8999999999999865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      .
T Consensus        81 ~   81 (90)
T 2dnp_A           81 G   81 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.32  E-value=7e-12  Score=104.97  Aligned_cols=75  Identities=17%  Similarity=0.186  Sum_probs=68.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.     +.|||+|.++++|++|++.++     |..|+|+.|.|.
T Consensus        17 ~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~   91 (100)
T 2do4_A           17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMD-----GMTIKENIIKVA   91 (100)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHT-----TEESSSCEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEE
Confidence            4579999999999999999999999999999998755     569999999999999999884     899999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+...
T Consensus        92 ~a~~~   96 (100)
T 2do4_A           92 ISNSG   96 (100)
T ss_dssp             ECCCC
T ss_pred             ECCCC
Confidence            98654

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

Probab=99.32  E-value=4.5e-12  Score=106.07  Aligned_cols=71  Identities=24%  Similarity=0.295  Sum_probs=64.6

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccC--CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQH--VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~--G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++|  |.|..|+++         +|||||+|.+.++|.+|+..  +..++|+.|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   83 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI---------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEV   83 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC---------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEE
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe---------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            457899999999999999999999999  999998763         58999999999999999994  88899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        84 ~~a~   87 (99)
T 2cpd_A           84 TLAK   87 (99)
T ss_dssp             ECCC
T ss_pred             EECC
Confidence            8874

>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=99.32  E-value=4.2e-12  Score=102.79  Aligned_cols=72  Identities=15%  Similarity=0.123  Sum_probs=65.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|.+|++.++     |..|+|+.|.|
T Consensus         7 ~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v   81 (85)
T 3mdf_A            7 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN-----ESELFGRTIRV   81 (85)
T ss_dssp             SSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhC-----CCEECCcEEEE
Confidence            457899999999999999999999999999998653      5569999999999999999884     89999999999


Q ss_pred             EEc
Q 043731          394 EPV  396 (498)
Q Consensus       394 ~~~  396 (498)
                      ..+
T Consensus        82 ~~a   84 (85)
T 3mdf_A           82 NLA   84 (85)
T ss_dssp             EEC
T ss_pred             EEc
Confidence            875

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.32  E-value=1.6e-12  Score=108.56  Aligned_cols=74  Identities=15%  Similarity=0.146  Sum_probs=65.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|+++|++||.|. ++++..     .++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   90 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ-----GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVAL   90 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE-----TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC-----CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            4568999999999999999999999999997 565543     4689999999999999999974  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        91 a~   92 (97)
T 2e5j_A           91 AR   92 (97)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>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=99.32  E-value=2.1e-12  Score=108.09  Aligned_cols=75  Identities=15%  Similarity=0.150  Sum_probs=69.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.++++.|||+|.++++|.+|++.|.     |..|+|+.|.|..+..+
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~kg~afV~f~~~~~a~~a~~~l~-----g~~~~g~~l~v~~a~~~   89 (99)
T 2cpj_A           15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELD-----NMPLRGKQLRVRFACHS   89 (99)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHT-----TCCBTTBCCEEEESSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecCCCEEEEEECCHHHHHHHHHHhC-----CCEeCCceEEEEEcCCC
Confidence            4479999999999999999999999999999999999999999999999999999884     88999999999988653

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

Probab=99.32  E-value=4e-12  Score=104.56  Aligned_cols=74  Identities=14%  Similarity=0.182  Sum_probs=67.6

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ...++||+|||..+++++|+++|++||.|..|.+.  ++.|||+|.++++|++|++.++     |..|+|+.|.|+.+..
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~--~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--KNYGFVHIEDKTAAEDAIRNLH-----HYKLHGVNINVEASKN   79 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE--TTEEEEEESSHHHHHHHHHHHT-----TCBCSSCBCEEECSSC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE--CCEEEEEECCHHHHHHHHHHhc-----CCccCCcEEEEEECCC
Confidence            35689999999999999999999999999999998  5699999999999999999884     8999999999998865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      .
T Consensus        80 ~   80 (90)
T 2dnq_A           80 K   80 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.32  E-value=3.3e-12  Score=108.93  Aligned_cols=75  Identities=13%  Similarity=0.128  Sum_probs=69.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++++.|||.|.++++|.+|+..|.     |..|+|+.|.|..+..+
T Consensus        25 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~~   99 (109)
T 1x4g_A           25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVN-----GTTIEGHVVKCYWGKES   99 (109)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEECCCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHcC-----CCEECCcEEEEEecCCC
Confidence            4579999999999999999999999999999999999999999999999999999884     89999999999987654

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

Probab=99.32  E-value=2.4e-12  Score=120.18  Aligned_cols=77  Identities=19%  Similarity=0.306  Sum_probs=71.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++++++|+++|++||.|..|.|+++.  ++.++|||||+|.+.++|.+|+..  +..++|+.|.|.+.
T Consensus        87 ~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~--~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a  164 (177)
T 2f3j_A           87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR--SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  164 (177)
T ss_dssp             TCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT--TSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--CCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            35799999999999999999999999999999999886  467899999999999999999994  78899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus       165 ~  165 (177)
T 2f3j_A          165 A  165 (177)
T ss_dssp             S
T ss_pred             c
Confidence            4

>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=99.32  E-value=2e-12  Score=106.84  Aligned_cols=72  Identities=14%  Similarity=0.214  Sum_probs=63.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCc-eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--C-CeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVK-VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--G-LFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~-V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~-~~~~G~~l~v  186 (498)
                      ...++|||+|||+++|+++|+++|++||. |..+.++        .+|||||+|.+.++|.+|+..  + ..++|+.|.|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~--------~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v   77 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL--------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEV   77 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE--------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc--------CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEE
Confidence            35689999999999999999999999999 6666652        469999999999999999984  6 8899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+..
T Consensus        78 ~~a~   81 (93)
T 2cqh_A           78 DYSV   81 (93)
T ss_dssp             EECC
T ss_pred             EEcc
Confidence            8874

>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=99.31  E-value=1.7e-12  Score=116.11  Aligned_cols=79  Identities=23%  Similarity=0.289  Sum_probs=67.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeE--Ecccc---cCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSV--RLPRH---VADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~V--ri~r~---~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      ...++|||+|||+++|+++|+++|++||.|..+  +++.+   .. ++.++|||||+|.+.++|.+|+..  +..++|+.
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~-~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~  121 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMK-EGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKP  121 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEE-ETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEecc-CCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            356899999999999999999999999999875  22222   11 466899999999999999999994  88999999


Q ss_pred             EEEeecc
Q 043731          184 LHLKPKK  190 (498)
Q Consensus       184 l~v~~k~  190 (498)
                      |.|.++.
T Consensus       122 l~V~~a~  128 (143)
T 3egn_A          122 MVVQFAR  128 (143)
T ss_dssp             CEEEECC
T ss_pred             EEEEECC
Confidence            9999874

>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=99.31  E-value=6.1e-12  Score=105.91  Aligned_cols=76  Identities=16%  Similarity=0.059  Sum_probs=68.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++    ++.|||+|.++++|++|+..|+     |..|.|+.|.|..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V~~   89 (103)
T 2cqi_A           15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMN-----GRKILGKEVKVNW   89 (103)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHT-----TEEETTEEEEEEE
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhC-----CCCcCCCeEEEEE
Confidence            457999999999999999999999999999999873    4679999999999999999884     9999999999999


Q ss_pred             cCChh
Q 043731          396 VTGEA  400 (498)
Q Consensus       396 ~~g~~  400 (498)
                      +....
T Consensus        90 a~~~~   94 (103)
T 2cqi_A           90 ATTPS   94 (103)
T ss_dssp             CCCTT
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=99.31  E-value=2.6e-12  Score=109.72  Aligned_cols=70  Identities=26%  Similarity=0.337  Sum_probs=64.6

Q ss_pred             ccceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||++ +|+++|+++|++||.|..|+|         ++|||||+|.+.++|++|+..  +..++|+.|.|.+
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i---------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   96 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV---------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINM   96 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE---------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE---------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            4589999999999 999999999999999999988         369999999999999999974  8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        97 a~   98 (110)
T 1wf1_A           97 AG   98 (110)
T ss_dssp             SC
T ss_pred             CC
Confidence            74

>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=99.31  E-value=2.4e-12  Score=136.34  Aligned_cols=77  Identities=14%  Similarity=0.172  Sum_probs=69.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||+.+|+++|+++|++||.|..|.|+.+      .+.|||.|.++++|.+|+.+|   |  |..|+|+.|.|
T Consensus       102 ~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~l---n--g~~i~gr~i~V  176 (437)
T 3pgw_S          102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA---D--GKKIDGRRVLV  176 (437)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHc---C--CCEECCEEEEE
Confidence            347899999999999999999999999999998754      567999999999999999988   4  99999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      ..+.+..-
T Consensus       177 ~~a~~~~~  184 (437)
T 3pgw_S          177 DVERGRTV  184 (437)
T ss_pred             EEeCCCCC
Confidence            99987543

>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=99.31  E-value=2.5e-12  Score=111.93  Aligned_cols=74  Identities=20%  Similarity=0.185  Sum_probs=67.2

Q ss_pred             ceeeec--cCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEe-----cCeEEE
Q 043731          320 TSIDTY--KDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV-----KNFIAV  392 (498)
Q Consensus       320 ~~~vfv--~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i-----~g~~~~  392 (498)
                      +.++||  +||++.+++++|+++|++||.|..|.+.++++.|||+|.++++|++|+++|+     |..|     .|+.++
T Consensus        25 t~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~ln-----G~~~~~~lg~g~~l~   99 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLN-----GKEVVDDLGQKITLY   99 (114)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTT-----TCEEECTTSCEEECE
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCEEccccCCCcEEE
Confidence            446899  7799999999999999999999999999999999999999999999999984     8877     688999


Q ss_pred             EEEcCC
Q 043731          393 LEPVTG  398 (498)
Q Consensus       393 v~~~~g  398 (498)
                      |..+..
T Consensus       100 v~~a~~  105 (114)
T 2cq2_A          100 LNFVEK  105 (114)
T ss_dssp             EEEESC
T ss_pred             EEeccc
Confidence            988764

>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=99.31  E-value=2.7e-12  Score=108.38  Aligned_cols=79  Identities=18%  Similarity=0.149  Sum_probs=70.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecC---eE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN---FI  390 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g---~~  390 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.++++|++|++.|+     |..+.|   +.
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~gg~~~~   88 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH-----GSQTMPGASSS   88 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHS-----SCCCCTTCSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHc-----CCccCCCCCcc
Confidence            3568999999999999999999999999999999876     4679999999999999999884     788887   99


Q ss_pred             EEEEEcCChhHH
Q 043731          391 AVLEPVTGEAEK  402 (498)
Q Consensus       391 ~~v~~~~g~~E~  402 (498)
                      |.|..+..+.++
T Consensus        89 l~V~~a~~~~~~  100 (105)
T 2dnh_A           89 LVVKFADTDKES  100 (105)
T ss_dssp             CEEEESCSSCCC
T ss_pred             EEEEECccCccc
Confidence            999999876543

>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=99.30  E-value=6.7e-12  Score=105.92  Aligned_cols=76  Identities=20%  Similarity=0.249  Sum_probs=68.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++  .|||+|.++++|++|++.|+     |..|+|+.|.|..+..
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~--~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--YAFIHFDERDGAVKAMEEMN-----GKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECSS--CEEEEESSHHHHHHHHHHHT-----TEEETTEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC--EEEEEeCCHHHHHHHHHHHC-----CCccCCCEEEEEEcCC
Confidence            4457999999999999999999999999999998865  99999999999999999884     8999999999999866


Q ss_pred             hhH
Q 043731          399 EAE  401 (498)
Q Consensus       399 ~~E  401 (498)
                      ...
T Consensus        83 ~~~   85 (103)
T 2dgu_A           83 PDQ   85 (103)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            443

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

Probab=99.30  E-value=2.3e-12  Score=108.64  Aligned_cols=75  Identities=17%  Similarity=0.161  Sum_probs=67.3

Q ss_pred             cceeeeccCCCc------cccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEe
Q 043731          319 KTSIDTYKDNMD------VVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSV  386 (498)
Q Consensus       319 ~~~~vfv~nL~~------~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i  386 (498)
                      ...+|||+|||.      .+++++|+++|++||.|..|.++++      ++.|||.|.++++|++|+..|+     |..|
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~ln-----g~~~   79 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH-----GKRL   79 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHT-----TCBS
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhC-----Cccc
Confidence            345799999999      9999999999999999999998754      3569999999999999999884     8999


Q ss_pred             cC-eEEEEEEcCC
Q 043731          387 KN-FIAVLEPVTG  398 (498)
Q Consensus       387 ~g-~~~~v~~~~g  398 (498)
                      +| +.|.|..+..
T Consensus        80 ~g~r~l~V~~a~~   92 (100)
T 3ns6_A           80 DLKHRLFLYTMKD   92 (100)
T ss_dssp             SSSCBCEEEESHH
T ss_pred             CCCeEEEEEECch
Confidence            99 9999999864

>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=99.29  E-value=6.4e-12  Score=102.43  Aligned_cols=71  Identities=18%  Similarity=0.186  Sum_probs=62.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.    +  +..|+|+.|.|
T Consensus        11 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~----~--~~~~~g~~i~v   84 (87)
T 3s7r_A           11 AGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQ----K--EHRLDGRVIDP   84 (87)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHS----S--CEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHh----C--CCEECCEEEEE
Confidence            4578999999999999999999999999999987653      4699999999999999864    3  77899999999


Q ss_pred             EEc
Q 043731          394 EPV  396 (498)
Q Consensus       394 ~~~  396 (498)
                      +.+
T Consensus        85 ~~A   87 (87)
T 3s7r_A           85 KKA   87 (87)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            864

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

Probab=99.29  E-value=5.7e-12  Score=106.57  Aligned_cols=78  Identities=21%  Similarity=0.219  Sum_probs=69.6

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++       .+.|||+|.++++|++|++.+.  |  |..|.|+.|
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~--~--~~~~~g~~l   89 (107)
T 2cph_A           14 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALC--H--STHLYGRRL   89 (107)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHH--T--CCBSSSCBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhc--c--CCeECCCEE
Confidence            3457999999999999999999999999999999877       5679999999999999999872  2  899999999


Q ss_pred             EEEEcCChh
Q 043731          392 VLEPVTGEA  400 (498)
Q Consensus       392 ~v~~~~g~~  400 (498)
                      .|..+..+.
T Consensus        90 ~v~~a~~~~   98 (107)
T 2cph_A           90 VLEWADSEV   98 (107)
T ss_dssp             EEEECCCCC
T ss_pred             EEEeCCCCC
Confidence            999987643

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

Probab=99.29  E-value=3.4e-12  Score=105.00  Aligned_cols=76  Identities=20%  Similarity=0.207  Sum_probs=67.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.+.    ++.|||+|.++++|++|++.|+     |..|+|+.|.|+
T Consensus         7 ~~~~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            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMN-----GMKLSGREIDVR   81 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHT-----TCCBTTBCCCCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhC-----CCEECCcEEEEE
Confidence            3457999999999999999999999999999998863    4569999999999999999884     889999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+...
T Consensus        82 ~a~~~   86 (92)
T 2dgv_A           82 IDRNA   86 (92)
T ss_dssp             ECSCC
T ss_pred             EcCCC
Confidence            88653

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

Probab=99.29  E-value=4.7e-12  Score=108.37  Aligned_cols=76  Identities=18%  Similarity=0.253  Sum_probs=68.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ....+||+|||..+++++|+++|++||.|..|.+.++    ++.|||+|.++++|++|++.++     |..|+|+.|.|+
T Consensus        28 ~~~~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           28 QPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH-----GTVVEGRKIEVN  102 (109)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcC-----CCEECCEEEEEE
Confidence            3457999999999999999999999999999998765    5679999999999999999884     899999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+..+
T Consensus       103 ~a~~~  107 (109)
T 2err_A          103 NATAR  107 (109)
T ss_dssp             ECCCS
T ss_pred             ECCCC
Confidence            88653

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

Probab=99.29  E-value=3.5e-12  Score=112.88  Aligned_cols=77  Identities=16%  Similarity=0.264  Sum_probs=68.0

Q ss_pred             ceEEeccC----CCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCC----HHH----HHHHHH----hCC
Q 043731          114 RTIAATPL----EYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFST----EED----AEKVLK----QGL  177 (498)
Q Consensus       114 rtV~V~nL----p~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s----~e~----A~kAl~----~~~  177 (498)
                      ..|||+||    |+++++.+|+++|++||+|.++.++.|+. |+.++|||||+|.+    +++    |.+|+.    ++.
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~-Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~   81 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPN-SALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGC   81 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTT-TCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC-CCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCC
Confidence            57999999    99999999999999999999999999987 78999999999996    444    788888    378


Q ss_pred             eeCCeEEEEeecch
Q 043731          178 FYAGVELHLKPKKE  191 (498)
Q Consensus       178 ~~~G~~l~v~~k~d  191 (498)
                      .++|+.|+|..-.+
T Consensus        82 ~I~Gr~irV~ln~~   95 (136)
T 2j8a_A           82 FIMGFKFEVILNKH   95 (136)
T ss_dssp             EETTEEEEEEECCT
T ss_pred             eecCcEEEEEECcc
Confidence            99999999987643

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

Probab=99.29  E-value=2.9e-12  Score=107.97  Aligned_cols=77  Identities=23%  Similarity=0.236  Sum_probs=69.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++    .+.|||+|.++++|++|++.|+     |..|+|+.|.|..
T Consensus        15 ~~~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           15 VVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMN-----GRIVATKPLYVAL   89 (103)
T ss_dssp             CCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHT-----TCBSSSSBCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhC-----CCEeCCcEEEEEE
Confidence            457899999999999999999999999999999864    5679999999999999999884     8999999999999


Q ss_pred             cCChhH
Q 043731          396 VTGEAE  401 (498)
Q Consensus       396 ~~g~~E  401 (498)
                      +..+.+
T Consensus        90 a~~~~~   95 (103)
T 2d9p_A           90 AQRKEE   95 (103)
T ss_dssp             CSSCCC
T ss_pred             eccccc
Confidence            876543

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

Probab=99.29  E-value=2.8e-12  Score=107.63  Aligned_cols=73  Identities=12%  Similarity=0.089  Sum_probs=67.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ..++||+|||..+++++|+++|++||.|..|.+.++++.|||+|.+.++|.+|+..++     |..|+|+.|.|..+.
T Consensus        27 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALA-----NFPFQGRNLRTGWGK   99 (101)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHT-----TCEETTEECCCCBCC
T ss_pred             CCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEEecc
Confidence            3578999999999999999999999999999999999999999999999999999884     999999999887654

>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=99.29  E-value=8.3e-12  Score=105.69  Aligned_cols=75  Identities=20%  Similarity=0.174  Sum_probs=67.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        28 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V  102 (107)
T 3ulh_A           28 TGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN-----GVPLDGRPMNI  102 (107)
T ss_dssp             CSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEeCCcEEEE
Confidence            4568999999999999999999999999999998855     4569999999999999999884     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+.+
T Consensus       103 ~~a~s  107 (107)
T 3ulh_A          103 QLVTS  107 (107)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            98753

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

Probab=99.29  E-value=5.4e-12  Score=104.74  Aligned_cols=73  Identities=22%  Similarity=0.309  Sum_probs=62.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|..|  +.+.. ++.   ||||+|.++++|.+|+.. +..++|+.|.|.+.
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~-~g~---~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~~a   79 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKD-KGV---FAIVEMGDVGAREAVLSQSQHSLGGHRLRVRPR   79 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSS-SCC---EEEEEESSHHHHHHHHTCSCCEETTEECCCBCS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCC-CCc---EEEEEECCHHHHHHHHhcCCeEECCEEEEEEEC
Confidence            356899999999999999999999999999998  33322 232   999999999999999995 78899999998765

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

Probab=99.29  E-value=4.3e-12  Score=106.67  Aligned_cols=75  Identities=5%  Similarity=0.043  Sum_probs=64.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCc--eEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGT--VKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~--V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ++||+|||+.+|+|+|+++|++||.  |..|.+.++      ++.|||+|.++++|++|++.++.. ..++.|+|+.|.|
T Consensus        11 tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~-~~~~~i~Gr~i~V   89 (95)
T 2lkz_A           11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSL-HPPLKIDGKTIGV   89 (95)
T ss_dssp             EEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSS-SSCEEETTEEEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCC-CCCceECCEEEEE
Confidence            7899999999999999999999995  667877654      457999999999999999998521 2346899999999


Q ss_pred             EEcC
Q 043731          394 EPVT  397 (498)
Q Consensus       394 ~~~~  397 (498)
                      ..+.
T Consensus        90 ~~Ak   93 (95)
T 2lkz_A           90 DFAK   93 (95)
T ss_dssp             EECC
T ss_pred             EEcc
Confidence            9875

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

Probab=99.29  E-value=4.6e-12  Score=105.59  Aligned_cols=75  Identities=25%  Similarity=0.248  Sum_probs=66.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC---------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG---------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g---------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.++         .+.|||+|.++++|++|++.|+     |..|+|+.
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~   79 (98)
T 2cpf_A            5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQ-----GHTVDGHK   79 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHST-----TCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhC-----CCeeCCeE
Confidence            457899999999999999999999999999998753         3569999999999999999874     89999999


Q ss_pred             EEEEEcCCh
Q 043731          391 AVLEPVTGE  399 (498)
Q Consensus       391 ~~v~~~~g~  399 (498)
                      |.|..+...
T Consensus        80 l~V~~a~~~   88 (98)
T 2cpf_A           80 LEVRISERA   88 (98)
T ss_dssp             CEEECSSCS
T ss_pred             EEEEEccCC
Confidence            999988653

>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=99.29  E-value=6.4e-12  Score=103.99  Aligned_cols=73  Identities=16%  Similarity=0.129  Sum_probs=66.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.++++|++|++.++     |..|+|+.|.|.
T Consensus        16 ~~~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           16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN-----GIRLYGRPINVS   90 (95)
T ss_dssp             GGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhC-----CCEECCCEEEEE
Confidence            457999999999999999999999999999999875     3569999999999999999884     899999999998


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      .+.
T Consensus        91 ~a~   93 (95)
T 2ywk_A           91 GPS   93 (95)
T ss_dssp             CCC
T ss_pred             EcC
Confidence            763

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

Probab=99.28  E-value=7.4e-12  Score=105.09  Aligned_cols=76  Identities=14%  Similarity=0.102  Sum_probs=68.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.|+     |..|+|+.|.
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   85 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN-----ESELFGRTIR   85 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHT-----TEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEECCcEEE
Confidence            3457999999999999999999999999999998764      5579999999999999999884     9999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+...
T Consensus        86 V~~a~~~   92 (102)
T 2cqb_A           86 VNLAKPM   92 (102)
T ss_dssp             EEECCCC
T ss_pred             EEeCCCC
Confidence            9998653

>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=99.28  E-value=1.1e-11  Score=102.45  Aligned_cols=76  Identities=16%  Similarity=0.144  Sum_probs=62.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..++||+|||+.+|+++|+++|++||.|..|.+++ .++.|||.|.++++|+++       +...+.++|+.+.|..+..
T Consensus        11 ~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~srGfaFV~F~~~~~A~~~-------~~~~~~~~g~~v~v~~a~~   83 (89)
T 3d2w_A           11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSL-------CGEDLIIKGISVHISNAEP   83 (89)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSSCCSEEEEEESCHHHHHHH-------TTCEEEETTEEEEEEECC-
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeCCCCEEEEEECCHHHHHHH-------cCCCcccCCEEEEEEEcCC
Confidence            45799999999999999999999999999999986 478999999999999843       3346778899999999887


Q ss_pred             hhHH
Q 043731          399 EAEK  402 (498)
Q Consensus       399 ~~E~  402 (498)
                      +.++
T Consensus        84 k~~~   87 (89)
T 3d2w_A           84 KHNK   87 (89)
T ss_dssp             ----
T ss_pred             CCcC
Confidence            6543

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

Probab=99.28  E-value=1.8e-11  Score=101.11  Aligned_cols=73  Identities=16%  Similarity=0.144  Sum_probs=65.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   89 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAIN-----NKQLFGRVIK   89 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTT-----TEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcC-----CCeeCCcEEE
Confidence            3457999999999999999999999999999999764      3569999999999999999874     9999999999


Q ss_pred             EEEc
Q 043731          393 LEPV  396 (498)
Q Consensus       393 v~~~  396 (498)
                      |..+
T Consensus        90 v~~a   93 (94)
T 2e5h_A           90 ASIA   93 (94)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            9875

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

Probab=99.28  E-value=7.4e-12  Score=105.42  Aligned_cols=75  Identities=19%  Similarity=0.174  Sum_probs=67.6

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.|+     |..|+|+.|.
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   86 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMD-----GAELDGRELR   86 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHS-----SCCBTTBCCE
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcC-----CCEECCcEEE
Confidence            3457999999999999999999999999999999765      3569999999999999999884     8999999999


Q ss_pred             EEEcCC
Q 043731          393 LEPVTG  398 (498)
Q Consensus       393 v~~~~g  398 (498)
                      |..+..
T Consensus        87 V~~a~~   92 (103)
T 2dnm_A           87 VQVARY   92 (103)
T ss_dssp             EEECSS
T ss_pred             EEECCc
Confidence            999864

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

Probab=99.27  E-value=9.5e-12  Score=102.94  Aligned_cols=75  Identities=20%  Similarity=0.227  Sum_probs=67.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +..|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.++     |..|+|+.|.|
T Consensus         5 ~~~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            5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLN-----GFELAGRPMRV   79 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHT-----TCCSSSSCCEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhC-----CCeeCCcEEEE
Confidence            4578999999999999999999999999999998753      479999999999999999884     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+..+
T Consensus        80 ~~a~~~   85 (95)
T 2dnz_A           80 GHVTER   85 (95)
T ss_dssp             EESSCC
T ss_pred             EEcccc
Confidence            988653

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

Probab=99.27  E-value=1.8e-11  Score=101.15  Aligned_cols=74  Identities=16%  Similarity=0.213  Sum_probs=66.4

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|+     |..|+|+.|.
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   88 (95)
T 2cqc_A           14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN-----GMELDGRRIR   88 (95)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHT-----TEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhC-----CCEECCEEEE
Confidence            34579999999999999999999999999999997653      469999999999999999884     9999999999


Q ss_pred             EEEcC
Q 043731          393 LEPVT  397 (498)
Q Consensus       393 v~~~~  397 (498)
                      |..+.
T Consensus        89 v~~a~   93 (95)
T 2cqc_A           89 VSGPS   93 (95)
T ss_dssp             EECCS
T ss_pred             EEecC
Confidence            98764

>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=99.27  E-value=4e-12  Score=108.03  Aligned_cols=80  Identities=13%  Similarity=0.059  Sum_probs=70.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCc-eEEEEee-------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGT-VKFIDFK-------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~-V~~V~~~-------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      ...++||+|||..+++++|+++|++||. |..|.+.       +.++.|||+|.++++|++|+..|   +.|+..++|+.
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l---~~g~~~~~g~~   83 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKL---MPGRIQLWGHQ   83 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTT---TTCCSCBTTBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHh---hCCCceecCCe
Confidence            3457999999999999999999999998 9999987       45678999999999999999877   34459999999


Q ss_pred             EEEEEcCChhH
Q 043731          391 AVLEPVTGEAE  401 (498)
Q Consensus       391 ~~v~~~~g~~E  401 (498)
                      |.|..+..+.+
T Consensus        84 l~V~~a~~~~~   94 (109)
T 2dis_A           84 IAVDWAEPEID   94 (109)
T ss_dssp             CEEEESCSSCS
T ss_pred             EEEEEcCCCCC
Confidence            99999876544

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

Probab=99.27  E-value=8.7e-12  Score=106.78  Aligned_cols=76  Identities=22%  Similarity=0.184  Sum_probs=68.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ....+||+|||..+++++|+++|++||.|..|.+.  ++.|||+|.+.++|++|+..|+     |..|+|+.|.|..+..
T Consensus        30 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~--kg~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V~~a~~  102 (108)
T 2jvo_A           30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--NGFAFVEFEEAESAAKAIEEVH-----GKSFANQPLEVVYSKL  102 (108)
T ss_dssp             SCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE--TTEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEESCSC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE--CCEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEEecC
Confidence            34579999999999999999999999999999988  6799999999999999999884     8999999999998876


Q ss_pred             hhH
Q 043731          399 EAE  401 (498)
Q Consensus       399 ~~E  401 (498)
                      ...
T Consensus       103 ~~~  105 (108)
T 2jvo_A          103 PAK  105 (108)
T ss_dssp             CC-
T ss_pred             CCC
Confidence            543

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

Probab=99.27  E-value=3.4e-12  Score=107.11  Aligned_cols=74  Identities=16%  Similarity=0.180  Sum_probs=68.8

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC-CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChh
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEA  400 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~  400 (498)
                      ++||+|||..+++++|+++|++||.|..|.+.++ .+.|||+|.++++|++|++.++     |..++|+.|.|..+....
T Consensus         2 ~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            2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLD-----GKVICGSRVRVELSTGMP   76 (101)
T ss_dssp             EEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESSSSSEEEEECSSHHHHHHHHHHHH-----HSCSSSCCCEEEESSSCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHC-----CCeECCcEEEEEEccCCC
Confidence            5899999999999999999999999999999886 8899999999999999999985     788999999999997754

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

Probab=99.27  E-value=1.5e-11  Score=105.14  Aligned_cols=80  Identities=11%  Similarity=0.042  Sum_probs=68.5

Q ss_pred             cccceEEeccCCC-----CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          111 LDVRTIAATPLEY-----DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~-----~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      ...++|+++|+..     +.++++|++.|++||.|.+|+|++++..+++++|+|||+|.++++|.+|+..  +..|+|+.
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~   85 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRV   85 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcE
Confidence            3578999999963     2478999999999999999999987543457899999999999999999984  89999999


Q ss_pred             EEEeecc
Q 043731          184 LHLKPKK  190 (498)
Q Consensus       184 l~v~~k~  190 (498)
                      |.|.+..
T Consensus        86 i~v~~a~   92 (105)
T 2pe8_A           86 VKACFYN   92 (105)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcC
Confidence            9998864

>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=99.27  E-value=1.1e-11  Score=105.57  Aligned_cols=74  Identities=20%  Similarity=0.287  Sum_probs=67.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC---CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG---AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g---~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+..+   ++.|||+|.++++|++|++.|+     +..|+|+.|.|..+
T Consensus        22 ~~~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           22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRD-----GYDYDGYRLRVEFP   96 (109)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHT-----TCEETTEECEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEEc
Confidence            457999999999999999999999999999998765   4589999999999999999884     89999999999988


Q ss_pred             CC
Q 043731          397 TG  398 (498)
Q Consensus       397 ~g  398 (498)
                      ..
T Consensus        97 ~~   98 (109)
T 1x4a_A           97 RS   98 (109)
T ss_dssp             CC
T ss_pred             cc
Confidence            65

>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=99.27  E-value=5.5e-12  Score=106.15  Aligned_cols=81  Identities=17%  Similarity=0.177  Sum_probs=72.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.+   +  |..|+|+.|.|.
T Consensus         9 ~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l---~--g~~~~g~~l~v~   83 (104)
T 1p1t_A            9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL---N--GREFSGRALRVD   83 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS---S--SBSCSSSCBEEE
T ss_pred             cEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHh---C--CCeeCCcEEEEE
Confidence            47899999999999999999999999999998765      457999999999999999987   4  899999999999


Q ss_pred             EcCChhHHHHHH
Q 043731          395 PVTGEAEKEYWS  406 (498)
Q Consensus       395 ~~~g~~E~e~~~  406 (498)
                      .+..+..++..+
T Consensus        84 ~a~~~~~~~~~~   95 (104)
T 1p1t_A           84 NAASEKNKEELK   95 (104)
T ss_dssp             ETTCTTHHHHHH
T ss_pred             eCCCccchhhhc
Confidence            998877776544

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

Probab=99.27  E-value=3.6e-12  Score=108.55  Aligned_cols=72  Identities=18%  Similarity=0.098  Sum_probs=64.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+|||+|||+.+|+++|+++|++||.|..|.++++     ++.|||.|.++++|++|++ +   +  |..|+|+.|.|.
T Consensus        11 ~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~---~--~~~~~gr~l~V~   84 (103)
T 1s79_A           11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-T---P--GQKYKETDLLIL   84 (103)
T ss_dssp             GGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-S---S--CCCCTTTTCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-c---C--CCEECCEEEEEE
Confidence            357899999999999999999999999999999863     5679999999999999987 4   4  899999999999


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      ...
T Consensus        85 ~~~   87 (103)
T 1s79_A           85 FKD   87 (103)
T ss_dssp             EHH
T ss_pred             Ech
Confidence            643

>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=99.27  E-value=6.8e-12  Score=107.63  Aligned_cols=75  Identities=15%  Similarity=0.145  Sum_probs=67.9

Q ss_pred             ceeeeccCCCccccHHHHH---HHhccCCceEEEEeecCC---------ceEEEEeCCHHHHHHHHHHHhhcccCCeEec
Q 043731          320 TSIDTYKDNMDVVMREDLK---SVFHKFGTVKFIDFKIGA---------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVK  387 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLk---e~F~~fG~V~~V~~~~g~---------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~  387 (498)
                      ..+|||+|||..+++++|+   ++|++||.|..|.+.++.         +.|||+|.++++|++|++.|+     |..|+
T Consensus        15 ~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~ln-----g~~~~   89 (111)
T 2cpi_A           15 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVN-----NVVVD   89 (111)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHT-----TEEET
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhC-----CCEEC
Confidence            4478999999999999999   999999999999998654         479999999999999999984     99999


Q ss_pred             CeEEEEEEcCCh
Q 043731          388 NFIAVLEPVTGE  399 (498)
Q Consensus       388 g~~~~v~~~~g~  399 (498)
                      |+.|.|..+..+
T Consensus        90 gr~l~V~~a~~k  101 (111)
T 2cpi_A           90 GRTLKASLGTTK  101 (111)
T ss_dssp             TEEEEEESCCCC
T ss_pred             CEEEEEEecccc
Confidence            999999988654

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

Probab=99.27  E-value=1.1e-11  Score=106.51  Aligned_cols=75  Identities=17%  Similarity=0.087  Sum_probs=68.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V   89 (115)
T 2dgo_A           15 HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMG-----GQWLGGRQIRT   89 (115)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTT-----TCEETTEECEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            4579999999999999999999999999999998763      569999999999999999874     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+..+
T Consensus        90 ~~a~~~   95 (115)
T 2dgo_A           90 NWATRK   95 (115)
T ss_dssp             EESSCC
T ss_pred             EEccCC
Confidence            998654

>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=99.26  E-value=5.4e-12  Score=108.01  Aligned_cols=77  Identities=19%  Similarity=0.242  Sum_probs=68.7

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....+||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus        25 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~-----g~~i~g~~l~   99 (108)
T 2jrs_A           25 GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLN-----GFELAGRPMK   99 (108)
T ss_dssp             SCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHT-----TCCSSSSCCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcC-----CCEECCEEEE
Confidence            4568999999999999999999999999999998754      3579999999999999999884     8999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+..+.
T Consensus       100 V~~a~~k~  107 (108)
T 2jrs_A          100 VGHVTERT  107 (108)
T ss_dssp             EECSCSSC
T ss_pred             EEEcccCC
Confidence            99887653

>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=99.26  E-value=1.4e-11  Score=103.31  Aligned_cols=72  Identities=22%  Similarity=0.252  Sum_probs=66.3

Q ss_pred             ceeeeccCCCc-cccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..++||+|||. .+++++|+++|++||.|..|.+.  ++.|||+|.+.++|.+|+..++     |..++|+.|.|+.+.+
T Consensus        22 ~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~--~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V~~a~~   94 (97)
T 2xnq_A           22 KSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIEXES-----QEMNFGKKLILEVSSS   94 (97)
T ss_dssp             TCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC--SSEEEEEESSHHHHHHHHHHHT-----TSEETTEECEEEECCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--CCEEEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEecCC
Confidence            45799999998 99999999999999999999986  5699999999999999999884     8999999999998865

>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=99.26  E-value=9e-12  Score=103.48  Aligned_cols=78  Identities=14%  Similarity=0.217  Sum_probs=70.1

Q ss_pred             ceeeeccCCCccccHHHHH----HHhccCCceEEEEee---cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLK----SVFHKFGTVKFIDFK---IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLk----e~F~~fG~V~~V~~~---~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.++||+|||..+++++|+    ++|++||.|..|.+.   +..+.|||+|.++++|.+|+..++     |..|+|+.|.
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   82 (97)
T 1nu4_A            8 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQ-----GFPFYDKPMR   82 (97)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHT-----TCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhC-----CCEECCcEEE
Confidence            4578999999999999999    999999999999987   456789999999999999999884     8999999999


Q ss_pred             EEEcCChhHH
Q 043731          393 LEPVTGEAEK  402 (498)
Q Consensus       393 v~~~~g~~E~  402 (498)
                      |..+..+.+.
T Consensus        83 v~~a~~~~~~   92 (97)
T 1nu4_A           83 IQYAKTDSDI   92 (97)
T ss_dssp             EEECSSCCTH
T ss_pred             EEEccCCCcc
Confidence            9999776543

>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=99.26  E-value=1e-11  Score=105.69  Aligned_cols=81  Identities=23%  Similarity=0.295  Sum_probs=68.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhh-cccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVL-AQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~-~n~~g~~i~g~~~~  392 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.+.++|.+|++.++. ...+|..|+|+.|.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~   94 (111)
T 1x4h_A           15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLK   94 (111)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEE
Confidence            457899999999999999999999999999999854      56799999999999999998720 01228999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+..+.
T Consensus        95 v~~a~~~~  102 (111)
T 1x4h_A           95 VDLAVTRD  102 (111)
T ss_dssp             EECCCCCC
T ss_pred             EEECCCCc
Confidence            99886643

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

Probab=99.26  E-value=5.6e-12  Score=104.55  Aligned_cols=75  Identities=15%  Similarity=0.053  Sum_probs=67.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEE-EeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFI-DFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V-~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...|||+|||..+++++|+++|++||.|..| .+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   79 (96)
T 1x5t_A            5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMN-----GQYLCNRPIT   79 (96)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTT-----TCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcC-----CCEECCEEEE
Confidence            4578999999999999999999999999888 77764      5679999999999999999873     8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus        80 v~~a~~~   86 (96)
T 1x5t_A           80 VSYAFKK   86 (96)
T ss_dssp             EEESCCC
T ss_pred             EEEeccc
Confidence            9998654

>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=99.26  E-value=1.9e-11  Score=104.12  Aligned_cols=76  Identities=13%  Similarity=0.178  Sum_probs=68.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|.+|+..|+     |..|+|+.|.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~   99 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN-----GAEIMGQTIQ   99 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHT-----TCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC-----CCEECCcEEE
Confidence            4568999999999999999999999999999999765      3679999999999999999884     8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus       100 V~~a~~~  106 (110)
T 1oo0_B          100 VDWCFVK  106 (110)
T ss_dssp             EEESEES
T ss_pred             EEEcccC
Confidence            9987543

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

Probab=99.26  E-value=1.7e-11  Score=102.32  Aligned_cols=71  Identities=14%  Similarity=0.167  Sum_probs=63.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+||  ++|+++|+++|++||.|..|+|.       .++|||||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~-------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~   83 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD-------PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI   83 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE-------TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEEC
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec-------CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            45689999996  89999999999999999999984       2579999999999999999974  7889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        84 a~   85 (97)
T 1x5p_A           84 AR   85 (97)
T ss_dssp             CS
T ss_pred             CC
Confidence            64

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

Probab=99.26  E-value=9e-12  Score=105.81  Aligned_cols=74  Identities=16%  Similarity=0.217  Sum_probs=66.8

Q ss_pred             ceeeeccCCCccc------cHHHHHHHhccCCceEEEEeec----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe
Q 043731          320 TSIDTYKDNMDVV------MREDLKSVFHKFGTVKFIDFKI----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF  389 (498)
Q Consensus       320 ~~~vfv~nL~~~v------t~EdLke~F~~fG~V~~V~~~~----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~  389 (498)
                      ..++||+|||..+      ++++|+++|++||.|..|.+.+    .++.|||+|.++++|.+|+..|   |  |..|+|+
T Consensus        15 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l---~--g~~~~g~   89 (105)
T 2nlw_A           15 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNA---D--GYKLDKQ   89 (105)
T ss_dssp             CSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHC---S--SEECSTT
T ss_pred             CCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHh---C--CcccCCC
Confidence            4579999999999      8899999999999999999873    3578999999999999999987   4  9999998


Q ss_pred             -EEEEEEcCC
Q 043731          390 -IAVLEPVTG  398 (498)
Q Consensus       390 -~~~v~~~~g  398 (498)
                       .|.|..+..
T Consensus        90 ~~l~V~~a~~   99 (105)
T 2nlw_A           90 HTFRVNLFTD   99 (105)
T ss_dssp             CEEEEECSCC
T ss_pred             ceEEEEEcch
Confidence             999998865

>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=99.26  E-value=8.8e-12  Score=132.01  Aligned_cols=79  Identities=16%  Similarity=0.231  Sum_probs=72.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++|+++|.++|++||.|..|.|+.+.. ++.++|||||+|.+.++|.+||..  +..|+|+.|.|.+
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~-tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~  178 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKR-SGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDV  178 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCC-CCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3458999999999999999999999999999999998865 677999999999999999999974  8899999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus       179 a~  180 (437)
T 3pgw_S          179 ER  180 (437)
T ss_pred             eC
Confidence            64

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

Probab=99.25  E-value=1.5e-11  Score=103.56  Aligned_cols=75  Identities=20%  Similarity=0.275  Sum_probs=67.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.++     |..|+|+.|.|
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~v   89 (103)
T 2cq0_A           15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVS-----GFGYDHLILNV   89 (103)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcC-----CCeeCCcEEEE
Confidence            4579999999999999999999999999999998763      469999999999999999874     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+..+
T Consensus        90 ~~a~~~   95 (103)
T 2cq0_A           90 EWAKPS   95 (103)
T ss_dssp             EESSCC
T ss_pred             EECCCC
Confidence            998654

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

Probab=99.25  E-value=1.3e-11  Score=104.28  Aligned_cols=75  Identities=16%  Similarity=0.156  Sum_probs=67.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~   96 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLN-----GQDLMGQPIS   96 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHT-----TCBSSSSBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhc-----CCEECCcEEE
Confidence            3567999999999999999999999999999999765      3569999999999999999884     8899999999


Q ss_pred             EEEcCC
Q 043731          393 LEPVTG  398 (498)
Q Consensus       393 v~~~~g  398 (498)
                      |..+..
T Consensus        97 V~~a~~  102 (106)
T 1p27_B           97 VDWCFV  102 (106)
T ss_dssp             EEESEE
T ss_pred             EEeecC
Confidence            998754

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

Probab=99.25  E-value=6.7e-12  Score=104.18  Aligned_cols=74  Identities=14%  Similarity=0.236  Sum_probs=65.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEE-cccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVR-LPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vr-i~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+ |+++..     .|.|||+|.+.++|.+|+..  +..++|+.|.|.+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~-----~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   88 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE-----TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAY   88 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS-----SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEE
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            468999999999999999999999999999995 777643     24499999999999999984  8889999999987


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        89 a~   90 (96)
T 2e44_A           89 IP   90 (96)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>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=99.25  E-value=1.3e-11  Score=104.06  Aligned_cols=76  Identities=13%  Similarity=0.064  Sum_probs=68.4

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|   +  |..|+|+.|.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l---~--g~~~~g~~l~   88 (105)
T 1x5u_A           14 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM---D--MIKLYGKPIR   88 (105)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHS---S--SCBCSSCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHh---C--CCeECCeEEE
Confidence            34579999999999999999999999999999998754      47999999999999999987   3  8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus        89 v~~a~~~   95 (105)
T 1x5u_A           89 VNKASAH   95 (105)
T ss_dssp             EEETTTT
T ss_pred             EEECCCC
Confidence            9998664

>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=99.25  E-value=1e-11  Score=106.74  Aligned_cols=75  Identities=17%  Similarity=0.153  Sum_probs=67.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        25 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V   99 (115)
T 2cpz_A           25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMN-----GFQIGMKRLKV   99 (115)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcC-----CCEECCEEEEE
Confidence            3478999999999999999999999999999988765      469999999999999999884     89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+..+
T Consensus       100 ~~a~~~  105 (115)
T 2cpz_A          100 QLKRSK  105 (115)
T ss_dssp             ECCCCS
T ss_pred             EEcCCC
Confidence            988654

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

Probab=99.25  E-value=1.6e-11  Score=102.62  Aligned_cols=76  Identities=16%  Similarity=0.155  Sum_probs=67.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++ +   +  |..|+|+.|.
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~---~--~~~~~g~~l~   82 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-M---H--FHDIMGKKVE   82 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-H---C--CCBSSSCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-h---C--CCEECCeEEE
Confidence            3457999999999999999999999999999999764      4679999999999999998 6   4  8899999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+..+.
T Consensus        83 V~~a~~~~   90 (99)
T 2dgs_A           83 VKRAEPRD   90 (99)
T ss_dssp             EEECCCCC
T ss_pred             EEECCCCc
Confidence            99987643

>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=99.25  E-value=6.3e-12  Score=108.70  Aligned_cols=64  Identities=17%  Similarity=0.255  Sum_probs=58.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      ...+|||+|||+++|+++|+++|++||.|..|.|+++        |||||+|.+.++|++|++.  +..++|+.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~--------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   80 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--------GTGVVEFVRKEDMTYAVRKLDNTKFRSHE   80 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT--------SEEEEEESSHHHHHHHHHHHTTCBCCCTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC--------CEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            4689999999999999999999999999999999764        9999999999999999994  78899988

>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=99.24  E-value=8.4e-12  Score=108.17  Aligned_cols=75  Identities=20%  Similarity=0.179  Sum_probs=68.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.     +.|||+|.+.++|++|++.+   |  |..|+|+.|.|.
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l---~--g~~~~g~~l~V~   81 (116)
T 2fy1_A            7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM---N--GKSLHGKAIKVE   81 (116)
T ss_dssp             CCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHC---S--SCBCSSSBCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHh---C--CCEECCEEEEEE
Confidence            3478999999999999999999999999999998754     77999999999999999987   4  899999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+...
T Consensus        82 ~a~~~   86 (116)
T 2fy1_A           82 QAKKP   86 (116)
T ss_dssp             ECCCS
T ss_pred             ECCCC
Confidence            98754

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

Probab=99.24  E-value=2.5e-11  Score=103.88  Aligned_cols=74  Identities=20%  Similarity=0.040  Sum_probs=67.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.++++|++|++.|+     |..|+|+.|.|.
T Consensus        15 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~   89 (114)
T 2do0_A           15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFN-----GQLLFDRPMHVK   89 (114)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhC-----CCEeCCCEEEEE
Confidence            457999999999999999999999999999998875     4569999999999999999884     899999999999


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+..
T Consensus        90 ~a~~   93 (114)
T 2do0_A           90 MDER   93 (114)
T ss_dssp             ECSC
T ss_pred             Eccc
Confidence            8754

>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=99.24  E-value=1.3e-11  Score=100.73  Aligned_cols=71  Identities=17%  Similarity=0.151  Sum_probs=64.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .++||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|+ .+   +  |..|+|+.|.|.
T Consensus         7 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~---~--g~~~~g~~l~V~   80 (89)
T 3ucg_A            7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL---D--ESLFRGRQIKVI   80 (89)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GG---T--TCEETTEECEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hc---C--CCEECCcEEEEE
Confidence            36899999999999999999999999999998865      457999999999999999 66   4  899999999999


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      .+.
T Consensus        81 ~a~   83 (89)
T 3ucg_A           81 PKR   83 (89)
T ss_dssp             ETT
T ss_pred             Ecc
Confidence            874

>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=99.24  E-value=3.6e-12  Score=105.34  Aligned_cols=76  Identities=11%  Similarity=0.107  Sum_probs=66.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCc-eEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCC-eEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGT-VKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGG-LSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~-V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g-~~i~g~~~~v~~~  396 (498)
                      ...+|||+|||..+++++|+++|++||. |..+.+ +.++.|||+|.++++|++|++.++     | ..|+|+.|.|..+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~-~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVL-LKSGYAFVDYPDQNWAIRAIETLS-----GKVELHGKIMEVDYS   80 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEE-EETTEEEECCSCHHHHHHHHHHHT-----TTCEETTEECEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEE-cCCCEEEEEECCHHHHHHHHHHcc-----CCeeECCEEEEEEEc
Confidence            3457999999999999999999999999 666555 457899999999999999999884     7 9999999999998


Q ss_pred             CChh
Q 043731          397 TGEA  400 (498)
Q Consensus       397 ~g~~  400 (498)
                      ..+.
T Consensus        81 ~~~~   84 (93)
T 2cqh_A           81 VSKK   84 (93)
T ss_dssp             CCCC
T ss_pred             cCcc
Confidence            7643

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

Probab=99.24  E-value=2.4e-11  Score=101.63  Aligned_cols=73  Identities=16%  Similarity=0.144  Sum_probs=66.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccC--CceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKF--GTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~f--G~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ..++||+|||..+++++|+++|++|  |.|..|.+.+  +.|||+|.++++|++|+..|+     |..|+|+.|.|..+.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~--g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~v~~a~   87 (99)
T 2cpd_A           15 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR--DYAFVHFSNREDAVEAMKALN-----GKVLDGSPIEVTLAK   87 (99)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS--SEEEEEESSHHHHHHHHHHHS-----SEEETTEEEEEECCC
T ss_pred             cCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeC--CeEEEEeCCHHHHHHHHHHhC-----CCEeCCcEEEEEECC
Confidence            4579999999999999999999999  8999998775  499999999999999999884     999999999999886


Q ss_pred             Ch
Q 043731          398 GE  399 (498)
Q Consensus       398 g~  399 (498)
                      ..
T Consensus        88 ~~   89 (99)
T 2cpd_A           88 PV   89 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

Probab=99.24  E-value=1.2e-11  Score=105.91  Aligned_cols=75  Identities=16%  Similarity=0.091  Sum_probs=66.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.+      +..|+|+.|.|
T Consensus        25 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~------~~~l~g~~l~V   98 (109)
T 2rs2_A           25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS------RHELDSKTIDP   98 (109)
T ss_dssp             -CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS------CEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC------CCcCCCEEEEE
Confidence            447899999999999999999999999999999765      457999999999999998864      69999999999


Q ss_pred             EEcCChh
Q 043731          394 EPVTGEA  400 (498)
Q Consensus       394 ~~~~g~~  400 (498)
                      ..+....
T Consensus        99 ~~a~~~~  105 (109)
T 2rs2_A           99 KVAFPRR  105 (109)
T ss_dssp             EECCCCC
T ss_pred             EEccCCC
Confidence            9986543

>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=99.24  E-value=1.4e-11  Score=101.04  Aligned_cols=73  Identities=11%  Similarity=0.082  Sum_probs=67.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..++||+|||..+++++|+++|++| .|..|.+.+.++.|||+|.++++|++|++.++     |..++|+.+.|+.+..
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~l~V~~a~~   77 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFH-----QYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEGGGTEEEECCSCHHHHHHHHHHHT-----TEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeCCCcEEEEEECCHHHHHHHHHHhC-----CCeECCcEEEEEEcCC
Confidence            3478999999999999999999999 99999888888999999999999999999884     9999999999998754

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

Probab=99.24  E-value=9e-12  Score=103.40  Aligned_cols=75  Identities=16%  Similarity=0.233  Sum_probs=67.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEE-eecCCce--EEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFID-FKIGAES--GYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~-~~~g~~~--GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ..++||+|||..+++++|+++|++||.|..|. +.++..+  |||+|.++++|++|+..++     |..|+|+.|.|..+
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~l~V~~a   89 (96)
T 2e44_A           15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLN-----GFQLENFTLKVAYI   89 (96)
T ss_dssp             CCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHT-----TCBCSSCBCEEEEC
T ss_pred             CCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhC-----CCEECCcEEEEEEc
Confidence            45799999999999999999999999999994 7765544  9999999999999999884     89999999999998


Q ss_pred             CCh
Q 043731          397 TGE  399 (498)
Q Consensus       397 ~g~  399 (498)
                      ..+
T Consensus        90 ~~~   92 (96)
T 2e44_A           90 PDE   92 (96)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            764

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

Probab=99.23  E-value=2.9e-11  Score=100.89  Aligned_cols=73  Identities=15%  Similarity=0.189  Sum_probs=66.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      ..+|||+||  .+++++|+++|++||.|..|.+.+.++.|||+|.++++|.+|+..|+     |..|+|+.|.|..+..+
T Consensus        15 ~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~l~v~~a~~~   87 (97)
T 1x5p_A           15 GNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELN-----GTQVESVQLKVNIARKQ   87 (97)
T ss_dssp             CSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHTT-----TEEETTEEEEEECCSSC
T ss_pred             CCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecCCCCEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEEECCCC
Confidence            457899996  89999999999999999999999999999999999999999999874     89999999999988653

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

Probab=99.23  E-value=1.2e-11  Score=103.47  Aligned_cols=73  Identities=16%  Similarity=0.153  Sum_probs=65.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE--------EEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      ...+||+|||..+++++|+++|++||.|..        |.+.++      ++.|||+|.+.++|++|++.++     |..
T Consensus        13 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~-----g~~   87 (99)
T 2la6_A           13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFD-----GKE   87 (99)
T ss_dssp             CSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHT-----TCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhC-----CCE
Confidence            457999999999999999999999999998        888765      3469999999999999999884     889


Q ss_pred             ecCeEEEEEEcC
Q 043731          386 VKNFIAVLEPVT  397 (498)
Q Consensus       386 i~g~~~~v~~~~  397 (498)
                      |+|+.|.|+.+.
T Consensus        88 ~~g~~l~V~~A~   99 (99)
T 2la6_A           88 FSGNPIKVSFAT   99 (99)
T ss_dssp             SSSSBCEEEECC
T ss_pred             eCCcEEEEEecC
Confidence            999999998763

>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=99.23  E-value=1.7e-11  Score=106.97  Aligned_cols=76  Identities=16%  Similarity=0.156  Sum_probs=68.7

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+|+++|+++|++||.|..|.+.++      .+.|||.|.++++|++|++.|+     |..|+|+.|.
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~   95 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLN-----GQDLMGQPIS   95 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHT-----TCBSSSSBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhC-----CCeeCCeEEE
Confidence            3558999999999999999999999999999999866      5679999999999999999884     8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus        96 v~~a~~~  102 (126)
T 3ex7_B           96 VDWCFVR  102 (126)
T ss_dssp             EEESEES
T ss_pred             EEEecCC
Confidence            9988543

>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=99.23  E-value=3.4e-12  Score=105.17  Aligned_cols=73  Identities=14%  Similarity=0.053  Sum_probs=62.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCC--ceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFG--TVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG--~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ++||+|||..+++++|+++|++||  .|..|.+.++.      +.|||.|.++++|++|++.++     |..|+|+.|.|
T Consensus         3 ~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~-----g~~~~gr~i~V   77 (90)
T 3p5t_L            3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP-----KRELHGQNPVV   77 (90)
T ss_dssp             -CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGG-----GSCSSSCCCEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcC-----CCeeCCEEEEE
Confidence            579999999999999999999999  89998887653      459999999999999999884     88999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+...
T Consensus        78 ~~~~~~   83 (90)
T 3p5t_L           78 TPSNKL   83 (90)
T ss_dssp             CCC---
T ss_pred             EECCCC
Confidence            887654

>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=99.23  E-value=1.3e-11  Score=107.46  Aligned_cols=71  Identities=14%  Similarity=0.208  Sum_probs=61.8

Q ss_pred             ccceEEe--ccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee-----CCe
Q 043731          112 DVRTIAA--TPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY-----AGV  182 (498)
Q Consensus       112 ~~rtV~V--~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~-----~G~  182 (498)
                      ..++|||  +|||+++|+++|+++|++||.|..|.|+.+       +|||||+|.++++|++|++.  +..+     .|+
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~-------rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~   96 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN-------KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKI   96 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT-------CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC-------CCEEEEEECCHHHHHHHHHHhCCCEEccccCCCc
Confidence            4688999  779999999999999999999999998742       69999999999999999985  6666     677


Q ss_pred             EEEEeec
Q 043731          183 ELHLKPK  189 (498)
Q Consensus       183 ~l~v~~k  189 (498)
                      +|.|.+.
T Consensus        97 ~l~v~~a  103 (114)
T 2cq2_A           97 TLYLNFV  103 (114)
T ss_dssp             ECEEEEE
T ss_pred             EEEEEec
Confidence            8877664

>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=99.23  E-value=1.8e-11  Score=103.31  Aligned_cols=74  Identities=15%  Similarity=0.128  Sum_probs=66.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..+|||+|||..+++++|+++|++|| |..|.+.++       .+.|||+|.++++|++|+ .+   +  |..|+|+.|.
T Consensus        15 ~~~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           15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SL---N--EESLGNKRIR   87 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GG---G--TCEETTEECE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hc---C--CCEeCCcEEE
Confidence            45899999999999999999999999 999998765       346999999999999999 76   3  8999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+..+.
T Consensus        88 V~~a~~~~   95 (104)
T 1wi8_A           88 VDVADQAQ   95 (104)
T ss_dssp             EEECCCCC
T ss_pred             EEEccCCC
Confidence            99987643

>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=99.23  E-value=1.3e-11  Score=104.27  Aligned_cols=77  Identities=19%  Similarity=0.205  Sum_probs=67.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEe---cCe
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSV---KNF  389 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i---~g~  389 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|.+|++.|+     |..+   .|+
T Consensus        12 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~~~g~   86 (106)
T 2dgp_A           12 DAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALH-----EQKTLPGMNR   86 (106)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHT-----TTCCCTTCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhc-----CCcccCCCCc
Confidence            4568999999999999999999999999999999774      4579999999999999999884     6666   889


Q ss_pred             EEEEEEcCChh
Q 043731          390 IAVLEPVTGEA  400 (498)
Q Consensus       390 ~~~v~~~~g~~  400 (498)
                      .|.|..+..+.
T Consensus        87 ~l~v~~a~~~~   97 (106)
T 2dgp_A           87 PIQVKPADSES   97 (106)
T ss_dssp             CCEEEECCCCS
T ss_pred             eEEEEECCccc
Confidence            99999987643

>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=99.22  E-value=2.1e-11  Score=104.59  Aligned_cols=75  Identities=15%  Similarity=0.173  Sum_probs=66.5

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|+ .+   |  |..|+|+.|.|.
T Consensus        26 ~~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           26 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GL---T--GQRLLGVPIIVQ   99 (114)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HH---T--TEEETTEEEEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-Hc---C--CCEeCCeEEEEE
Confidence            47899999999999999999999999999999753      457999999999999999 77   4  999999999999


Q ss_pred             EcCChhH
Q 043731          395 PVTGEAE  401 (498)
Q Consensus       395 ~~~g~~E  401 (498)
                      .+..+..
T Consensus       100 ~a~~~~~  106 (114)
T 2cq4_A          100 ASQAEKN  106 (114)
T ss_dssp             EHHHHHH
T ss_pred             ecCCCcc
Confidence            8765443

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

Probab=99.22  E-value=1.8e-11  Score=103.31  Aligned_cols=76  Identities=16%  Similarity=0.135  Sum_probs=67.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++. .     |..|+|+.|.
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~-----~~~~~g~~l~   88 (105)
T 2dh8_A           15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-R-----PHTLDGRNID   88 (105)
T ss_dssp             SSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-C-----SEEETTEEEB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-C-----CCeECCEEEE
Confidence            34579999999999999999999999999999998763      4699999999999999876 3     9999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+..+.
T Consensus        89 V~~a~~~~   96 (105)
T 2dh8_A           89 PKPCTPRG   96 (105)
T ss_dssp             CCCSCCSS
T ss_pred             EEEccCCC
Confidence            99886543

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

Probab=99.22  E-value=2.7e-11  Score=110.79  Aligned_cols=79  Identities=11%  Similarity=0.030  Sum_probs=69.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCC--ceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFG--TVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG--~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      ..+|||+|||+.+++++|+++|++||  .|..|.+.++      ++.|||.|.++++|++|++.|+     |..|+|+.|
T Consensus        55 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~ln-----g~~~~Gr~l  129 (156)
T 3n9u_C           55 RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLP-----GKVLNGEKV  129 (156)
T ss_dssp             -CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHST-----TCEETTEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcC-----CCEECCeEe
Confidence            45799999999999999999999999  9999998755      3469999999999999999883     999999999


Q ss_pred             EEEEcCChhHHH
Q 043731          392 VLEPVTGEAEKE  403 (498)
Q Consensus       392 ~v~~~~g~~E~e  403 (498)
                      .|..+..+....
T Consensus       130 ~V~~a~~~~~~~  141 (156)
T 3n9u_C          130 DVRPATRQNLSQ  141 (156)
T ss_dssp             EEEECCHHHHHH
T ss_pred             EEEEcCCCcchh
Confidence            999998765443

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

Probab=99.22  E-value=1.1e-11  Score=104.08  Aligned_cols=76  Identities=18%  Similarity=0.164  Sum_probs=67.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|.+|++.|+     |..|+|+.|.
T Consensus        11 ~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~   85 (102)
T 1x5s_A           11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN-----GKSVDGRQIR   85 (102)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHT-----TCCTTSCCCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhC-----CCEECCeEEE
Confidence            3457999999999999999999999999999999764      4579999999999999999884     8899999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+...
T Consensus        86 v~~a~~~   92 (102)
T 1x5s_A           86 VDQAGKS   92 (102)
T ss_dssp             EEEEECC
T ss_pred             EEECCCC
Confidence            9988654

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

Probab=99.22  E-value=1.7e-11  Score=105.77  Aligned_cols=72  Identities=24%  Similarity=0.215  Sum_probs=65.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.+   |  |..|+|+.|.|
T Consensus        40 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l---~--g~~~~g~~l~V  114 (118)
T 2khc_A           40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM---N--GFQVGTKRLKV  114 (118)
T ss_dssp             SEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHC---C--CCEETTEECCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHc---C--CCEECCEEEEE
Confidence            457999999999999999999999999999999765      457999999999999999987   4  89999999999


Q ss_pred             EEc
Q 043731          394 EPV  396 (498)
Q Consensus       394 ~~~  396 (498)
                      +.+
T Consensus       115 ~~a  117 (118)
T 2khc_A          115 QLK  117 (118)
T ss_dssp             EEC
T ss_pred             Eec
Confidence            865

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

Probab=99.22  E-value=3.2e-11  Score=106.56  Aligned_cols=73  Identities=15%  Similarity=0.122  Sum_probs=65.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.++     |..|+|+.|.
T Consensus        62 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~  136 (140)
T 2ku7_A           62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN-----ESELFGRTIR  136 (140)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHST-----EEEETTEEEE
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhC-----CCEECCEEEE
Confidence            3458999999999999999999999999999999765      5679999999999999999873     8999999999


Q ss_pred             EEEc
Q 043731          393 LEPV  396 (498)
Q Consensus       393 v~~~  396 (498)
                      |+.+
T Consensus       137 v~~A  140 (140)
T 2ku7_A          137 VNLA  140 (140)
T ss_dssp             EEC-
T ss_pred             EEeC
Confidence            9764

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

Probab=99.22  E-value=2.1e-11  Score=104.29  Aligned_cols=77  Identities=19%  Similarity=0.217  Sum_probs=68.0

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceE--------EEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCe
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVK--------FIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGL  384 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~--------~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~  384 (498)
                      ...+|||+|||..+++++|+++|++||.|.        .|.+.++      .+.|||+|.++++|++|++.|+     |.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~   88 (113)
T 2cpe_A           14 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFD-----GK   88 (113)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHT-----TC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcC-----CC
Confidence            345799999999999999999999999998        5887765      4579999999999999999884     89


Q ss_pred             EecCeEEEEEEcCChh
Q 043731          385 SVKNFIAVLEPVTGEA  400 (498)
Q Consensus       385 ~i~g~~~~v~~~~g~~  400 (498)
                      .|+|+.|.|..+....
T Consensus        89 ~~~g~~l~V~~a~~~~  104 (113)
T 2cpe_A           89 DFQGSKLKVSLARKKP  104 (113)
T ss_dssp             EETTEECEEECSSCCC
T ss_pred             ccCCCEEEEEECCCCC
Confidence            9999999999987644

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

Probab=99.22  E-value=5.6e-12  Score=99.88  Aligned_cols=68  Identities=18%  Similarity=0.156  Sum_probs=60.9

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++ +   +  |..|+|+.+.|+.+
T Consensus         2 l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~---~--~~~~~g~~l~v~~A   75 (75)
T 2mss_A            2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-I---H--FHEINNKMVECKKA   75 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-S---S--CCCSSSCCCEEECC
T ss_pred             EEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-C---C--CCEECCEEEEEEeC
Confidence            6999999999999999999999999999987654      579999999999999976 4   4  89999999998754

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

Probab=99.21  E-value=1.1e-11  Score=103.24  Aligned_cols=74  Identities=22%  Similarity=0.251  Sum_probs=67.0

Q ss_pred             cceeeeccCCCc-cccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          319 KTSIDTYKDNMD-VVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       319 ~~~~vfv~nL~~-~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ...++||+|||. .+++++|+++|++||.|..|.++  ++.|||+|.++++|++|++.+.     |..+.|+.|.|..+.
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~V~~a~   81 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIECES-----QEMNFGKKLILEVSS   81 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE--TTEEEEEESCHHHHHHHHHHHT-----CSSCBTTTBCEEEEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--CCEEEEEECCHHHHHHHHHHcC-----CCeeCCcEEEEEEcC
Confidence            345799999998 99999999999999999999997  5699999999999999999884     889999999999885


Q ss_pred             Ch
Q 043731          398 GE  399 (498)
Q Consensus       398 g~  399 (498)
                      ..
T Consensus        82 ~~   83 (96)
T 2kvi_A           82 SN   83 (96)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

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

Probab=99.21  E-value=3e-11  Score=107.47  Aligned_cols=72  Identities=19%  Similarity=0.155  Sum_probs=63.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccce-EEEEeCCHHHHHHHHHh--CCeeCC--eEEEEe
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGT-ALIEFSTEEDAEKVLKQ--GLFYAG--VELHLK  187 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~-aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~  187 (498)
                      .-.|||+|||+.+|+++|+++|++||.|..|+|...      .+|+ |||+|.+.++|.+|++.  +..+.|  +.|+|.
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~------~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~  101 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK------NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRID  101 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE------TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEE
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC------CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEE
Confidence            357899999999999999999999999999998753      2577 99999999999999995  788877  889988


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +++
T Consensus       102 ~ak  104 (130)
T 3zzy_A          102 FSK  104 (130)
T ss_dssp             ECS
T ss_pred             ecC
Confidence            764

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

Probab=99.21  E-value=6.1e-12  Score=101.49  Aligned_cols=68  Identities=16%  Similarity=0.230  Sum_probs=59.9

Q ss_pred             eeeeccCCCccc------cHHHHHHHhccCCceEEEEeec----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe-
Q 043731          321 SIDTYKDNMDVV------MREDLKSVFHKFGTVKFIDFKI----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF-  389 (498)
Q Consensus       321 ~~vfv~nL~~~v------t~EdLke~F~~fG~V~~V~~~~----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~-  389 (498)
                      .++||+|||..+      ++++|+++|++||.|..|.+.+    .++.|||+|.++++|++|+..|   |  |..|+|+ 
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~l---n--g~~~~g~~   76 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNA---D--GYKLDKQH   76 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTS---S--SCCCSSSS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHh---c--CcccCCce
Confidence            368999999999      7899999999999999999874    3577999999999999999987   3  8889998 


Q ss_pred             EEEE
Q 043731          390 IAVL  393 (498)
Q Consensus       390 ~~~v  393 (498)
                      .|.|
T Consensus        77 ~l~V   80 (81)
T 2krb_A           77 TFRV   80 (81)
T ss_dssp             CCCC
T ss_pred             eEEe
Confidence            7654

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

Probab=99.21  E-value=3.2e-11  Score=105.13  Aligned_cols=75  Identities=19%  Similarity=0.166  Sum_probs=68.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.+.++|++|+..++     |..|+|+.|.|
T Consensus        34 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V  108 (124)
T 2kt5_A           34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK-----GVPLDGRPMDI  108 (124)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHT-----TEESSSCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcC-----CCEECCcEEEE
Confidence            4568999999999999999999999999999998764     5679999999999999999884     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus       109 ~~a~~  113 (124)
T 2kt5_A          109 QLVAS  113 (124)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            98865

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

Probab=99.21  E-value=1.7e-11  Score=102.35  Aligned_cols=75  Identities=12%  Similarity=0.047  Sum_probs=66.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceE-EEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE-
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVK-FIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI-  390 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~-~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~-  390 (498)
                      ...++||+|||..+++++|+++|++||.|. .|.+.++.      +.|||+|.++++|++|++.|   |  |..|.|+. 
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l---~--g~~~~g~~~   82 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKI---N--GKPLPGATP   82 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTT---T--TSEESSCSS
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHH---c--CCccCCCCc
Confidence            345799999999999999999999999999 99988764      56999999999999999987   3  89999999 


Q ss_pred             ---EEEEEcCC
Q 043731          391 ---AVLEPVTG  398 (498)
Q Consensus       391 ---~~v~~~~g  398 (498)
                         +.|..+..
T Consensus        83 ~~~l~v~~a~~   93 (99)
T 2div_A           83 AKRFKLNYATY   93 (99)
T ss_dssp             CEECCEEETTC
T ss_pred             ceeEEEeecCC
Confidence               88887754

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.20  E-value=1.7e-11  Score=99.59  Aligned_cols=70  Identities=11%  Similarity=0.120  Sum_probs=64.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccC----C-------ceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKF----G-------TVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN  388 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~f----G-------~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g  388 (498)
                      ..++||+|||..+++++|+++|++|    |       .|..+.+.++++.|||+|.++++|.+|+ .+   |  |..|+|
T Consensus         6 ~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~kg~afV~f~~~~~a~~A~-~l---~--g~~~~g   79 (87)
T 2hzc_A            6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AF---D--GIIFQG   79 (87)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSSSEEEEEESSHHHHHHHG-GG---T--TCEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCCcEEEEEcCCHHHHHHHH-hc---C--CCEECC
Confidence            3478999999999999999999999    8       9999999999999999999999999999 77   4  999999


Q ss_pred             eEEEEEE
Q 043731          389 FIAVLEP  395 (498)
Q Consensus       389 ~~~~v~~  395 (498)
                      +.+.|+.
T Consensus        80 ~~l~V~r   86 (87)
T 2hzc_A           80 QSLKIRR   86 (87)
T ss_dssp             EECEEEC
T ss_pred             eEEEEeC
Confidence            9998863

>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=99.20  E-value=9.3e-12  Score=103.72  Aligned_cols=74  Identities=12%  Similarity=0.023  Sum_probs=63.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||..+++++|+++|++||.|..+.+.+.      .+.|||+|.++++|++|++.++     |..|+|+.|.|
T Consensus        15 ~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~l~V   89 (98)
T 2cqp_A           15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLN-----DRPIGSRKVKL   89 (98)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhC-----CCeeCCeEEEE
Confidence            457999999999999999999999999865444332      4569999999999999999874     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      +.+.+
T Consensus        90 ~~a~~   94 (98)
T 2cqp_A           90 VLGSG   94 (98)
T ss_dssp             EESSC
T ss_pred             EEcCC
Confidence            99865

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

Probab=99.20  E-value=1.6e-11  Score=108.74  Aligned_cols=79  Identities=18%  Similarity=0.152  Sum_probs=69.3

Q ss_pred             ceeeeccCCCccccHHHHH----HHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLK----SVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLk----e~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.+|||+|||+.+++++|+    ++|++||.|..|.+.+   .++.|||.|.++++|.+|+..|+     |..|.|+.|.
T Consensus        29 ~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~ln-----g~~l~gr~l~  103 (127)
T 2a3j_A           29 SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQ-----GYPFQGNPLV  103 (127)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHST-----TCCCTTSCCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHC-----CCEeCCCEEE
Confidence            4579999999999999877    6999999999988864   46789999999999999999884     8999999999


Q ss_pred             EEEcCChhHHH
Q 043731          393 LEPVTGEAEKE  403 (498)
Q Consensus       393 v~~~~g~~E~e  403 (498)
                      |..+..+.+..
T Consensus       104 V~~a~~~~~~~  114 (127)
T 2a3j_A          104 ITFSETPQSQV  114 (127)
T ss_dssp             EEECCCCCHHH
T ss_pred             EEEccCcchhc
Confidence            99998766543

>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=99.20  E-value=4.7e-11  Score=100.45  Aligned_cols=76  Identities=22%  Similarity=0.180  Sum_probs=66.7

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|+..       +..|+|+.|.
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-------~~~~~g~~l~   86 (103)
T 2cqg_A           14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ-------RHMIDGRWCD   86 (103)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS-------CEEETTEEEE
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHc-------CCeeCCeEEE
Confidence            34579999999999999999999999999999998764      4699999999999999872       7899999999


Q ss_pred             EEEcCChhH
Q 043731          393 LEPVTGEAE  401 (498)
Q Consensus       393 v~~~~g~~E  401 (498)
                      |+.+..+.+
T Consensus        87 v~~a~~~~~   95 (103)
T 2cqg_A           87 CKLPNSKQS   95 (103)
T ss_dssp             EECCCTTCC
T ss_pred             EEecCCCCc
Confidence            999876543

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

Probab=99.20  E-value=7.6e-12  Score=99.36  Aligned_cols=69  Identities=17%  Similarity=0.122  Sum_probs=62.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.+      +..++|+.+.|+.
T Consensus         2 ~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~------~~~~~g~~l~v~~   75 (77)
T 1uaw_A            2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS------RHELDSKTIDPKV   75 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTT------TCCCSSCCCEEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhC------CCccCCEEEEEEe
Confidence            5799999999999999999999999999998765      357999999999999999875      3889999999987


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      +
T Consensus        76 a   76 (77)
T 1uaw_A           76 A   76 (77)
T ss_dssp             C
T ss_pred             c
Confidence            6

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

Probab=99.19  E-value=1.6e-11  Score=108.92  Aligned_cols=77  Identities=16%  Similarity=0.223  Sum_probs=68.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|.+|++.++     |..|+|+.|.|
T Consensus        42 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v  116 (139)
T 1u6f_A           42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLN-----GFNILNKRLKV  116 (139)
T ss_dssp             TSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTT-----TEECSSCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEE
Confidence            457999999999999999999999999999998765      3469999999999999999874     99999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      ..+.....
T Consensus       117 ~~a~~~~~  124 (139)
T 1u6f_A          117 ALAASGHQ  124 (139)
T ss_dssp             EESSCCCC
T ss_pred             EECCCCCC
Confidence            99876543

>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=99.19  E-value=1.5e-11  Score=106.35  Aligned_cols=72  Identities=14%  Similarity=0.049  Sum_probs=64.3

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE-----EEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI-----AVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~-----~~v~~  395 (498)
                      ..|||+|||..+++++|+++|++||.|..|.+..+ +.|||+|.++++|++|++.|+     |..|+|+.     +.|..
T Consensus        17 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~-----g~~~~gr~~~~~~i~v~~   90 (115)
T 3beg_B           17 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-GTGVVEFVRKEDMTYAVRKLD-----NTKFRSHEGETAYIRVKV   90 (115)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-SEEEEEESSHHHHHHHHHHHT-----TCBCCCTTSCCCBCEEEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-CEEEEEECCHHHHHHHHHHhC-----CCEECCcEeeeEEEEecc
Confidence            47899999999999999999999999999999887 899999999999999999984     88899987     66665


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      ...
T Consensus        91 ~~~   93 (115)
T 3beg_B           91 DGP   93 (115)
T ss_dssp             CC-
T ss_pred             CCC
Confidence            543

>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=99.19  E-value=2.1e-11  Score=107.88  Aligned_cols=74  Identities=16%  Similarity=0.205  Sum_probs=66.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        46 ~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~ln-----g~~i~g~~l~V  120 (129)
T 2kxn_B           46 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN-----GMELDGRRIRV  120 (129)
T ss_dssp             SSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHT-----TCCSSSSCCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            457899999999999999999999999999999754      4579999999999999999884     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus       121 ~~a~~  125 (129)
T 2kxn_B          121 DFSIT  125 (129)
T ss_dssp             SCCSS
T ss_pred             EEecC
Confidence            88754

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.19  E-value=2.3e-11  Score=101.44  Aligned_cols=74  Identities=14%  Similarity=0.162  Sum_probs=65.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEe--ecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDF--KIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~--~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ...|||+|||..+++++|+++|++||.|. +.+  .+.++.|||+|.++++|++|+..|+     |..|+|+.|.|..+.
T Consensus        19 ~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           19 AADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQ-----GLRLGTDTLRVALAR   92 (97)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEETTTTEEEEECSSHHHHHHHHHHHT-----TCCSSSSCCEEEECC
T ss_pred             CCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCCCCcEEEEEECCHHHHHHHHHHhC-----CCEECCcEEEEEEcC
Confidence            44799999999999999999999999985 344  3567899999999999999999884     899999999999986


Q ss_pred             Ch
Q 043731          398 GE  399 (498)
Q Consensus       398 g~  399 (498)
                      .+
T Consensus        93 ~~   94 (97)
T 2e5j_A           93 QQ   94 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.19  E-value=1.2e-11  Score=102.36  Aligned_cols=73  Identities=10%  Similarity=0.019  Sum_probs=63.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +..|||+|||..+++++|+++|++||.|..+.+.+      ..+.|||+|.++++|++|++.++     |..|+|+.|.|
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~-----g~~~~gr~l~v   89 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLN-----DRPIGSRKVKL   89 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhC-----CCeECCcEEEE
Confidence            45799999999999999999999999987655543      23569999999999999999884     89999999999


Q ss_pred             EEcC
Q 043731          394 EPVT  397 (498)
Q Consensus       394 ~~~~  397 (498)
                      ..+.
T Consensus        90 ~~a~   93 (95)
T 2ek1_A           90 SGPS   93 (95)
T ss_dssp             ECCC
T ss_pred             Eecc
Confidence            8764

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

Probab=99.19  E-value=2.3e-11  Score=100.83  Aligned_cols=73  Identities=11%  Similarity=0.033  Sum_probs=62.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCc-eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE-SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~-~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ...|||+|||..+++++|+++|++||.|..|.+.+..+ .|||+|.++++|++|++ +   +  |..|+|+.|.|+.+..
T Consensus         8 ~~~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            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS-Q---S--QHSLGGHRLRVRPREQ   81 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEEEECSSSCCEEEEEESSHHHHHHHHT-C---S--CCEETTEECCCBCSCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEcCCCCcEEEEEECCHHHHHHHHh-c---C--CeEECCEEEEEEECCc
Confidence            34799999999999999999999999999884433222 79999999999999998 7   4  9999999999987643

>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=99.19  E-value=2.4e-11  Score=104.69  Aligned_cols=79  Identities=13%  Similarity=0.136  Sum_probs=68.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCce-EEEEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTV-KFIDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V-~~V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||+.+++++|+++|++||.| ..|.+.+     .++.|||+|.++++|++|++.    +  |..|+|+.|.|
T Consensus        15 ~~~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           15 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL----H--RKKLNGREAFV   88 (114)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG----C--SEEETTEEEEE
T ss_pred             ccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh----C--CCccCCeEEEE
Confidence            3478999999999999999999999999 7777765     456799999999999999764    3  89999999999


Q ss_pred             EEcCChhHHHH
Q 043731          394 EPVTGEAEKEY  404 (498)
Q Consensus       394 ~~~~g~~E~e~  404 (498)
                      ..+..++.+..
T Consensus        89 ~~a~~~~~~~~   99 (114)
T 2cpy_A           89 HVVTLEDMREI   99 (114)
T ss_dssp             EEECHHHHHHH
T ss_pred             EECCHHHHHHH
Confidence            99987665553

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.18  E-value=4.4e-11  Score=103.89  Aligned_cols=75  Identities=9%  Similarity=0.035  Sum_probs=65.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCc---eEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGT---VKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~---V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      ..+|||+|||+.+|+++|+++|++||.   |..|.+.++     ++.|||+|.++++|++|++ +   +  |..|+|+.|
T Consensus        17 ~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~---~--g~~~~gr~i   90 (118)
T 2db1_A           17 GYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-K---D--RESMGHRYI   90 (118)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-G---T--TEEETTEEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-c---C--CCeECCeEE
Confidence            457999999999999999999999998   788887754     4469999999999999988 6   4  899999999


Q ss_pred             EEEEcCChh
Q 043731          392 VLEPVTGEA  400 (498)
Q Consensus       392 ~v~~~~g~~  400 (498)
                      .|..+..++
T Consensus        91 ~V~~a~~~~   99 (118)
T 2db1_A           91 EVFKSHRTE   99 (118)
T ss_dssp             EEEEECHHH
T ss_pred             EEEECCHHH
Confidence            999986543

>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=99.18  E-value=3e-11  Score=103.14  Aligned_cols=72  Identities=14%  Similarity=0.165  Sum_probs=66.0

Q ss_pred             ceeeeccCCCcc-ccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDV-VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~-vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..+|||+|||.. +++++|+++|++||.|..|.+  .++.|||+|.++++|++|+..|+     |..|+|+.|.|..+..
T Consensus        27 ~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~V~~a~~   99 (110)
T 1wf1_A           27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--HKGYAFVQYSNERHARAAVLGEN-----GRVLAGQTLDINMAGE   99 (110)
T ss_dssp             SSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE--ETTEEEEECSSSHHHHHHHHHHT-----TCEETTEECCEEESCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE--eCCEEEEEECCHHHHHHHHHHcC-----CCEECCeEEEEEECCC
Confidence            347999999999 999999999999999999988  46699999999999999999884     8999999999999864

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.18  E-value=6.4e-11  Score=99.26  Aligned_cols=76  Identities=17%  Similarity=0.129  Sum_probs=64.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ....|||+|||..+++++|+++|++||.|..+...  +.++.|||+|.++++|++|+..+   +  |..|+|+.|.|..+
T Consensus        14 ~~~~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           14 ESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSC---N--KREIEGRAIRLELQ   88 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEEECCBCSSSCBCSEEEEECSSHHHHHHHHHHT---S--SEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHh---C--CCEeCCeEEEEEEc
Confidence            45689999999999999999999999998433221  23567999999999999999987   4  99999999999998


Q ss_pred             CCh
Q 043731          397 TGE  399 (498)
Q Consensus       397 ~g~  399 (498)
                      ...
T Consensus        89 ~~~   91 (101)
T 2fc9_A           89 GPR   91 (101)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            653

>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=99.18  E-value=2.7e-11  Score=111.75  Aligned_cols=73  Identities=19%  Similarity=0.128  Sum_probs=64.1

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~~  188 (498)
                      ..+|||+|||+.+|+++|+++|++||.|..|+|...     ..+|||||+|.+.++|++|++.  +..+.|  +.|+|.+
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k-----~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~  120 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK-----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDF  120 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEES-----SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEE
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeC-----CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEE
Confidence            467999999999999999999999999999998532     2579999999999999999995  777754  9999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus       121 Ak  122 (164)
T 1sjr_A          121 SK  122 (164)
T ss_dssp             CS
T ss_pred             ec
Confidence            74

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

Probab=99.18  E-value=1.6e-11  Score=103.39  Aligned_cols=75  Identities=13%  Similarity=0.070  Sum_probs=66.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhcc-CCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeE-ecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHK-FGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLS-VKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~-fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~-i~g~~~~  392 (498)
                      ...|||+|||..+++++|+++|++ ||.|..|.+.++     .+.|||+|.++++|.+|++.++     |.. |+|+.|.
T Consensus         9 ~~~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            9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQ-----GAVGLGSKPVR   83 (104)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTT-----TCCSSSSSCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHcc-----CCcccCCEeEE
Confidence            457899999999999999999999 999999999875     4569999999999999999874     788 9999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+...
T Consensus        84 v~~a~~~   90 (104)
T 2dhg_A           84 LSVAIPK   90 (104)
T ss_dssp             CCBCCCC
T ss_pred             EEEccCC
Confidence            9887553

>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=99.18  E-value=7e-12  Score=99.18  Aligned_cols=69  Identities=17%  Similarity=0.141  Sum_probs=61.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.    +  +..|+|+.+.|+.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~----~--~~~~~g~~l~v~~   74 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK----K--YHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTT----S--SCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHh----C--CCeECCEEEEEEE
Confidence            3799999999999999999999999999998754      45799999999999999874    3  7889999998886


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      +
T Consensus        75 a   75 (75)
T 1iqt_A           75 A   75 (75)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.18  E-value=1.3e-11  Score=100.11  Aligned_cols=70  Identities=20%  Similarity=0.224  Sum_probs=61.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+++++|+++|++||.|..|.+.++      .+.|||.|.++++|++|++.|+     |..|+|+.+.+
T Consensus         5 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~~~~   79 (85)
T 1x4e_A            5 SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALK-----ASGVQAQMAKQ   79 (85)
T ss_dssp             CCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHH-----HHTCCEESCCS
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhc-----CCeEeeEEEee
Confidence            457899999999999999999999999999998865      4579999999999999999985     67777776654


Q ss_pred             E
Q 043731          394 E  394 (498)
Q Consensus       394 ~  394 (498)
                      .
T Consensus        80 ~   80 (85)
T 1x4e_A           80 S   80 (85)
T ss_dssp             S
T ss_pred             c
Confidence            3

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

Probab=99.18  E-value=6.5e-11  Score=101.85  Aligned_cols=74  Identities=11%  Similarity=0.050  Sum_probs=66.0

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.+   +  + .|+|+.|.
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~---~--~-~~~g~~l~   89 (116)
T 2cqd_A           16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP---N--P-IIDGRKAN   89 (116)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCS---S--C-EETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhC---C--C-cCCCEEEE
Confidence            45589999999999999999999999999999998753      47999999999999999876   3  6 89999999


Q ss_pred             EEEcCC
Q 043731          393 LEPVTG  398 (498)
Q Consensus       393 v~~~~g  398 (498)
                      |+.+..
T Consensus        90 V~~a~~   95 (116)
T 2cqd_A           90 VNLAYL   95 (116)
T ss_dssp             EEESTT
T ss_pred             EEEccc
Confidence            999854

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

Probab=99.17  E-value=6e-11  Score=99.90  Aligned_cols=73  Identities=11%  Similarity=0.184  Sum_probs=65.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||..+++++|+++|++|| |..|.+.++.      +.|||+|.++++|++|+ .+   |  |..|+|+.|.|
T Consensus        15 ~~~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           15 PYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TY---D--GALLGDRSLRV   87 (103)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GG---T--TCEETTEECEE
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hh---C--CCeECCeEEEE
Confidence            45799999999999999999999998 9999988664      46999999999999999 66   4  89999999999


Q ss_pred             EEcCCh
Q 043731          394 EPVTGE  399 (498)
Q Consensus       394 ~~~~g~  399 (498)
                      ..+...
T Consensus        88 ~~a~~~   93 (103)
T 2dng_A           88 DIAEGR   93 (103)
T ss_dssp             EECCCC
T ss_pred             EEecCC
Confidence            998664

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

Probab=99.17  E-value=4.8e-11  Score=98.08  Aligned_cols=73  Identities=7%  Similarity=-0.026  Sum_probs=65.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ...+||+|||..+++++|+++|++| .|..|.+.++     .+.|||+|.++++|++|+. +   +  |..|+|+.|.|.
T Consensus        10 ~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~---~--g~~~~gr~i~v~   82 (91)
T 2dgw_A           10 CHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-C---N--REYMGGRYIEVF   82 (91)
T ss_dssp             CCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-S---C--SEEETTEEEEEE
T ss_pred             ccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-h---C--CceeCCcEEEEE
Confidence            4578999999999999999999999 8999988765     3469999999999999998 7   4  999999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+..+
T Consensus        83 ~a~~~   87 (91)
T 2dgw_A           83 REKSG   87 (91)
T ss_dssp             EESSC
T ss_pred             ECCcC
Confidence            98764

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

Probab=99.17  E-value=3.4e-11  Score=103.65  Aligned_cols=75  Identities=12%  Similarity=0.075  Sum_probs=66.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.++++|++|++.    +  |..|+|+.|.|
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~----~--~~~~~g~~l~V  100 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA----R--PHSIDGRVVEP  100 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS----C--SEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh----C--CcEECCEEEEE
Confidence            347999999999999999999999999999999875      35799999999999999764    3  99999999999


Q ss_pred             EEcCChh
Q 043731          394 EPVTGEA  400 (498)
Q Consensus       394 ~~~~g~~  400 (498)
                      ..+..+.
T Consensus       101 ~~a~~~~  107 (116)
T 1x4b_A          101 KRAVARE  107 (116)
T ss_dssp             ECCSSCC
T ss_pred             EECCCCc
Confidence            9987654

>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=99.16  E-value=6.2e-11  Score=108.69  Aligned_cols=78  Identities=14%  Similarity=0.182  Sum_probs=69.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||.|.++++|++|+..|+     |..|.|+.|.|
T Consensus        72 ~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V  146 (165)
T 1rk8_A           72 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN-----GAEIMGQTIQV  146 (165)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            457999999999999999999999999999999876      4679999999999999999884     89999999999


Q ss_pred             EEcCChhHH
Q 043731          394 EPVTGEAEK  402 (498)
Q Consensus       394 ~~~~g~~E~  402 (498)
                      ..+..+..+
T Consensus       147 ~~a~~~~~~  155 (165)
T 1rk8_A          147 DWCFVKGPK  155 (165)
T ss_dssp             EESEECC--
T ss_pred             EEecCCCCC
Confidence            998665443

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

Probab=99.16  E-value=2.7e-11  Score=100.46  Aligned_cols=73  Identities=16%  Similarity=0.163  Sum_probs=64.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ..++||+|||..+++++|+++|++||.|..+ ..  +..+.|||+|.++++|.+|+..++     |..|+|+.|.|..+.
T Consensus        16 ~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~g~~l~v~~a~   89 (96)
T 1fjc_A           16 ARTLLAKNLSFNITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEKQ-----GAEIDGRSVSLYYTG   89 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCE-EETTEEEEEEEEEESSHHHHHHHHHHTT-----EEEETTEEEEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-CCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEEEEcC
Confidence            4579999999999999999999999999887 22  234679999999999999999874     899999999999885


Q ss_pred             C
Q 043731          398 G  398 (498)
Q Consensus       398 g  398 (498)
                      .
T Consensus        90 ~   90 (96)
T 1fjc_A           90 E   90 (96)
T ss_dssp             S
T ss_pred             C
Confidence            5

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

Probab=99.16  E-value=8.8e-11  Score=103.58  Aligned_cols=74  Identities=20%  Similarity=0.152  Sum_probs=64.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCce-EEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES-GYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~-GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~  396 (498)
                      ...+||+||++.+++++|+++|++||.|..|.+.+..+. |||+|.++++|.+|+++|+     |..|.|  +.|.|..+
T Consensus        25 vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~Ln-----G~~i~g~~~~l~V~~A   99 (124)
T 2e5i_A           25 VLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALN-----GADIYAGCCTLKIEYA   99 (124)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEESSSEEEEEEESSHHHHHHHHHHHT-----TCCCBTTBSEEEEECC
T ss_pred             EEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCEecCCCeEEEEEEe
Confidence            346899999999999999999999999999887665575 9999999999999999984     888887  57888766


Q ss_pred             CC
Q 043731          397 TG  398 (498)
Q Consensus       397 ~g  398 (498)
                      ..
T Consensus       100 k~  101 (124)
T 2e5i_A          100 RP  101 (124)
T ss_dssp             SC
T ss_pred             cC
Confidence            54

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.15  E-value=5.4e-11  Score=99.74  Aligned_cols=66  Identities=15%  Similarity=0.143  Sum_probs=58.5

Q ss_pred             ceEEeccCCCCCcHHH----HHHHhccC-CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          114 RTIAATPLEYDVKRED----VEAFFSQH-VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~----L~~~F~~~-G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      .+|||+|||++++.++    |+++|++| |+|..|        ++   |+|||+|.+.++|.+|++.  +..+.|++|+|
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V--------tg---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v   78 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI--------TG---CSAILRFINQDSAERAQKRMENEDVFGNRIIV   78 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC--------CT---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCEE
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE--------ec---CEEEEEECCHHHHHHHHHHhcCCccCCceEEE
Confidence            3499999999999888    55899999 599999        22   9999999999999999985  88999999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      ...+
T Consensus        79 ~~A~   82 (96)
T 2diu_A           79 SFTP   82 (96)
T ss_dssp             ESSC
T ss_pred             EecC
Confidence            8764

>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=99.15  E-value=2.4e-11  Score=102.15  Aligned_cols=73  Identities=15%  Similarity=0.134  Sum_probs=64.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC-------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..++||+|||..+++++|+++|++|| |..|.+.++.       +.|||+|.+.++|.+|+ .+   +  |..|+|+.|.
T Consensus        19 ~~~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           19 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SL---N--EESLGNRRIR   91 (100)
T ss_dssp             -CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HT---T--TCCBTTBCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hc---C--CCEECCeEEE
Confidence            34799999999999999999999999 9999987653       57999999999999999 76   4  8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |+.+...
T Consensus        92 V~~a~~~   98 (100)
T 2j76_E           92 VDVADQA   98 (100)
T ss_dssp             CEECCCS
T ss_pred             EEeccCC
Confidence            9988653

>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=99.15  E-value=8.4e-11  Score=106.52  Aligned_cols=77  Identities=16%  Similarity=0.107  Sum_probs=69.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++.      +.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        39 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~V  113 (156)
T 1h2v_Z           39 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYIN-----GTRLDDRIIRT  113 (156)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTT-----TSEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhC-----CCEECCeEEEE
Confidence            4579999999999999999999999999999997653      469999999999999999874     89999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      ..+.+...
T Consensus       114 ~~a~~~~~  121 (156)
T 1h2v_Z          114 DWDAGFKE  121 (156)
T ss_dssp             EEESCCCT
T ss_pred             EECCCCCC
Confidence            99987544

>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=99.14  E-value=4.5e-11  Score=101.24  Aligned_cols=73  Identities=11%  Similarity=0.114  Sum_probs=63.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE-EEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF-IDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~-V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||+.+++++|+++|++||.|.. |.+..+     .+.|||+|.++++|++|+..    +  +..|+|+.|.|
T Consensus        15 ~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~----~--~~~~~gr~i~v   88 (104)
T 1wg5_A           15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK----H--KERIGHRYIEI   88 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT----T--TCCSSSSCCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh----C--cchhCCcEEEE
Confidence            347899999999999999999999999987 777543     46799999999999999875    3  89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus        89 ~~~~~   93 (104)
T 1wg5_A           89 FKSSR   93 (104)
T ss_dssp             EEECT
T ss_pred             EECCH
Confidence            88764

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.14  E-value=9.5e-11  Score=100.92  Aligned_cols=71  Identities=15%  Similarity=0.228  Sum_probs=62.9

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ..|||+|||+.+++++|+++|++| .|..|.+.++     .+.|||+|.++++|++|+ .+   |  |..|+|+.|.|.+
T Consensus        17 ~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~---~--~~~~~gr~i~V~~   89 (109)
T 2dnn_A           17 LYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KR---N--RMLMIQRYVEVSP   89 (109)
T ss_dssp             HEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HT---T--TEEETTEEEEEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hc---C--CCeECCeEEEEEE
Confidence            479999999999999999999999 7888888753     567999999999999998 44   4  8999999999988


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +..
T Consensus        90 a~~   92 (109)
T 2dnn_A           90 ATE   92 (109)
T ss_dssp             CCH
T ss_pred             CCc
Confidence            864

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

Probab=99.14  E-value=4.5e-11  Score=103.91  Aligned_cols=72  Identities=17%  Similarity=0.135  Sum_probs=64.7

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.+.++|++|+ .+   +  |..|+|+.|.|.
T Consensus        37 ~~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           37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AM---D--ETVFRGRTIKVL  110 (124)
T ss_dssp             TEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TT---T--TCEETTEECEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hc---C--CCeECCeEEEEE
Confidence            47899999999999999999999999999998764      457999999999999999 56   4  899999999999


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+..
T Consensus       111 ~a~~  114 (124)
T 2jwn_A          111 PKRT  114 (124)
T ss_dssp             ESSC
T ss_pred             ECCC
Confidence            8754

>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=99.13  E-value=3.5e-11  Score=107.75  Aligned_cols=75  Identities=7%  Similarity=0.002  Sum_probs=65.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCc---eEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGT---VKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~---V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      ..+|||+|||+.+|+++|+++|++||.   |..|.+.++     ++.|||+|.++++|++|++ +   |  |..|+|+.|
T Consensus        44 ~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~---~--g~~l~gr~i  117 (136)
T 2hgl_A           44 GFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-K---D--RESMGHRYI  117 (136)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-T---T--EEESSSSEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-c---C--CCEECCEEE
Confidence            347899999999999999999999999   788887754     3569999999999999988 6   4  899999999


Q ss_pred             EEEEcCChh
Q 043731          392 VLEPVTGEA  400 (498)
Q Consensus       392 ~v~~~~g~~  400 (498)
                      .|..+..++
T Consensus       118 ~V~~a~~~e  126 (136)
T 2hgl_A          118 EVFKSHRTE  126 (136)
T ss_dssp             EEEECCHHH
T ss_pred             EEEECChHH
Confidence            999986543

>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=99.13  E-value=9.8e-12  Score=101.96  Aligned_cols=74  Identities=14%  Similarity=0.152  Sum_probs=63.2

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++||+|||..+++++|+++|++||.|..|.+.++      .+.|||+|.+++ |.+|+..+   |  |..++|+.|.|+.
T Consensus         3 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l---~--g~~~~g~~l~V~~   76 (90)
T 2ki2_A            3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKL---D--NTDFMGRTIRVTE   76 (90)
T ss_dssp             EEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTS---C--SSCCSSSSCSEEE
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHh---C--CCEECCeEEEEEE
Confidence            6899999999999999999999999999998764      456999999999 99999887   3  8899999999999


Q ss_pred             cCChhH
Q 043731          396 VTGEAE  401 (498)
Q Consensus       396 ~~g~~E  401 (498)
                      +.....
T Consensus        77 a~~~~~   82 (90)
T 2ki2_A           77 ANPKKS   82 (90)
T ss_dssp             C-----
T ss_pred             cCCCCC
Confidence            876543

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

Probab=99.13  E-value=3.4e-11  Score=106.27  Aligned_cols=74  Identities=7%  Similarity=0.055  Sum_probs=66.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEE--EEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCe----Ee
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKF--IDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGL----SV  386 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~----~i  386 (498)
                      .+.+|||+|||+.+++++|+++|++||.|..  |.++++.      +.|||+|.++ +|.+|+..++     |.    .|
T Consensus        22 ~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~-----g~~~~~~~   95 (131)
T 2m2b_A           22 ANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQ-----ALHPPLTI   95 (131)
T ss_dssp             CCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHT-----TCCCSCCG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhc-----CCCCCccC
Confidence            4558999999999999999999999999977  8887654      6799999999 9999999984     77    99


Q ss_pred             cCeEEEEEEcCC
Q 043731          387 KNFIAVLEPVTG  398 (498)
Q Consensus       387 ~g~~~~v~~~~g  398 (498)
                      +|+.|.|..+.+
T Consensus        96 ~gr~l~V~~a~~  107 (131)
T 2m2b_A           96 DGKTINVEFAKG  107 (131)
T ss_dssp             GGCCCCCEECCC
T ss_pred             CCEEEEEEECCC
Confidence            999999999876

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

Probab=99.13  E-value=5.9e-11  Score=115.99  Aligned_cols=75  Identities=15%  Similarity=0.185  Sum_probs=66.8

Q ss_pred             ccccceEEeccCCCCC---------cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCe
Q 043731          110 QLDVRTIAATPLEYDV---------KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF  178 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~---------t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~  178 (498)
                      ....+||||+|||.++         ++++|+++|++||+|..|+|++       .+|||||+|.+.++|+.|+..  +..
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~-------~kG~AFV~F~~~~~Ae~A~~am~g~~  203 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE-------SKNCGFVKFKYQANAEFAKEAMSNQT  203 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG-------GGTEEEEEESSHHHHHHHHHHHTTCC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC-------CCCEEEEEeCCHHHHHHHHHHhCCCE
Confidence            4567999999999998         7999999999999999999975       369999999999999999985  677


Q ss_pred             e------------CCeEEEEeecch
Q 043731          179 Y------------AGVELHLKPKKE  191 (498)
Q Consensus       179 ~------------~G~~l~v~~k~d  191 (498)
                      +            .|+.|.|.|+.+
T Consensus       204 l~~~~~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          204 LLLPSDKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             CCCTTSTTGGGGGGSCCCEEEECC-
T ss_pred             EeccccccccccCCCCEEEEEEccC
Confidence            7            899999999854

>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=99.12  E-value=6.2e-11  Score=96.94  Aligned_cols=73  Identities=14%  Similarity=0.149  Sum_probs=63.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.+. ++.|||+|.++++|++|       +..++.++|+.|.|..+..
T Consensus         5 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~~-------~~~~~~~~g~~l~v~~a~~   77 (88)
T 1wf0_A            5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSL-------CGEDLIIKGISVHISNAEP   77 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHT-------TTCEEEETTEEEEEECCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecCCCCEEEEEECCHHHHHHH-------hcCCceeCCEEEEEEecCC
Confidence            457999999999999999999999999999998754 78899999999999764       3336788999999998765


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      +
T Consensus        78 ~   78 (88)
T 1wf0_A           78 K   78 (88)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.12  E-value=3.4e-11  Score=105.13  Aligned_cols=81  Identities=15%  Similarity=0.106  Sum_probs=66.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE-EEee-----cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF-IDFK-----IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~-V~~~-----~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||+.+++++|+++|++||.|.. +.+.     +..+.|||+|.++++|++|++ +   |  |..|+|+.|.|
T Consensus        25 ~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~---~--g~~~~gr~i~V   98 (124)
T 1wel_A           25 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-R---H--KQYMGNRFIQV   98 (124)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-S---C--SBCSTTSCBEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-h---C--CCeECCcEEEE
Confidence            457999999999999999999999999865 2222     124569999999999999998 6   4  89999999999


Q ss_pred             EEcCChhHHHHHH
Q 043731          394 EPVTGEAEKEYWS  406 (498)
Q Consensus       394 ~~~~g~~E~e~~~  406 (498)
                      ..+..++..+...
T Consensus        99 ~~a~~~~~~~~~~  111 (124)
T 1wel_A           99 HPITKKGMLEKID  111 (124)
T ss_dssp             EEECHHHHHHHHH
T ss_pred             EECCHHHHHHHHH
Confidence            9998766544333

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

Probab=99.11  E-value=1.5e-10  Score=102.09  Aligned_cols=70  Identities=17%  Similarity=0.185  Sum_probs=60.5

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccce-EEEEeCCHHHHHHHHHh--CCeeCC--eEEEEee
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGT-ALIEFSTEEDAEKVLKQ--GLFYAG--VELHLKP  188 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~-aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~~  188 (498)
                      -.|||+|||+.+|+++|+++|++||.|..|+|..     +  .|| |||+|.+.++|..|+..  +..+.|  +.|+|.+
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~-----~--~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~   98 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK-----R--NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEY   98 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE-----S--SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEEC
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe-----C--CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEE
Confidence            3578999999999999999999999999999853     1  286 99999999999999994  777776  6898877


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        99 Ak  100 (124)
T 2e5i_A           99 AR  100 (124)
T ss_dssp             CS
T ss_pred             ec
Confidence            53

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.10  E-value=1.3e-10  Score=97.51  Aligned_cols=78  Identities=17%  Similarity=0.152  Sum_probs=65.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ...+|||+|||..+++++|+++|++|+.|..+.-..   ..+.|||+|.++++|++|+..|+     |..|+|+.|.|..
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~g~~l~V~~   88 (102)
T 2fc8_A           14 PSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAME-----DGEIDGNKVTLDW   88 (102)
T ss_dssp             CCSSEEEECCCTTCCHHHHHHTSTTCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCccCHHHHHHHhcCCeEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhC-----CCeECCeEEEEEE
Confidence            345799999999999999999999998766554321   23679999999999999999884     8999999999999


Q ss_pred             cCChhH
Q 043731          396 VTGEAE  401 (498)
Q Consensus       396 ~~g~~E  401 (498)
                      +..+.+
T Consensus        89 a~~~~~   94 (102)
T 2fc8_A           89 AKPKGE   94 (102)
T ss_dssp             CCCCCS
T ss_pred             ecCCCC
Confidence            876543

>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=99.10  E-value=1.1e-10  Score=99.99  Aligned_cols=77  Identities=21%  Similarity=0.162  Sum_probs=66.5

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCce----EEEEeec--CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTV----KFIDFKI--GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V----~~V~~~~--g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||..+++++|+++|++||.|    ..+++..  ..+.|||+|.+.++|++|+..|+     |..|+|+.|.
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~l~   98 (115)
T 2cpx_A           24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVN-----GYKLYGKILV   98 (115)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHST-----TCBCSSCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhC-----CCEeCCcEEE
Confidence            34589999999999999999999999998    5566553  35789999999999999999874     8999999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |..+....
T Consensus        99 v~~a~~~~  106 (115)
T 2cpx_A           99 IEFGKNKK  106 (115)
T ss_dssp             EEECCCCS
T ss_pred             EEEccCCC
Confidence            99987643

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

Probab=99.09  E-value=3.3e-10  Score=100.72  Aligned_cols=73  Identities=21%  Similarity=0.208  Sum_probs=63.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-CCce-EEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-GAES-GYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-g~~~-GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~  395 (498)
                      -..+||+||++.+|+++|+++|++||.|..|.+.+ .+++ |||+|.++++|++|+++|+     |..|.|  ..+.|..
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~Ln-----G~~i~g~~~~LrI~~  102 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLD-----GQNIYNACCTLRIDF  102 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHT-----TCEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcC-----CCeecCCCcEEEEEe
Confidence            34689999999999999999999999999988754 4566 9999999999999999994     888988  7777776


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      +.
T Consensus       103 ak  104 (130)
T 3zzy_A          103 SK  104 (130)
T ss_dssp             CS
T ss_pred             cC
Confidence            53

>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=99.09  E-value=1.6e-10  Score=98.99  Aligned_cols=73  Identities=12%  Similarity=0.064  Sum_probs=63.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEe--------
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSV--------  386 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i--------  386 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++     .+.|||+|.++++|++|++.|+     |..|        
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~~~~~~~~   99 (114)
T 1x5o_A           25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN-----GKFIKTPPGVSA   99 (114)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHB-----TCCCCCCTTSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhC-----CCEEcCCccccC
Confidence            347899999999999999999999999999999875     3569999999999999999884     7777        


Q ss_pred             cCeEEEEEEcC
Q 043731          387 KNFIAVLEPVT  397 (498)
Q Consensus       387 ~g~~~~v~~~~  397 (498)
                      .++.+.|..+.
T Consensus       100 ~~~~l~v~~a~  110 (114)
T 1x5o_A          100 PTEPLLCKFSG  110 (114)
T ss_dssp             CSSCBEEEECC
T ss_pred             CCCceeEEccC
Confidence            57778888764

>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=99.08  E-value=6.3e-11  Score=105.80  Aligned_cols=79  Identities=19%  Similarity=0.145  Sum_probs=66.3

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEE--------EEee---cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEec
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFK---IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVK  387 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~---~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~  387 (498)
                      .+.+|||+|||+.+|+++|+++|++||.|..        +.+.   +..+.|||.|.++++|.+|+..|+     |..|.
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~ln-----g~~~~  118 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEAN-----GYVLF  118 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHT-----TBEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhC-----CCEeC
Confidence            4568999999999999999999999998765        3222   456789999999999999999984     99999


Q ss_pred             CeEEEEEEcCChhHH
Q 043731          388 NFIAVLEPVTGEAEK  402 (498)
Q Consensus       388 g~~~~v~~~~g~~E~  402 (498)
                      |+.|.|..+.....+
T Consensus       119 g~~l~V~~a~~~~~~  133 (143)
T 3egn_A          119 GKPMVVQFARSARPK  133 (143)
T ss_dssp             TEECEEEECCCSCC-
T ss_pred             CcEEEEEECCCCCCc
Confidence            999999999664433

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

Probab=99.08  E-value=1.2e-10  Score=100.36  Aligned_cols=67  Identities=12%  Similarity=0.184  Sum_probs=54.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec---------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI---------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~---------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      ..+|||+|||..+++++|+++|++||.|. +.+..         .++.|||+|.++++|++|++++.       .++|+.
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~-------~~~G~~   79 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL-------EEDGKL   79 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE-------EETTEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh-------hcCCcE
Confidence            45799999999999999999999999998 66653         35679999999999999999862       245555


Q ss_pred             EEEE
Q 043731          391 AVLE  394 (498)
Q Consensus       391 ~~v~  394 (498)
                      +.+.
T Consensus        80 ~~~~   83 (114)
T 2dnl_A           80 YLCV   83 (114)
T ss_dssp             EEEE
T ss_pred             EEec
Confidence            5444

>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=99.07  E-value=3.7e-10  Score=96.46  Aligned_cols=78  Identities=23%  Similarity=0.288  Sum_probs=65.4

Q ss_pred             ccceEEeccC--CCCC--------cHHHHHHHhccCCceeeEEcccccCC-CCcccceEEEEeCCHHHHHHHHHh--CCe
Q 043731          112 DVRTIAATPL--EYDV--------KREDVEAFFSQHVKVNSVRLPRHVAD-KRLFCGTALIEFSTEEDAEKVLKQ--GLF  178 (498)
Q Consensus       112 ~~rtV~V~nL--p~~~--------t~e~L~~~F~~~G~V~~Vri~r~~~~-~~~~kG~aFVeF~s~e~A~kAl~~--~~~  178 (498)
                      ..+.|.+.|+  |.+.        ..++|++.|++||+|.+|+|+++..+ ++.++|+|||+|.++++|.+|+..  +..
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~   83 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   83 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            4578888887  4333        35789999999999999999988642 235789999999999999999985  899


Q ss_pred             eCCeEEEEeec
Q 043731          179 YAGVELHLKPK  189 (498)
Q Consensus       179 ~~G~~l~v~~k  189 (498)
                      |+|+.|.|.+.
T Consensus        84 f~GR~i~v~~~   94 (105)
T 3v4m_A           84 FANRVVVTKYC   94 (105)
T ss_dssp             ETTEECEEEEE
T ss_pred             eCCCEEEEEEe
Confidence            99999999875

>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=99.07  E-value=7.3e-11  Score=100.64  Aligned_cols=70  Identities=20%  Similarity=0.375  Sum_probs=59.8

Q ss_pred             eccCCCCCcHHHHHHHh------------ccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          118 ATPLEYDVKREDVEAFF------------SQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       118 V~nLp~~~t~e~L~~~F------------~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      +.|||+.+++++|+++|            ++||+|.+|+|+++..  ++++|+|||+|.++++|.+|+..  +..++|+.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~--~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~   97 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG--DHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQP   97 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS--SSSEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC--CCccEEEEEEECCHHHHHHHHHHHCCCEECCEE
Confidence            56777877877777666            9999999999998764  57899999999999999999984  89999999


Q ss_pred             EEEeec
Q 043731          184 LHLKPK  189 (498)
Q Consensus       184 l~v~~k  189 (498)
                      |.|.+.
T Consensus        98 i~v~~s  103 (104)
T 1jmt_A           98 IHAELS  103 (104)
T ss_dssp             CCEEEC
T ss_pred             EEEEEc
Confidence            988754

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

Probab=99.06  E-value=9.1e-11  Score=98.50  Aligned_cols=75  Identities=15%  Similarity=0.193  Sum_probs=65.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..++||+|||..+++++|+++|++||.|..|.+.++     ++.|||.|.++++|++|++     +  |..|+|+.+.|.
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-----~--~~~~~g~~l~v~   81 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-----S--QINFHGKKLKLG   81 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-----C--CCEETTEECEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-----C--CCeECCEEEEEE
Confidence            357999999999999999999999999999999874     3569999999999999976     2  899999999988


Q ss_pred             EcCChhH
Q 043731          395 PVTGEAE  401 (498)
Q Consensus       395 ~~~g~~E  401 (498)
                      .+....+
T Consensus        82 ~a~~~~~   88 (102)
T 2xs2_A           82 PAIRKQN   88 (102)
T ss_dssp             EEEECC-
T ss_pred             ECCcCcc
Confidence            8765443

>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=99.06  E-value=6.6e-11  Score=100.73  Aligned_cols=76  Identities=14%  Similarity=0.084  Sum_probs=66.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCc---eEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGT---VKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~---V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      ...|||+|||+.+|+++|+++|++||.   |..|.+.++     ++.|||+|.++++|++|+. +   +  |..|+|+.|
T Consensus        11 ~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~---~--~~~~~gr~i   84 (107)
T 2lmi_A           11 VFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-K---H--RMYMGQRYV   84 (107)
T ss_dssp             CCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-T---T--TCCSSSSCC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-h---C--cceeCCeEE
Confidence            457899999999999999999999998   888888754     4579999999999999988 6   3  889999999


Q ss_pred             EEEEcCChhH
Q 043731          392 VLEPVTGEAE  401 (498)
Q Consensus       392 ~v~~~~g~~E  401 (498)
                      .|..+..++-
T Consensus        85 ~V~~a~~~~~   94 (107)
T 2lmi_A           85 EVYEINNEDV   94 (107)
T ss_dssp             CCEECCHHHH
T ss_pred             EEEECCHHHH
Confidence            9999876443

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

Probab=98.64  E-value=1.6e-11  Score=105.86  Aligned_cols=78  Identities=17%  Similarity=0.149  Sum_probs=68.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE--------EEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      ...|||+|||..+++++|+++|++||.|..        |.+.++      .+.|||+|.++++|++|++.|+     |..
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~   81 (116)
T 2lcw_A            7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFD-----GKE   81 (116)
Confidence            447899999999999999999999999988        777654      4569999999999999999884     899


Q ss_pred             ecCeEEEEEEcCChhHH
Q 043731          386 VKNFIAVLEPVTGEAEK  402 (498)
Q Consensus       386 i~g~~~~v~~~~g~~E~  402 (498)
                      |+|+.|.|..+..+...
T Consensus        82 ~~g~~l~V~~a~~~~~~   98 (116)
T 2lcw_A           82 FSGNPIKVSFATRRADF   98 (116)
Confidence            99999999998775543

>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=99.06  E-value=8.5e-11  Score=99.61  Aligned_cols=72  Identities=14%  Similarity=0.120  Sum_probs=61.6

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..+|||+|||+.+|+++|+++|++||.| .|.+.++     ++.|||+|.++++|++|++ +   |  +..|+|+.|.|.
T Consensus        15 ~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~---~--~~~~~gr~i~V~   87 (102)
T 1wez_A           15 GHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-K---D--KANMQHRYVELF   87 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-T---S--SCCSSSSCCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-h---C--CCeECCcEEEEE
Confidence            3478999999999999999999999965 7877754     3469999999999999984 3   4  899999999998


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      ++..
T Consensus        88 ~~~~   91 (102)
T 1wez_A           88 LNST   91 (102)
T ss_dssp             EECC
T ss_pred             ECCC
Confidence            8754

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.05  E-value=1.1e-10  Score=102.83  Aligned_cols=74  Identities=16%  Similarity=0.043  Sum_probs=62.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCce----EEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTV----KFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V----~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      ...|||+|||+.+|+++|+++|++||.|    ..|.+..+     ++.|||+|.++++|++|+..    +  +..|+|+.
T Consensus        23 ~~~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           23 QVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK----H--KDLLGKRY   96 (123)
T ss_dssp             CCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT----T--TEESSSCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh----C--CCeeCCeE
Confidence            3478999999999999999999999975    46666543     45699999999999999864    3  89999999


Q ss_pred             EEEEEcCCh
Q 043731          391 AVLEPVTGE  399 (498)
Q Consensus       391 ~~v~~~~g~  399 (498)
                      |.|.++..+
T Consensus        97 i~V~~a~~~  105 (123)
T 2dha_A           97 IELFRSTAA  105 (123)
T ss_dssp             ECCEEECHH
T ss_pred             EEEEECCHH
Confidence            999988654

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

Probab=99.05  E-value=8.6e-11  Score=104.60  Aligned_cols=74  Identities=16%  Similarity=0.160  Sum_probs=66.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|++.|+     |..|+|+.|.|
T Consensus        47 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~-----g~~i~g~~l~V  121 (135)
T 2lea_A           47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMD-----GAVLDGRELRV  121 (135)
T ss_dssp             CCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTT-----TCCSSSSCCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcC-----CCEECCEEEEE
Confidence            347899999999999999999999999999998764      3469999999999999998873     88899999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus       122 ~~a~~  126 (135)
T 2lea_A          122 QMARY  126 (135)
T ss_dssp             EECCC
T ss_pred             EECCC
Confidence            98865

>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=99.05  E-value=2.4e-10  Score=105.40  Aligned_cols=74  Identities=20%  Similarity=0.167  Sum_probs=64.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC--CceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG--AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g--~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~  395 (498)
                      ...|||+||++.+|+++|+++|++||.|..|.+...  ++.|||+|.++++|++|++.|+     |..|.|  +.|.|..
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~Ln-----G~~i~g~g~~L~V~~  120 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLD-----GQNIYNACCTLRIDF  120 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHST-----TBCSSSSCSCEEEEE
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhC-----CCEecCCCcEEEEEE
Confidence            457899999999999999999999999999988643  4579999999999999999984     888855  9999988


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +..
T Consensus       121 Ak~  123 (164)
T 1sjr_A          121 SKL  123 (164)
T ss_dssp             CSS
T ss_pred             ecC
Confidence            754

>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=99.05  E-value=1.3e-10  Score=112.67  Aligned_cols=79  Identities=15%  Similarity=0.077  Sum_probs=68.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCC--ceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFG--TVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG--~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      ...+|||+||++.+|+++|+++|++||  .|..|.|.++.      ++|||.|.+.++|++|++.|   |  |..|.|+.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~l---n--g~~~~Gr~  141 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL---P--KRELHGQN  141 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTS---T--TSCBTTBC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc---C--CCeECCEE
Confidence            455799999999999999999999999  99999988653      46999999999999999987   3  89999999


Q ss_pred             EEEEEcCChhHH
Q 043731          391 AVLEPVTGEAEK  402 (498)
Q Consensus       391 ~~v~~~~g~~E~  402 (498)
                      |.|..+......
T Consensus       142 l~V~~a~~~~~~  153 (229)
T 3q2s_C          142 PVVTPVNKQFLS  153 (229)
T ss_dssp             CEEEECCHHHHH
T ss_pred             eEEEECCCCccc
Confidence            999999765543

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

Probab=99.04  E-value=1.1e-10  Score=97.79  Aligned_cols=75  Identities=20%  Similarity=0.114  Sum_probs=63.7

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE-----EEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF-----IDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~-----V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ...|||+|||..+++++|+++|++||.|..     ....+.++.|||+|.++++|++|++ ++     |..|+|+.|.|.
T Consensus        17 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~-----g~~~~g~~l~V~   90 (101)
T 1fj7_A           17 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LT-----GLKVFGNEIKLE   90 (101)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GG-----GCCBTTBCCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cC-----CcEECCcEEEEE
Confidence            457999999999999999999999997644     2223457789999999999999998 74     899999999999


Q ss_pred             EcCChh
Q 043731          395 PVTGEA  400 (498)
Q Consensus       395 ~~~g~~  400 (498)
                      .+..+.
T Consensus        91 ~a~~~~   96 (101)
T 1fj7_A           91 KPKGRD   96 (101)
T ss_dssp             CCSCCC
T ss_pred             EcCCCC
Confidence            887643

>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=99.04  E-value=5.9e-10  Score=95.69  Aligned_cols=74  Identities=19%  Similarity=0.278  Sum_probs=62.4

Q ss_pred             ccceEEeccCCCCC-----------cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCe
Q 043731          112 DVRTIAATPLEYDV-----------KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF  178 (498)
Q Consensus       112 ~~rtV~V~nLp~~~-----------t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~  178 (498)
                      ..++|+|+||....           ++++|+++|++||.|..|.|+ +    +.++|||||+|.++++|.+|+..  +..
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~-~----~~~~G~afV~f~~~~~A~~Ai~~lng~~   88 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLF-D----RHPDGVASVSFRDPEEADYCIQTLDGRW   88 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEE-T----TCTTCEEEEECSCHHHHHHHHHHSTTCE
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEe-c----CCCCEEEEEEECCHHHHHHHHHHcCCCE
Confidence            47899999994432           257999999999999999773 3    23789999999999999999984  889


Q ss_pred             eCCeEEEEeecc
Q 043731          179 YAGVELHLKPKK  190 (498)
Q Consensus       179 ~~G~~l~v~~k~  190 (498)
                      ++|++|.|.+..
T Consensus        89 ~~gr~l~v~~a~  100 (112)
T 2dit_A           89 FGGRQITAQAWD  100 (112)
T ss_dssp             ETTEECEEEECC
T ss_pred             ECCcEEEEEEeC
Confidence            999999998763

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

Probab=99.04  E-value=2.7e-10  Score=111.35  Aligned_cols=77  Identities=13%  Similarity=0.229  Sum_probs=68.4

Q ss_pred             cceeeeccCCCccc---------cHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEe---
Q 043731          319 KTSIDTYKDNMDVV---------MREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV---  386 (498)
Q Consensus       319 ~~~~vfv~nL~~~v---------t~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i---  386 (498)
                      .+.+|||+||+..+         ++++|+++|++||+|..|.+.++++.|||+|.+.++|+.|+++|.     |..|   
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am~-----g~~l~~~  207 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMS-----NQTLLLP  207 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHHHT-----TCCCCCT
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCCCEEEEEeCCHHHHHHHHHHhC-----CCEEecc
Confidence            34589999999998         799999999999999999999999999999999999999999984     7777   


Q ss_pred             ---------cCeEEEEEEcCChh
Q 043731          387 ---------KNFIAVLEPVTGEA  400 (498)
Q Consensus       387 ---------~g~~~~v~~~~g~~  400 (498)
                               .|+.|.|+.+..+.
T Consensus       208 ~~~e~~~~~~gr~L~V~wA~~~p  230 (240)
T 3u1l_A          208 SDKEWDDRREGTGLLVKWANEDP  230 (240)
T ss_dssp             TSTTGGGGGGSCCCEEEECC---
T ss_pred             ccccccccCCCCEEEEEEccCCC
Confidence                     89999999987643

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

Probab=99.03  E-value=2.5e-10  Score=106.44  Aligned_cols=77  Identities=18%  Similarity=0.166  Sum_probs=68.7

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+|||+|||..+++++|+++|++||.|..|.+..+     .+.|||.|.++++|.+|++.++     |..|+|+.|.|
T Consensus        87 ~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~ln-----g~~l~Gr~l~V  161 (177)
T 2f3j_A           87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYK-----GVPLDGRPMDI  161 (177)
T ss_dssp             TCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHST-----TCBCSSSBCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            4568999999999999999999999999999998764     4679999999999999999873     89999999999


Q ss_pred             EEcCChh
Q 043731          394 EPVTGEA  400 (498)
Q Consensus       394 ~~~~g~~  400 (498)
                      ..+....
T Consensus       162 ~~a~~~~  168 (177)
T 2f3j_A          162 QLVASQI  168 (177)
T ss_dssp             EEESSGG
T ss_pred             EEecCCC
Confidence            9987643

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

Probab=99.03  E-value=5.9e-10  Score=94.59  Aligned_cols=62  Identities=18%  Similarity=0.146  Sum_probs=55.5

Q ss_pred             CCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          123 YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       123 ~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      .++++++|+++|++||.|..|+|++      +++|||||+|.+.++|.+|++....+.|++|.|.+..
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~------~~rGfaFVeF~~~~~A~~Ai~~~~~~~g~~l~V~~a~   88 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS------KKPGTAVVEFATVKAAELAVQNEVGLVDNPLKISWLE   88 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES------SSSSEEEEEESCHHHHHHHHHTCCBCSSSBCEEECSS
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc------CCCCEEEEEECCHHHHHHHHHhcCCCCCCeEEEEEcc
Confidence            5689999999999999999999973      3689999999999999999998666889999998864

>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=99.01  E-value=1.6e-10  Score=102.09  Aligned_cols=73  Identities=14%  Similarity=0.131  Sum_probs=61.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceE-EEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVK-FIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~-~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..|||+|||+.+|+++|+++|++||.+. .|.+.++     ++.|||+|.++++|++|++.    +  +..|+|+.|.|.
T Consensus        43 ~~lfVgnLp~~~te~dL~~~F~~~~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~----~--~~~l~gR~I~V~  116 (126)
T 2hgm_A           43 GFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGK----H--KERIGHRYIEVF  116 (126)
T ss_dssp             CEEEEECCCTTCCHHHHHHHTTTSCEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTT----T--TCCBTTBCCCCE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhcCCceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHH----C--CCEECCEEEEEE
Confidence            4689999999999999999999995442 7887753     56799999999999999874    2  689999999998


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      ++..+
T Consensus       117 ~a~~~  121 (126)
T 2hgm_A          117 KSSQE  121 (126)
T ss_dssp             EECHH
T ss_pred             ECCHH
Confidence            88643

>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=99.01  E-value=7e-10  Score=96.90  Aligned_cols=79  Identities=15%  Similarity=0.189  Sum_probs=66.7

Q ss_pred             cccceEEeccCC--CC---CcHHHHHHHhccCCceeeEEcccccCC---CCcccceEEEEeCCHHHHHHHHHh--CCeeC
Q 043731          111 LDVRTIAATPLE--YD---VKREDVEAFFSQHVKVNSVRLPRHVAD---KRLFCGTALIEFSTEEDAEKVLKQ--GLFYA  180 (498)
Q Consensus       111 ~~~rtV~V~nLp--~~---~t~e~L~~~F~~~G~V~~Vri~r~~~~---~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~  180 (498)
                      ...++|+++|+-  .+   --+++|++.|++||+|.+|+|+++...   +++++|++||+|.++++|.+|+..  +..|+
T Consensus        18 ~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           18 QESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA   97 (118)
T ss_dssp             HSCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC
Confidence            357899999983  22   246899999999999999999988641   346789999999999999999995  89999


Q ss_pred             CeEEEEeec
Q 043731          181 GVELHLKPK  189 (498)
Q Consensus       181 G~~l~v~~k  189 (498)
                      |+.|.|.+.
T Consensus        98 GR~i~v~~~  106 (118)
T 3ue2_A           98 GRKVVAEVY  106 (118)
T ss_dssp             TEECEEEEE
T ss_pred             CcEEEEEEc
Confidence            999998875

>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=99.00  E-value=4.6e-10  Score=106.00  Aligned_cols=72  Identities=18%  Similarity=0.099  Sum_probs=63.6

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+|||+|||+.+++++|+++|++||.|..|.+.++     +|.|||+|+++++|++|++.+      +..++|+.|.|..
T Consensus       110 ~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~------~~~~~Gr~l~V~~  183 (193)
T 2voo_A          110 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP------GQKYKETDLLILF  183 (193)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT------TCEETTEECEEEE
T ss_pred             CEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC------CCeECCEEEEEEE
Confidence            47899999999999999999999999999998863     467999999999999998754      5699999999987


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      ...
T Consensus       184 ~~~  186 (193)
T 2voo_A          184 KDD  186 (193)
T ss_dssp             TTT
T ss_pred             hHH
Confidence            644

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.99  E-value=4.3e-10  Score=94.25  Aligned_cols=69  Identities=14%  Similarity=0.068  Sum_probs=60.8

Q ss_pred             eeeccCCCccccHHH----HHHHhccCC-ceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          322 IDTYKDNMDVVMRED----LKSVFHKFG-TVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       322 ~vfv~nL~~~vt~Ed----Lke~F~~fG-~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      ++||+|||+.++.++    |+++|++|| .|..|    ..+.|||+|.+.++|.+|+..|+     |..|.|+.+.|..+
T Consensus        11 ~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V----tgG~AfV~F~~~esA~~A~~~l~-----G~~l~gr~i~v~~A   81 (96)
T 2diu_A           11 LLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI----TGCSAILRFINQDSAERAQKRME-----NEDVFGNRIIVSFT   81 (96)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC----CTTCEEEEESSHHHHHHHHHHHT-----TCCSSSSCCEEESS
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE----ecCEEEEEECCHHHHHHHHHHhc-----CCccCCceEEEEec
Confidence            489999999999988    558999995 99888    23899999999999999999985     89999999999987


Q ss_pred             CCh
Q 043731          397 TGE  399 (498)
Q Consensus       397 ~g~  399 (498)
                      ...
T Consensus        82 ~~~   84 (96)
T 2diu_A           82 PKN   84 (96)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            653

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

Probab=98.99  E-value=1.2e-09  Score=93.30  Aligned_cols=74  Identities=18%  Similarity=0.049  Sum_probs=62.1

Q ss_pred             ceeeeccCCCc-----cccHHHHHHHhccCCceEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEec
Q 043731          320 TSIDTYKDNMD-----VVMREDLKSVFHKFGTVKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK  387 (498)
Q Consensus       320 ~~~vfv~nL~~-----~vt~EdLke~F~~fG~V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~  387 (498)
                      +..++++|+..     +.++++|++.|++||.|..|.+.++       ++.|||+|.++++|.+|+.+|+     |..++
T Consensus         8 s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~ln-----G~~~~   82 (105)
T 2pe8_A            8 TKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLN-----GRYFG   82 (105)
T ss_dssp             CSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHT-----TCEET
T ss_pred             CCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHC-----CCEEC
Confidence            34677788852     2478999999999999999998753       4679999999999999999984     99999


Q ss_pred             CeEEEEEEcCC
Q 043731          388 NFIAVLEPVTG  398 (498)
Q Consensus       388 g~~~~v~~~~g  398 (498)
                      |+.|.|..+..
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            99999999863

>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=98.94  E-value=2e-10  Score=103.21  Aligned_cols=73  Identities=12%  Similarity=0.089  Sum_probs=62.9

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+|||+|||+.+|+++|+++|++|| |..|.+.++     ++.|||+|.++++|++|+ .+   |  +..|+|+.|.|.+
T Consensus        47 ~~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           47 HCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SK---D--RANMQHRYIELFL  119 (139)
T ss_dssp             CCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TC---C--SCSSSSCCCCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hh---C--CCEECCEEEEEEE
Confidence            3689999999999999999999999 558888754     456999999999999998 44   4  8999999999998


Q ss_pred             cCChh
Q 043731          396 VTGEA  400 (498)
Q Consensus       396 ~~g~~  400 (498)
                      +...+
T Consensus       120 a~~~~  124 (139)
T 2hgn_A          120 NSTTG  124 (139)
T ss_dssp             CCCSC
T ss_pred             CCCCC
Confidence            86643

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

Probab=98.93  E-value=1.4e-09  Score=96.23  Aligned_cols=77  Identities=13%  Similarity=0.086  Sum_probs=60.0

Q ss_pred             eeeeccCC----CccccHHHHHHHhccCCceEEEEeecCCce------EEEEeCC----HHH----HHHHHHHHhhcccC
Q 043731          321 SIDTYKDN----MDVVMREDLKSVFHKFGTVKFIDFKIGAES------GYIRFEE----PEG----AQKARAAAVLAQEG  382 (498)
Q Consensus       321 ~~vfv~nL----~~~vt~EdLke~F~~fG~V~~V~~~~g~~~------GfV~F~~----~e~----A~kAv~~l~~~n~~  382 (498)
                      ..+||+||    |+.+++++|+++|++||+|..+.+..++.+      |||+|.+    ++.    |.+|+...   ...
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~---~ln   79 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKH---ESS   79 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHT---TTT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHh---hhc
Confidence            36899999    999999999999999999999998876554      8999997    433    45555421   123


Q ss_pred             CeEecCeEEEEEEc-CChh
Q 043731          383 GLSVKNFIAVLEPV-TGEA  400 (498)
Q Consensus       383 g~~i~g~~~~v~~~-~g~~  400 (498)
                      |..|+|+.+.|.+= .|.-
T Consensus        80 g~~I~Gr~irV~ln~~g~~   98 (136)
T 2j8a_A           80 GCFIMGFKFEVILNKHSIL   98 (136)
T ss_dssp             CEEETTEEEEEEECCTTHH
T ss_pred             CCeecCcEEEEEECcccHH
Confidence            99999999999975 5544

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

Probab=98.89  E-value=4.7e-09  Score=90.02  Aligned_cols=76  Identities=18%  Similarity=0.215  Sum_probs=63.2

Q ss_pred             cceeeeccCCCccc-----------cHHHHHHHhccCCceEEEEeec--CCceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          319 KTSIDTYKDNMDVV-----------MREDLKSVFHKFGTVKFIDFKI--GAESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       319 ~~~~vfv~nL~~~v-----------t~EdLke~F~~fG~V~~V~~~~--g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      ....++++||....           ++++|+++|++||.|..|.+..  .++.|||+|.++++|++|+..|+     |..
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~ln-----g~~   88 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLD-----GRW   88 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHST-----TCE
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecCCCCEEEEEEECCHHHHHHHHHHcC-----CCE
Confidence            34578899994332           3689999999999999987642  46789999999999999999884     999


Q ss_pred             ecCeEEEEEEcCCh
Q 043731          386 VKNFIAVLEPVTGE  399 (498)
Q Consensus       386 i~g~~~~v~~~~g~  399 (498)
                      |+|+.|.|..+.+.
T Consensus        89 ~~gr~l~v~~a~~~  102 (112)
T 2dit_A           89 FGGRQITAQAWDGT  102 (112)
T ss_dssp             ETTEECEEEECCSC
T ss_pred             ECCcEEEEEEeCCC
Confidence            99999999998763

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.87  E-value=2.7e-09  Score=109.44  Aligned_cols=74  Identities=20%  Similarity=0.166  Sum_probs=62.6

Q ss_pred             cceeeeccC--CCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEe---cCe--EE
Q 043731          319 KTSIDTYKD--NMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV---KNF--IA  391 (498)
Q Consensus       319 ~~~~vfv~n--L~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i---~g~--~~  391 (498)
                      ++.++||+|  |++.+|+++|+++|++||+|..|.+.+++++|||+|.+.++|++|+++|+     |..+   .|+  .+
T Consensus        17 ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~ln-----G~~~~~~~g~~~~l   91 (345)
T 3tht_A           17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLN-----GKEVVDDLGQKITL   91 (345)
T ss_dssp             CCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCTTCSEEEEEESSHHHHHHHHHHTT-----TCEEECTTSCEEEC
T ss_pred             CCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhC-----CCccccccCCceEE
Confidence            455899999  57899999999999999999999999999999999999999999999984     5555   234  56


Q ss_pred             EEEEcC
Q 043731          392 VLEPVT  397 (498)
Q Consensus       392 ~v~~~~  397 (498)
                      ++..++
T Consensus        92 y~~~~~   97 (345)
T 3tht_A           92 YLNFVE   97 (345)
T ss_dssp             EEEECS
T ss_pred             EEEEee
Confidence            666653

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

Probab=98.83  E-value=7.4e-09  Score=88.31  Aligned_cols=61  Identities=23%  Similarity=0.271  Sum_probs=54.3

Q ss_pred             ccHHHHHHHhccCCceEEEEeecC--------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          332 VMREDLKSVFHKFGTVKFIDFKIG--------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       332 vt~EdLke~F~~fG~V~~V~~~~g--------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ...++|++.|++||.|..|.++++        .+.|||+|.++++|.+|+.+|+     |..++|+.|.+..+.
T Consensus        27 ~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~ln-----G~~f~GR~i~v~~~~   95 (105)
T 3v4m_A           27 EIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLT-----GRKFANRVVVTKYCD   95 (105)
T ss_dssp             HHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEEEC
T ss_pred             HHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhC-----CCEeCCCEEEEEEeC
Confidence            345899999999999999998753        4679999999999999999984     999999999999864

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.82  E-value=4.5e-09  Score=107.84  Aligned_cols=57  Identities=12%  Similarity=0.235  Sum_probs=52.0

Q ss_pred             ccceEEecc--CCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          112 DVRTIAATP--LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       112 ~~rtV~V~n--Lp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ..++|||+|  |++.+|+++|+++|++||+|.+|+|++       .+|||||+|.+.++|++|++.
T Consensus        17 ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~-------~kgfaFV~f~~~~~A~~Ai~~   75 (345)
T 3tht_A           17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-------NKPYSFARYRTTEESKRAYVT   75 (345)
T ss_dssp             CCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT-------TCSEEEEEESSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-------CCCEEEEEECCHHHHHHHHHH
Confidence            468999998  588999999999999999999999864       369999999999999999995

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

Probab=98.82  E-value=2.6e-09  Score=90.95  Aligned_cols=66  Identities=17%  Similarity=0.169  Sum_probs=56.5

Q ss_pred             cCCCccccHHHHHHHh------------ccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecC
Q 043731          326 KDNMDVVMREDLKSVF------------HKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN  388 (498)
Q Consensus       326 ~nL~~~vt~EdLke~F------------~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g  388 (498)
                      .+|+..+++++|++.|            ++||.|..|.+.++     +|.|||+|.++++|.+|+.+|+     |..++|
T Consensus        21 ~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~ln-----g~~~~G   95 (104)
T 1jmt_A           21 DGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLN-----NRWFNG   95 (104)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHT-----TCEETT
T ss_pred             CCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHC-----CCEECC
Confidence            5677778887777666            99999999999865     5679999999999999999984     999999


Q ss_pred             eEEEEEEc
Q 043731          389 FIAVLEPV  396 (498)
Q Consensus       389 ~~~~v~~~  396 (498)
                      +.|.|..+
T Consensus        96 r~i~v~~s  103 (104)
T 1jmt_A           96 QPIHAELS  103 (104)
T ss_dssp             EECCEEEC
T ss_pred             EEEEEEEc
Confidence            99988754

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

Probab=98.75  E-value=2.7e-08  Score=86.31  Aligned_cols=74  Identities=14%  Similarity=0.175  Sum_probs=61.8

Q ss_pred             cccceEEeccC--CCC--------CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCe
Q 043731          111 LDVRTIAATPL--EYD--------VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF  178 (498)
Q Consensus       111 ~~~rtV~V~nL--p~~--------~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~  178 (498)
                      +..+.|.+.|+  |.+        --.++|++.|++||.|.+|.|+++.     .+|+|||+|.+.++|.+|+..  +..
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~-----~~G~~fV~f~~~e~A~~Ai~~lnG~~   79 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS-----AQGNVYVKCPSIAAAIAAVNALHGRW   79 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC-----TTCCEEEECSSHHHHHHHHHHHTTCE
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC-----CcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            34678888887  222        1256889999999999999998762     479999999999999999984  899


Q ss_pred             eCCeEEEEeec
Q 043731          179 YAGVELHLKPK  189 (498)
Q Consensus       179 ~~G~~l~v~~k  189 (498)
                      |+|+.|.|.+.
T Consensus        80 f~GR~i~v~~~   90 (114)
T 3s6e_A           80 FAGKMITAAYV   90 (114)
T ss_dssp             ETTEECEEEEE
T ss_pred             ECCEEEEEEEE
Confidence            99999999876

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

Probab=98.73  E-value=2.1e-08  Score=87.48  Aligned_cols=74  Identities=15%  Similarity=0.123  Sum_probs=60.7

Q ss_pred             ceeeeccCCC--cc---ccHHHHHHHhccCCceEEEEeecCC----------ceEEEEeCCHHHHHHHHHHHhhcccCCe
Q 043731          320 TSIDTYKDNM--DV---VMREDLKSVFHKFGTVKFIDFKIGA----------ESGYIRFEEPEGAQKARAAAVLAQEGGL  384 (498)
Q Consensus       320 ~~~vfv~nL~--~~---vt~EdLke~F~~fG~V~~V~~~~g~----------~~GfV~F~~~e~A~kAv~~l~~~n~~g~  384 (498)
                      +..|++.|+-  ..   -.+++|++.|++||.|..|.+.++.          +.|||+|.++++|.+|+.+|+     |.
T Consensus        20 s~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~Ln-----Gr   94 (118)
T 3ue2_A           20 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALN-----GR   94 (118)
T ss_dssp             CCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHT-----TC
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHC-----CC
Confidence            3456777772  21   2469999999999999999887542          568999999999999999994     99


Q ss_pred             EecCeEEEEEEcCC
Q 043731          385 SVKNFIAVLEPVTG  398 (498)
Q Consensus       385 ~i~g~~~~v~~~~g  398 (498)
                      .++|+.|.+..+..
T Consensus        95 ~f~GR~i~v~~~~~  108 (118)
T 3ue2_A           95 WFAGRKVVAEVYDQ  108 (118)
T ss_dssp             EETTEECEEEEECH
T ss_pred             EECCcEEEEEEcCh
Confidence            99999999998754

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

Probab=98.66  E-value=3.4e-08  Score=83.66  Aligned_cols=64  Identities=13%  Similarity=0.160  Sum_probs=54.1

Q ss_pred             CccccHHHHHHHhccCCceEEEEee-cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          329 MDVVMREDLKSVFHKFGTVKFIDFK-IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       329 ~~~vt~EdLke~F~~fG~V~~V~~~-~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      +..+++++|+++|++||.|..|.+. +.++.|||+|.++++|++|+..+       ..+.|+.|.|..+...
T Consensus        26 ~~~~te~~L~~~F~~~G~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~-------~~~~g~~l~V~~a~~~   90 (100)
T 2d9o_A           26 KGGYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFATVKAAELAVQNE-------VGLVDNPLKISWLEGQ   90 (100)
T ss_dssp             CCSCCHHHHHHHHHTTSCEEEEEEESSSSSEEEEEESCHHHHHHHHHTC-------CBCSSSBCEEECSSCC
T ss_pred             CCCCCHHHHHHHHHhcCCEEEEEEccCCCCEEEEEECCHHHHHHHHHhc-------CCCCCCeEEEEEccCC
Confidence            3569999999999999999999987 56789999999999999998863       2357889998877553

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

Probab=98.65  E-value=3.9e-08  Score=85.26  Aligned_cols=68  Identities=19%  Similarity=0.162  Sum_probs=58.4

Q ss_pred             ccHHHHHHHhccCCceEEEEeecC--CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHHHHHH
Q 043731          332 VMREDLKSVFHKFGTVKFIDFKIG--AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKEYWSL  407 (498)
Q Consensus       332 vt~EdLke~F~~fG~V~~V~~~~g--~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e~~~~  407 (498)
                      -.+++|++.|++||.|..|.+.+.  +|.|||+|.++++|.+|+.+|+     |..++|+.|.+..+.   +..|.++
T Consensus        29 el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~ln-----G~~f~GR~i~v~~~~---~~~y~~~   98 (114)
T 3s6e_A           29 EIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALH-----GRWFAGKMITAAYVP---LPTYHNL   98 (114)
T ss_dssp             HHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEECSSHHHHHHHHHHHT-----TCEETTEECEEEEEC---HHHHHHH
T ss_pred             HHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEEEc---HHHHHHh
Confidence            456899999999999999998775  5789999999999999999984     999999999999874   4445443

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.60  E-value=2.2e-07  Score=81.40  Aligned_cols=71  Identities=20%  Similarity=0.167  Sum_probs=62.3

Q ss_pred             ccceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCC-HHHHHHHHHh----CCeeCCeEEE
Q 043731          112 DVRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFST-EEDAEKVLKQ----GLFYAGVELH  185 (498)
Q Consensus       112 ~~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s-~e~A~kAl~~----~~~~~G~~l~  185 (498)
                      ....|||+|||.+ ++.++|+++|++||+|..|.+.++..       +|||+|.+ +++|..|+..    +..++|..+.
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~-------tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~   89 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK-------EGIILFKEKAKEALGKAKDANNGNLQLRNKEVT   89 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS-------EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEE
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC-------EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEE
Confidence            4678999999999 99999999999999999999988642       49999999 8999999984    6788998888


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      +..-
T Consensus        90 ~evL   93 (121)
T 1owx_A           90 WEVL   93 (121)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            7654

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

Probab=98.33  E-value=9.4e-07  Score=73.32  Aligned_cols=56  Identities=21%  Similarity=0.286  Sum_probs=51.3

Q ss_pred             HHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          335 EDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       335 EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+|.+.|++||+|..|+|..+.  |||.|.+.++|.+|++ |   |  |..++|+.++|..++.
T Consensus        30 ~~L~~~F~~~G~Vi~vr~~~d~--~fVtF~d~~sAlaAi~-m---n--G~~v~Gr~LkV~lkt~   85 (91)
T 2dnr_A           30 DELLQQFASFGEVILIRFVEDK--MWVTFLEGSSALNVLS-L---N--GKELLNRTITIALKSP   85 (91)
T ss_dssp             HHHHHHHHTTCCEEEEEECSSS--EEEEESSHHHHHHGGG-G---T--TCEETTEEEEEEECCC
T ss_pred             HHHHHHHHhCCCeEEEEEecCC--EEEEECChHHHHHHHh-c---C--CeEeCCeEEEEEeCCC
Confidence            6799999999999999999865  9999999999999987 6   4  9999999999999875

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

Probab=98.28  E-value=1.7e-06  Score=71.80  Aligned_cols=69  Identities=14%  Similarity=0.124  Sum_probs=56.9

Q ss_pred             cceEEeccCCC----CC-c---HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeE
Q 043731          113 VRTIAATPLEY----DV-K---REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVE  183 (498)
Q Consensus       113 ~rtV~V~nLp~----~~-t---~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~  183 (498)
                      .-||.|.-.|.    +. .   ..+|.+.|++||.|..||+..+.         +||+|.+.++|.+|+.. +..+.|+.
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~---------~fVtF~d~~sAlaAi~mnG~~v~Gr~   77 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK---------MWVTFLEGSSALNVLSLNGKELLNRT   77 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS---------EEEEESSHHHHHHGGGGTTCEETTEE
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC---------EEEEECChHHHHHHHhcCCeEeCCeE
Confidence            35777776652    12 2   36799999999999999998752         79999999999999996 88999999


Q ss_pred             EEEeecc
Q 043731          184 LHLKPKK  190 (498)
Q Consensus       184 l~v~~k~  190 (498)
                      |+|..+.
T Consensus        78 LkV~lkt   84 (91)
T 2dnr_A           78 ITIALKS   84 (91)
T ss_dssp             EEEEECC
T ss_pred             EEEEeCC
Confidence            9999884

>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=98.18  E-value=1.9e-06  Score=82.11  Aligned_cols=65  Identities=17%  Similarity=0.210  Sum_probs=56.9

Q ss_pred             CcHHHHHHHhccCCceeeEEcccccCC---CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          125 VKREDVEAFFSQHVKVNSVRLPRHVAD---KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       125 ~t~e~L~~~F~~~G~V~~Vri~r~~~~---~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      -..++|++.|++||.|.+|.|+++..+   +++++|++||+|.+.++|.+|+..  +..|+||.|.+...
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~  210 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVY  210 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEc
Confidence            456889999999999999999876542   347899999999999999999995  89999999998875

>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=98.06  E-value=6.4e-06  Score=68.74  Aligned_cols=69  Identities=16%  Similarity=0.189  Sum_probs=57.6

Q ss_pred             cceEEeccCCCC------Cc---HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCe
Q 043731          113 VRTIAATPLEYD------VK---REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGV  182 (498)
Q Consensus       113 ~rtV~V~nLp~~------~t---~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~  182 (498)
                      .-||.|.-++.+      ..   ..+|.+.|++||.|..||+..+.         +||+|.+.++|.+|++. +..++|+
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~---------~fVtF~d~~sAl~AI~ldG~~v~Gr   85 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ---------MLVTFADSHSALSVLDVDGMKVKGR   85 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE---------EEEECSCSHHHHHHHHGGGSEETTE
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc---------EEEEEcChHHHHHHHhcCCeeeCCe
Confidence            458888877632      22   25689999999999999998762         89999999999999996 8999999


Q ss_pred             EEEEeecc
Q 043731          183 ELHLKPKK  190 (498)
Q Consensus       183 ~l~v~~k~  190 (498)
                      .|+|..+.
T Consensus        86 ~L~V~~k~   93 (95)
T 1ufw_A           86 AVKISGPS   93 (95)
T ss_dssp             EEEEECCC
T ss_pred             EEEEeccC
Confidence            99998763

>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=98.02  E-value=5.1e-06  Score=79.07  Aligned_cols=61  Identities=18%  Similarity=0.100  Sum_probs=54.1

Q ss_pred             ccHHHHHHHhccCCceEEEEee----------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          332 VMREDLKSVFHKFGTVKFIDFK----------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       332 vt~EdLke~F~~fG~V~~V~~~----------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      -.+++|++.|++||.|..|.+.          ++.|.|||+|.+.++|.+|+.+|+     |..++||.|.+....
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~-----gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALN-----GRWFAGRKVVAEVYD  211 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhc-----CceECCeEEEEEEcC
Confidence            4568999999999999999886          334569999999999999999984     999999999999876

>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=98.01  E-value=5.4e-06  Score=69.17  Aligned_cols=54  Identities=17%  Similarity=0.329  Sum_probs=49.3

Q ss_pred             HHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          335 EDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       335 EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+|.+.|++||+|..|+|..++  +||.|.+.++|.+|++ |   |  |..++|+.++|...
T Consensus        39 ~~L~~~F~~~G~Vilvr~v~d~--~fVtF~d~~sAl~AI~-l---d--G~~v~Gr~L~V~~k   92 (95)
T 1ufw_A           39 TELMQTLGSYGTIVLVRINQGQ--MLVTFADSHSALSVLD-V---D--GMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETTE--EEEECSCSHHHHHHHH-G---G--GSEETTEEEEEECC
T ss_pred             HHHHHHHHHCCCEEEEEEecCc--EEEEEcChHHHHHHHh-c---C--CeeeCCeEEEEecc
Confidence            6799999999999999998775  9999999999999998 7   4  99999999999865

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.01  E-value=1.3e-05  Score=68.52  Aligned_cols=66  Identities=12%  Similarity=0.023  Sum_probs=61.5

Q ss_pred             cCCCccccHHHHHHHhccC-----CceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          326 KDNMDVVMREDLKSVFHKF-----GTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       326 ~nL~~~vt~EdLke~F~~f-----G~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      =|||+.+++..|+++.+++     |.+..+.+.++.++|+|.|.+...|.||.-+|   +  |.+|+|+.+.+..+
T Consensus        27 ~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~GAivef~d~~~AgKasLaL---~--G~ef~gr~Lr~gTv   97 (117)
T 2l9w_A           27 FPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMIL---N--GSQFQGKVIRSGTI   97 (117)
T ss_dssp             ECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTEEEEECSCHHHHHHHHHHH---S--SEEETTEEEEEECH
T ss_pred             ecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCCceEEEEccchhhHHHHhhc---C--CeeecCeEEEecCH
Confidence            3899999999999999999     99999999999999999999999999997777   4  99999999998864

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.29  E-value=0.00087  Score=57.26  Aligned_cols=73  Identities=19%  Similarity=0.220  Sum_probs=64.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccC-----CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQH-----VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~-----G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      ..|||-+=|||-.++...|+.+..++     |.+..|.++.+.       |-|+|+|.+...|-+|.-.  +..|+|+.|
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-------NGAIIIFRDSKFAAKMLMILNGSQFQGKVI   92 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT-------TEEEEECSCHHHHHHHHHHHSSEEETTEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC-------CceEEEEccchhhHHHHhhcCCeeecCeEE
Confidence            47999999999999999999999999     999999887663       5599999999999998853  899999999


Q ss_pred             EEeecch
Q 043731          185 HLKPKKE  191 (498)
Q Consensus       185 ~v~~k~d  191 (498)
                      ++-.-.+
T Consensus        93 r~gTv~e   99 (117)
T 2l9w_A           93 RSGTIND   99 (117)
T ss_dssp             EEECHHH
T ss_pred             EecCHHH
Confidence            9876544

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.09  E-value=0.0015  Score=55.18  Aligned_cols=69  Identities=25%  Similarity=0.268  Sum_probs=60.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhcc---C--CceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEE
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQ---H--VKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELH  185 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~---~--G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~  185 (498)
                      -.++|.|.|||.++.++.|+-+|+.   -  |.|.+|....         +.|+|+|.+.+.|++.|+. .+.++|.+|.
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~---------~~AvItF~d~~va~rVL~k~~H~L~~~~Ls   77 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG---------CGGVLTFREPADAERVLAQADHELHGAQLS   77 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET---------TEEEEEESSHHHHHHHHTCSCCBSSSSBCE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC---------CcEEEEEcChHHHHHHhcCCcceecCeEEE
Confidence            3579999999999999999999987   2  6888886521         6799999999999999998 8999999999


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      |.+-
T Consensus        78 V~P~   81 (104)
T 2dhx_A           78 LRPA   81 (104)
T ss_dssp             EEEC
T ss_pred             EEcC
Confidence            9874

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.51  E-value=0.0052  Score=51.89  Aligned_cols=67  Identities=22%  Similarity=0.168  Sum_probs=58.1

Q ss_pred             eeeccCCCccccHHHHHHHhcc---C--CceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          322 IDTYKDNMDVVMREDLKSVFHK---F--GTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~---f--G~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .|.|.|||..++++-|.-+|+.   -  |+|..|...+  .+|+|.|.+++.|++.++.-      .+.|.|..+.|.+-
T Consensus        10 ~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~--~~AvItF~d~~va~rVL~k~------~H~L~~~~LsV~P~   81 (104)
T 2dhx_A           10 AVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG--CGGVLTFREPADAERVLAQA------DHELHGAQLSLRPA   81 (104)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET--TEEEEEESSHHHHHHHHTCS------CCBSSSSBCEEEEC
T ss_pred             EEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC--CcEEEEEcChHHHHHHhcCC------cceecCeEEEEEcC
Confidence            5778999999999999999987   2  5899998876  89999999999999997652      67889999999874

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=96.03  E-value=0.03  Score=48.46  Aligned_cols=73  Identities=15%  Similarity=0.162  Sum_probs=59.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCC-eEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAG-VELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G-~~l~v~~  188 (498)
                      ...+.|.|-+||... ...|...|++||.|.....+.       ......|.|.++.+|++||.. +..++| ..|-|.+
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~-------~~NWihI~Y~s~~~A~rAL~kNG~ii~g~~mIGV~p   93 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSN-------TGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKP   93 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECS-------SSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEE
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCC-------CCCeEEEEeCCHHHHHHHHHhCCeEecCCEEEEEEE
Confidence            457889999999885 677889999999999988632       246899999999999999996 777875 6666777


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      -.+
T Consensus        94 ~~d   96 (119)
T 1wwh_A           94 CID   96 (119)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=95.89  E-value=0.019  Score=47.48  Aligned_cols=56  Identities=16%  Similarity=0.200  Sum_probs=49.7

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCce--------EEEEeCCHHHHHHHHHHHh
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES--------GYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~--------GfV~F~~~e~A~kAv~~l~  377 (498)
                      .+.|++||...|++++.+.++..+.+.|..+.+|+.+        |||.|.+++++..-...+.
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~   66 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFD   66 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhC
Confidence            4678999999999999999999999999999877643        8999999999999888873

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=95.79  E-value=0.024  Score=47.35  Aligned_cols=51  Identities=24%  Similarity=0.330  Sum_probs=44.1

Q ss_pred             eeccCCCccccHHHHHHHhccCC--ceEEEEeecCCceEEEEeCCHHHHHHHHHHHh
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFG--TVKFIDFKIGAESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG--~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ||+=+.|...-..||.++|+.||  .|.+|+    ..+|||-|.+++.|..|+..+.
T Consensus        18 Vf~l~FP~ewKt~DI~~lFs~fggv~I~Wid----DTsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           18 VLHVTFPKEWKTSDLYQLFSAFGNIQISWID----DTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             EEEEECCTTCCHHHHHHHHTTTCSCCCEEEE----TTEEEEECSCHHHHHHHHHHHH
T ss_pred             EEEEeCChhhhhHHHHHHhhccCCEEEEEEc----CCeEEEEecCHHHHHHHHHhcc
Confidence            33338999999999999999998  578885    8899999999999999988764

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.46  E-value=0.0055  Score=64.90  Aligned_cols=62  Identities=15%  Similarity=0.155  Sum_probs=47.4

Q ss_pred             hhhccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          107 MKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       107 ~~~~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      .+.+...|+|+|. .|...++.+|.++|++||+|.++.+-.+.      .-||.|||.+.+++..++..
T Consensus        47 ~r~~qa~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~------g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           47 ERREQAQRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESF------GLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HHHHHHHTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSS------SEEEEEECC---CCHHHHSS
T ss_pred             HHHHHhcceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccC------CeEEEEEeCCHHHHHHHHhc
Confidence            3455678999998 79999999999999999999999986532      26999999999999988875

>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=94.90  E-value=0.049  Score=45.98  Aligned_cols=72  Identities=18%  Similarity=0.050  Sum_probs=58.9

Q ss_pred             eeeeccCCCccc-c----HHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVV-M----REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~v-t----~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +++++-||+..+ .    .+.++++|..|+++....+-++=.---|.|.++++|.+|+..|.     +..+.|+++.+--
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh-----~~~f~g~~~r~YF   80 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLH-----KTEFLGKEMKLYF   80 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTST-----TSEETTEECEEEC
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcceEEEEEeCChHHHHHHHHHhc-----cceecCceeEEEe
Confidence            355667887655 2    36789999999987777777777778999999999999988874     8899999988887


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      ++
T Consensus        81 gq   82 (104)
T 1wey_A           81 AQ   82 (104)
T ss_dssp             CC
T ss_pred             cC
Confidence            76

>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=94.84  E-value=0.038  Score=46.18  Aligned_cols=51  Identities=14%  Similarity=0.234  Sum_probs=40.4

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      -+++ +||......||.++|+.||.|. |+-.-        -..|||.|.+++.|..|+..
T Consensus        18 Vf~l-~FP~ewKt~DI~~lFs~fggv~-I~Wid--------DTsAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           18 VLHV-TFPKEWKTSDLYQLFSAFGNIQ-ISWID--------DTSAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             EEEE-ECCTTCCHHHHHHHHTTTCSCC-CEEEE--------TTEEEEECSCHHHHHHHHHH
T ss_pred             EEEE-eCChhhhhHHHHHHhhccCCEE-EEEEc--------CCeEEEEecCHHHHHHHHHh
Confidence            3555 9999999999999999999432 22222        24699999999999999984

>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=94.69  E-value=0.022  Score=47.72  Aligned_cols=47  Identities=23%  Similarity=0.407  Sum_probs=41.6

Q ss_pred             CCCccccHHHHHHHhccCC--ceEEEEeecCCceEEEEeCCHHHHHHHHHHHh
Q 043731          327 DNMDVVMREDLKSVFHKFG--TVKFIDFKIGAESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       327 nL~~~vt~EdLke~F~~fG--~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      +.|...-..||.++|+.||  .|.+|+    ..+|||-|.+++.|..|+..+.
T Consensus        12 ~FP~ewKt~Di~~lFs~fggv~I~Wid----DTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A           12 TFPKEWKTSDLYQLFSAFGNIQISWID----DTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             ECCTTCCHHHHHHHTTTSEEEEEEEEE----TTEEEEEEEEECHHHHHHHHHT
T ss_pred             eCChhhhhHHHHHHHhccCCEEEEEEc----CCeEEEEecCHHHHHHHHHhcc
Confidence            8899999999999999998  467774    8899999999999999988763

>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=94.48  E-value=0.099  Score=44.14  Aligned_cols=70  Identities=20%  Similarity=0.179  Sum_probs=55.9

Q ss_pred             cceEEeccCCCCC-c----HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEE
Q 043731          113 VRTIAATPLEYDV-K----REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELH  185 (498)
Q Consensus       113 ~rtV~V~nLp~~~-t----~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~  185 (498)
                      ..||+|.|||.++ .    .+.++++|.+|+++......+.-       .=.-|.|.++++|.+|-..  +..|+|+.|+
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSF-------RRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r   77 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-------KRVRINFSNPLSAADARLRLHKTEFLGKEMK   77 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-------TEEEEECSSTTHHHHHHHTSTTSEETTEECE
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcc-------eEEEEEeCChHHHHHHHHHhccceecCceeE
Confidence            3689999998865 2    36789999999998887654431       1378999999999999885  7889999998


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      +-..
T Consensus        78 ~YFg   81 (104)
T 1wey_A           78 LYFA   81 (104)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            7654

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=94.17  E-value=0.14  Score=42.18  Aligned_cols=67  Identities=12%  Similarity=0.174  Sum_probs=50.4

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCC-CcccceEEEEeCCHHHHHHHHHhCCeeCCeE
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADK-RLFCGTALIEFSTEEDAEKVLKQGLFYAGVE  183 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~-~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~  183 (498)
                      ..|.|++||+.+|++++.+.++.+..+........+... ...-+-|||.|.+.+++....+.   ++|+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~---~~g~~   69 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDR---FDGYV   69 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHH---HTTCE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHH---hCCcE
Confidence            368999999999999999999999887766554322111 12235699999999999999985   55543

>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=94.13  E-value=0.036  Score=46.43  Aligned_cols=50  Identities=14%  Similarity=0.256  Sum_probs=40.0

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      +++ +||......||.++|++||.| .|+-.-+        ..|||.|.+++.|..|+..
T Consensus         9 ~~l-~FP~ewKt~Di~~lFs~fggv-~I~WidD--------TsAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A            9 LHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD--------TSAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             EEE-ECCTTCCHHHHHHHTTTSEEE-EEEEEET--------TEEEEEEEEECHHHHHHHH
T ss_pred             EEE-eCChhhhhHHHHHHHhccCCE-EEEEEcC--------CeEEEEecCHHHHHHHHHh
Confidence            455 999999999999999999932 2322222        4699999999999999984

>4eyt_A Telomerase associated protein P65; RNA, LA protein, LARP7, RRM, XRRM, RNA binding protein; 2.50A {Tetrahymena thermophila} PDB: 4erd_A

Probab=93.76  E-value=0.64  Score=38.10  Aligned_cols=96  Identities=13%  Similarity=0.259  Sum_probs=69.1

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCC--eEecCeEEEEEEc-C
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGG--LSVKNFIAVLEPV-T  397 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g--~~i~g~~~~v~~~-~  397 (498)
                      +++-+-|+|..+-..++--...-.|---|+++..  |.|.|+|.+.+...-|+..|-.+|...  +.|.|.+..|--. -
T Consensus        13 clikiinipqgtlkaevvlavrhlgyefycdyid--gqamirfqnsdeqrlaiqkllnhnnnklqieirgqicdvistip   90 (129)
T 4eyt_A           13 CLIKIINIPQGTLKAEVVLAVRHLGYEFYCDYID--GQAMIRFQNSDEQRLAIQKLLNHNNNKLQIEIRGQICDVISTIP   90 (129)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHTTCCCEEEEECS--SCEEEEESSHHHHHHHHHHHEETTTTEEEEEETTEEEEEECCCC
T ss_pred             cEEEEEecCCCceeeeeEEeehhcCeeEeeeeec--CeeEEEecCChHHHHHHHHHHhcCCCEEEEEEcceeeeeeecCC
Confidence            3444569999998888887778888777888874  479999999999999999886555554  4567888866544 4


Q ss_pred             ChhHHHHHHHHhhhhhccccc
Q 043731          398 GEAEKEYWSLLRGNQERHRDV  418 (498)
Q Consensus       398 g~~E~e~~~~~~~~~~k~~~~  418 (498)
                      .++|+.||.-++-+..-++.+
T Consensus        91 edeeknywnyikfkknefrkf  111 (129)
T 4eyt_A           91 EDEEKNYWNYIKFKKNEFRKF  111 (129)
T ss_dssp             HHHHHHHHHHHHHHCC-----
T ss_pred             chhhhchhhheeehhhHHHHH
Confidence            567777998766555555443

>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=93.70  E-value=0.18  Score=43.55  Aligned_cols=67  Identities=13%  Similarity=0.123  Sum_probs=51.9

Q ss_pred             CCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecC-eEEEEEEcCChh
Q 043731          327 DNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN-FIAVLEPVTGEA  400 (498)
Q Consensus       327 nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g-~~~~v~~~~g~~  400 (498)
                      +.|... -..+-..|++||+|.......+..--+|+|.++.+|++|+..    |  |..|+| -.|-|.+.....
T Consensus        31 GFp~~~-~~~VL~~F~~~G~Iv~~~~~~~~NWihI~Y~s~~~A~rAL~k----N--G~ii~g~~mIGV~p~~d~~   98 (119)
T 1wwh_A           31 GFPQAS-ASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALSK----D--GRIFGESIMIGVKPCIDKN   98 (119)
T ss_dssp             CCCGGG-HHHHHHHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHHTT----T--TCEETTTEECEEEECCCHH
T ss_pred             CCCHHH-HHHHHHHHHhhCcEEEeccCCCCCeEEEEeCCHHHHHHHHHh----C--CeEecCCEEEEEEECCCHH
Confidence            566664 456678899999998887765666679999999999999765    4  999985 667888876543

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=93.51  E-value=0.14  Score=44.99  Aligned_cols=77  Identities=18%  Similarity=0.227  Sum_probs=55.0

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccC-------CCCc-----ccceEEEEeCCHHHHHHHHHh-CCe
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVA-------DKRL-----FCGTALIEFSTEEDAEKVLKQ-GLF  178 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~-------~~~~-----~kG~aFVeF~s~e~A~kAl~~-~~~  178 (498)
                      ...|.|=|+|.+. ...+.+.|++||.|.. +.+.+...       ..++     ..+...|+|+++.+|.+||.. +..
T Consensus         7 e~~VtVFGFp~~~-~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~i   85 (132)
T 3p3d_A            7 ELAILVFGYPETM-ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAV   85 (132)
T ss_dssp             -CEEEEECCCGGG-HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCE
T ss_pred             ceEEEEEecCHHH-HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeE
Confidence            4568888998765 4567789999999887 43332110       0011     246789999999999999996 889


Q ss_pred             eCCeEEEEeecc
Q 043731          179 YAGVELHLKPKK  190 (498)
Q Consensus       179 ~~G~~l~v~~k~  190 (498)
                      ++|..|-|.|-.
T Consensus        86 i~G~mIGV~Py~   97 (132)
T 3p3d_A           86 FNGVLLGVIPYT   97 (132)
T ss_dssp             ETTEECEEEECC
T ss_pred             eCcEEEEEEECC
Confidence            999977777754

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=93.06  E-value=0.11  Score=43.42  Aligned_cols=55  Identities=16%  Similarity=0.262  Sum_probs=47.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCce--------EEEEeCCHHHHHHHHHHH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES--------GYIRFEEPEGAQKARAAA  376 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~--------GfV~F~~~e~A~kAv~~l  376 (498)
                      .|.|+.||...|++++.+.++..=++.|..+..|.-+        |||.|.++++...-.+..
T Consensus        11 KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f   73 (97)
T 2l08_A           11 MVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRF   73 (97)
T ss_dssp             CEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHS
T ss_pred             eEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHc
Confidence            5788999999999999999998777888777776554        899999999988887776

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=91.39  E-value=0.43  Score=39.73  Aligned_cols=69  Identities=12%  Similarity=0.120  Sum_probs=47.2

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCC-CcccceEEEEeCCHHHHHHHHHhCCeeCCeEE
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADK-RLFCGTALIEFSTEEDAEKVLKQGLFYAGVEL  184 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~-~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l  184 (498)
                      .-.|.|+.||+.+|++++.+.++.+=.+............ ...-.-|||.|.+.+++..+.+.   |+|...
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~---f~g~~F   78 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDR---FDGYIF   78 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHH---STTEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHH---cCCcEE
Confidence            4579999999999999988888776554333322211111 11224699999999999999986   555543

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=88.12  E-value=0.27  Score=55.66  Aligned_cols=100  Identities=14%  Similarity=0.263  Sum_probs=79.7

Q ss_pred             CCCHHHHHHHHhcchhhccCCCCCcChHHHhh----hCCCCC--CceehHHHhcch-hhHhhhccCCCCCCCCCcccHHH
Q 043731            3 SLDEETAQAVLRQVEFYFSDSNIPTDEFLRGK----ISESSD--AMVSLALICSFK-RMKEHLHLGNVKSEDIPEDTLEA   75 (498)
Q Consensus         3 ~~~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~----~~~~~~--g~V~l~~i~~F~-r~k~l~~~~~~~~~~v~~~~~~~   75 (498)
                      +-+++.-..|+.+|.|.|||.-|.-..=|..+    +.+..+  |.||+++|+.+- |+-++++..+..-|..|.-.+..
T Consensus       102 ~~~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~~~~~~  181 (950)
T 3htx_A          102 LTVDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPFLAISY  181 (950)
T ss_dssp             CCHHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChHHHHHH
Confidence            44567788999999999999988776655544    444333  899999999994 88888887776656666667888


Q ss_pred             HHHHHhhcCcceeecCcceeecccCCcc
Q 043731           76 VAETLRKSSSLKLSEDGMKVGRSAELPT  103 (498)
Q Consensus        76 V~eALk~S~~leVsedg~kVrR~~~~~~  103 (498)
                      |..|.+.++-+.+++.+ .|+|..|.|.
T Consensus       182 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~  208 (950)
T 3htx_A          182 VMKAAAKLADYIVASPH-GLRRKNAYPS  208 (950)
T ss_dssp             HHHHHHHCCSSEEEETT-EEEESSCCCH
T ss_pred             HHHHhhcCCCcEEeCCc-ccccCCCCCH
Confidence            99999999887788877 9999999885

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=83.57  E-value=0.78  Score=40.23  Aligned_cols=72  Identities=18%  Similarity=0.270  Sum_probs=50.3

Q ss_pred             CCCccccHHHHHHHhccCCceEE-EEeec-------------------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEe
Q 043731          327 DNMDVVMREDLKSVFHKFGTVKF-IDFKI-------------------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSV  386 (498)
Q Consensus       327 nL~~~vt~EdLke~F~~fG~V~~-V~~~~-------------------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i  386 (498)
                      +.|...+..-| +.|++||.|.. +...+                   +..--.|+|.++.+|.+|+..    |  |..|
T Consensus        14 GFp~~~~~~VI-~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~----N--G~ii   86 (132)
T 3p3d_A           14 GYPETMANQVI-AYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE----N--GAVF   86 (132)
T ss_dssp             CCCGGGHHHHH-HHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT----T--TCEE
T ss_pred             ecCHHHHHHHH-HHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh----C--CeEe
Confidence            66777666554 68999998744 22111                   111248999999999999765    4  9999


Q ss_pred             cCeEEEEEEcCChhHHHHHH
Q 043731          387 KNFIAVLEPVTGEAEKEYWS  406 (498)
Q Consensus       387 ~g~~~~v~~~~g~~E~e~~~  406 (498)
                      +|.-|-|.+.. ++-.+.+.
T Consensus        87 ~G~mIGV~Py~-~~~ve~l~  105 (132)
T 3p3d_A           87 NGVLLGVIPYT-KDAVERLQ  105 (132)
T ss_dssp             TTEECEEEECC-HHHHHHHC
T ss_pred             CcEEEEEEECC-HHHHHHHh
Confidence            99988888875 55555443

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=81.36  E-value=0.51  Score=49.91  Aligned_cols=53  Identities=9%  Similarity=0.089  Sum_probs=38.7

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCc-eEEEEeCCHHHHHHHHHH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE-SGYIRFEEPEGAQKARAA  375 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~-~GfV~F~~~e~A~kAv~~  375 (498)
                      .|||. .|..++..+|.++|++||.|..+.+-.+.+ .+.|+|.+.+++..++..
T Consensus        55 sv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           55 TVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFGLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             EEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSSEEEEEECC---CCHHHHSS
T ss_pred             eEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCCeEEEEEeCCHHHHHHHHhc
Confidence            46775 788899999999999999999988776655 489999999999877543

---

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	498
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	1e-24
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	2e-19
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	3e-18
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	4e-06
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	9e-06
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-05
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	4e-05
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	1e-04
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	2e-04
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	2e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	3e-04
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-04
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	5e-04
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	6e-04
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	8e-04
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	8e-04
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	0.001
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	0.001
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	0.001
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	0.001
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	0.001
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	0.002
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	0.003
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	0.004

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

 Score = 95.6 bits (238), Expect = 1e-24
 Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 12/101 (11%)

Query: 2   ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
             L  E  Q + +QVEFYFSD N+  D FL+GK++E+++  VSL  + +FKR+       
Sbjct: 4   MPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNS----- 58

Query: 62  NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRSAELP 102
              + D+     + V E +R S  L LSEDG+ V R   LP
Sbjct: 59  --VTTDV-----KEVVEAIRPSEKLVLSEDGLMVRRRDPLP 92

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 80.9 bits (200), Expect = 2e-19
 Identities = 22/97 (22%), Positives = 44/97 (45%), Gaps = 14/97 (14%)

Query: 2  ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLG 61
          A   E+  + + +Q+EF FS  N+  D +L  ++    D  + +  + + + +K+     
Sbjct: 1  AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDS--DQFIPIWTVANMEEIKK----- 53

Query: 62 NVKSEDIPEDTLEAVAETLRKSSSLKLSEDGMKVGRS 98
             + D      + + E LR S  +++ E G KV  S
Sbjct: 54 --LTTDP-----DLILEVLRSSPMVQVDEKGEKVRPS 83

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 77.5 bits (191), Expect = 3e-18
 Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 15/102 (14%)

Query: 10  QAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIP 69
             +  Q+E+YF D N+P D+FL+ +I +  +  V L ++  F R+               
Sbjct: 11  AKICHQIEYYFGDFNLPRDKFLKEQI-KLDEGWVPLEIMIKFNRLNRLT----------- 58

Query: 70  EDTLEAVAETLRKSSS--LKLSEDGMKVGRSAELPTAEEMKE 109
                 + E L KS +  +++SED  K+ RS   P  E   E
Sbjct: 59  -TDFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDE 99

>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 = 43.5 bits (102), Expect = 4e-06
 Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 2/90 (2%)

Query: 102 PTAEEMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALI 161
           P      E+ D RT+    L   ++  D+E FFS   KV  VR+      +R   G A +
Sbjct: 7   PVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRR-SKGIAYV 65

Query: 162 EFSTEEDAEKVLK-QGLFYAGVELHLKPKK 190
           EF   +     +   G    GV + ++  +
Sbjct: 66  EFCEIQSVPLAIGLTGQRLLGVPIIVQASQ 95

>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 = 42.2 bits (99), Expect = 9e-06
 Identities = 14/83 (16%), Positives = 35/83 (42%), Gaps = 2/83 (2%)

Query: 106 EMKEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFST 165
           ++ ++     I    + +   + ++   FS   ++ +VRLP+ +       G   ++F T
Sbjct: 1   QVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFIT 60

Query: 166 EEDAEKVLKQGLFYAGVELHLKP 188
           ++DA+K            L+ + 
Sbjct: 61  KQDAKKAFNA--LCHSTHLYGRR 81

>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 = 41.1 bits (96), Expect = 1e-05
 Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 3/72 (4%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLF 178
           L  DV    +   FS    + S+R+ R +   R   G A + F    DAE+ L       
Sbjct: 8   LHPDVTEAMLYEKFSPAGPILSIRVCRDM-ITRRSLGYAYVNFQQPADAERALDTMNFDV 66

Query: 179 YAGVELHLKPKK 190
             G  + +   +
Sbjct: 67  IKGKPVRIMWSQ 78

>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 = 39.7 bits (92), Expect = 4e-05
 Identities = 16/86 (18%), Positives = 39/86 (45%), Gaps = 3/86 (3%)

Query: 108 KEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEE 167
           K  +  R++       D   +D++ +     +V ++++ R     + F G+  + F + E
Sbjct: 1   KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT--LHKAFKGSIFVVFDSIE 58

Query: 168 DAEKVLKQ-GLFYAGVELHLKPKKEF 192
            A+K ++  G  Y   +L +  K ++
Sbjct: 59  SAKKFVETPGQKYKETDLLILFKDDY 84

>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 = 39.6 bits (92), Expect = 1e-04
 Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 9/94 (9%)

Query: 114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVL 173
           R +    L Y +  E++   F ++  +  +R+      +    GTA + +    DA+   
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR----GTAYVVYEDIFDAKNAC 63

Query: 174 K--QGLFYAGVELHL---KPKKEFEAERAKETEE 202
               G       L +      + F+    K+ EE
Sbjct: 64  DHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEE 97

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

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

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 120 PLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFC-GTALIEFSTEEDAEKVLK--QG 176
             EY+   EDV    S++  V S+ +PR V    +   G   +EF++  D +K ++   G
Sbjct: 21  DEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG 80

Query: 177 LFYAG 181
             +A 
Sbjct: 81  RKFAN 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 = 37.8 bits (87), Expect = 2e-04
 Identities = 10/76 (13%), Positives = 26/76 (34%), Gaps = 5/76 (6%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLF 178
           L+ ++  + +   FS    +          D     G A I F++ + ++  ++   G +
Sbjct: 6   LDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQY 65

Query: 179 YAGVELHLK---PKKE 191
                + +     K  
Sbjct: 66  LCNRPITVSYAFKKDS 81

>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 = 38.2 bits (88), Expect = 3e-04
 Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 2/86 (2%)

Query: 332 VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA 391
             REDL  +F   G +K+IDF  GA+ G I F+E    ++A   A  A  G L ++N   
Sbjct: 23  TCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKA--KEALGKAKDANNGNLQLRNKEV 80

Query: 392 VLEPVTGEAEKEYWSLLRGNQERHRD 417
             E + GE EKE    +  +Q+   +
Sbjct: 81  TWEVLEGEVEKEALKKIIEDQQESLN 106

>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 = 36.9 bits (85), Expect = 4e-04
 Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 1/55 (1%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L +   +E +  +F Q  +V    + R    KR   G   + F  +   +KVL Q
Sbjct: 8   LSWQTTQEGLREYFGQFGEVKECLVMRDPLTKR-SRGFGFVTFMDQAGVDKVLAQ 61

>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 = 36.9 bits (85), Expect = 5e-04
 Identities = 8/67 (11%), Positives = 24/67 (35%), Gaps = 1/67 (1%)

Query: 109 EQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEED 168
           E +    +  T L   +  + ++  F ++  +                G A + ++  E+
Sbjct: 2   ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN-ILRDKLTGRPRGVAFVRYNKREE 60

Query: 169 AEKVLKQ 175
           A++ +  
Sbjct: 61  AQEAISA 67

>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 = 36.9 bits (85), Expect = 6e-04
 Identities = 13/76 (17%), Positives = 32/76 (42%), Gaps = 8/76 (10%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLF 178
           L+  +  + +   FS    + S ++       + +     + F T+E AE+ ++   G+ 
Sbjct: 16  LDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGF---VHFETQEAAERAIEKMNGML 72

Query: 179 YAGVELHL---KPKKE 191
               ++ +   K +KE
Sbjct: 73  LNDRKVFVGRFKSRKE 88

>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 = 36.1 bits (83), Expect = 8e-04
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--QGLF 178
           L  D+   ++ A F     +N+ R+ R         G A ++F++E D+++ +K   G+ 
Sbjct: 10  LPQDMTDRELYALFRAIGPINTCRIMRDY-KTGYSYGYAFVDFTSEMDSQRAIKVLNGIT 68

Query: 179 YAGVELHLKPKK 190
                L +   +
Sbjct: 69  VRNKRLKVSYAR 80

>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 = 36.6 bits (84), Expect = 8e-04
 Identities = 13/87 (14%), Positives = 35/87 (40%), Gaps = 8/87 (9%)

Query: 121 LEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---- 175
           +    KRE++    ++  +    V +    ADK    G A +E+ +   A    ++    
Sbjct: 9   IPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPG 68

Query: 176 GLFYAGVELHL---KPKKEFEAERAKE 199
            +   G ++ +   +P+ + + +  + 
Sbjct: 69  RIQLWGHQIAVDWAEPEIDVDEDVMET 95

>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 = 36.2 bits (83), Expect = 0.001
 Identities = 15/71 (21%), Positives = 33/71 (46%), Gaps = 6/71 (8%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
              D+  +++  FFSQ+  V  V +P+       F   A + F+ ++ A+ +  + L   
Sbjct: 13  CTGDMTEDELREFFSQYGDVMDVFIPKP------FRAFAFVTFADDQIAQSLCGEDLIIK 66

Query: 181 GVELHLKPKKE 191
           G+ +H+   + 
Sbjct: 67  GISVHISNAEP 77

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (83), Expect = 0.001
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLP--RHVADKRLFCGTALIEFSTEEDAEKVLK--QG 176
           L +    E ++  FS+   + S  +   ++ A   L  G   +E+   E A+K LK  QG
Sbjct: 6   LNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQG 65

Query: 177 LFYAGVELHLKPKK 190
               G +L ++  +
Sbjct: 66  HTVDGHKLEVRISE 79

>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 = 36.1 bits (83), Expect = 0.001
 Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 4/74 (5%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYA 180
           L +    +D++ +FS   +V  V+  +         G   + F+  E   KV+ Q     
Sbjct: 16  LPWKTTEQDLKEYFSTFGEVLMVQ-VKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMID 74

Query: 181 GVELHLK---PKKE 191
           G     K    K+ 
Sbjct: 75  GRWCDCKLPNSKQS 88

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 2/55 (3%)

Query: 121 LEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ 175
           L++ V   D++  F++   +    +           GTA + F  + DA K +KQ
Sbjct: 8   LDFGVSDADIQELFAEFGTLKKAAVHYD--RSGRSLGTADVHFERKADALKAMKQ 60

>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 = 36.2 bits (83), Expect = 0.001
 Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 8/91 (8%)

Query: 108 KEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEE 167
           K+    RT+ A  L +++  ++++  F   ++       R V+      G A IEF +E 
Sbjct: 11  KKVRAARTLLAKNLSFNITEDELKEVFEDALE------IRLVSQDGKSKGIAYIEFKSEA 64

Query: 168 DAEKVLK--QGLFYAGVELHLKPKKEFEAER 196
           DAEK L+  QG    G  + L    E    R
Sbjct: 65  DAEKNLEEKQGAEIDGRSVSLYYTGEKGGTR 95

>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 = 35.6 bits (82), Expect = 0.002
 Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 330 DVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAA 375
            VV + D++++F K+G +       G    ++++     A+ A A 
Sbjct: 26  LVVKKSDVEAIFSKYGKIVGCSVHKG--FAFVQYVNERNARAAVAG 69

>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 = 35.0 bits (80), Expect = 0.003
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 108 KEQLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEE 167
           +   D  TI  T L  D +  D++  F     ++ + L +         G A I F   E
Sbjct: 3   RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKD-KTTGQSKGFAFISFHRRE 61

Query: 168 DAEKVLK--QGLFYAGVELHLKPKK 190
           DA + +    G  Y  + L+++  K
Sbjct: 62  DAARAIAGVSGFGYDHLILNVEWAK 86

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.2 bits (78), Expect = 0.004
 Identities = 10/44 (22%), Positives = 20/44 (45%)

Query: 332 VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAA 375
           +  E+++ +F K+G    +        G+IR E    A+ A+  
Sbjct: 20  ITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVE 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	498
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.96
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.92
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.92
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.91
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.74
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.7
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.67
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.66
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.66
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.65
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.65
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.65
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.64
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.64
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.63
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.63
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.63
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.63
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.63
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.62
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.62
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.62
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.62
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.62
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.61
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.61
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.6
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.6
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.59
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.59
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.58
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.58
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.58
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.57
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.57
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.57
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.57
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.57
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.56
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.56
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.56
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.55
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.55
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.54
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.53
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.52
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.52
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.52
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.51
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.49
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.49
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.49
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.48
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.48
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.48
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.47
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.47
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.46
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.45
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.45
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.45
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.45
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.45
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.44
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.44
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.43
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.43
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.42
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.41
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.41
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.41
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.41
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.41
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.4
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.39
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.39
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.39
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.39
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.38
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.38
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.37
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.37
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.37
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.37
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.37
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.37
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.37
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.37
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.37
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.36
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.36
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.36
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.36
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.36
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.36
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.36
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.36
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.36
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.35
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.35
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.35
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.35
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.35
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.35
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.34
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.33
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.33
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.32
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.32
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.32
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.32
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.32
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.31
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.31
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.31
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.31
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.31
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.31
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.31
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.3
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.3
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.3
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.3
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.29
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.29
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.29
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.29
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.29
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.29
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.29
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.28
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.28
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.28
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.28
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.27
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.27
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.27
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.27
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.26
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.26
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.26
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.26
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.26
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.24
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.23
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.22
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.21
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.21
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.21
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.2
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.2
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	99.19
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.18
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.17
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.16
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.12
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.1
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.1
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.09
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.09
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.08
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.08
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.05
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.04
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.01
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.0
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.98
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.9
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.87
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.85
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	98.84
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.78
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.59
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.19
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.07
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	95.35
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	94.82
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	94.09
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	88.95
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	87.64
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	80.55

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.96  E-value=7.2e-30  Score=211.39  Aligned_cols=89  Identities=43%  Similarity=0.690  Sum_probs=85.2

Q ss_pred             CCCCHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHh
Q 043731            2 ASLDEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLR   81 (498)
Q Consensus         2 ~~~~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk   81 (498)
                      +|++++..++|++||||||||+||++|+||+++|.++++|||||++|++|+|||+|+.            +++.|++||+
T Consensus         4 ~p~~~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~------------d~~~i~~Al~   71 (92)
T d1s29a_           4 MPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTT------------DVKEVVEAIR   71 (92)
T ss_dssp             SCCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCS------------CHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcC------------CHHHHHHHHh
Confidence            4899999999999999999999999999999999988999999999999999999974            7899999999


Q ss_pred             hcCcceeecCcceeecccCCc
Q 043731           82 KSSSLKLSEDGMKVGRSAELP  102 (498)
Q Consensus        82 ~S~~leVsedg~kVrR~~~~~  102 (498)
                      .|+.|+|++||++|||+.|+|
T Consensus        72 ~S~~lev~ed~~~VRRk~plP   92 (92)
T d1s29a_          72 PSEKLVLSEDGLMVRRRDPLP   92 (92)
T ss_dssp             TCSSEEECTTSSEEEESSCCC
T ss_pred             hCCeEEEeCCCCEEeeCCCCC
Confidence            999999999999999999886

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.8e-26  Score=193.63  Aligned_cols=87  Identities=31%  Similarity=0.573  Sum_probs=78.4

Q ss_pred             HHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcC-
Q 043731            6 EETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSS-   84 (498)
Q Consensus         6 ~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~-   84 (498)
                      ..+.++|++||||||||+||++|+||+++|..+ +|||||++|++|+|||+|+.            +++.|++||+.|+ 
T Consensus         7 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~-eG~Vpl~~i~~F~r~k~l~~------------~~~~i~~Al~~S~~   73 (99)
T d1zh5a1           7 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTT------------DFNVIVEALSKSKA   73 (99)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTT-TTCEEHHHHTTSHHHHHHCC------------CHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcC-CCcccHHHHhcchHHHHHcC------------CHHHHHHHHHhCCC
Confidence            457889999999999999999999999999864 89999999999999999984            6899999999987 


Q ss_pred             -cceeecCcceeecccCCcchh
Q 043731           85 -SLKLSEDGMKVGRSAELPTAE  105 (498)
Q Consensus        85 -~leVsedg~kVrR~~~~~~~e  105 (498)
                       .|+|++||++|||+.+.|.|+
T Consensus        74 ~~lev~~d~~~vRR~~~~plpe   95 (99)
T d1zh5a1          74 ELMEISEDKTKIRRSPSKPLPE   95 (99)
T ss_dssp             CCEEECTTSSEEEECTTSCCCC
T ss_pred             CeEEEcCCCceeCCCCCCCCCC
Confidence             599999999999986666554

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=2e-26  Score=189.14  Aligned_cols=82  Identities=26%  Similarity=0.451  Sum_probs=77.2

Q ss_pred             CHHHHHHHHhcchhhccCCCCCcChHHHhhhCCCCCCceehHHHhcchhhHhhhccCCCCCCCCCcccHHHHHHHHhhcC
Q 043731            5 DEETAQAVLRQVEFYFSDSNIPTDEFLRGKISESSDAMVSLALICSFKRMKEHLHLGNVKSEDIPEDTLEAVAETLRKSS   84 (498)
Q Consensus         5 ~~~~~~~i~~QvEfYFsd~NL~~D~fL~~~~~~~~~g~V~l~~i~~F~r~k~l~~~~~~~~~~v~~~~~~~V~eALk~S~   84 (498)
                      ++++.++|++||||||||+||++|+||+++|.  ++|||||++|++|+|||+++.            +++.|++||+.|+
T Consensus         4 ~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m~--~~G~V~l~~i~~F~r~k~lt~------------d~~~i~~Al~~S~   69 (88)
T d2cqka1           4 TEDLKECLKKQLEFCFSRENLSKDLYLISQMD--SDQFIPIWTVANMEEIKKLTT------------DPDLILEVLRSSP   69 (88)
T ss_dssp             HHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSC--TTSCEEHHHHHHCHHHHHHCC------------CHHHHHHHHHHSS
T ss_pred             hHHHHHHHHHHHHhhCCHhhhCcCHHHHHhhc--CCCCEEhHHHhcChHHHHHcC------------CHHHHHHHHhcCC
Confidence            46889999999999999999999999999997  799999999999999999984            7899999999999


Q ss_pred             cceeecCcceeecccC
Q 043731           85 SLKLSEDGMKVGRSAE  100 (498)
Q Consensus        85 ~leVsedg~kVrR~~~  100 (498)
                      .|+|++||.+|||+..
T Consensus        70 ~lev~~d~~~VRr~~~   85 (88)
T d2cqka1          70 MVQVDEKGEKVRPSHK   85 (88)
T ss_dssp             SEEECSSSSEEEECCS
T ss_pred             eEEEeCCCCEeccCCC
Confidence            9999999999999864

>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=99.91  E-value=6.3e-24  Score=195.48  Aligned_cols=168  Identities=12%  Similarity=0.181  Sum_probs=134.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecch
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKKE  191 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~d  191 (498)
                      .|+|||+|||+++|+++|+++|++||.|.++.++++.. ++.++|+|||+|.++++|.+|+.. +..++++.+.+.+...
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~-~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~~   84 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN-TKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVS   84 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeeccc-CCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhhh
Confidence            48999999999999999999999999999999998875 678999999999999999999996 5667776665433210


Q ss_pred             hHHHHHHhHHHHhhcCccccCCccCCCCCccCCCCCcEEEEEeccccccCcccccCCCCCCCCCcCCCCCCCCCCCCchh
Q 043731          192 FEAERAKETEEFEKSRPAVGSNRKNNSNAEADYPKGLIVAFTLKNKSAEGSEEKNGSLKPANDSENACKPDGEPDSSDNA  271 (498)
Q Consensus       192 ~~~~k~~~~~~~~~~~~~~~k~~~~~~~~~~~~~kg~iv~~~~k~~~~~~~~~~~g~~k~~~~~~~~~~~~~~~~~~~~~  271 (498)
                      ..                                            ..     ...                        
T Consensus        85 ~~--------------------------------------------~~-----~~~------------------------   91 (183)
T d1u1qa_          85 RE--------------------------------------------DS-----QRP------------------------   91 (183)
T ss_dssp             TT--------------------------------------------GG-----GST------------------------
T ss_pred             cc--------------------------------------------cc-----ccc------------------------
Confidence            00                                            00     000                        


Q ss_pred             hhHHhhhhhcccCCCCCCccccccccccccCCCCCCCcccccccccCcceeeeccCCCccccHHHHHHHhccCCceEEEE
Q 043731          272 AAVESEQKASENDSNGEGKVEEKNELDSEDGDKSSDGSIEKGEEKEGKTSIDTYKDNMDVVMREDLKSVFHKFGTVKFID  351 (498)
Q Consensus       272 ~~~e~~~k~~e~~~~~ee~~~~~~~~~~E~~~~~~~g~~~~~~~~~~~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~  351 (498)
                                                                 .......+|||+|||..+|+++|+++|+.||.|..+.
T Consensus        92 -------------------------------------------~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~  128 (183)
T d1u1qa_          92 -------------------------------------------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIE  128 (183)
T ss_dssp             -------------------------------------------TTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEE
T ss_pred             -------------------------------------------ccccccceeEEccCCCcCCHHHHhhhhccCCceeeee
Confidence                                                       0001123689999999999999999999999999998


Q ss_pred             eecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCChhHHH
Q 043731          352 FKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGEAEKE  403 (498)
Q Consensus       352 ~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~~E~e  403 (498)
                      +.++.      +.|||.|.++++|.+|++.    +  +..|+|+.+.|..+..++|+.
T Consensus       129 i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~----~--~~~~~G~~i~V~~A~~k~e~~  180 (183)
T d1u1qa_         129 IMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ----K--YHTVNGHNCEVRKALSKQEMA  180 (183)
T ss_dssp             EEECTTTCCEEEEEEEEESCHHHHHHHHTS----S--CEEETTEEEEEEECCCHHHHH
T ss_pred             eecccccCccceeEEEEECCHHHHHHHHHh----C--CCeECCEEEEEEecCCccccc
Confidence            87643      2589999999999999763    3  778999999999999887764

>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=99.74  E-value=2e-18  Score=140.51  Aligned_cols=81  Identities=19%  Similarity=0.404  Sum_probs=75.4

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ++..|||||+|||.++|+++|+++|++||+|..|+|+++.  ++.++|||||+|.++++|++||+. +..|+|++|.|++
T Consensus         3 ~~~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~--~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~   80 (85)
T d1zh5a2           3 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL--HKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILF   80 (85)
T ss_dssp             HHHTTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECT--TCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEE
T ss_pred             CCCcCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeec--cCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEE
Confidence            4678999999999999999999999999999999998875  477999999999999999999986 8899999999999


Q ss_pred             cchh
Q 043731          189 KKEF  192 (498)
Q Consensus       189 k~d~  192 (498)
                      +.+|
T Consensus        81 ~~dy   84 (85)
T d1zh5a2          81 KDDY   84 (85)
T ss_dssp             GGGC
T ss_pred             cCCC
Confidence            9876

>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=99.70  E-value=1.9e-17  Score=141.88  Aligned_cols=94  Identities=32%  Similarity=0.419  Sum_probs=85.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCH-HHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEP-EGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~-e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      +.++||+|||+.+|+++|+++|++||+|.+|++++++++|||+|.++ ++|..|+.++   |++.+.+.+..+.+.++.|
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~---~~~~l~~~~~~v~~~~~~~   87 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDA---NNGNLQLRNKEVTWEVLEG   87 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHT---TTSCBCTTSSSEEEEECCH
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCCceEEEEecCcHHHHHHHHHHh---cCCceecCceEEEEeeccc
Confidence            67889999999999999999999999999999999999999999997 6788888776   6778889999999999999


Q ss_pred             hhHHHHHHHHhhhhhccc
Q 043731          399 EAEKEYWSLLRGNQERHR  416 (498)
Q Consensus       399 ~~E~e~~~~~~~~~~k~~  416 (498)
                      ++|++||+++...++...
T Consensus        88 ~~e~~~~~k~~~~~q~~~  105 (113)
T d1owxa_          88 EVEKEALKKIIEDQQESL  105 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHH
Confidence            999999998887766544

>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=99.67  E-value=8.1e-17  Score=130.59  Aligned_cols=77  Identities=14%  Similarity=0.233  Sum_probs=71.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      +.|+|||+|||+++|+++|+++|++||+|..|+|+++.. ++.++|||||+|.++++|++|++. +..++|+.|.|..+
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~-tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A   82 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN-TKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRA   82 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEEC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeeccccc-CCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEee
Confidence            458999999999999999999999999999999999875 688999999999999999999985 78899999998654

>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=99.66  E-value=8.5e-17  Score=132.32  Aligned_cols=78  Identities=18%  Similarity=0.246  Sum_probs=72.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|++++. ++.++|||||+|.++++|++||+....++|+.|.|.+..
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~-tg~srG~aFV~f~~~~~a~~al~~~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLK-TGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCDCKLPN   84 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSS-SCSEEEEEEEEESSHHHHHHHHHSCEEETTEEEEEECCC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCC-CcccCCEEEEEECCHHHHHHHHhcCCccCCEEeEEEeCC
Confidence            457899999999999999999999999999999999876 688999999999999999999998778999999998764

>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=99.66  E-value=1.4e-16  Score=128.00  Aligned_cols=77  Identities=19%  Similarity=0.335  Sum_probs=71.6

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++|+++|+++|++||.|.+|+|++++. ++.++|||||+|.++++|++|++.  +..++|++|+|.+++
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~-~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYK-TGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETT-TTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecc-cCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            46899999999999999999999999999999999875 678999999999999999999984  889999999998864

>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=99.65  E-value=8.9e-17  Score=134.99  Aligned_cols=79  Identities=27%  Similarity=0.353  Sum_probs=72.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      .+.+||||+|||+++|+++|+++|++||.|.+|+|+++.. +++++|||||+|.++++|.+|++. +..++|+.|.|.++
T Consensus        16 ~~~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~-tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a   94 (101)
T d2cq4a1          16 RDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRN-SRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQAS   94 (101)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCC-SSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEH
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCC-CccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
Confidence            4568999999999999999999999999999999999875 678999999999999999999985 88899999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        95 ~   95 (101)
T d2cq4a1          95 Q   95 (101)
T ss_dssp             H
T ss_pred             C
Confidence            3

>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=99.65  E-value=1.1e-16  Score=130.96  Aligned_cols=78  Identities=19%  Similarity=0.264  Sum_probs=72.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..+||||+|||+++|+++|+++|++||+|.+|+|++++. ++.++|||||+|.++++|++|+..  +..++|++|.|.++
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~-~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYE-TEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSS-SCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccc-cccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            468999999999999999999999999999999999875 678999999999999999999985  78899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (89)
T d2cqba1          83 K   83 (89)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.65  E-value=1.4e-16  Score=127.72  Aligned_cols=75  Identities=23%  Similarity=0.227  Sum_probs=70.3

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      +|||+|||+++|+++|+++|++||+|.+|+|++++. +++++|||||+|.++++|.+|++.  +..++|++|+|.+++
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 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMI-TRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEeccc-ccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            699999999999999999999999999999999876 678999999999999999999984  889999999998863

>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=99.64  E-value=1.3e-16  Score=134.42  Aligned_cols=78  Identities=15%  Similarity=0.243  Sum_probs=71.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      +.++|||+|||+++|+++|+++|++||.|..++|++++. ++.++|||||+|.+.++|.+|++. +..++|+.|.|.+..
T Consensus        19 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~-~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          19 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPA-SKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTT-TSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhhCcccceeeccccc-CCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEECc
Confidence            358999999999999999999999999999999999876 677999999999999999999986 788999999997653

>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=99.64  E-value=2.4e-16  Score=124.99  Aligned_cols=73  Identities=21%  Similarity=0.280  Sum_probs=67.6

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      .|||+|||+++|+++|+++|++||+|..++|++++. +++++|||||+|.++++|++|++. +..++|+.|.|..
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 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPI-TGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTT-TTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCC-CCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeE
Confidence            489999999999999999999999999999999876 678999999999999999999996 7789999998753

>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=99.63  E-value=1.7e-16  Score=129.05  Aligned_cols=80  Identities=15%  Similarity=0.250  Sum_probs=69.1

Q ss_pred             cccceEEeccCCCCCc-HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVK-REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t-~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      ++.|+|||+|||+++| +++|+++|++||.|.+|+|+++...+++++|||||+|.+.++|.+|++. +..++|+.|.|.+
T Consensus         2 ~e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~~   81 (86)
T d2ghpa3           2 LEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSL   81 (86)
T ss_dssp             CTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEE
Confidence            4689999999999986 5669999999999999999876544678999999999999999999984 8889999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        82 a~   83 (86)
T d2ghpa3          82 AD   83 (86)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>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=99.63  E-value=2.6e-16  Score=129.87  Aligned_cols=78  Identities=17%  Similarity=0.278  Sum_probs=72.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      .++||||+|||+++|+++|+++|++||+|.+|+|++++. ++.++|||||+|.+.++|..|++.  +..++|++|.|.++
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~-~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccc-cccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            468999999999999999999999999999999999876 678999999999999999999984  88999999999986


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        85 ~   85 (93)
T d1h2vz_          85 A   85 (93)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.63  E-value=3.4e-16  Score=125.57  Aligned_cols=77  Identities=17%  Similarity=0.292  Sum_probs=70.8

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++++++|+++|++||.|..|+|+++.. ++.++|||||+|.++++|++|++.  +..++|++|.|.+++
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~-~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKI-TGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeecc-CCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            35799999999999999999999999999999998865 577999999999999999999984  899999999998864

>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=99.63  E-value=3.5e-16  Score=127.76  Aligned_cols=80  Identities=14%  Similarity=0.201  Sum_probs=72.9

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..+.++|||+|||.++|+++|+++|++||.|.+|+|++++. +++++|||||+|.+.++|++|+..  +..++|+.|.|.
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~V~   82 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRR-TGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD   82 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccccccccccc-ccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            45678999999999999999999999999999999998875 678999999999999999999984  789999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus        83 ~a~   85 (88)
T d1rk8a_          83 WCF   85 (88)
T ss_dssp             ESE
T ss_pred             Eec
Confidence            864

>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=99.63  E-value=3.7e-16  Score=129.23  Aligned_cols=80  Identities=20%  Similarity=0.389  Sum_probs=72.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh---CCeeCCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ---GLFYAGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~---~~~~~G~~l~v~  187 (498)
                      ...++|||+|||+++++++|+++|++||.|.+|+|+++...++.++|||||+|.++++|.+|++.   +..++|++|.|.
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            35688999999999999999999999999999999988655788999999999999999999983   678999999999


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus        86 ~A~   88 (94)
T d2cpha1          86 WAD   88 (94)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            874

>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=99.62  E-value=4e-16  Score=128.76  Aligned_cols=78  Identities=21%  Similarity=0.243  Sum_probs=72.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..+||||+|||.++|+++|+++|++||.|.+|+|+++.. ++.++|||||+|.+.++|++|++.  +..++|++|.|.++
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~-tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A   86 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRV-TGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   86 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSS-SCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeeccc-ccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            458999999999999999999999999999999999876 678999999999999999999984  78899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        87 ~   87 (93)
T d1x5ua1          87 S   87 (93)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.62  E-value=1.3e-16  Score=127.31  Aligned_cols=75  Identities=17%  Similarity=0.224  Sum_probs=69.2

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      .+|||+|||+++|+++|+++|++||+|..++|++++. +++++|||||+|.++++|++|++. +..++|+.|.|..+
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 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPL-TKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCC-SSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccC-CCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            3699999999999999999999999999999999876 678999999999999999999986 78899999998653

>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=99.62  E-value=5.2e-16  Score=130.45  Aligned_cols=79  Identities=11%  Similarity=0.161  Sum_probs=72.2

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|.+|+|+++.. +++++|||||+|.+.++|++|++. ...++|+.|.|.++
T Consensus         8 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~-tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a   86 (103)
T d2cqda1           8 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQ-TGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLA   86 (103)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSS-SCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEES
T ss_pred             CCCcEEEEeCCCCcCcHHHHHHHHhhcccccceecccccc-ccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEc
Confidence            4567899999999999999999999999999999999876 678999999999999999999996 56899999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        87 ~   87 (103)
T d2cqda1          87 Y   87 (103)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.62  E-value=4.9e-16  Score=125.22  Aligned_cols=73  Identities=18%  Similarity=0.248  Sum_probs=68.0

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+++.. +++++|||||+|.+.++|.+|+..  +..++|++|+|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQ-SRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSS-SSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCcccccccccc-ccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            57999999999999999999999999999999998875 678999999999999999999984  88899999986

>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=99.62  E-value=5.5e-16  Score=123.55  Aligned_cols=75  Identities=16%  Similarity=0.262  Sum_probs=69.6

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      .|+|||+|||+++|+++|+++|++||.|..+.++.+.. ++.++|+|||+|.++++|.+|++. +..++|++|.|..
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 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG-SGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRK   77 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCC-CcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEE
Confidence            48999999999999999999999999999999998875 677999999999999999999986 7899999999865

>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=99.62  E-value=3.9e-16  Score=126.48  Aligned_cols=79  Identities=13%  Similarity=0.255  Sum_probs=70.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEE
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELH  185 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~  185 (498)
                      +...++|||+|||+++++++|+++|++||+|..|+|++++. ++.++|||||+|.++++|.+|++.  +..+.|  ++|.
T Consensus         3 ~~~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~   81 (85)
T d1b7fa2           3 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKL-TGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS   81 (85)
T ss_dssp             TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccc-cccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEE
Confidence            45678899999999999999999999999999999999875 678999999999999999999984  667766  8898


Q ss_pred             Eeec
Q 043731          186 LKPK  189 (498)
Q Consensus       186 v~~k  189 (498)
                      |.++
T Consensus        82 V~~A   85 (85)
T d1b7fa2          82 VRLA   85 (85)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            8763

>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=99.61  E-value=2.2e-16  Score=125.47  Aligned_cols=73  Identities=22%  Similarity=0.271  Sum_probs=67.4

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      .|||+|||+++|+++|+++|++||.|..|+|++++. +++++|||||+|.+.++|++||+. +..++|+.|.|+.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~-t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~   74 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNK-TNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTT-TCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEEC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCccccccccccc-ccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEE
Confidence            489999999999999999999999999999999875 678999999999999999999986 6789999988753

>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=99.61  E-value=3.5e-16  Score=131.42  Aligned_cols=79  Identities=20%  Similarity=0.305  Sum_probs=72.8

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .+.|||||+|||+++|+++|+++|++||+|.+|+|+++.. +++++|||||+|.+.++|.+|++.  +..++|+.|.|.+
T Consensus         6 ~~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~-tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~   84 (104)
T d1p1ta_           6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRE-TGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDN   84 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETT-TTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHhhhccccccccccccccc-eeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3568999999999999999999999999999999998875 678999999999999999999985  7889999999998


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        85 a~   86 (104)
T d1p1ta_          85 AA   86 (104)
T ss_dssp             TT
T ss_pred             CC
Confidence            64

>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=99.60  E-value=6.5e-16  Score=126.54  Aligned_cols=79  Identities=25%  Similarity=0.343  Sum_probs=72.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .+..+|||+|||.++|+++|+++|++||.|..|+|+++.. ++.++|||||+|.+.++|.+|++.  +..++|+.|.|.+
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~-t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~   84 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKT-TGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   84 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSS-SCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccccccccccc-ccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            3567999999999999999999999999999999998875 678999999999999999999985  7899999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        85 ak   86 (90)
T d2cq0a1          85 AK   86 (90)
T ss_dssp             SS
T ss_pred             ee
Confidence            74

>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=99.60  E-value=1.2e-15  Score=126.94  Aligned_cols=78  Identities=24%  Similarity=0.359  Sum_probs=72.0

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|+|+++.. +++++|||||+|.+.++|++|++.  +..++|+.|+|.++
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~-tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSL-TKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTT-TCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeeccccc-ccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            457899999999999999999999999999999999875 678999999999999999999984  78899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        86 ~   86 (99)
T d1whwa_          86 T   86 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.59  E-value=9.5e-16  Score=124.30  Aligned_cols=77  Identities=19%  Similarity=0.284  Sum_probs=69.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v  186 (498)
                      +..++|||+|||+++|+++|+++|++||+|..|+|++++. ++.++|||||+|.++++|.+|++.  +..++|  ++|.|
T Consensus         4 ~k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~-~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V   82 (85)
T d1fxla2           4 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQV-TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV   82 (85)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-TCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccc-cccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEE
Confidence            4568899999999999999999999999999999998875 578999999999999999999984  788887  45777


Q ss_pred             ee
Q 043731          187 KP  188 (498)
Q Consensus       187 ~~  188 (498)
                      .+
T Consensus        83 ~~   84 (85)
T d1fxla2          83 KF   84 (85)
T ss_dssp             EE
T ss_pred             Ee
Confidence            65

>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=99.59  E-value=8.2e-16  Score=125.66  Aligned_cols=78  Identities=17%  Similarity=0.295  Sum_probs=71.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      +.++|||+|||+++|+++|+++|++||.|..+.++++.. ++.++|||||+|.++++|++|+..  +..++|+.|.|.+.
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~-~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a   82 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRE-TQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   82 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSS-SCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccc-cccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            568899999999999999999999999999999888765 677999999999999999999974  88899999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        83 ~   83 (90)
T d1x5sa1          83 G   83 (90)
T ss_dssp             E
T ss_pred             C
Confidence            3

>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=99.58  E-value=9.9e-16  Score=125.43  Aligned_cols=78  Identities=22%  Similarity=0.182  Sum_probs=70.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..+.|||||+|||.++|+++|+++|++||+|..|+|+++.. +  .+|||||+|.+.++|.+|+..  +..++|+.|+|.
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 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT-S--NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVN   81 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCC-S--SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccC-c--cceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34578999999999999999999999999999999998864 2  379999999999999999984  788999999999


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus        82 ~a~   84 (90)
T d2cqia1          82 WAT   84 (90)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            875

>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=99.58  E-value=9.8e-16  Score=124.30  Aligned_cols=76  Identities=13%  Similarity=0.203  Sum_probs=70.8

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ..|||+|||+++|+++|+++|++||+|..|+|++++. ++.++|||||+|.++++|..|+..  +..++|++|.|.++.
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~   79 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSA-TGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCS-SSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeecccc-ccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            4699999999999999999999999999999999875 678999999999999999999995  888999999998864

>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=99.58  E-value=1.8e-15  Score=120.70  Aligned_cols=73  Identities=21%  Similarity=0.347  Sum_probs=67.7

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      .|||+|||+++++++|+++|++||+|.+|+|+++.  +++++|||||+|.++++|.+|++.  +..++|++|.|.+.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~--~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a   76 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR--SGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLV   76 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSS--CCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEee--ccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            49999999999999999999999999999999885  467899999999999999999984  88999999998764

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.57  E-value=1.7e-15  Score=119.21  Aligned_cols=73  Identities=23%  Similarity=0.206  Sum_probs=67.7

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      .|||+|||+++|+++|+++|++||.|..+.++++.. ++.++|+|||+|.++++|++|++. +..++|++|.|..
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~-~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~   74 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKT-TNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTT-CTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecc-ccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEE
Confidence            489999999999999999999999999999988875 677999999999999999999985 7899999999875

>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=99.57  E-value=2.3e-15  Score=120.59  Aligned_cols=76  Identities=17%  Similarity=0.121  Sum_probs=64.1

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .||||+|||+++|+++|+++|++||.|..+.+.++.. ++.++|||||+|.++++|++|++.  +..++|++|.|.++.
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~-~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLR-FNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC--------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccc-cccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            6999999999999999999999999998887766554 567899999999999999999984  899999999998764

>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=99.57  E-value=2.4e-15  Score=121.49  Aligned_cols=74  Identities=23%  Similarity=0.380  Sum_probs=67.1

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCC--CcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADK--RLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~--~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      |||+|||+++|+++|+++|++||+|.+|+|+++....  +.++|||||+|.++++|.+|++.  +..++|++|.|.++
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a   78 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS   78 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            7999999999999999999999999999999876522  25789999999999999999984  78999999999886

>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=99.57  E-value=2.3e-15  Score=126.24  Aligned_cols=78  Identities=13%  Similarity=0.149  Sum_probs=71.8

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|.++.++++.. ++.++|||||+|.++++|+.|+..  +..++|++|.|.+.
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~-~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a   95 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ-TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK   95 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSS-SCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecc-cCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            457899999999999999999999999999999998875 678999999999999999999984  88999999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        96 ~   96 (102)
T d2cpza1          96 R   96 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.57  E-value=2.5e-15  Score=120.89  Aligned_cols=74  Identities=14%  Similarity=0.171  Sum_probs=67.2

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      |||+|||+++|+++|+++|++||.|.. ++++++.. +++++|||||+|.++++|.+|++.  +..++|++|.|.++.
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 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPD-TGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTT-TCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeecc-ccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEec
Confidence            799999999999999999999999976 47888765 678999999999999999999984  889999999998864

>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=99.56  E-value=4.4e-15  Score=126.44  Aligned_cols=75  Identities=17%  Similarity=0.193  Sum_probs=68.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..|||||+|||+++|+++|+++|++||.|.+|+++++    +.++|||||+|.+.++|..|++.  +..+.|+.|.|.+.
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 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT----PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYY   81 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS----TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc----CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3689999999999999999999999999999999865    34689999999999999999984  88999999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        82 ~   82 (114)
T d2f9da1          82 N   82 (114)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.56  E-value=4.2e-15  Score=122.84  Aligned_cols=79  Identities=25%  Similarity=0.329  Sum_probs=71.1

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--------CCeeCCe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--------GLFYAGV  182 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--------~~~~~G~  182 (498)
                      .+.+||||+|||+++|+++|+++|++||+|..++++++.. ++.++|||||+|.+.++|.+|++.        +..++|+
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~-~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr   84 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPD-TEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   84 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSS-SCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccc-cccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCE
Confidence            3578999999999999999999999999999999988875 677899999999999999999983        4568999


Q ss_pred             EEEEeecc
Q 043731          183 ELHLKPKK  190 (498)
Q Consensus       183 ~l~v~~k~  190 (498)
                      .|.|.+..
T Consensus        85 ~l~v~~a~   92 (98)
T d1x4ha1          85 QLKVDLAV   92 (98)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEECC
Confidence            99998764

>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=99.56  E-value=2e-15  Score=133.21  Aligned_cols=78  Identities=14%  Similarity=0.235  Sum_probs=72.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|.+|+|++++. +++++|||||+|.+.++|.+|++.  +..++|+.|.|.++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~-t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRE-TRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETT-TTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccc-cccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            457899999999999999999999999999999999875 678999999999999999999984  78999999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus       120 ~  120 (139)
T d1u6fa1         120 A  120 (139)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.55  E-value=6.4e-15  Score=121.30  Aligned_cols=78  Identities=14%  Similarity=0.283  Sum_probs=70.6

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ....++|||+|||+++|+++|+++|++||+|..|+++++..   .++|||||+|.++++|.+|+..  +..++|+.|.|.
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~---~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~   84 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN   84 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT---TTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhhcceeeecccccccc---CCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34568999999999999999999999999999999988753   3689999999999999999984  899999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      ++.
T Consensus        85 ~A~   87 (93)
T d2cq3a1          85 NAT   87 (93)
T ss_dssp             ECC
T ss_pred             ecC
Confidence            874

>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=99.55  E-value=4.1e-15  Score=117.81  Aligned_cols=72  Identities=15%  Similarity=0.145  Sum_probs=65.3

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEee
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKP  188 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~  188 (498)
                      .||||+|||+++++++|+++|++||.|..|+|+++..   ..+|+|||+|.++++|.+|+.. +..++|++|.|..
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~---~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~   73 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK---KNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSH   73 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTT---SSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeecc---ccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEE
Confidence            4899999999999999999999999999999998764   2468999999999999999985 7889999999864

>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=99.54  E-value=8.8e-15  Score=121.66  Aligned_cols=80  Identities=19%  Similarity=0.233  Sum_probs=70.2

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCcee--------eEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVN--------SVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY  179 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~--------~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~  179 (498)
                      ..+.++|||+|||+++|+++|+++|++||.|.        .+.++++.. +++++|||||+|.++++|.+|++.  +..|
T Consensus         5 ~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~-~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~   83 (101)
T d2cpea1           5 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKE-TGKPKGDATVSYEDPPTAKAAVEWFDGKDF   83 (101)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTT-TCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccc-cccccceeeEEecCHHHHHHHHHHhCCCEE
Confidence            45678999999999999999999999999985        455556554 577899999999999999999985  8999


Q ss_pred             CCeEEEEeecc
Q 043731          180 AGVELHLKPKK  190 (498)
Q Consensus       180 ~G~~l~v~~k~  190 (498)
                      +|+.|.|.++.
T Consensus        84 ~gr~i~V~~a~   94 (101)
T d2cpea1          84 QGSKLKVSLAR   94 (101)
T ss_dssp             TTEECEEECSS
T ss_pred             CCEEEEEEEcC
Confidence            99999999874

>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=99.53  E-value=7.2e-15  Score=119.93  Aligned_cols=75  Identities=19%  Similarity=0.261  Sum_probs=68.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      ..+|||+|||+++|+++|+++|++||.|..++|+++..   .++|||||+|.+.++|++|++.  +..++|+.|.|.+..
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 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN---GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   84 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTT---BCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecC---CCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            46799999999999999999999999999999998853   3689999999999999999984  788999999998864

>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=99.52  E-value=1.7e-14  Score=120.81  Aligned_cols=77  Identities=22%  Similarity=0.300  Sum_probs=69.0

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++|+++|+++|++|| |..++++++...+++++|||||+|.++++|++|++. +..++|+.|.|.++.
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a~   92 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            58999999999999999999999999 778888777655678999999999999999988875 889999999998763

>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=99.52  E-value=2.3e-15  Score=123.73  Aligned_cols=78  Identities=19%  Similarity=0.183  Sum_probs=70.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...++|||+|||+++|+++|+++|++||.|.+++|+.+.  +++++|||||+|.++++|++||+. +..++|++|.|.++
T Consensus        11 ~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~--~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~a   88 (91)
T d1fjeb1          11 TTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVR--TGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKP   88 (91)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEE--EETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECC
T ss_pred             CCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecC--CCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEec
Confidence            356799999999999999999999999999999987654  467899999999999999999985 88999999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      +
T Consensus        89 k   89 (91)
T d1fjeb1          89 K   89 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.52  E-value=5.7e-15  Score=120.38  Aligned_cols=73  Identities=21%  Similarity=0.376  Sum_probs=66.5

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHhCCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQGLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~~~~~~G~~l~v~~k~  190 (498)
                      ..++|||+|||+++|+++|+++|++||.|..|++++.      ++|||||+|.++++|++|+.++..++|++|.|.+..
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~------~~gfafV~f~~~~~a~~a~~~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP------FRAFAFVTFADDQIAQSLCGEDLIIKGISVHISNAE   76 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS------CCSCCEEECSCHHHHHHTTTCEEEETTEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec------cCceEEEEECCHHHHHHHHhCCCEECCEEeEEEeCC
Confidence            4689999999999999999999999999999987643      579999999999999999988888999999998763

>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=99.51  E-value=9.5e-15  Score=133.23  Aligned_cols=132  Identities=13%  Similarity=0.057  Sum_probs=109.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +|||+|||..+|+++|+++|++||.|..+.+.+.      ++.|||.|.++++|.+|+...      +..+.++.+.+..
T Consensus         8 ~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~------~~~~~~~~~~~~~   81 (183)
T d1u1qa_           8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR------PHKVDGRVVEPKR   81 (183)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTC------SCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhc------CCcccccchhhhh
Confidence            6899999999999999999999999999988743      345899999999999998763      7788899888888


Q ss_pred             cCChhHHHHHHHHhhhhhccccccccchhhhhhhhhhhhhhhcccCCCccceeeeeccCCCCCCCccccc
Q 043731          396 VTGEAEKEYWSLLRGNQERHRDVKGEEKHLEAENKAASEKMIQQEDAQIKPGKFEQHEKPGISSGTSFVR  465 (498)
Q Consensus       396 ~~g~~E~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (498)
                      .........+      ...-...+.++.||......+.|+.+|..+|.|..+++......|.++|+|||.
T Consensus        82 ~~~~~~~~~~------~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~  145 (183)
T d1u1qa_          82 AVSREDSQRP------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT  145 (183)
T ss_dssp             CCCTTGGGST------TTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEE
T ss_pred             hhhccccccc------ccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEE
Confidence            7665433222      122234678999999999999999999999999999994434459999999985

>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=99.51  E-value=7.6e-15  Score=120.02  Aligned_cols=76  Identities=14%  Similarity=0.235  Sum_probs=66.8

Q ss_pred             cccceEEeccCCCCCcHHHH---HHHhccCCceeeEEcccccCC--CCcccceEEEEeCCHHHHHHHHHh--CCeeCCeE
Q 043731          111 LDVRTIAATPLEYDVKREDV---EAFFSQHVKVNSVRLPRHVAD--KRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVE  183 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L---~~~F~~~G~V~~Vri~r~~~~--~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~  183 (498)
                      ++.++|||+|||+++++++|   .++|++||+|..|.|++++..  .+.++|||||+|.++++|.+|++.  +..++|++
T Consensus         6 iq~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~   85 (89)
T d2cpia1           6 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   85 (89)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             EecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEE
Confidence            45688999999999999999   678999999999999987642  244679999999999999999984  88999999


Q ss_pred             EEE
Q 043731          184 LHL  186 (498)
Q Consensus       184 l~v  186 (498)
                      |++
T Consensus        86 lkv   88 (89)
T d2cpia1          86 LKA   88 (89)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            986

>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=99.49  E-value=1.9e-14  Score=118.94  Aligned_cols=77  Identities=17%  Similarity=0.143  Sum_probs=69.1

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCc-eeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEEee
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVK-VNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHLKP  188 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~-V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v~~  188 (498)
                      ..|||+|||.++|+++|+++|++||+ |..|+|+++..++++++|||||+|.+.++|..|++.    ...+.|++|.|.|
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            47999999999999999999999996 999999988655678999999999999999999974    4567899999998


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        82 A~   83 (96)
T d2disa1          82 AE   83 (96)
T ss_dssp             SC
T ss_pred             cC
Confidence            74

>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=99.49  E-value=9.1e-15  Score=122.19  Aligned_cols=77  Identities=18%  Similarity=0.245  Sum_probs=68.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      .+.++|||+|||+++|+++|+++|++||.|..+++.++.  ++.++|||||+|.+.++|.+|++.  +..+.|+++.+.+
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~--~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~   93 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS--SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAP   93 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS--SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeeccc--ccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCC
Confidence            456899999999999999999999999999999988774  467899999999999999999984  8888888877655


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      .
T Consensus        94 ~   94 (101)
T d1x5oa1          94 T   94 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=7.2e-15  Score=114.96  Aligned_cols=68  Identities=12%  Similarity=0.087  Sum_probs=62.1

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      |||+|||+++|+++|+++|++||.|..+++.++.. ++.++|+|||+|.++++|++|++.  +..++|+.|
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~   70 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKT-TNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMA   70 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSS-SCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccc-cccccceeEEEECCHHHHHHHHHHhCCCEECCEEC
Confidence            79999999999999999999999999999988875 678999999999999999999984  677887765

>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=99.48  E-value=5.1e-14  Score=116.16  Aligned_cols=75  Identities=23%  Similarity=0.280  Sum_probs=67.7

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++|+++|+++|++||.|..+.++++.    ..+|||||+|.++++|+.|++.  +..++|++|.|.+.
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~----~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a   88 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR----GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFP   88 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS----SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc----cccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            45789999999999999999999999999999987653    3689999999999999999984  89999999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      +
T Consensus        89 ~   89 (95)
T d1x4aa1          89 R   89 (95)
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=99.48  E-value=3.2e-14  Score=117.88  Aligned_cols=73  Identities=18%  Similarity=0.178  Sum_probs=67.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||.++++++|+++|++||.|.+|+|+++       +|||||+|.++++|.+|+..  +..++|+.|+|.|
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 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW   88 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec-------ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            34578999999999999999999999999999999864       58999999999999999984  8889999999998


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      .+
T Consensus        89 ak   90 (96)
T d1x4ga1          89 GK   90 (96)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

>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=99.48  E-value=3.4e-14  Score=118.84  Aligned_cols=78  Identities=19%  Similarity=0.174  Sum_probs=68.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ...+|||+|||+++|+++|+++|+.||.|.. +.++.+.  ++.++|+|||+|.++++|++||+. +..|+|+.|.|.+.
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~--~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~~   84 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN--NGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVV   84 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT--TSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCC--CCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEEC
Confidence            4578999999999999999999999999876 5565553  477899999999999999999986 78899999999886


Q ss_pred             ch
Q 043731          190 KE  191 (498)
Q Consensus       190 ~d  191 (498)
                      ..
T Consensus        85 ~~   86 (103)
T d2cpya1          85 TL   86 (103)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>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=99.47  E-value=3.7e-14  Score=116.14  Aligned_cols=74  Identities=20%  Similarity=0.350  Sum_probs=66.4

Q ss_pred             cceEEeccCCCCCcHHHHH----HHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEE
Q 043731          113 VRTIAATPLEYDVKREDVE----AFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHL  186 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~----~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v  186 (498)
                      .+||||+|||+++++++|+    ++|++||+|.+|++.+.    +.++|||||+|.+.++|.+|++.  +..++|+.|.|
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~----~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v   78 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS----LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   78 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH----HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee----ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            5899999999999999886    46899999999998764    45789999999999999999984  78899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+++
T Consensus        79 ~~ak   82 (91)
T d1nu4a_          79 QYAK   82 (91)
T ss_dssp             EECS
T ss_pred             EEeC
Confidence            9874

>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=99.47  E-value=3.4e-14  Score=119.95  Aligned_cols=73  Identities=23%  Similarity=0.201  Sum_probs=66.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...+||||+|||+++++++|+++|++||+|..|.|++       .+|||||+|.+.++|.+|++.  +..|.|+.|.|.+
T Consensus         8 r~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~-------~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~   80 (111)
T d1whxa_           8 RSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-------GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEW   80 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-------SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec-------cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEE
Confidence            4568999999999999999999999999999999854       369999999999999999985  8999999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ..
T Consensus        81 a~   82 (111)
T d1whxa_          81 AP   82 (111)
T ss_dssp             EE
T ss_pred             CC
Confidence            64

>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=99.46  E-value=4.6e-14  Score=116.69  Aligned_cols=75  Identities=27%  Similarity=0.386  Sum_probs=66.5

Q ss_pred             ccccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEe
Q 043731          110 QLDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLK  187 (498)
Q Consensus       110 ~~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~  187 (498)
                      ..+.++|||+|||+++|+++|+++|++||.|..++.      ++.++|||||+|.+.++|.+|++.  +..++|++|.|.
T Consensus        13 ~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~------~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~   86 (96)
T d1fjca_          13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ------DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY   86 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE------TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee------cCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            346799999999999999999999999999877653      356889999999999999999984  789999999998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +..
T Consensus        87 ~a~   89 (96)
T d1fjca_          87 YTG   89 (96)
T ss_dssp             ECS
T ss_pred             EeC
Confidence            864

>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=99.45  E-value=8.9e-14  Score=111.85  Aligned_cols=74  Identities=19%  Similarity=0.206  Sum_probs=65.3

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee-CCeEEEEe
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY-AGVELHLK  187 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~-~G~~l~v~  187 (498)
                      ...+||||+|||.++|+++|.++|++||.|..|++.++      .+|+|||+|.+.++|..|+..  +..+ +|++|.|.
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~------~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~   79 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN------RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKIT   79 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT------TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc------cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEE
Confidence            45689999999999999999999999999999999764      258999999999999999984  6666 57899998


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +++
T Consensus        80 ~ak   82 (83)
T d2b0ga1          80 FAK   82 (83)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            864

>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=99.45  E-value=5.6e-14  Score=114.01  Aligned_cols=74  Identities=15%  Similarity=0.151  Sum_probs=69.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+.+||+|||..+++++|+++|++||+|..|.+.++++.|||+|.++++|++|+..++     |..|+|+.|.|+.+..
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~-----g~~i~g~~l~V~~A~~   81 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELD-----NMPLRGKQLRVRFACH   81 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHT-----TCCBTTBCCEEEESSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecccceEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEECCC
Confidence            3469999999999999999999999999999999999999999999999999999984     9999999999998854

>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=99.45  E-value=1.5e-14  Score=120.54  Aligned_cols=78  Identities=19%  Similarity=0.209  Sum_probs=71.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..+||||+|||.++++++|+++|++||.|..+.+..+.. ++.++|||||+|.++++|.+|++.  +..+.|+.|.|.++
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~-~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   95 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM-TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG   95 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE-CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccc-cccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            468999999999999999999999999999999887664 577899999999999999999985  88899999999887


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      +
T Consensus        96 k   96 (102)
T d2cpxa1          96 K   96 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.45  E-value=7.8e-14  Score=116.96  Aligned_cols=78  Identities=19%  Similarity=0.169  Sum_probs=67.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      +..+|||+|||+++|+++|+++|++||.|..+.++.+.. ++.++|+|||+|.++++|++|++. +..++|+.|.|.+..
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~-~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDF-QGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCS-SSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCC-CCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECC
Confidence            456899999999999999999999999998755544443 567999999999999999999985 788999999998764

>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=99.45  E-value=3e-14  Score=119.15  Aligned_cols=77  Identities=21%  Similarity=0.182  Sum_probs=67.7

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ....+|||+|||+++|+++|+++|+.|| |..|+++++..  +.++|||||+|.++++|++|++. +..++|+.|.|.+.
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~-~~~v~~~~~~~--g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s   89 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD--GRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLN   89 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSS--SCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccC-cceeeeEEecC--CcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            4567999999999999999999999998 45788777753  67899999999999999999985 88899999999876


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        90 ~   90 (102)
T d1weza_          90 S   90 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.44  E-value=6.3e-14  Score=113.26  Aligned_cols=74  Identities=16%  Similarity=0.240  Sum_probs=65.1

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceee-EEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNS-VRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~-Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..+|||+|||+++++++|+++|+.||.|.. +.++.+.  +++++|+|||+|.++++|++|+..  +..++|++|.|.+
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~--~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l   85 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE--KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   85 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECS--SSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCC--CCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEE
Confidence            457999999999999999999999999976 4555543  577999999999999999999984  8899999999875

>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=99.44  E-value=6.7e-14  Score=113.53  Aligned_cols=72  Identities=18%  Similarity=0.218  Sum_probs=65.6

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||.++++++|+++|++||+|.+|+|.++       +|||||+|.+.++|.+|+..  +..++|+.|.|.++
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 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA   79 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT-------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc-------cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            3467999999999999999999999999999999753       58999999999999999995  88999999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        80 ~   80 (86)
T d2cpja1          80 C   80 (86)
T ss_dssp             S
T ss_pred             C
Confidence            3

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=7.9e-14  Score=117.64  Aligned_cols=71  Identities=18%  Similarity=0.197  Sum_probs=67.5

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+.+.+++|||+|.++++|.+|+..|+     |..|.|+.|.|+.+
T Consensus        11 ~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~kg~afV~f~~~~~A~~A~~~ln-----g~~~~gr~l~v~~a   81 (111)
T d1whxa_          11 TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLA-----YSKFHHVPLYLEWA   81 (111)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHT-----TCBSSSSBCEEEEE
T ss_pred             CEEEEECCCCCCCHHHHHhhhhccCCccEEEeeccCceEEEEEcCHHHHHHHHHHHc-----CCccCCCeEEEEEC
Confidence            479999999999999999999999999999999999999999999999999999984     99999999999876

>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=99.43  E-value=1.9e-13  Score=111.05  Aligned_cols=73  Identities=18%  Similarity=0.166  Sum_probs=65.9

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||.++|+++|+++|++||.|..|++.++       +|+|||+|.++++|.+|++.    +..++|++|.|
T Consensus         6 ~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~-------~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v   78 (88)
T d2cq1a1           6 APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG-------KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYI   78 (88)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccccccccccccc-------ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEE
Confidence            45799999999999999999999999999999998653       48999999999999999973    67899999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+++
T Consensus        79 ~~sk   82 (88)
T d2cq1a1          79 QYSN   82 (88)
T ss_dssp             EECS
T ss_pred             EECC
Confidence            8864

>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=99.42  E-value=1.1e-13  Score=116.47  Aligned_cols=72  Identities=15%  Similarity=0.202  Sum_probs=65.0

Q ss_pred             cceEEeccCCC-CCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          113 VRTIAATPLEY-DVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       113 ~rtV~V~nLp~-~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      .++|||+|||+ .+|+++|+++|++||.|..|+|+++.      +|+|||+|.++++|.+|++.  +..+.|+.|.|.++
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 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK------KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS   75 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT------SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc------cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            47899999965 69999999999999999999998762      59999999999999999985  88899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      +
T Consensus        76 ~   76 (109)
T d2adca1          76 K   76 (109)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.41  E-value=2e-13  Score=110.30  Aligned_cols=71  Identities=23%  Similarity=0.276  Sum_probs=64.2

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      .++|||+|||+++|+++|+++|++||.|..+.+.       .++|||||+|.++++|.+|+..  +..++|+.|.|.+++
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~-------~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK-------KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE-------ECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc-------cccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            4899999999999999999999999999887763       3579999999999999999984  888999999998864

>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=99.41  E-value=7.5e-14  Score=113.77  Aligned_cols=77  Identities=17%  Similarity=0.245  Sum_probs=69.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+|||+|||..+++++|+++|++||.|..+.+.++    ++.|||.|.++++|++|++.|   |  |..|+|+.|.|..+
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l---~--g~~~~g~~i~V~~a   83 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM---N--GMLLNDRKVFVGRF   83 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSS---S--EEEETTEEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHc---C--CCEECCEEEEEEEC
Confidence            36899999999999999999999999999998764    456999999999999999877   3  99999999999999


Q ss_pred             CChhHH
Q 043731          397 TGEAEK  402 (498)
Q Consensus       397 ~g~~E~  402 (498)
                      ..+.||
T Consensus        84 ~~~~~R   89 (89)
T d1cvja2          84 KSRKER   89 (89)
T ss_dssp             CCTTTC
T ss_pred             CCCCCC
Confidence            877653

>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=99.41  E-value=1.7e-13  Score=109.28  Aligned_cols=71  Identities=13%  Similarity=0.177  Sum_probs=64.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...+||||+|||  +|+++|+++|++||.|.+|++.++       +|||||+|.+.++|.+|+..  +..++|++|+|.+
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--MTPTLLRGAFSPFGNIIDLSMDPP-------RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI   73 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT-------TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEE
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC-------CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEE
Confidence            457899999996  899999999999999999998653       58999999999999999985  8899999999998


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        74 a~   75 (79)
T d2bz2a1          74 AR   75 (79)
T ss_dssp             CC
T ss_pred             ec
Confidence            74

>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=99.41  E-value=4e-13  Score=106.13  Aligned_cols=71  Identities=7%  Similarity=0.057  Sum_probs=66.0

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCCh
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTGE  399 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g~  399 (498)
                      +||+|||.++++++|+++|++|| +..+.+.+.++.|||.|.++++|.+|+..|+     |..++|+.|.|+.+..+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln-----~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINTFH-----QSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEETTTTEEEEEESSHHHHHHHHHHHT-----TEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeecccceeEEEEECCHHHHHHHHHHhC-----CccCCCCEEEEEEeCCC
Confidence            58999999999999999999999 7777788999999999999999999999984     99999999999998765

>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=99.41  E-value=2.2e-13  Score=110.51  Aligned_cols=74  Identities=20%  Similarity=0.114  Sum_probs=64.1

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee-CCeEEEEee
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY-AGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~-~G~~l~v~~  188 (498)
                      ..+||||+|||+++|+++|+++|++||.|..+++...     +.+|+|||+|.+.++|.+|+..  +..+ +|++|+|.+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~-----~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~   83 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ-----KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSF   83 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS-----SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee-----cccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEe
Confidence            3689999999999999999999999999988876543     2468999999999999999985  6665 689999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      ++
T Consensus        84 sk   85 (88)
T d2adca2          84 SK   85 (88)
T ss_dssp             CS
T ss_pred             CC
Confidence            64

>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=99.40  E-value=2.5e-13  Score=112.38  Aligned_cols=73  Identities=14%  Similarity=0.134  Sum_probs=68.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++++.|||.|.++++|.+|+..|.     |..|+|+.|.|..+.
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~-----~~~i~g~~l~v~~ak   90 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVN-----GTTIEGHVVKCYWGK   90 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEECCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecceEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEEcC
Confidence            3479999999999999999999999999999999999999999999999999999884     899999999998653

>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=99.39  E-value=1.1e-13  Score=115.31  Aligned_cols=73  Identities=22%  Similarity=0.206  Sum_probs=65.0

Q ss_pred             cccceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHH--h--CCeeCCeEEE
Q 043731          111 LDVRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLK--Q--GLFYAGVELH  185 (498)
Q Consensus       111 ~~~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~--~--~~~~~G~~l~  185 (498)
                      ...++|||+|||.+ +|+++|.++|++||.|.+|+|.++       +|+|||+|.++++|.+|++  +  +..++|+.|.
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~-------k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~   88 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM-------KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVK   88 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT-------TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec-------CCcEEEEecchHHHHHHHHHHhcCCceECCEEEE
Confidence            45689999999985 899999999999999999998753       5899999999999999996  2  6789999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.++.
T Consensus        89 V~~s~   93 (99)
T d1x4fa1          89 VDLSE   93 (99)
T ss_dssp             EEEEC
T ss_pred             EEEcC
Confidence            98864

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=5.5e-14  Score=112.46  Aligned_cols=75  Identities=11%  Similarity=0.077  Sum_probs=67.7

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCC-eEecCeEEEEEEcCChh
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGG-LSVKNFIAVLEPVTGEA  400 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g-~~i~g~~~~v~~~~g~~  400 (498)
                      .|||+|||..+|+++|+++|++||.|..+.+.+.++.|||.|.++++|.+|++.++     | ..|+|+.|.|+.+..+.
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~ln-----g~~~~~G~~i~V~~a~~k~   77 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLS-----GKVELHGKIMEVDYSVSKK   77 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHT-----TTCEETTEECEEEECCCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecccceEEEEECCHHHHHHHHHHhC-----CCeEECCEEEEEEEcCCcC
Confidence            58999999999999999999999999887778888999999999999999999983     5 67999999999987654


Q ss_pred             H
Q 043731          401 E  401 (498)
Q Consensus       401 E  401 (498)
                      +
T Consensus        78 ~   78 (80)
T d2cqha1          78 L   78 (80)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.39  E-value=3.2e-13  Score=107.91  Aligned_cols=72  Identities=13%  Similarity=0.126  Sum_probs=64.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      +++||+|||..+++++|+++|++||.|..|.+.++      ++.|||+|.++++|++|+..|+     |..++|+.|.|.
T Consensus         3 t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~ln-----g~~~~g~~l~v~   77 (82)
T d1b7fa1           3 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLN-----GITVRNKRLKVS   77 (82)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhC-----CCEECCEEEEEE
Confidence            46899999999999999999999999999988653      3359999999999999999984     899999999999


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      .+.
T Consensus        78 ~a~   80 (82)
T d1b7fa1          78 YAR   80 (82)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            875

>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=99.39  E-value=6.1e-13  Score=109.19  Aligned_cols=75  Identities=19%  Similarity=0.250  Sum_probs=67.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ...|||+|||..+++++|+++|++||+|..|.+.++    ++.|||.|.++++|.+|+..+.     |..|+|+.|.|+.
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~-----~~~~~g~~l~V~~   85 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH-----GTVVEGRKIEVNN   85 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEe
Confidence            446899999999999999999999999999998765    3459999999999999999984     8999999999999


Q ss_pred             cCCh
Q 043731          396 VTGE  399 (498)
Q Consensus       396 ~~g~  399 (498)
                      +..+
T Consensus        86 A~~r   89 (93)
T d2cq3a1          86 ATAR   89 (93)
T ss_dssp             CCSS
T ss_pred             cCcC
Confidence            8653

>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=99.38  E-value=1.1e-13  Score=112.35  Aligned_cols=67  Identities=16%  Similarity=0.195  Sum_probs=60.9

Q ss_pred             eEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          115 TIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       115 tV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      +|||+|||+++|+++|+++|++||.|..++++++        |||||+|.+.++|++|+..  +..|+|+.|.|.+.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~--------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~   70 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   70 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT--------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc--------ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEE
Confidence            6999999999999999999999999999998643        8999999999999999984  88899999887654

>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=99.38  E-value=3.7e-13  Score=106.91  Aligned_cols=70  Identities=21%  Similarity=0.200  Sum_probs=64.2

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +||+|||..+++++|+++|++||.|..|.+.+++     +.|||+|.++++|.+|++.++     |..++|++|.|+.+.
T Consensus         3 l~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           3 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN-----GVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHT-----TCEETTEECEEEEEC
T ss_pred             EEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEEee
Confidence            6999999999999999999999999999987643     369999999999999999884     899999999999875

>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=99.37  E-value=3.3e-13  Score=106.61  Aligned_cols=70  Identities=16%  Similarity=0.124  Sum_probs=62.8

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCc----eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE----SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~----~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +|||+|||..+++++|+++|++||.|..|.+.++++    .|||+|+++++|.+|+. +   |  |..|+|+.|.|..++
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~---~--~~~i~g~~i~V~~~T   75 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-K---T--HKVVGQNEIIVSHLT   75 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-T---T--TCEETTEECEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-h---c--CcEECCEEEEEEECC
Confidence            689999999999999999999999999999976554    59999999999999975 4   3  789999999998874

>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=99.37  E-value=2e-13  Score=109.10  Aligned_cols=70  Identities=13%  Similarity=0.183  Sum_probs=61.8

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--C-CeeCCeEEEEeecc
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--G-LFYAGVELHLKPKK  190 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~-~~~~G~~l~v~~k~  190 (498)
                      .+|||+|||.++|+++|+++|++||.|..+++.+       .+|||||+|.++++|.+|++.  + ..++|++|.|.++.
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-------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   74 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec-------ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcC
Confidence            4799999999999999999999999988766543       469999999999999999985  5 46999999998864

>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=99.37  E-value=1.7e-13  Score=116.45  Aligned_cols=78  Identities=15%  Similarity=0.191  Sum_probs=67.3

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeecc
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPKK  190 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k~  190 (498)
                      ..++|||+|||+++|+++|+++|+.||.|..+.++.+.. ++.++|+|||+|.+.++|++|+.. +..++|+.|.|.+..
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~-~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~   95 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGP-NGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPIT   95 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECT-TSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEEC
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCc-ccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcC
Confidence            467999999999999999999999999997754444433 567899999999999999999985 788999999998763

>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=99.37  E-value=5.2e-13  Score=108.89  Aligned_cols=76  Identities=16%  Similarity=0.059  Sum_probs=67.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +.+|||+|||..+|+++|+++|++||.|..|.+.++    ++.|||.|.+.++|.+|+..+.     |..|.|+.|.|..
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~-----~~~~~g~~i~v~~   82 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMN-----GRKILGKEVKVNW   82 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHT-----TEEETTEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEE
Confidence            447999999999999999999999999999998754    4469999999999999999884     9999999999999


Q ss_pred             cCChh
Q 043731          396 VTGEA  400 (498)
Q Consensus       396 ~~g~~  400 (498)
                      +....
T Consensus        83 a~~~~   87 (90)
T d2cqia1          83 ATTPS   87 (90)
T ss_dssp             CCCTT
T ss_pred             cCCCC
Confidence            86543

>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=99.37  E-value=1e-14  Score=119.07  Aligned_cols=80  Identities=13%  Similarity=0.360  Sum_probs=67.4

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEccccc----CCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEe
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHV----ADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLK  187 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~----~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~  187 (498)
                      +|+|||+|||+++|+++|+++|++||.|..+.+....    ..++.++|||||+|.++++|++|++. +..++|+.|.|.
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            4899999999999999999999999999887765322    12456899999999999999999975 889999999986


Q ss_pred             ecchh
Q 043731          188 PKKEF  192 (498)
Q Consensus       188 ~k~d~  192 (498)
                      ..++|
T Consensus        81 r~k~~   85 (90)
T d1u2fa_          81 RPHDY   85 (90)
T ss_dssp             CTTCC
T ss_pred             CCCCC
Confidence            54443

>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=99.37  E-value=4.3e-13  Score=109.15  Aligned_cols=71  Identities=14%  Similarity=0.177  Sum_probs=60.9

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|||+|||+++++++|+++|++|| +..+.+       ...+|||||+|.++++|++|++.  +..++|+.|.|.++
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-LKYCYV-------DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQ   75 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEE-------EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeee-------eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            357899999999999999999999999 333332       23679999999999999999985  88899999999886


Q ss_pred             c
Q 043731          190 K  190 (498)
Q Consensus       190 ~  190 (498)
                      .
T Consensus        76 ~   76 (88)
T d1wg1a_          76 P   76 (88)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.37  E-value=6.8e-13  Score=110.01  Aligned_cols=77  Identities=22%  Similarity=0.266  Sum_probs=68.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||+.+++++|+++|++||.|..|.++++      ++.|||.|.++++|++|++.|+     |..|+|+.|.|
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~-----g~~~~gr~i~V   82 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD-----GQVFQGRMLHV   82 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTT-----TEESSSCEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcC-----CCEECCEEEEE
Confidence            447999999999999999999999999999998754      3469999999999999999884     89999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      .++..+.+
T Consensus        83 ~~a~~~~~   90 (99)
T d1whwa_          83 LPSTIKKE   90 (99)
T ss_dssp             EECCCCST
T ss_pred             EECCCCCc
Confidence            99876543

>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=99.37  E-value=6.1e-13  Score=109.27  Aligned_cols=77  Identities=16%  Similarity=0.102  Sum_probs=68.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCc------eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE------SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~------~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +++|||+|||..+|+++|+++|++||.|..|.+.++..      .|||+|.++++|.+|+..|+     |..|+|+.|.|
T Consensus         7 s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~-----g~~~~gr~i~V   81 (93)
T d1h2vz_           7 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYIN-----GTRLDDRIIRT   81 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTT-----TSEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            45899999999999999999999999999999876433      59999999999999999884     89999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      ..+.|..+
T Consensus        82 ~~a~~~~~   89 (93)
T d1h2vz_          82 DWDAGFKE   89 (93)
T ss_dssp             EEESCCCT
T ss_pred             EEcCCCCC
Confidence            98876443

>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=99.37  E-value=4.4e-13  Score=111.35  Aligned_cols=70  Identities=26%  Similarity=0.337  Sum_probs=62.8

Q ss_pred             ccceEEeccCC-CCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          112 DVRTIAATPLE-YDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       112 ~~rtV~V~nLp-~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ..++|||+||| ..+++++|+++|++||+|..|+|         ++|||||+|.+.++|++|++.  +..++|+.|+|.+
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i---------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~   84 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV---------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINL   84 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE---------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE---------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            45679999996 57888999999999999999988         358999999999999999985  7899999999988


Q ss_pred             cc
Q 043731          189 KK  190 (498)
Q Consensus       189 k~  190 (498)
                      +.
T Consensus        85 a~   86 (98)
T d1wf2a_          85 AA   86 (98)
T ss_dssp             TT
T ss_pred             CC
Confidence            64

>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=99.36  E-value=7.7e-13  Score=107.32  Aligned_cols=77  Identities=12%  Similarity=0.065  Sum_probs=69.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ++.++||+|||..+++++|+++|++||.|..+.+.++++.|||+|.++++|++|++.+.   ..+..++|+.|.|..+.-
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~---~~~~~~~g~~l~v~~sk~   83 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYS---AVTPHLRNQPIYIQYSNH   83 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHH---HSCCEETTEECEEEECSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccceEEEEEeCCHHHHHHHHHHHc---cCCCccCCCEEEEEECCC
Confidence            34579999999999999999999999999999999999999999999999999999874   338999999999987643

>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=99.36  E-value=3.9e-13  Score=108.23  Aligned_cols=71  Identities=25%  Similarity=0.266  Sum_probs=63.2

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecC---------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG---------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g---------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +||+|||..+|+++|+++|++||.|..|.+.++         ++.|||+|.++++|.+|+..++     |..|+|+.|.|
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~-----~~~~~g~~i~V   75 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQ-----GHTVDGHKLEV   75 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHST-----TCEETTEECEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            589999999999999999999999999888642         3459999999999999999873     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      +.+..
T Consensus        76 ~~a~~   80 (85)
T d2cpfa1          76 RISER   80 (85)
T ss_dssp             ECSSC
T ss_pred             EECCC
Confidence            98743

>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=99.36  E-value=7.5e-13  Score=112.29  Aligned_cols=73  Identities=19%  Similarity=0.236  Sum_probs=66.6

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC---CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG---AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g---~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      .+|||+|||..+++++|+++|++||.|..|.+..+   +|.|||.|.+.++|.+|+..|+     |..|+|+.|.|..+.
T Consensus         8 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           8 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLS-----GFNVCNRYLVVLYYN   82 (114)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEEcC
Confidence            47899999999999999999999999999999754   5679999999999999999984     999999999999875


Q ss_pred             C
Q 043731          398 G  398 (498)
Q Consensus       398 g  398 (498)
                      .
T Consensus        83 ~   83 (114)
T d2f9da1          83 A   83 (114)
T ss_dssp             H
T ss_pred             C
Confidence            4

>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=99.36  E-value=5.7e-13  Score=109.64  Aligned_cols=77  Identities=21%  Similarity=0.222  Sum_probs=67.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.++++       ++.|||.|.++++|.+|+..|.  |  |..|+|+.|.
T Consensus         8 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~--~--~~~~~Gr~l~   83 (94)
T d2cpha1           8 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALC--H--STHLYGRRLV   83 (94)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHH--T--CCBSSSCBCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHcc--C--CcEECCEEEE
Confidence            457999999999999999999999999999998643       3469999999999999999873  3  8889999999


Q ss_pred             EEEcCChh
Q 043731          393 LEPVTGEA  400 (498)
Q Consensus       393 v~~~~g~~  400 (498)
                      |+.+..++
T Consensus        84 V~~A~~~~   91 (94)
T d2cpha1          84 LEWADSEV   91 (94)
T ss_dssp             EEECCCCC
T ss_pred             EEEcCCCC
Confidence            99987654

>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=99.36  E-value=9.4e-13  Score=105.05  Aligned_cols=71  Identities=15%  Similarity=0.233  Sum_probs=64.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ++||+|||..+++++|+++|++||.|..|.+.++.      +.|||.|.++++|++|+..++     |..|+|+.|.|..
T Consensus         4 ~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~-----g~~~~g~~l~v~~   78 (82)
T d1fxla1           4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLN-----GLRLQTKTIKVSY   78 (82)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEE
Confidence            58999999999999999999999999999987542      248999999999999999984     8999999999987


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      +.
T Consensus        79 Ak   80 (82)
T d1fxla1          79 AR   80 (82)
T ss_dssp             CC
T ss_pred             ee
Confidence            64

>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=99.36  E-value=5.8e-13  Score=108.71  Aligned_cols=73  Identities=14%  Similarity=0.148  Sum_probs=65.2

Q ss_pred             cccceEEeccCCCC-CcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEE
Q 043731          111 LDVRTIAATPLEYD-VKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELH  185 (498)
Q Consensus       111 ~~~rtV~V~nLp~~-~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~  185 (498)
                      -..|+|||+|||.. +|+++|.++|++||.|.+|+|.++       +++|||+|++.++|..|++.    +..++|++|.
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~-------k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~   78 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK-------INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVR   78 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS-------SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc-------ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEE
Confidence            35789999999986 889999999999999999999764       47899999999999999983    6789999999


Q ss_pred             Eeecc
Q 043731          186 LKPKK  190 (498)
Q Consensus       186 v~~k~  190 (498)
                      |.++.
T Consensus        79 V~~s~   83 (89)
T d1x4da1          79 VHLSQ   83 (89)
T ss_dssp             EEEEC
T ss_pred             EEECC
Confidence            99874

>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=99.36  E-value=1.3e-12  Score=104.71  Aligned_cols=69  Identities=17%  Similarity=0.239  Sum_probs=62.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      +.++||+|||..+|+++|+++|++||.|..|.+.+++      +.|||+|.++++|++|+.+++     |..|+|+.|.|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~gr~i~V   83 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERAN-----GMELDGRRIRV   83 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHT-----TEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcC-----CCEECCEEeEC
Confidence            4579999999999999999999999999999987543      359999999999999999884     99999999876

>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=99.36  E-value=4.3e-13  Score=109.77  Aligned_cols=75  Identities=21%  Similarity=0.168  Sum_probs=65.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..++||+|||+.+|+++|+++|++||.|..|.+++++      +.|||.|.++++|++|++.       +..|+|+.|.|
T Consensus         8 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~-------~~~l~Gr~i~v   80 (90)
T d2cqga1           8 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ-------RHMIDGRWCDC   80 (90)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS-------CEEETTEEEEE
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc-------CCccCCEEeEE
Confidence            3478999999999999999999999999999988653      3589999999999999863       45899999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      +++..+.+
T Consensus        81 ~~a~~k~~   88 (90)
T d2cqga1          81 KLPNSKQS   88 (90)
T ss_dssp             ECCCTTCC
T ss_pred             EeCCCCCC
Confidence            99877654

>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=99.36  E-value=7e-13  Score=111.07  Aligned_cols=73  Identities=16%  Similarity=0.180  Sum_probs=65.4

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh----CCeeCCeEEEE
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ----GLFYAGVELHL  186 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~----~~~~~G~~l~v  186 (498)
                      ...++|||+|||.++|+++|.++|++||.|..|+|.+       .+|+|||+|.+.++|+.|+..    ...+.|++|.|
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~-------~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v   85 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP-------FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFF   85 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET-------TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe-------cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEE
Confidence            3578999999999999999999999999999999865       358999999999999999973    56789999999


Q ss_pred             eecc
Q 043731          187 KPKK  190 (498)
Q Consensus       187 ~~k~  190 (498)
                      .+++
T Consensus        86 ~~s~   89 (104)
T d1wexa_          86 NYST   89 (104)
T ss_dssp             EECS
T ss_pred             EEcC
Confidence            8864

>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=99.35  E-value=5.6e-13  Score=106.32  Aligned_cols=72  Identities=17%  Similarity=0.041  Sum_probs=64.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+|||+.+|+++|+++|++||+|..|.+++++      +.|||.|.++++|.+|++.++     |..|+|+.|.|..
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~-----g~~~~gr~i~v~~   76 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMN-----FDVIKGKPVRIMW   76 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTST-----TCEETTEECEEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEE
Confidence            47999999999999999999999999999998643      358999999999999998873     9999999999998


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +..
T Consensus        77 a~~   79 (80)
T d1cvja1          77 SQR   79 (80)
T ss_dssp             CCC
T ss_pred             eCC
Confidence            864

>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=99.35  E-value=6e-13  Score=108.24  Aligned_cols=73  Identities=11%  Similarity=0.082  Sum_probs=65.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      +.+|||+|||..+++++|+++|++|| +..+.+.+.++.|||+|.++++|++|+..|+     |..|+|+.|.|+.+..
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln-----~~~~~G~~l~V~~a~~   77 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFH-----QYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEGGGTEEEECCSCHHHHHHHHHHHT-----TEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeeccCCceEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEEcCC
Confidence            34799999999999999999999999 4455667778899999999999999999984     9999999999998754

>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=99.35  E-value=4.6e-13  Score=106.66  Aligned_cols=72  Identities=15%  Similarity=0.183  Sum_probs=66.5

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      +.+|||+|++  +|+++|+++|++||.|..|.+.+.++.|||+|.++++|.+|+..++     |..|+|+.|.|..+..
T Consensus         5 ~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~ln-----g~~~~g~~l~V~~a~~   76 (79)
T d2bz2a1           5 GNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELN-----GTQVESVQLKVNIARK   76 (79)
T ss_dssp             CCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTTTEEEEECSSHHHHHHHHHHHT-----TCBCSSCBCEEEECCS
T ss_pred             CCEEEEECCC--CCHHHHHHHHhccCccceeeeccCCCEEEEEEcccHHHHHHHHHhC-----CCEECCEEEEEEEecC
Confidence            3478999986  8999999999999999999999999999999999999999999984     9999999999998754

>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=99.35  E-value=1e-12  Score=106.08  Aligned_cols=73  Identities=15%  Similarity=0.094  Sum_probs=67.9

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .+|||+|||..+++++|+++|++||.|..+.+.+.++.|||.|.++++|.+|+..|   +  |..|+|+.|.|..+..
T Consensus         9 k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l---~--~~~i~g~~i~V~~akP   81 (86)
T d2cpda1           9 KILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKAL---N--GKVLDGSPIEVTLAKP   81 (86)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHH---S--SEEETTEEEEEECCCC
T ss_pred             CEEEEcCCCCCCCHHHHHHhhcccceeeeEEEccccEEEEEEeCCHHHHHHHHHHc---C--CCEECCEEEEEEeccC
Confidence            47899999999999999999999999999999999999999999999999999998   4  9999999999987753

>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=99.35  E-value=3.3e-13  Score=109.83  Aligned_cols=73  Identities=15%  Similarity=0.106  Sum_probs=65.9

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +|||+|||..+++++|+++|++||+|..|.+.++      ++.|||.|.++++|++|+..++     |..|+|+.|.|..
T Consensus         7 tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~-----~~~i~g~~l~v~~   81 (89)
T d2cqba1           7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN-----ESELFGRTIRVNL   81 (89)
T ss_dssp             CEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHT-----TEEETTEEEEEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEE
Confidence            7899999999999999999999999999998753      3469999999999999999984     9999999999998


Q ss_pred             cCCh
Q 043731          396 VTGE  399 (498)
Q Consensus       396 ~~g~  399 (498)
                      +..+
T Consensus        82 a~p~   85 (89)
T d2cqba1          82 AKPM   85 (89)
T ss_dssp             CCCC
T ss_pred             eCCC
Confidence            8653

>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=99.35  E-value=9.6e-13  Score=103.87  Aligned_cols=67  Identities=21%  Similarity=0.239  Sum_probs=58.8

Q ss_pred             EEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeecc
Q 043731          116 IAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPKK  190 (498)
Q Consensus       116 V~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k~  190 (498)
                      |||+|||+++++++|+++|++|| +..+++       ++.+|+|||+|.+.++|.+|+..  +..++|++|.|.++.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~-------~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~   69 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFV-------DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQP   69 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE-------ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee-------cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeC
Confidence            79999999999999999999999 444443       23679999999999999999984  889999999998873

>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=99.34  E-value=6.8e-13  Score=111.82  Aligned_cols=73  Identities=19%  Similarity=0.124  Sum_probs=63.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCee--CCeEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFY--AGVELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~--~G~~l~v~  187 (498)
                      ...+|||+|||+++|+++|+++|++||.|..|.|.+++     .+|+|||+|.++++|++|+..  +..+  .|+.|.|.
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~-----~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~   80 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-----NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRID   80 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET-----TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEE
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC-----CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEE
Confidence            35789999999999999999999999999999998753     479999999999999999985  5555  57788877


Q ss_pred             ec
Q 043731          188 PK  189 (498)
Q Consensus       188 ~k  189 (498)
                      ++
T Consensus        81 ~s   82 (108)
T d2adba1          81 FS   82 (108)
T ss_dssp             EC
T ss_pred             ec
Confidence            65

>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=99.33  E-value=2.1e-12  Score=107.79  Aligned_cols=71  Identities=14%  Similarity=0.164  Sum_probs=64.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +|||+|||+.+++++|+++|++||.|..|.+.++      ++.|||.|.++++|.+|++ +   |  |..|+|+.|.|..
T Consensus        20 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          20 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-L---T--GQRLLGVPIIVQA   93 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-H---T--TEEETTEEEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-H---C--CCEECCEEEEEEE
Confidence            6899999999999999999999999999999764      3369999999999999985 6   4  8999999999998


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +..
T Consensus        94 a~~   96 (101)
T d2cq4a1          94 SQA   96 (101)
T ss_dssp             HHH
T ss_pred             CCC
Confidence            743

>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=99.33  E-value=2.2e-13  Score=110.49  Aligned_cols=70  Identities=14%  Similarity=0.065  Sum_probs=63.0

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      .|||+|||..+++++|+++|++||.|.++.+.+ ++.|||.|.++++|++|++.|.     |..|.|+.+.|..+.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~l~-----g~~~~g~~i~v~~~~   71 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR-DGTGVVEFVRKEDMTYAVRKLD-----NTKFRSHEGETAYIR   71 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT-TSEEEEEESSHHHHHHHHHHHT-----TCBCCCTTSCCCBCE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhcccccccccc-cceeeEEeCCHHHHHHHHHHhC-----CCEECCcEeEEeEEe
Confidence            479999999999999999999999999999876 4799999999999999999984     888999988776553

>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=99.32  E-value=1.4e-12  Score=107.81  Aligned_cols=72  Identities=13%  Similarity=0.154  Sum_probs=63.4

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCC--eEEEEe
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAG--VELHLK  187 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G--~~l~v~  187 (498)
                      ..++|||+|||+++++++|+++|++||.|..|++.++       +|+|||+|.+.++|.+|++.  +..+.|  ++|+|.
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~-------~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~   88 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG-------DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVD   88 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS-------SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc-------ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEE
Confidence            3689999999999999999999999999999998653       58999999999999999984  677776  578888


Q ss_pred             ecc
Q 043731          188 PKK  190 (498)
Q Consensus       188 ~k~  190 (498)
                      +++
T Consensus        89 ~ak   91 (97)
T d1whya_          89 FAK   91 (97)
T ss_dssp             ECC
T ss_pred             eCC
Confidence            764

>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=99.32  E-value=6.6e-13  Score=110.26  Aligned_cols=71  Identities=14%  Similarity=0.134  Sum_probs=63.5

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      ...++|||+|||+++++++|+++|++||.|..+.|.+        +|||||+|.++++|++|++.  +..|+|+.|.|.+
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~--------~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~   84 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK--------DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSY   84 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET--------TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc--------cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEE
Confidence            3567899999999999999999999999999998853        48999999999999999984  7889999888776


Q ss_pred             c
Q 043731          189 K  189 (498)
Q Consensus       189 k  189 (498)
                      .
T Consensus        85 ~   85 (98)
T d1wg4a_          85 I   85 (98)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=99.32  E-value=1.5e-12  Score=106.15  Aligned_cols=76  Identities=14%  Similarity=0.023  Sum_probs=69.4

Q ss_pred             ceeeeccCCCcc-ccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDV-VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~-vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      +..|||+|||.. +|+++|.++|++||.|..|.+.++++.|||+|++.++|..|+..+.   ..++.++|+.|.|..+..
T Consensus         8 sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~---~~~~~~~gr~l~V~~s~~   84 (89)
T d1x4da1           8 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYT---TTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHH---HSCCEETTEECEEEEECC
T ss_pred             CcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccceEEEEEEcchhhHHHHHHHHh---hCCCccCCceEEEEECCC
Confidence            447899999986 8999999999999999999999999999999999999999999884   349999999999998754

>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=99.32  E-value=1.1e-12  Score=109.71  Aligned_cols=80  Identities=18%  Similarity=0.179  Sum_probs=70.5

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      +|||+|||..+++++|+++|++||+|..|.+.++.      +.|||+|.+.++|.+|++.|   +  |..|+|+.|.|+.
T Consensus        10 tl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l---~--~~~~~g~~i~V~~   84 (104)
T d1p1ta_          10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL---N--GREFSGRALRVDN   84 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS---S--SBSCSSSCBEEEE
T ss_pred             EEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHc---C--CCEECCEEEEEEE
Confidence            68999999999999999999999999999987643      35899999999999999987   3  8999999999999


Q ss_pred             cCChhHHHHHH
Q 043731          396 VTGEAEKEYWS  406 (498)
Q Consensus       396 ~~g~~E~e~~~  406 (498)
                      +..+..++..+
T Consensus        85 a~~~~~~~~~~   95 (104)
T d1p1ta_          85 AASEKNKEELK   95 (104)
T ss_dssp             TTCTTHHHHHH
T ss_pred             CCCCCCccccc
Confidence            98876665444

>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=99.32  E-value=2.2e-12  Score=105.10  Aligned_cols=74  Identities=20%  Similarity=0.281  Sum_probs=66.4

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCc------eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAE------SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~------~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ..+|||+|||..+++++|+++|++||.|..|.+.++..      .|||.|.++++|.+|++.|+     |..|+|+.|.|
T Consensus         8 ~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~i~v   82 (90)
T d2cq0a1           8 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVS-----GFGYDHLILNV   82 (90)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTT-----TCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            45799999999999999999999999999999876432      58999999999999999984     89999999999


Q ss_pred             EEcCC
Q 043731          394 EPVTG  398 (498)
Q Consensus       394 ~~~~g  398 (498)
                      ..+..
T Consensus        83 ~~akp   87 (90)
T d2cq0a1          83 EWAKP   87 (90)
T ss_dssp             EESSC
T ss_pred             EeeeC
Confidence            98754

>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=99.31  E-value=2.9e-12  Score=103.97  Aligned_cols=73  Identities=14%  Similarity=0.188  Sum_probs=65.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...+||+|||..+|+++|+++|++||.|..|.+.++.      +.|||+|.++++|++|+..++     |..|+|+.|.|
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~ln-----g~~l~g~~l~V   81 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN-----GAEIMGQTIQV   81 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcC-----CCEECCEEEEE
Confidence            3578999999999999999999999999999987653      348999999999999999884     89999999999


Q ss_pred             EEcC
Q 043731          394 EPVT  397 (498)
Q Consensus       394 ~~~~  397 (498)
                      ..+.
T Consensus        82 ~~a~   85 (88)
T d1rk8a_          82 DWCF   85 (88)
T ss_dssp             EESE
T ss_pred             EEec
Confidence            8763

>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=99.31  E-value=1.2e-12  Score=107.48  Aligned_cols=74  Identities=14%  Similarity=0.060  Sum_probs=66.8

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+|+++|+++|++||.|..|.+.++      ++.|||.|.++++|++|+..|   +  |..|+|+.|.|.
T Consensus        10 ~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l---~--g~~~~g~~l~V~   84 (93)
T d1x5ua1          10 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM---D--MIKLYGKPIRVN   84 (93)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHS---S--SCBCSSCBCEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHc---C--CCEECCEEEEEE
Confidence            47899999999999999999999999999998754      346999999999999999988   4  999999999999


Q ss_pred             EcCCh
Q 043731          395 PVTGE  399 (498)
Q Consensus       395 ~~~g~  399 (498)
                      .+..+
T Consensus        85 ~A~~~   89 (93)
T d1x5ua1          85 KASAH   89 (93)
T ss_dssp             ETTTT
T ss_pred             EcCCC
Confidence            98764

>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=99.31  E-value=5.8e-13  Score=105.05  Aligned_cols=68  Identities=21%  Similarity=0.226  Sum_probs=60.2

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +||+|||+.+|+++|+++|++||+|..|.++++      ++.|||.|.++++|++|++.    +  +..|+|+.|.|+.|
T Consensus         2 lfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~----~--~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ----K--EHKLNGKVIDPKRA   75 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHT----C--CCCBTTBCCEECCC
T ss_pred             EEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhc----C--CCEECCCEEEeeEC
Confidence            699999999999999999999999999998763      45699999999999999863    3  77899999988754

>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=99.31  E-value=1.7e-12  Score=104.57  Aligned_cols=70  Identities=16%  Similarity=0.097  Sum_probs=62.4

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+|||..+|+++|+++|++||.|..|.+.++.      +.|||.|.++++|++|++.    +  +..|+|+.|.|+.
T Consensus         8 ~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~----~--~~~i~Gr~i~V~~   81 (84)
T d1l3ka1           8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA----R--PHKVDGRVVEPKR   81 (84)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT----C--SCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHh----C--CCEECCEEEEEEe
Confidence            68999999999999999999999999999987543      3599999999999999864    3  7899999999998


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      |.
T Consensus        82 A~   83 (84)
T d1l3ka1          82 AV   83 (84)
T ss_dssp             CC
T ss_pred             ee
Confidence            74

>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=99.31  E-value=1.1e-12  Score=106.90  Aligned_cols=68  Identities=15%  Similarity=0.195  Sum_probs=61.1

Q ss_pred             eeeeccCCCccccHHHH---HHHhccCCceEEEEeecCC---------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecC
Q 043731          321 SIDTYKDNMDVVMREDL---KSVFHKFGTVKFIDFKIGA---------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN  388 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdL---ke~F~~fG~V~~V~~~~g~---------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g  388 (498)
                      .+|||+|||+.+++++|   +++|++||.|..|.+.+++         +.|||.|.++++|.+|++.|   |  |..++|
T Consensus         9 n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~l---n--g~~~~g   83 (89)
T d2cpia1           9 NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCV---N--NVVVDG   83 (89)
T ss_dssp             SCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHH---T--TEEETT
T ss_pred             CEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHh---C--CCEECC
Confidence            46899999999999999   7899999999999987643         34899999999999999998   4  999999


Q ss_pred             eEEEE
Q 043731          389 FIAVL  393 (498)
Q Consensus       389 ~~~~v  393 (498)
                      +.|.+
T Consensus        84 r~lkv   88 (89)
T d2cpia1          84 RTLKA   88 (89)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            99976

>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=99.31  E-value=1.8e-12  Score=108.42  Aligned_cols=75  Identities=11%  Similarity=0.046  Sum_probs=65.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ....|||+|||+.+++++|+++|++||.|..|.+.++      ++.|||.|.++++|++|++.+   |  + .|+|+.|.
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~---~--~-~l~Gr~l~   82 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP---N--P-IIDGRKAN   82 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCS---S--C-EETTEECE
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHC---C--C-cCCCEEEE
Confidence            3456999999999999999999999999999998754      456999999999999998864   2  4 69999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+...
T Consensus        83 V~~a~~~   89 (103)
T d2cqda1          83 VNLAYLG   89 (103)
T ss_dssp             EEESTTT
T ss_pred             EEEcCCC
Confidence            9988653

>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=99.31  E-value=1.7e-12  Score=108.73  Aligned_cols=77  Identities=17%  Similarity=0.231  Sum_probs=69.8

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ++..|||+|||..+++++|+++|++||.|..|.+.+.++.|||+|.++++|..|+..+.   ..++.++|+.|.|..+.-
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~---~~~~~~~g~~l~v~~s~~   90 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAA---DVPVYIAGQQAFFNYSTS   90 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHH---HSCCBSSSSBCEEEECSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecceeEEEEeCCHHHHHHHHHHHc---CCCcEEeeEEEEEEEcCC
Confidence            35579999999999999999999999999999999999999999999999999999874   338899999999987643

>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=99.30  E-value=1.4e-12  Score=108.97  Aligned_cols=77  Identities=17%  Similarity=0.160  Sum_probs=68.0

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||+.+++++|+++|++||.|..+.+..+      ++.|||+|.++++|+.|++.|+     |..|+|+.|.|
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~ln-----g~~~~g~~i~V   92 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMN-----GFQIGMKRLKV   92 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHT-----TCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhC-----CCEECCEEEEE
Confidence            346999999999999999999999999988877643      2469999999999999999984     99999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      +.+..+.|
T Consensus        93 ~~a~~k~~  100 (102)
T d2cpza1          93 QLKRSKND  100 (102)
T ss_dssp             ECCCCSCC
T ss_pred             EEeCCCCC
Confidence            99887655

>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=99.30  E-value=2.3e-12  Score=103.95  Aligned_cols=71  Identities=14%  Similarity=0.204  Sum_probs=61.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe--EE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF--IA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~--~~  391 (498)
                      ++++||+|||..+|+++|+++|++||+|..|.+.+++      +.|||+|.++++|.+|++.|+     |..+.|+  .|
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~ln-----g~~~~G~~~~i   80 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLN-----GQKPSGATEPI   80 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCCCTTCSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhC-----CCEeCCCCEEE
Confidence            4579999999999999999999999999999987643      258999999999999999984     7888874  46


Q ss_pred             EEEE
Q 043731          392 VLEP  395 (498)
Q Consensus       392 ~v~~  395 (498)
                      .|..
T Consensus        81 ~V~~   84 (85)
T d1fxla2          81 TVKF   84 (85)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            6654

>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=99.30  E-value=8.5e-13  Score=109.76  Aligned_cols=77  Identities=9%  Similarity=0.035  Sum_probs=69.2

Q ss_pred             ceeeeccCCCcc-ccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDV-VMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~-vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      +.+|||+|||.. +|+++|.++|++||.|..|.+.++++.|||.|.++++|.+|++.+.   ..++.++|+.|.|..++.
T Consensus        18 ~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~---~~~~~~~gr~l~V~~s~~   94 (99)
T d1x4fa1          18 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCL---KKALWFQGRCVKVDLSEK   94 (99)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHH---HSCCCSSSSCCEEEEECS
T ss_pred             CCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecCCcEEEEecchHHHHHHHHHHh---cCCceECCEEEEEEEcCC
Confidence            457999999975 8999999999999999999999999999999999999999998764   238999999999998865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      .
T Consensus        95 ~   95 (99)
T d1x4fa1          95 Y   95 (99)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.30  E-value=8.4e-13  Score=106.61  Aligned_cols=73  Identities=10%  Similarity=0.144  Sum_probs=65.8

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+|||..+|+++|+++|++||+|..|.+.++      ++.|||.|.++++|.+|+..+   +  |..|+|+.|.|..
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l---~--~~~l~g~~l~V~~   77 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL---N--GMQLGDKKLLVQR   77 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTS---S--SCCCSSSCCEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHh---C--CCEECCEEEEEEE
Confidence            4799999999999999999999999999999764      356999999999999999987   3  8999999999999


Q ss_pred             cCCh
Q 043731          396 VTGE  399 (498)
Q Consensus       396 ~~g~  399 (498)
                      +...
T Consensus        78 A~~~   81 (85)
T d2u2fa_          78 ASVG   81 (85)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8653

>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=99.29  E-value=4.4e-13  Score=106.01  Aligned_cols=68  Identities=18%  Similarity=0.154  Sum_probs=60.4

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +||+|||.++|+++|+++|++||.|..|.+++++      +.|||+|.++++|++|++.    +  +..|+|+.+.|++|
T Consensus         2 lfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~----~--~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK----K--YHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTC----S--SCCBTTBCCEEECC
T ss_pred             EEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhh----C--CCEECCEEeEEEEC
Confidence            7999999999999999999999999999987653      4599999999999999764    2  77899999998865

>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=99.29  E-value=2.2e-12  Score=105.32  Aligned_cols=77  Identities=14%  Similarity=0.223  Sum_probs=67.8

Q ss_pred             ceeeeccCCCccccHHHHHH----HhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKS----VFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke----~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.++||+|||..+++++|++    +|++||+|..|.+.+   ..+.|||+|.++++|.+|+++++     |..++|+.|.
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~-----~~~~~g~~l~   77 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQ-----GFPFYDKPMR   77 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHT-----TCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhC-----CCEECCEEEE
Confidence            45799999999999999875    589999999999875   36789999999999999999884     8999999999


Q ss_pred             EEEcCChhH
Q 043731          393 LEPVTGEAE  401 (498)
Q Consensus       393 v~~~~g~~E  401 (498)
                      |..+..+.+
T Consensus        78 v~~ak~~~~   86 (91)
T d1nu4a_          78 IQYAKTDSD   86 (91)
T ss_dssp             EEECSSCCT
T ss_pred             EEEeCCCch
Confidence            999876554

>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=99.29  E-value=1.3e-12  Score=109.60  Aligned_cols=75  Identities=13%  Similarity=0.100  Sum_probs=66.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..|||+|||+++++++|+++|++||.|..|.++++      +++|||.|.++++|++|++.    +  |..|+|+.|.|+
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~----~--~~~l~G~~i~V~   94 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA----R--PHSIDGRVVEPK   94 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS----C--SEEETTEEEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHh----C--CCeECCEEEEEE
Confidence            36899999999999999999999999999998653      45699999999999999753    3  889999999999


Q ss_pred             EcCChhH
Q 043731          395 PVTGEAE  401 (498)
Q Consensus       395 ~~~g~~E  401 (498)
                      .+..++|
T Consensus        95 ~a~~ke~  101 (103)
T d1x4ba1          95 RAVAREE  101 (103)
T ss_dssp             CCSSCCC
T ss_pred             ECcccCC
Confidence            9887654

>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=99.29  E-value=3.2e-12  Score=101.21  Aligned_cols=69  Identities=10%  Similarity=0.194  Sum_probs=60.8

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+|||+.+|+++|+++|++||.|..+.+...      .+.|||.|.++++|++|++ +   +  |..|+|+.|.|+.
T Consensus         4 ~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~---~--~~~l~Gr~i~V~~   77 (79)
T d1l3ka2           4 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-Q---K--YHTVNGHNCEVRK   77 (79)
T ss_dssp             EEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-C---S--CCEETTEECEEEE
T ss_pred             EEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-h---C--CCEECCEEEEEEE
Confidence            5899999999999999999999999999888653      2359999999999999975 3   4  8999999999998


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      |
T Consensus        78 A   78 (79)
T d1l3ka2          78 A   78 (79)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.29  E-value=5.2e-12  Score=103.84  Aligned_cols=74  Identities=22%  Similarity=0.321  Sum_probs=66.1

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec---CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI---GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~---g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      .+.|||+|||..+++++|+++|++||.|..+.+.+   +++.|||.|.++++|++|++.|+     |..|.|+.|.|+.+
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~-----g~~~~g~~l~V~~a   88 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRD-----GYDYDGYRLRVEFP   88 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHT-----TCEETTEECEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEec
Confidence            44799999999999999999999999999988864   34569999999999999999984     99999999999987


Q ss_pred             CC
Q 043731          397 TG  398 (498)
Q Consensus       397 ~g  398 (498)
                      ..
T Consensus        89 ~~   90 (95)
T d1x4aa1          89 RS   90 (95)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>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=99.29  E-value=2.7e-12  Score=106.09  Aligned_cols=75  Identities=21%  Similarity=0.212  Sum_probs=67.2

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEEEEEEc
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIAVLEPV  396 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~~v~~~  396 (498)
                      ++.+|||+|||..+++++|+++|++||.|..|.+.++++.|||+|.++++|++|+..|+     |..|.|  +.|.|+.+
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~-----~~~i~g~~~~l~v~~a   90 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMR-----GFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHT-----TCBCSSSSCBCEEEEC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccccEEEeccCCHHHHHHHHHHhC-----CCEeCCCceEEEEEeC
Confidence            45689999999999999999999999999999999999999999999999999999984     777876  47788776


Q ss_pred             CC
Q 043731          397 TG  398 (498)
Q Consensus       397 ~g  398 (498)
                      ..
T Consensus        91 k~   92 (97)
T d1whya_          91 KS   92 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.29  E-value=1.7e-12  Score=108.98  Aligned_cols=73  Identities=15%  Similarity=0.157  Sum_probs=65.2

Q ss_pred             ceeeeccCCC-ccccHHHHHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          320 TSIDTYKDNM-DVVMREDLKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       320 ~~~vfv~nL~-~~vt~EdLke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      +++|||+||| ..+|+++|+++|++||.|..|.+.++. +.|||.|.++++|.+|++.++     |..|.|+.|.|..+.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~ln-----g~~l~g~~l~v~~s~   76 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLN-----GHKLHGKPIRITLSK   76 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHT-----TCBCSSSBCEEECCS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccceEEEEECCHHHHHHHHHHhC-----CCEECCEEEEEEECC
Confidence            3578999995 569999999999999999999998764 679999999999999999984     999999999999763

>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=99.28  E-value=3.4e-12  Score=102.74  Aligned_cols=72  Identities=14%  Similarity=0.188  Sum_probs=62.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecC--eEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKN--FIA  391 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g--~~~  391 (498)
                      ..+|||+|||..+++++|+++|++||.|..+.+.+++      +.|||.|.++++|.+|++.++     |..+.|  +.|
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~-----g~~~~g~~~~l   80 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN-----NVIPEGGSQPL   80 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT-----TCCCTTCSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHC-----CCEeCCCCeEE
Confidence            3469999999999999999999999999999987643      358999999999999999984     677766  778


Q ss_pred             EEEEc
Q 043731          392 VLEPV  396 (498)
Q Consensus       392 ~v~~~  396 (498)
                      .|+.|
T Consensus        81 ~V~~A   85 (85)
T d1b7fa2          81 SVRLA   85 (85)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            88764

>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=99.28  E-value=2.4e-12  Score=102.51  Aligned_cols=72  Identities=11%  Similarity=0.116  Sum_probs=62.4

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+|+++|+++|++||.|..+.+.      +.++.|||.|.++++|++|++.++     |..++|+.|.|+
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~-----g~~~~g~~i~V~   76 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLN-----GLKIEGYTLVTK   76 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHT-----TCEETTEECEEE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhC-----CCEECCEEEEEE
Confidence            378999999999999999999999998766553      234569999999999999999984     899999999999


Q ss_pred             EcC
Q 043731          395 PVT  397 (498)
Q Consensus       395 ~~~  397 (498)
                      .+.
T Consensus        77 ~a~   79 (81)
T d2ghpa1          77 VSN   79 (81)
T ss_dssp             ECC
T ss_pred             Ecc
Confidence            864

>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=99.28  E-value=1.2e-12  Score=102.49  Aligned_cols=68  Identities=18%  Similarity=0.156  Sum_probs=60.2

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecCC------ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEc
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA------ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPV  396 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~------~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~  396 (498)
                      +||+|||.++|+++|+++|++||.|..+.+.+.+      +.|||+|.++++|++|++ +   |  |..|+|+.|.|+.|
T Consensus         2 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~---~--~~~l~gr~i~V~~A   75 (75)
T d2msta_           2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-I---H--FHEINNKMVECKKA   75 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-C---S--SCCBTTBCCEEEEC
T ss_pred             EEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-c---C--CCEECCeEEEEEEC
Confidence            6999999999999999999999999988876543      349999999999999985 5   4  89999999999875

>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=99.28  E-value=4.5e-12  Score=101.63  Aligned_cols=72  Identities=13%  Similarity=0.158  Sum_probs=63.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeecCC-ceEEEEeCCHHHHHHHHHHHhhcccCCeEe-cCeEEEEEEc
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-ESGYIRFEEPEGAQKARAAAVLAQEGGLSV-KNFIAVLEPV  396 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i-~g~~~~v~~~  396 (498)
                      +.++||+|||..+++++|+++|++||.|..|.+.++. +.|||+|.++++|.+|+..|+     |..| +|+.|.|.-+
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~-----g~~~~~~~~i~v~~a   81 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQ-----GFKITPTHAMKITFA   81 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTTCSCEEEEESSHHHHHHHHHHHT-----TCBSSTTCBCEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecccceeEEEecCCHHHHHHHHHHhC-----CcEeCCCcEEEEEEe
Confidence            4579999999999999999999999999999987755 679999999999999999984     6666 5688887754

>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=99.27  E-value=1.1e-12  Score=105.18  Aligned_cols=73  Identities=14%  Similarity=0.049  Sum_probs=62.5

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEE-EEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKF-IDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~-V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      |||+|||..+|+++|+++|++||.|.. +.+.+      ..+.|||.|.++++|++|+..++     |..|+|+.|.|..
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~-----g~~~~gr~l~v~~   75 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMN-----GQYLCNRPITVSY   75 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTT-----TCEETTEECEEEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCC-----CcEECCEEEEEEE
Confidence            699999999999999999999998854 34443      24569999999999999999873     8999999999999


Q ss_pred             cCChh
Q 043731          396 VTGEA  400 (498)
Q Consensus       396 ~~g~~  400 (498)
                      +..+.
T Consensus        76 a~~k~   80 (83)
T d1x5ta1          76 AFKKD   80 (83)
T ss_dssp             SCCCC
T ss_pred             ecCCC
Confidence            87654

>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=99.27  E-value=9.8e-13  Score=104.41  Aligned_cols=69  Identities=17%  Similarity=0.118  Sum_probs=61.4

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+||+|||.++|+++|+++|++||.|..|.++++      ++.|||.|.++++|++|++ +   |  +..|+|+.|.|++
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~---~--~~~i~Gr~i~V~~   75 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-Q---S--RHELDSKTIDPKV   75 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-T---T--TCCCSSCCCEEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-c---C--CCEECCeEEEEEE
Confidence            5799999999999999999999999999888754      3469999999999999986 3   3  8899999999987


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      |
T Consensus        76 A   76 (77)
T d1uawa_          76 A   76 (77)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.27  E-value=1.9e-12  Score=113.61  Aligned_cols=75  Identities=16%  Similarity=0.227  Sum_probs=67.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+|||+|||..+|+++|+++|++||.|..|.+.++      ++.|||+|.+.++|.+|++.|+     |..|+|+.|.|+
T Consensus        43 ~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~ln-----g~~~~gr~l~V~  117 (139)
T d1u6fa1          43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLN-----GFNILNKRLKVA  117 (139)
T ss_dssp             SEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTT-----TEECSSCEEEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhC-----CCEECCEEEEEE
Confidence            46999999999999999999999999999988753      3469999999999999999884     999999999999


Q ss_pred             EcCChh
Q 043731          395 PVTGEA  400 (498)
Q Consensus       395 ~~~g~~  400 (498)
                      .+....
T Consensus       118 ~a~~~~  123 (139)
T d1u6fa1         118 LAASGH  123 (139)
T ss_dssp             ESSCCC
T ss_pred             EcCCCC
Confidence            987543

>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=99.27  E-value=1.4e-12  Score=108.32  Aligned_cols=71  Identities=13%  Similarity=0.045  Sum_probs=65.4

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      .|||+|||+.+++++|+++|++||+|.++.+.+ ++.|||.|.++++|++|++.|+     |..|+|+.+.|..+..
T Consensus        17 ~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~ln-----g~~~~g~~i~v~~~~~   87 (98)
T d1wg4a_          17 RVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-DGMGMVEYLRKEDMEYALRKLD-----DTKFRSHEGETSYIRV   87 (98)
T ss_dssp             EEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-TTEEEEEESSHHHHHHHHHHHS-----SEEEECTTSCEEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhhcccccccccc-cceEEEEECCHHHHHHHHHHhC-----CCEeCCeEEEEEEEec
Confidence            689999999999999999999999999999875 5799999999999999999984     9999999998887644

>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=99.26  E-value=5.4e-12  Score=103.73  Aligned_cols=81  Identities=23%  Similarity=0.304  Sum_probs=69.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhc-ccCCeEecCeEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLA-QEGGLSVKNFIAVL  393 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~-n~~g~~i~g~~~~v  393 (498)
                      .+|||+|||..+|+++|+++|++||.|..+.+..+      .+.|||+|.++++|.+|++.++.. ..+|..|.|+.|.|
T Consensus         9 ~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v   88 (98)
T d1x4ha1           9 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKV   88 (98)
T ss_dssp             CCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEE
Confidence            47899999999999999999999999998887653      456999999999999999988532 13489999999999


Q ss_pred             EEcCChhH
Q 043731          394 EPVTGEAE  401 (498)
Q Consensus       394 ~~~~g~~E  401 (498)
                      ..+..+.|
T Consensus        89 ~~a~~k~~   96 (98)
T d1x4ha1          89 DLAVTRDE   96 (98)
T ss_dssp             ECCCCCCC
T ss_pred             EECCCCCc
Confidence            99876544

>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=99.26  E-value=1.6e-12  Score=105.58  Aligned_cols=73  Identities=14%  Similarity=0.151  Sum_probs=64.2

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..+|||+|||+.+|+++|+++|++||.|..|.++. .++.|||.|.++++|++|+.     +  +..|+|+.|.|+.+..
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~~gfafV~f~~~~~a~~a~~-----~--~~~i~g~~l~v~~a~~   77 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG-----E--DLIIKGISVHISNAEP   77 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT-----C--EEEETTEEEEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeeccCceEEEEECCHHHHHHHHh-----C--CCEECCEEeEEEeCCC
Confidence            45799999999999999999999999999998764 46779999999999999863     3  8899999999998864


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      +
T Consensus        78 k   78 (88)
T d1wf0a_          78 K   78 (88)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.26  E-value=2.9e-12  Score=103.52  Aligned_cols=73  Identities=15%  Similarity=0.220  Sum_probs=62.2

Q ss_pred             eeeeccCCCccccH-HHHHHHhccCCceEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          321 SIDTYKDNMDVVMR-EDLKSVFHKFGTVKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       321 ~~vfv~nL~~~vt~-EdLke~F~~fG~V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      .+|||+|||..+++ ++|+++|++||.|..|.+.+.       ++.|||+|.+.++|++|++ +   |  |..|+|+.|.
T Consensus         5 ~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~---n--~~~~~gr~l~   78 (86)
T d2ghpa3           5 REIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-M---N--RSLLGNREIS   78 (86)
T ss_dssp             TEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-G---T--TEEETTEEEE
T ss_pred             CEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-c---C--CCEECCEEEE
Confidence            46899999998765 569999999999999988542       3469999999999999985 5   4  9999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus        79 V~~a~~k   85 (86)
T d2ghpa3          79 VSLADKK   85 (86)
T ss_dssp             EEECCCC
T ss_pred             EEEcCCC
Confidence            9988653

>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=99.26  E-value=3.3e-12  Score=105.94  Aligned_cols=71  Identities=15%  Similarity=0.211  Sum_probs=64.1

Q ss_pred             eeeeccCCC-ccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          321 SIDTYKDNM-DVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       321 ~~vfv~nL~-~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..|||+||| ..+++++|+++|++||.|..|.+.+  +.|||.|.++++|++|+..|   |  |..|.|+.|.|+.+..
T Consensus        16 ~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~r--g~aFV~f~~~~~A~~Ai~~l---n--g~~~~g~~l~V~~a~~   87 (98)
T d1wf2a_          16 SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK--GFAFVQYVNERNARAAVAGE---D--GRMIAGQVLDINLAAE   87 (98)
T ss_dssp             CCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEET--EEEEEEESSHHHHHHHHHTT---T--TCEETTEECEEEETTS
T ss_pred             cEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEeC--CeEEEEECCHHHHHHHHHHc---C--CCEECCEEEEEEECCC
Confidence            468999996 6789999999999999999999864  59999999999999999987   3  9999999999998753

>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=99.26  E-value=1.6e-12  Score=105.69  Aligned_cols=74  Identities=19%  Similarity=0.170  Sum_probs=65.5

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .|||+|||..+++++|+++|++||.|..+.+.+.      .+.|||.|.++++|++|+..|+     |..|+|+.|.|+.
T Consensus         7 kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~-----~~~~~g~~l~V~~   81 (90)
T d1x5sa1           7 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN-----GKSVDGRQIRVDQ   81 (90)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHT-----TCCTTSCCCEEEE
T ss_pred             EEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcC-----CCEECCEEEEEEE
Confidence            5899999999999999999999999998876643      3459999999999999999884     8899999999999


Q ss_pred             cCChh
Q 043731          396 VTGEA  400 (498)
Q Consensus       396 ~~g~~  400 (498)
                      +..+.
T Consensus        82 a~~~~   86 (90)
T d1x5sa1          82 AGKSS   86 (90)
T ss_dssp             EECCC
T ss_pred             cCCCC
Confidence            86543

>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=99.24  E-value=3.3e-12  Score=105.28  Aligned_cols=75  Identities=16%  Similarity=0.163  Sum_probs=65.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEee-cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK-IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~-~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      ..+|||+|||..+|+++|+++|++||.|..+... +..+.|||+|.+.++|++|++.|+     |..|+|+.|.|..+..
T Consensus        16 ~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~-----~~~~~gr~i~V~~a~~   90 (96)
T d1fjca_          16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQ-----GAEIDGRSVSLYYTGE   90 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTT-----EEEETTEEEEEEECSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcccceeeeecCccccEEEEEeCCHHHHHHHHHHcC-----CCEECCEEEEEEEeCC
Confidence            3479999999999999999999999999877543 446679999999999999999884     9999999999998865


Q ss_pred             h
Q 043731          399 E  399 (498)
Q Consensus       399 ~  399 (498)
                      +
T Consensus        91 k   91 (96)
T d1fjca_          91 K   91 (96)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.23  E-value=2.7e-12  Score=104.99  Aligned_cols=72  Identities=21%  Similarity=0.127  Sum_probs=63.0

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEe-----ecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDF-----KIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~-----~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .++||+|||+.+|+++|+++|++||.|..+.+     .+.++.|||+|.++++|++|++ +   |  |..|+|+.|.|+.
T Consensus        14 ~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~---~--g~~~~g~~i~V~~   87 (91)
T d1fjeb1          14 FNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-L---T--GLKVFGNEIKLEK   87 (91)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-G---G--GEEETTEEEEEEC
T ss_pred             cEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-c---C--CcEECCEEEEEEe
Confidence            47999999999999999999999998766554     3456789999999999999985 6   4  9999999999998


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      +.+
T Consensus        88 ak~   90 (91)
T d1fjeb1          88 PKG   90 (91)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            865

>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=99.22  E-value=1.1e-11  Score=104.35  Aligned_cols=73  Identities=19%  Similarity=0.175  Sum_probs=61.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEeec--CCceEEEEeCCHHHHHHHHHHHhhcccCCeEe--cCeEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI--GAESGYIRFEEPEGAQKARAAAVLAQEGGLSV--KNFIAVLE  394 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~--g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i--~g~~~~v~  394 (498)
                      +...|||+|||+.+|+++|+++|++||.|..|.+.+  .++.|||+|.++++|++|+..++     |..|  +|+.+.+.
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln-----~~~l~~~~~~l~v~   80 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLD-----GQNIYNACCTLRID   80 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHH-----SCCSSTTCCCCEEE
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHC-----CCEeccCCcEEEEE
Confidence            455799999999999999999999999999988865  45579999999999999999985     6666  56677766


Q ss_pred             Ec
Q 043731          395 PV  396 (498)
Q Consensus       395 ~~  396 (498)
                      ..
T Consensus        81 ~s   82 (108)
T d2adba1          81 FS   82 (108)
T ss_dssp             EC
T ss_pred             ec
Confidence            54

>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=99.21  E-value=3.9e-12  Score=99.00  Aligned_cols=64  Identities=20%  Similarity=0.265  Sum_probs=56.1

Q ss_pred             eeccCCCccccHHHHHHHhccCCceEEEEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEE
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIA  391 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~  391 (498)
                      +||+|||.++|+++|+++|++||.|..+.+.+.      .+.|||+|.++++|++|++.|+     |..|+|+.+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~ln-----g~~~~Gr~~   70 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALK-----ASGVQAQMA   70 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHH-----HHTCCEESC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhC-----CCEECCEEC
Confidence            589999999999999999999999999887653      4559999999999999999985     677777654

>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=99.21  E-value=3.7e-12  Score=106.00  Aligned_cols=71  Identities=17%  Similarity=0.167  Sum_probs=62.1

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+|||+|||..+++++|+++|++||.|..+.+.++     .+.|||+|.++++|.+|++.|   |  |..|.|+++.+.+
T Consensus        19 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l---n--g~~i~gr~~~v~~   93 (101)
T d1x5oa1          19 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF---N--GKFIKTPPGVSAP   93 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHH---B--TCCCCCCTTSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHh---C--CCEECCcCCccCC
Confidence            46899999999999999999999999998887654     335999999999999999998   4  8999998877655


Q ss_pred             c
Q 043731          396 V  396 (498)
Q Consensus       396 ~  396 (498)
                      +
T Consensus        94 ~   94 (101)
T d1x5oa1          94 T   94 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.21  E-value=4.8e-12  Score=104.20  Aligned_cols=78  Identities=13%  Similarity=0.068  Sum_probs=67.1

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCc-eEEEEeecC-------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGT-VKFIDFKIG-------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~-V~~V~~~~g-------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      +.+||+|||..+|+++|+++|++||+ |..|.+.++       ++.|||+|.++++|.+|+..|   +..++.++|+.|.
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l---~~~~~~~~g~~i~   78 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKL---MPGRIQLWGHQIA   78 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTT---TTCCSCBTTBCCE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHH---cCCCeEECCEEEE
Confidence            46899999999999999999999996 899988643       346999999999999999887   4558889999999


Q ss_pred             EEEcCChhH
Q 043731          393 LEPVTGEAE  401 (498)
Q Consensus       393 v~~~~g~~E  401 (498)
                      |..+..+.+
T Consensus        79 V~~A~p~~~   87 (96)
T d2disa1          79 VDWAEPEID   87 (96)
T ss_dssp             EEESCSSCS
T ss_pred             EEEcCCCCC
Confidence            998865443

>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=99.20  E-value=1.3e-11  Score=102.11  Aligned_cols=74  Identities=20%  Similarity=0.217  Sum_probs=62.9

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE--------EEeecC------CceEEEEeCCHHHHHHHHHHHhhcccCCeE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF--------IDFKIG------AESGYIRFEEPEGAQKARAAAVLAQEGGLS  385 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~--------V~~~~g------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~  385 (498)
                      ..+|||+|||..+|+++|+++|++||.|..        +.+.++      .+.|||.|.++++|.+|++.++     |..
T Consensus         8 ~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~-----g~~   82 (101)
T d2cpea1           8 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFD-----GKD   82 (101)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHT-----TCE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhC-----CCE
Confidence            457999999999999999999999998743        333332      3569999999999999999984     899


Q ss_pred             ecCeEEEEEEcCC
Q 043731          386 VKNFIAVLEPVTG  398 (498)
Q Consensus       386 i~g~~~~v~~~~g  398 (498)
                      |+|+.|.|..+..
T Consensus        83 ~~gr~i~V~~a~~   95 (101)
T d2cpea1          83 FQGSKLKVSLARK   95 (101)
T ss_dssp             ETTEECEEECSSC
T ss_pred             ECCEEEEEEEcCC
Confidence            9999999998854

>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=99.20  E-value=1.6e-11  Score=99.35  Aligned_cols=74  Identities=18%  Similarity=0.022  Sum_probs=62.9

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEee--cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEe-cCeEEEEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK--IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV-KNFIAVLEP  395 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~--~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i-~g~~~~v~~  395 (498)
                      ++.++||+|||..+++++|+++|++||.|..+.+.  ++++.|||+|.++++|.+|+..|.     |..| +|+.|.|..
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~-----~~~i~~g~~l~v~~   83 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLH-----NHDLGENHHLRVSF   83 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHT-----TCBSSSSCBCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhcc-----CCEecCCCEEEEEe
Confidence            34579999999999999999999999998776655  356689999999999999999984     6666 689998886


Q ss_pred             cC
Q 043731          396 VT  397 (498)
Q Consensus       396 ~~  397 (498)
                      +.
T Consensus        84 sk   85 (88)
T d2adca2          84 SK   85 (88)
T ss_dssp             CS
T ss_pred             CC
Confidence            53

>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=99.19  E-value=3e-12  Score=107.51  Aligned_cols=74  Identities=16%  Similarity=0.246  Sum_probs=67.3

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      ..++|++++.++++++|+++|++||+|.+|+|+++.  +++++|+|||+|.+.++|.+|+..  +..|+|++|.|.+.
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 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNL--GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSS--SSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCC--CCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            568899999999999999999999999999999875  477899999999999999999985  89999999988653

>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=99.18  E-value=1.9e-11  Score=98.45  Aligned_cols=69  Identities=19%  Similarity=0.104  Sum_probs=61.5

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecCC-----ceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGA-----ESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~-----~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+|||+|||..+|+++|+++|++||.|..|.+.++.     +.|||+|.++++|++|++.    +  |..+.|+.+.|..
T Consensus         7 rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~----~--~~~~~g~~l~v~~   80 (85)
T d1zh5a2           7 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVET----P--GQKYKETDLLILF   80 (85)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTC----C--CCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHHH----C--CCEECCEEEEEEE
Confidence            368999999999999999999999999999987643     4699999999999999752    3  9999999999975

>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=99.17  E-value=4e-12  Score=105.50  Aligned_cols=78  Identities=22%  Similarity=0.164  Sum_probs=67.1

Q ss_pred             cceeeeccCCCccccHHHHHHHhccCCceEEEEee------cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          319 KTSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFK------IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       319 ~~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~------~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ++.+|||+|||..+++++|+++|++||.|..+.+.      +..+.|||.|.++++|.+|++.|+     |..|.|+.|.
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~-----g~~~~g~~l~   91 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVN-----GYKLYGKILV   91 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHST-----TCBCSSCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhC-----CCEECCEEEE
Confidence            45689999999999999999999999987665554      245679999999999999999873     8999999999


Q ss_pred             EEEcCChhH
Q 043731          393 LEPVTGEAE  401 (498)
Q Consensus       393 v~~~~g~~E  401 (498)
                      |..+..+++
T Consensus        92 V~~ak~k~~  100 (102)
T d2cpxa1          92 IEFGKNKKQ  100 (102)
T ss_dssp             EEECCCCSC
T ss_pred             EEeCCCccc
Confidence            999876554

>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=99.16  E-value=3.1e-11  Score=96.68  Aligned_cols=73  Identities=15%  Similarity=0.140  Sum_probs=61.0

Q ss_pred             cccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeE-EEEee
Q 043731          111 LDVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVE-LHLKP  188 (498)
Q Consensus       111 ~~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~-l~v~~  188 (498)
                      ++.+.|+|.|||++.+.+ +.++|++||+|.++++.+       .+|||||+|.++++|++||+. +..++|+. |.|.+
T Consensus         2 ~~~~wV~V~G~p~~~~~~-il~~F~~~G~I~~~~~~~-------~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~   73 (81)
T d1wwha1           2 LDDTWVTVFGFPQASASY-ILLQFAQYGNILKHVMSN-------TGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKP   73 (81)
T ss_dssp             GGGGEEEEECCCGGGHHH-HHHHHHTTSCEEEEEECS-------SSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEE
T ss_pred             CcccEEEEECCChHHHHH-HHHHHHhhhhhheEEecC-------CCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEe
Confidence            456789999999999865 556899999999998754       369999999999999999985 88999975 56877


Q ss_pred             cch
Q 043731          189 KKE  191 (498)
Q Consensus       189 k~d  191 (498)
                      ..+
T Consensus        74 ~~~   76 (81)
T d1wwha1          74 CID   76 (81)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>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=99.12  E-value=2.1e-11  Score=102.16  Aligned_cols=74  Identities=18%  Similarity=0.051  Sum_probs=66.6

Q ss_pred             ceeeeccCCCccc-c----HHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          320 TSIDTYKDNMDVV-M----REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       320 ~~~vfv~nL~~~v-t----~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      .+.+||+||+.++ +    +++|+++|++||.|..+.+.++.+.|||+|.++++|.+|+.+|+     |..|+|+.|.|.
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~ln-----g~~~~g~~l~v~   79 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLH-----KTEFLGKEMKLY   79 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTST-----TSEETTEECEEE
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecCCCEEEEEECCHHHHHHHHHHhc-----ccccCCCEeEEe
Confidence            4579999999886 3    36799999999999999999999999999999999999999984     999999999999


Q ss_pred             EcCC
Q 043731          395 PVTG  398 (498)
Q Consensus       395 ~~~g  398 (498)
                      .+..
T Consensus        80 ~a~~   83 (104)
T d1weya_          80 FAQT   83 (104)
T ss_dssp             CCCC
T ss_pred             eccc
Confidence            8754

>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=99.10  E-value=5.6e-11  Score=95.51  Aligned_cols=72  Identities=13%  Similarity=0.062  Sum_probs=60.3

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEE-EEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKF-IDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVL  393 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~-V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v  393 (498)
                      ...|||+|||+++++++|+++|+.||.|.. +.+..     ..+.|||+|.++++|.+|+..++     |..|+|+.|.|
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~-----~~~l~gr~i~v   83 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLN-----DRPIGSRKVKL   83 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTT-----TCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcC-----CCEECCEEEEE
Confidence            346999999999999999999999998743 33332     23459999999999999999884     99999999999


Q ss_pred             EEc
Q 043731          394 EPV  396 (498)
Q Consensus       394 ~~~  396 (498)
                      .++
T Consensus        84 ~l~   86 (86)
T d2cqpa1          84 VLG   86 (86)
T ss_dssp             EES
T ss_pred             EEC
Confidence            874

>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=99.10  E-value=8.1e-11  Score=97.99  Aligned_cols=60  Identities=20%  Similarity=0.192  Sum_probs=54.3

Q ss_pred             eeec--cCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEe
Q 043731          322 IDTY--KDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSV  386 (498)
Q Consensus       322 ~vfv--~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i  386 (498)
                      .+||  +|||..+|+++|+++|++||.|..|.+.++++.|||+|.+.++|.+|+.+|+     |..|
T Consensus        20 ~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~ln-----g~~i   81 (101)
T d2cq2a1          20 SLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLN-----GKEV   81 (101)
T ss_dssp             EEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTT-----TCEE
T ss_pred             eEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCccEEEEEECCHHHHHHHHHHhC-----CCCC
Confidence            4455  6699999999999999999999999999999999999999999999999984     6655

>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=99.09  E-value=1.1e-10  Score=97.05  Aligned_cols=73  Identities=15%  Similarity=0.114  Sum_probs=59.8

Q ss_pred             ceeeeccCCCccccHHHHHHHhccCCceEEEEeec-------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEE
Q 043731          320 TSIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI-------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAV  392 (498)
Q Consensus       320 ~~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~-------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~  392 (498)
                      ..+|||+|||+.+++++|+++|++|| |..+.+.+       ..+.|||+|.++++|++|++ +   |  +..|+|+.|.
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~-~---~--~~~~~gr~l~   87 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS-L---N--EESLGNKRIR   87 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHG-G---G--TCEETTEECE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHH-c---C--CCEECCEEEE
Confidence            45799999999999999999999999 44554432       23469999999999987764 5   4  8999999999


Q ss_pred             EEEcCCh
Q 043731          393 LEPVTGE  399 (498)
Q Consensus       393 v~~~~g~  399 (498)
                      |..+..+
T Consensus        88 V~~a~~~   94 (104)
T d1wi8a_          88 VDVADQA   94 (104)
T ss_dssp             EEECCCC
T ss_pred             EEECCCC
Confidence            9998653

>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=99.09  E-value=5e-11  Score=99.14  Aligned_cols=76  Identities=13%  Similarity=0.147  Sum_probs=63.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEE-EEeec-----CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKF-IDFKI-----GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~-V~~~~-----g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .|||+|||+.+|+++|+++|+.||.|.. +.+..     ..+.|||.|.++++|++|++ +   |  |..|+|+.|.|.+
T Consensus        10 ~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~---n--~~~i~gr~i~V~~   83 (103)
T d2cpya1          10 CAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-L---H--RKKLNGREAFVHV   83 (103)
T ss_dssp             EEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-G---C--SEEETTEEEEEEE
T ss_pred             EEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-c---C--CCeECCcEEEEEE
Confidence            5899999999999999999999998764 33332     35569999999999999985 4   4  9999999999999


Q ss_pred             cCChhHHH
Q 043731          396 VTGEAEKE  403 (498)
Q Consensus       396 ~~g~~E~e  403 (498)
                      +..+..++
T Consensus        84 ~~~~~~~~   91 (103)
T d2cpya1          84 VTLEDMRE   91 (103)
T ss_dssp             ECHHHHHH
T ss_pred             CCHHHhhh
Confidence            87654443

>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=99.08  E-value=1e-10  Score=99.25  Aligned_cols=69  Identities=17%  Similarity=0.140  Sum_probs=56.9

Q ss_pred             cceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCH-HHHHHHHHh--CCeeCCeEEEEee
Q 043731          113 VRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTE-EDAEKVLKQ--GLFYAGVELHLKP  188 (498)
Q Consensus       113 ~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~-e~A~kAl~~--~~~~~G~~l~v~~  188 (498)
                      -..+||+|||.++|+++|+++|++||+|.+|.|+++       +|||||+|.++ ++|..|+..  +..+.++.+.|.+
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~-------kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG-------AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT-------CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC-------CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            467899999999999999999999999999999863       59999999995 678888875  4555555555544

>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=99.08  E-value=4.8e-11  Score=99.94  Aligned_cols=72  Identities=19%  Similarity=0.165  Sum_probs=62.9

Q ss_pred             ccceEEeccCCCCC-c----HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEE
Q 043731          112 DVRTIAATPLEYDV-K----REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVEL  184 (498)
Q Consensus       112 ~~rtV~V~nLp~~~-t----~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l  184 (498)
                      ...+|||+||+.++ +    .++|+++|++||.|.++++.+       .+|+|||+|.++++|.+|+..  +..++|++|
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k-------~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l   76 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK-------SFKRVRINFSNPLSAADARLRLHKTEFLGKEM   76 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET-------TTTEEEEECSSTTHHHHHHHTSTTSEETTEEC
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec-------CCCEEEEEECCHHHHHHHHHHhcccccCCCEe
Confidence            45789999999875 3    367999999999999999864       368999999999999999995  899999999


Q ss_pred             EEeecc
Q 043731          185 HLKPKK  190 (498)
Q Consensus       185 ~v~~k~  190 (498)
                      .|.+..
T Consensus        77 ~v~~a~   82 (104)
T d1weya_          77 KLYFAQ   82 (104)
T ss_dssp             EEECCC
T ss_pred             EEeecc
Confidence            998863

>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=99.05  E-value=1e-10  Score=97.45  Aligned_cols=74  Identities=11%  Similarity=0.018  Sum_probs=61.2

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeec------CCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKI------GAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~------g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..|||+|||+++|+++|+++|++||.|..+.+..      ..+.|||.|.++++|++|++ +   +  +..|+|+.|.|.
T Consensus        16 ~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~---~--~~~i~gR~i~V~   89 (104)
T d1wg5a_          16 GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-K---H--KERIGHRYIEIF   89 (104)
T ss_dssp             CEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-T---T--TCCSSSSCCEEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-h---C--CCEEcceEEEEE
Confidence            3689999999999999999999999887644332      23459999999999999875 4   3  788999999999


Q ss_pred             EcCChh
Q 043731          395 PVTGEA  400 (498)
Q Consensus       395 ~~~g~~  400 (498)
                      ++..++
T Consensus        90 ~~~~~~   95 (104)
T d1wg5a_          90 KSSRAE   95 (104)
T ss_dssp             EECTTT
T ss_pred             ECCHHH
Confidence            887643

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=1.2e-10  Score=97.01  Aligned_cols=57  Identities=12%  Similarity=0.256  Sum_probs=51.0

Q ss_pred             ccceEEec--cCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          112 DVRTIAAT--PLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       112 ~~rtV~V~--nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ..++++|.  |||.++|+++|+++|++||.|..|+++++       +|||||+|.+.++|.+|+..
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~-------k~~aFV~f~~~e~A~~A~~~   75 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN-------KPYSFARYRTTEESKRAYVT   75 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT-------CSCEEEEESSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC-------ccEEEEEECCHHHHHHHHHH
Confidence            35788884  59999999999999999999999998764       58999999999999999985

>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=99.01  E-value=3.1e-10  Score=90.75  Aligned_cols=72  Identities=15%  Similarity=0.063  Sum_probs=63.1

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCe-EEEEEEcCChh
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNF-IAVLEPVTGEA  400 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~-~~~v~~~~g~~  400 (498)
                      -|+|.++|++++++.|+ .|++||+|..+.+.++++.|||+|.++++|++|++ +   |  |..|+|+ .+.|++...++
T Consensus         6 wV~V~G~p~~~~~~il~-~F~~~G~I~~~~~~~~~~~~fV~f~~~~~A~~Al~-~---n--G~~~~g~~~vgV~~~~~k~   78 (81)
T d1wwha1           6 WVTVFGFPQASASYILL-QFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALS-K---D--GRIFGESIMIGVKPCIDKN   78 (81)
T ss_dssp             EEEEECCCGGGHHHHHH-HHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHHT-T---T--TCEETTTEECEEEECCCHH
T ss_pred             EEEEECCChHHHHHHHH-HHHhhhhhheEEecCCCCEEEEEEcccHHHHHHHh-c---C--CCeECCcEEEEEEeCCChh
Confidence            47899999999977665 79999999999999999999999999999999985 4   4  9999997 56899987654

>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=99.00  E-value=7.8e-11  Score=99.65  Aligned_cols=81  Identities=14%  Similarity=0.094  Sum_probs=64.1

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEE-ee-----cCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFID-FK-----IGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLE  394 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~-~~-----~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~  394 (498)
                      ..|||+|||+.+|+++|+++|+.||.|..+. +.     +..|.|||.|.++++|++|+. +   |  |..|+|+.|.|.
T Consensus        19 ~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~---~--~~~i~gR~i~V~   92 (112)
T d1wela1          19 FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-R---H--KQYMGNRFIQVH   92 (112)
T ss_dssp             CEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-S---C--SBCSTTSCBEEE
T ss_pred             eEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-c---C--CCcCCCEEEEEE
Confidence            3689999999999999999999999875422 22     123458999999999998875 4   4  899999999999


Q ss_pred             EcCChhHHHHHHH
Q 043731          395 PVTGEAEKEYWSL  407 (498)
Q Consensus       395 ~~~g~~E~e~~~~  407 (498)
                      ++..++..+...+
T Consensus        93 ~~~~~~~~~~~~~  105 (112)
T d1wela1          93 PITKKGMLEKIDM  105 (112)
T ss_dssp             EECHHHHHHHHHH
T ss_pred             EcChHHHHHHHHH
Confidence            9877665554433

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

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

Probab=98.98  E-value=4.5e-10  Score=93.00  Aligned_cols=75  Identities=19%  Similarity=0.278  Sum_probs=63.8

Q ss_pred             ccccceEEeccC--CCCC---------cHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--C
Q 043731          110 QLDVRTIAATPL--EYDV---------KREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--G  176 (498)
Q Consensus       110 ~~~~rtV~V~nL--p~~~---------t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~  176 (498)
                      ....|+|+|+|+  |.++         ..++|++.|++||.|..|.++++     ..+|+|||+|.++++|.+|+..  +
T Consensus         5 ~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~-----~~~G~~fV~f~~~e~A~~A~~~lng   79 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR-----HPDGVASVSFRDPEEADYCIQTLDG   79 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT-----CTTCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC-----CCccEEEEEECCHHHHHHHHHHhCC
Confidence            356899999998  6543         23689999999999999998765     3569999999999999999985  8


Q ss_pred             CeeCCeEEEEeec
Q 043731          177 LFYAGVELHLKPK  189 (498)
Q Consensus       177 ~~~~G~~l~v~~k  189 (498)
                      ..|+|++|.|.+.
T Consensus        80 ~~~~gr~i~v~~~   92 (99)
T d2dita1          80 RWFGGRQITAQAW   92 (99)
T ss_dssp             CEETTEECEEEEC
T ss_pred             cEECCEEEEEEEe
Confidence            9999999998763

>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=98.90  E-value=4.7e-10  Score=93.09  Aligned_cols=71  Identities=14%  Similarity=0.126  Sum_probs=58.5

Q ss_pred             eeeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          321 SIDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       321 ~~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ..|||+|||+.+|+++|+++|+.||.+ .|.+...     .+.|||.|.++++|++|++ +   |  +..|+|+.|.|.+
T Consensus        16 ~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~---~--~~~i~gR~I~V~~   88 (102)
T d1weza_          16 HCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-K---D--KANMQHRYVELFL   88 (102)
T ss_dssp             CEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-T---S--SCCSSSSCCEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-c---C--CCEECCEEEEEEE
Confidence            368999999999999999999999965 3443332     3358999999999999975 4   4  9999999999988


Q ss_pred             cCC
Q 043731          396 VTG  398 (498)
Q Consensus       396 ~~g  398 (498)
                      ...
T Consensus        89 s~~   91 (102)
T d1weza_          89 NST   91 (102)
T ss_dssp             ECC
T ss_pred             cCC
Confidence            754

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

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

Probab=98.87  E-value=2.3e-09  Score=88.54  Aligned_cols=75  Identities=19%  Similarity=0.177  Sum_probs=63.5

Q ss_pred             eeeeccCC--Cccc---------cHHHHHHHhccCCceEEEEeecC--CceEEEEeCCHHHHHHHHHHHhhcccCCeEec
Q 043731          321 SIDTYKDN--MDVV---------MREDLKSVFHKFGTVKFIDFKIG--AESGYIRFEEPEGAQKARAAAVLAQEGGLSVK  387 (498)
Q Consensus       321 ~~vfv~nL--~~~v---------t~EdLke~F~~fG~V~~V~~~~g--~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~  387 (498)
                      .+|+++|+  |.++         ..|+|++.|++||.|..|.+.++  +|.|||+|.++++|.+|+..|+     |..++
T Consensus         9 r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~ln-----g~~~~   83 (99)
T d2dita1           9 RVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLD-----GRWFG   83 (99)
T ss_dssp             CEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHST-----TCEET
T ss_pred             cEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCccEEEEEECCHHHHHHHHHHhC-----CcEEC
Confidence            36788998  5432         24789999999999999888765  4679999999999999999984     99999


Q ss_pred             CeEEEEEEcCChh
Q 043731          388 NFIAVLEPVTGEA  400 (498)
Q Consensus       388 g~~~~v~~~~g~~  400 (498)
                      |+.|.|+...|+.
T Consensus        84 gr~i~v~~~~g~~   96 (99)
T d2dita1          84 GRQITAQAWDGTT   96 (99)
T ss_dssp             TEECEEEECCSCC
T ss_pred             CEEEEEEEeCCcC
Confidence            9999999998854

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

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

Probab=98.85  E-value=1.6e-09  Score=90.20  Aligned_cols=78  Identities=23%  Similarity=0.288  Sum_probs=64.4

Q ss_pred             ccceEEeccC--CCCC--------cHHHHHHHhccCCceeeEEcccccCC-CCcccceEEEEeCCHHHHHHHHHh--CCe
Q 043731          112 DVRTIAATPL--EYDV--------KREDVEAFFSQHVKVNSVRLPRHVAD-KRLFCGTALIEFSTEEDAEKVLKQ--GLF  178 (498)
Q Consensus       112 ~~rtV~V~nL--p~~~--------t~e~L~~~F~~~G~V~~Vri~r~~~~-~~~~kG~aFVeF~s~e~A~kAl~~--~~~  178 (498)
                      ..+.|.++|+  |.+.        ..++|++.|++||.|.+|.|+++... .....|++||+|.++++|.+|+..  +..
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~   82 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   82 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCC
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCE
Confidence            3678999998  4433        35789999999999999999987542 233569999999999999999995  899


Q ss_pred             eCCeEEEEeec
Q 043731          179 YAGVELHLKPK  189 (498)
Q Consensus       179 ~~G~~l~v~~k  189 (498)
                      |+||.|.+...
T Consensus        83 f~gR~v~v~f~   93 (104)
T d1o0pa_          83 FANRVVVTKYC   93 (104)
T ss_dssp             SSSSCCEEEEE
T ss_pred             ECCeEEEEEEc
Confidence            99999998765

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.84  E-value=7e-10  Score=92.67  Aligned_cols=69  Identities=17%  Similarity=0.153  Sum_probs=61.5

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecC-----CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIG-----AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g-----~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      .+++++++..+++++|+++|++||.|..|.+.+.     ++.|||+|.++++|.+|++.|+     |..++|+.|.|+.
T Consensus        29 ~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~ln-----g~~~~gr~i~v~~  102 (104)
T d1jmta_          29 DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLN-----NRWFNGQPIHAEL  102 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHT-----TCEETTEECCEEE
T ss_pred             hHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHC-----CCEECCEEEEEEE
Confidence            4677889999999999999999999999998754     3558999999999999999984     9999999998875

>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=98.78  E-value=1.5e-10  Score=93.83  Aligned_cols=69  Identities=9%  Similarity=0.043  Sum_probs=57.7

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEE-----------EeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeE
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFI-----------DFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFI  390 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V-----------~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~  390 (498)
                      .|||+|||..+|+++|+++|++||.|..+           ...++++.|||+|.++++|++|++ |   |  |..+.|+.
T Consensus         3 rlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l---~--g~~~~Gr~   76 (90)
T d1u2fa_           3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-F---D--GIIFQGQS   76 (90)
T ss_dssp             EEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-G---S--SCCSSSSC
T ss_pred             EEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-h---C--CcEECCEE
Confidence            47999999999999999999999975433           234567789999999999999974 6   4  99999999


Q ss_pred             EEEEEc
Q 043731          391 AVLEPV  396 (498)
Q Consensus       391 ~~v~~~  396 (498)
                      |.|+..
T Consensus        77 l~V~r~   82 (90)
T d1u2fa_          77 LKIRRP   82 (90)
T ss_dssp             CCCBCT
T ss_pred             EEECCC
Confidence            998643

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

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

Probab=98.59  E-value=2.7e-08  Score=82.59  Aligned_cols=61  Identities=23%  Similarity=0.271  Sum_probs=53.7

Q ss_pred             ccHHHHHHHhccCCceEEEEeecC--------CceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcC
Q 043731          332 VMREDLKSVFHKFGTVKFIDFKIG--------AESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVT  397 (498)
Q Consensus       332 vt~EdLke~F~~fG~V~~V~~~~g--------~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~  397 (498)
                      ...+||++.|++||.|..|.+++.        .+.+||+|.++++|.+|+..|+     |+.++||.|.+..+.
T Consensus        26 ~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~-----Gr~f~gR~v~v~f~~   94 (104)
T d1o0pa_          26 EIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLT-----GRKFANRVVVTKYCD   94 (104)
T ss_dssp             HHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHS-----SCCSSSSCCEEEEEC
T ss_pred             HHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHC-----CCEECCeEEEEEEcC
Confidence            456889999999999999998652        2469999999999999999984     999999999999875

>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=96.19  E-value=0.01  Score=44.63  Aligned_cols=66  Identities=15%  Similarity=0.202  Sum_probs=57.0

Q ss_pred             CCccccHHHHHHHhccCCceEEEEeecCCc---eEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEEcCC
Q 043731          328 NMDVVMREDLKSVFHKFGTVKFIDFKIGAE---SGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEPVTG  398 (498)
Q Consensus       328 L~~~vt~EdLke~F~~fG~V~~V~~~~g~~---~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~~~g  398 (498)
                      |+..--++-|...|++||.|..|.+.+-.+   .|-|...+..+|.-|+..|.     -..|+++.+.|..++|
T Consensus         4 L~~kelqq~L~~~f~~h~~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~Lh-----R~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1           4 LSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLH-----RYKIGSKKILVSLATG   72 (73)
T ss_dssp             SCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHT-----TEEETTEEEEEEECCC
T ss_pred             CCHHHHHHHHHHHHHhheeEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHH-----HHhcCCeEEEEEEecC
Confidence            455556678889999999999999876444   49999999999999999985     8999999999999987

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.07  E-value=0.0066  Score=48.22  Aligned_cols=55  Identities=16%  Similarity=0.221  Sum_probs=49.6

Q ss_pred             eeeccCCCccccHHHHHHHhccCCceEEEEeecCCce--------EEEEeCCHHHHHHHHHHH
Q 043731          322 IDTYKDNMDVVMREDLKSVFHKFGTVKFIDFKIGAES--------GYIRFEEPEGAQKARAAA  376 (498)
Q Consensus       322 ~vfv~nL~~~vt~EdLke~F~~fG~V~~V~~~~g~~~--------GfV~F~~~e~A~kAv~~l  376 (498)
                      .+.|+.||...|++++.+.++..|.+.|..+.+|+.+        |||.|.++++...-....
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f   65 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRF   65 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHH
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHc
Confidence            4678999999999999999999999999999887655        899999999998887776

>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=95.35  E-value=0.011  Score=46.64  Aligned_cols=54  Identities=19%  Similarity=0.372  Sum_probs=46.6

Q ss_pred             HHHHHHHhccCCceEEEEeecCCceEEEEeCCHHHHHHHHHHHhhcccCCeEecCeEEEEEE
Q 043731          334 REDLKSVFHKFGTVKFIDFKIGAESGYIRFEEPEGAQKARAAAVLAQEGGLSVKNFIAVLEP  395 (498)
Q Consensus       334 ~EdLke~F~~fG~V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~~~n~~g~~i~g~~~~v~~  395 (498)
                      ..+|-+.|+.||+|.-|+|..+  .-+|.|.+-..|-+|+..    +  |+++.|+.+.+..
T Consensus        38 ~~~Llq~l~~~GeViLvRFv~d--~mwVTF~dG~SAL~al~l----~--g~~v~G~~l~It~   91 (95)
T d1ufwa_          38 RTELMQTLGSYGTIVLVRINQG--QMLVTFADSHSALSVLDV----D--GMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHHSCCSEEEEETT--EEEEECSCSHHHHHHHHG----G--GSEETTEEEEEEC
T ss_pred             HHHHHHHHhhCCeEEEEEEeCC--eEEEEECCcHHHHHHhcc----C--CeEEcceEEEEec
Confidence            4688999999999999988854  899999999999988664    3  9999999998864

>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=94.82  E-value=0.034  Score=43.98  Aligned_cols=62  Identities=11%  Similarity=0.137  Sum_probs=49.4

Q ss_pred             ceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCC-cccceEEEEeCCHHHHHHHHHh
Q 043731          114 RTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKR-LFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       114 rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~-~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ..|.|+.||++.|++++.+.++..|.+........+...+ ..-.-|||.|.+.+++....+.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~   64 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDR   64 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHH
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHH
Confidence            4689999999999999999999999988877654432111 1234699999999999999885

>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=94.09  E-value=0.033  Score=43.88  Aligned_cols=54  Identities=19%  Similarity=0.278  Sum_probs=47.2

Q ss_pred             HHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh-CCeeCCeEEEEeec
Q 043731          127 REDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ-GLFYAGVELHLKPK  189 (498)
Q Consensus       127 ~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~-~~~~~G~~l~v~~k  189 (498)
                      ..+|.+-|++||+|.-||+..+         ...|+|.+-++|-+|+.. +..+.|+.|.|...
T Consensus        38 ~~~Llq~l~~~GeViLvRFv~d---------~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          38 RTELMQTLGSYGTIVLVRINQG---------QMLVTFADSHSALSVLDVDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHHSCCSEEEEETT---------EEEEECSCSHHHHHHHHGGGSEETTEEEEEECC
T ss_pred             HHHHHHHHhhCCeEEEEEEeCC---------eEEEEECCcHHHHHHhccCCeEEcceEEEEecC
Confidence            5788999999999999988653         479999999999999996 89999999998654

>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=88.95  E-value=0.65  Score=34.53  Aligned_cols=58  Identities=19%  Similarity=0.255  Sum_probs=47.2

Q ss_pred             HHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh--CCeeCCeEEEEeec
Q 043731          128 EDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ--GLFYAGVELHLKPK  189 (498)
Q Consensus       128 e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~--~~~~~G~~l~v~~k  189 (498)
                      +-|.+.|+++|+|.++.+.....    +.-.|-|...+..+|.-|+..  ...++++.|.|...
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~d----g~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~   70 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTD----YQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLA   70 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCS----TTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             HHHHHHHHhheeEEEEEEEeccC----CcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence            44668899999999998854422    345699999999999999996  67899999998764

>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=87.64  E-value=0.54  Score=37.17  Aligned_cols=55  Identities=15%  Similarity=0.243  Sum_probs=46.2

Q ss_pred             ccceEEeccCCCCCcHHHHHHHhccCCceeeEEcccccCCCCcccceEEEEeCCHHHHHHHHHh
Q 043731          112 DVRTIAATPLEYDVKREDVEAFFSQHVKVNSVRLPRHVADKRLFCGTALIEFSTEEDAEKVLKQ  175 (498)
Q Consensus       112 ~~rtV~V~nLp~~~t~e~L~~~F~~~G~V~~Vri~r~~~~~~~~kG~aFVeF~s~e~A~kAl~~  175 (498)
                      ...-||.-.||......+|.++|+.||.|.--.|  +  +     -.|||...+.++|+.++..
T Consensus        14 ~RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswI--d--d-----TSa~V~L~~~e~~~~v~~~   68 (100)
T d1whva_          14 KRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWI--D--D-----TSAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             CCCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEE--E--T-----TEEEEECSCHHHHHHHHHH
T ss_pred             CcceeEEEeCCcccchhHHHHHhcCCCceEEEEe--c--C-----ceEEEEecCHHHHHHHHHH
Confidence            3456999999999999999999999998776555  2  1     2699999999999999874

>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=80.55  E-value=1.8  Score=34.11  Aligned_cols=51  Identities=22%  Similarity=0.303  Sum_probs=42.4

Q ss_pred             eeccCCCccccHHHHHHHhccCCc--eEEEEeecCCceEEEEeCCHHHHHHHHHHHh
Q 043731          323 DTYKDNMDVVMREDLKSVFHKFGT--VKFIDFKIGAESGYIRFEEPEGAQKARAAAV  377 (498)
Q Consensus       323 vfv~nL~~~vt~EdLke~F~~fG~--V~~V~~~~g~~~GfV~F~~~e~A~kAv~~l~  377 (498)
                      ||.=+.|..=-.-||.++|+.||-  |.+|    +..+|||-..+.++|+.++..+.
T Consensus        18 Vf~~tFP~~Wk~~dI~~lFSpfG~V~VswI----ddTSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          18 VLHVTFPKEWKTSDLYQLFSAFGNIQISWI----DDTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             EEEEECCTTCCHHHHHHHHTTTCSCCCEEE----ETTEEEEECSCHHHHHHHHHHHH
T ss_pred             eEEEeCCcccchhHHHHHhcCCCceEEEEe----cCceEEEEecCHHHHHHHHHHhc
Confidence            466567777788899999999995  6777    57799999999999999987653